Supplemental Table 1

Actinobacterial signature proteins with gene lose in some species

(a) Signature proteins specific for Actinobacteria but lost in several species.

Protein

/

ML0761

[NP_301590] /

ML0814

[NP_301620] / ML1649
[NP_302131] /

ML1666

[NP_302145] /

ML2142

[NP_302413]
Length / 167 aa / 82 aa / 140 aa / 214 aa / 269 aa
Possible function / Unknown / Unknown / Unknown / Unknown / Unknown
Mycobacterium leprae / 7e-83 (167) / 2e-38 (82) / 3e-59 (140) / 2e-100 (214) / 2e-158 (269)
Mycobacterium tuberculosis / 4e-67 (175) / 2e-29 (90) / 5e-50 (158) / 8e-69 (210) / 5e-124 (262)
Mycobacterium avium / 3e-65 (140) / 2e-26 (87) / 2e-52 (147) / 8e-58 (211) / 6e-125 (310)
Mycobacterium bovis / 7e-67 (139) / 2e-29 (90) / 5e-50 (158) / 8e-69 (210) / 5e-124 (262)
Nocardia farcinica / 1e-42 (159) / 1e-17 (75) / 1e-37 (156) / 4e-38 (188) / 7e-80 (378)
Corynebacterium glutamicum / 1e-28 (152) / 3e-11 (75) / 9e-22 (143) / 2e-23 (200) / ---
Corynebacterium efficiens / 1e-27 (180) / 4e-12 (75) / 2e-20 (143) / 4e-25 (203) / ---
Corynebacterium diphtheriae / 8e-28 (151) / 4e-12 (75) / 8e-20 (145) / --- / 5e-48 (254)
Corynebacterium jeikeium / 2e-27 (145) / --- / 1e-17 (164) / 4e-18 (206) / 1e-38 (257)
Streptomyces avermitilis / 2e-11 (190) / 2e-10 (94) / 9e-22 (159) / 4e-27 (212) / 9e-48 (308)
Streptomyces coelicolor / 2e-07 (117) / 7e-11 (94) / 5e-22 (159) / 1e-25 (240) / 8e-50 (308)
Thermobifida fusca / 6e-16 (144) / --- / 4e-18 (141) / --- / 2e-48 (272)
Propionibacterium acnes / 7e-05 (161) / 3e-08 (75) / 2e-17 (134) / --- / 3e-45 (266)
Nocardioides sp. / 2e-12 (150) / 1e-09 (73) / 7e-22 (147) / 9e-17 (383) / 3e-50 (264)
Frankia sp. CcI3 / 1e-19 (197) / 5e-10 (118) / 7e-17 (145) / ---* / 6e-45 (329)
Frankia sp. EAN1pec / 5e-20 (190) / 4e-11 (75) / 5e-17 (145) / ---* / 1e-47 (411)
Kineococcus radiotolerance / 2e-17 (144) / 2e-10 (74) / 1e-24 (142) / 9e-33 (237) / 1e-51 (332)
Brevibacterium linens / ---* / 1e-09 (73) / 8e-15 (123) / 5e-34 (208) / 1e-45 (294)
Arthrobacter sp. / 6e-10 (122) / 3e-09 (74) / 14-25 (139) / 2e-21 (223) / 2e-18 (178)
Leifsonia xyli / --- / 3e-13 (76) / --- / 1e-12 (205) / 4e-12 (203)
Tropheryma whipplei Twist / --- / --- / --- / 7e-14 (184) / ---
Tropheryma whippleiTW08/27 / --- / --- / --- / 7e-14 (184) / ---
Bifidobacterium longum / 7e-06 (153) / 0.002 (74) / 3e-18 (141) / 2e-10 (245) / 5e-31 (395)
Non-Actinobacteria / See note 1 / 1.2 (1235) / --- / See note 2 / 0.50 (610)
Oryctolagus cuniculus / --- / Pseudomonas fluorescens
  1. Also found in M. magnetotacticum MS-1 with E-value of 3e-18 (189 aa) [ZP_00049346]; the next non-actinobacterial hit is Solibacter usitatus (Acidobacteria) with E-value of 0.51 (144 aa).
  2. Also found inM. magnetotacticum MS-1 with E-value of 2e-24 (166 aa) [ZP_00047772]; the next non-actinobacterial hit is Sulfolobus acidocaldarius (Archaea) with E-value of 2e-05 (133 aa).

Supplemental Table 1(b). Actinboacterial signature proteins which are not present in

Bifodobacterium longum and Tropheryma whipplei

Protein

/ ML1485
[NP_302044] / ML2075
[NP_302384] /

Lxx03620

[YP_061480]] / ML0234
[NP_301294] /

ML0898

[NP_301682] / ML0904
[NP_301687] /

ML0986

[NP_301731] /

ML1067

[NP_301785] /

ML1165

[NP_301850]
Length / 207 aa / 251 aa / 51 aa / 112 aa / 134 aa / 134 aa / 67 aa / 75 aa / 108 aa
Possible function / oxidoreductase / MerR / Unkown / Lsr2 / Unknown / Unknown / Unknown / Unknown / Clp
Mycobacterium leprae / 1e-111 (207) / 2e-111 (251) / --- / 7e-45 (112) / 9e-72 (134) / 6e-55 (134) / 2e-32 (67) / 8e-37 (75) / 3e-58 (108)
Mycobacterium tuberculosis / 3e-90 (207) / 2e-98 (247) / 3e-08 (53) / 8e-42 (112) / 9e-59 (146) / 1e-44 (134) / 3e-27 (68) / 9e-33 (75) / 1e-44 (101)
Mycobacterium avium / 7e-86 (207) / 9e-95 (250) / --- / 3e-42 (112) / 3e-58 (154) / 1e-38 (133) / 6e-27 (68) / --- / 1e-46 (105)
Mycobacterium bovis / 3e-90 (207) / 2e-98 (247) / 3e-08 (53) / 8e-42 (112) / 1e-57 (146) / 1e-44 (134) / 3e-27 (68) / 9e-33 (75) / 1e-44 (101)
Nocardia farcinica / 4e-72 (213) / 7e-52 (269) / 1e-08 (51) / 4e-28 (120) / 2e-22 (122) / 3e-21 (139) / 2e-13 (64) / 2e-22 (55) / 6e-29 (106)
Corynebacterium glutamicum / 4e-53 (203) / 4e-40 (252) / 6e-08 (51) / --- / 4e-14 (123) / 2e-05 (129) / 8e-07 (78) / 3e-11 (55) / 6e-24 (124)
Corynebacterium efficiens / 1e-47 (206) / 5e-40 (260) / 7e-08 (51) / --- / 2e-17 (123) / 2e-06 (171) / 4e-08 (71) / 3e-11 (55) / 1e-23 (101)
Corynebacterium diphtheriae / 4e-52 (206) / 7e-36 (225) / 2e-09 (51) / 3e-05 (105) / 4e-15 (122) / 2e-05 (134) / 2e-05 (63) / 1e-10 (58) / 3e-25 (113)
Corynebacterium jeikeium / 4e-48 (224) / 3e-39 (245) / 2e-09 (52) / 1e-07 (114) / --- / 4e-04 (136) / 3e-06 (68) / --- / 1e-22 (101)
Streptomyces avermitilis / 8e-57 (212) / 2e-35 (251) / 1e-09 (53) / 2e-17 (111) / 2e-14 (121) / 9e-14 (130) / 9e-09 (64) / 2e-19 (81) / 1e-23 (105)
Streptomyces coelicolor / 1e-56 (216) / 1e-37 (246) / 1e-09 (53) / 4e-17 (111) / 6e-16 (121) / 8e-13 (135) / 9e-09 (64) / 2e-19 (74) / 6e-24 (105)
Thermobifida fusca / 3e-53 (204) / --- / 1e-08 (57) / 6e-20 (111) / 8e-12 (125) / 7e-11 (125) / 1e-07 (82) / 3e-17 (55) / 1e-22 (96)
Propionibacterium acnes / --- / 1e-29 (237) / --- / 1e-11 (105) / --- / --- / --- / 1e-14 (55) / 2e-13 (198)
Nocardioides sp. / 9e-56 (208) / 8e-40 (246) / 5e-07 (51) / 1e-15 (108) / 4e-12 (140) / 1e-07 (153) / 0.062 (64) / ---* / 2e-26 (?)
Frankia sp. CcI3 / ---* / 2e-33 (258) / 1e-09 (79) / 1e-16 (113) / 3e-13 (109) / 1e-09 (136) / 1e-09 (147) / 1e-18 (55) / 5e-26 (119)
Frankia sp. EAN1pec / 1e-49 (265) / 2e-33 (271) / 5e-09 (53) / 4e-17 (113) / 3e-14 (109) / 7e-11 (140) / 2e-09 (69) / 2e-18 (55) / 1e-23 (170)
Kineococcus radiotolerance / 1e-59 (215) / 6e-38 (425) / 6e-12 (53) / 4e-14 (121) / 7e-11 (483) / 1e-08 (130) / ---* / 3e-17 (55) / 2e-21 (99)
Brevibacterium linens / 3e-41 (183) / ---* / 7e-11 (51) / 3e-13 (108) / 3e-11 (116) / 4e-04 (136) / 0.007 (75) / 1e-14 (56) / 2e-17 (84)
Arthrobacter sp. / 4e-63 (204) / 2e-32 (240) / 8e-12 (51) / 9e-19 (108) / 8e-12 (117) / 2e-05 (123) / 3e-04 (74) / 2e-15 (55) / 7e-19 (122)
Leifsonia xyli / --- / 2e-29 (230) / 2e-26 (55) / 9e-14 (114) / 5e-06 (124) / 2e-06 (125) / 1e-06 (81) / 1e-12 (57) / 4e-18 (97)
Tropheryma whipplei Twist / 2e-31 (203) / 6e-22 (225) / 2e-15 (51) / --- / --- / --- / --- / --- / ---
Tropheryma whipplei TW08/27 / 5e-32 (203) / 6e-22 (225) / --- / --- / --- / --- / --- / --- / ---
Bifidobacterium longum / --- / --- / --- / --- / --- / --- / --- / --- / ---
Non-Actinobacteria / 1e-04 (83) / 1e-05 (151) / 9.5 (87) / See note 1 / 0.078 (180) / 4.3 (458) / 7.6 (374) / 2.0 (188) / 0.001 (74)
Magnetospirillum magnetotacticum / Silicibacter sp.
49/87 (56%) / Chloroflexus aurantiacus / Chlamydophila abortus / Halobacterium sp. / Magnetococcus sp. / Magnetospirillum magnetotacticum / Thiobacillus denitrificans

Protein

/

ML1166

[NP_301851] /
ML1927
[NP_302300] / ML2156
[NP_302419] /

Lxx08190

[YP_061831] / Lxx10090
[YP_061981] /

Lxx16410

[YP_062531] /

Tfu_0515

[YP_288576] /

Tfu_2498

[YP_290554]
Length / 195 aa / 102 aa / 753 aa / 278 aa / 141 aa / 264 aa / 233 aa / 203 aa
Possible function / Unknown / Unknown / Unknown / Unknown /
RDD
/ Abortive infection / Unknown / membrane protein
Mycobacterium leprae / 2e-96 (195) / 3e-51 (102) / 0 (753) / --- / --- / --- / --- / ---
Mycobacterium tuberculosis / 6e-72 (218) / 2e-47 (102) / 0 (756) / 5e-85 (280) / 9e-17 (140) / --- / 2e-42 (231) / 2e-27 (217)
Mycobacterium avium / 1e-68 (195) / 1e-47 (102) / 0 (752) / 7e-84 (277) / 4e-14 (176) / --- / 6e-40 (239) / 2e-23 (217)
Mycobacterium bovis / 6e-72 (218) / 2e-47 (102) / 0 (756) / 5e-85 (280) / 9e-17 (140) / --- / 2e-42 (231) / 2e-27 (217)
Nocardia farcinica / 3e-36 (195) / 1e-35 (104) / e-152 (765) / 1e-65 (285) / 2e-13 (150) / 7e-40 (263) / 4e-46 (206) / 4e-11 (344)
Corynebacterium glutamicum / 3e-14 (179) / 5e-08 (84) / 3e-92 (733) / 4e-54 (281) / 1e-17 (157) / 2e-29 (243) / --- / ---
Corynebacterium efficiens / 2e-14 (180) / 1e-07 (76) / 4e-92 (767) / 2e-54 (302) / 1e-19 (163) / 1e-32 (242) / --- / ---
Corynebacterium diphtheriae / 9e-16 (178) / 2e-07 (67) / 4e-76 (772) / 8e-56 (280) / 4e-12 (168) / 2e-27 (238) / --- / ---
Corynebacterium jeikeium / 2e-13 (189) / 1e-09 (70) / 1e-24 (861) / 1e-58 (276) / 3e-16 (158) / 9e-29 (244) / --- / ---
Streptomyces avermitilis / 1e-08 (201) / 3e-11 (81) / 3e-78 (860) / 1e-78 (270) / 3e-23 (163) / 1e-46 (266) / 4e-57 (248) / 2e-27 (239)
Streptomyces coelicolor / 9e-10 (202) / 9e-13 (84) / 2e-79 (867) / 6e-77 (274) / 6e-24 (155) / 8e-47 (275) / 7e-57 (260) / 1e-25 (231)
Thermobifida fusca / 6e-11 (182) / 5e-23 (105) / --- / --- / --- / 8e-39 (437) / 6e-125 (233) / 3e-111 (203)
Propionibacterium acnes / --- / 3e-04 (94) / 3e-39 (709) / 4e-72 (299) / 3e-15 (155) / 1e-42 (278) / --- / ---
Nocardioides sp. / 1e-10 (194) / 4e-29 (97) / 3e-85 (728) / 9e-89 (287) / 1e-09 (150) / ---* / 4e-54 (237) / ---*
Frankia sp. CcI3 / 7e-08 (184) / 2e-16 (117) / 3e-53 (768) / 1e-79 (269) / 4e-11 (134) / 4e-38 (272) / 1e-55 (283) / 3e-22 (266)
Frankia sp. EAN1pec / 1e-08 (177) / 1e-21 (221) / 2e-77 (925) / 2e-78 (271) / 3e-11 (125) / 8e-41 (286) / 6e-56 (287) / 2e-21 (259)
Kineococcus radiotolerance / 2e-08 (198) / 3e-28 (425) / 2e-81 (789) / 1e-80 (292) / 8e-18 (144) / 1e-38 (258) / ---* / 4e-12 (209)
Brevibacterium linens / 0.005 (191) / 7e-20 (88) / 5e-09 (701) / 4e-69 (285) / 2e-14 (109) / 1e-49 (253) / 2e-20 (210) / 2e-08 (218)
Arthrobacter sp. / 4e-05 (188) / 3e-25 (114) / 6e-61 (851) / 3e-69 (283) / 3e-31 (145) / 2e-61 (255) / 2e-42 (224) / 8e-19 (245)
Leifsonia xyli / 1e-06 (167) / 4e-22 (99) / 4e-23 (614) / 6e-151 (278) / 9e-78 (141) / 5e-139 (264) / 3e-14 (238) / 1e-14 (212)
Tropheryma whipplei Twist / --- / --- / --- / --- / --- / --- / --- / ---
Tropheryma whipplei TW08/27 / --- / --- / --- / --- / --- / --- / --- / ---
Bifidobacterium longum / --- / --- / --- / --- / --- / --- / --- / ---
Non-Actinobacteria / 0.024 (1954) / 0.76 (435) / 0.69 (862) / See note 2 / 0.012 (220) / 6e-04 (701) / 1e-04 (189) / 1e-04 (202)
Vibrio
vulnificus / Erwinia carotovora / Solibacter usitatus / Nostoc
sp. / Rhodopirellula baltica / Bordetella bronchiseptica / Bacillus halodurans
  1. Also found in 2 phages, including:Mycobacteriophage Omega with E-value of 2e-09 (118 aa) [AAN12705] and Mycobacteriophage CJW1 with E-value of 1e-05 (128 aa) [AAN01654]; no other hits other than that were found.
  2. Lxx08190 is also found in M. magnetotacticum MS-1 with E-value of 2e-77 (287 aa) [ZP_00050655]; next non-actinobacterial hit is Aspergillus fumigatus (Eukaryota) with E-value of 2.0 (405 aa).

Supplemental Table 1(c). Actinboacterial signature proteins which are not present in

Bifodobacterium longum,Tropheryma whipplei and Leifsonia xyli.

Protein

/

ML0169

[NP_301248] /

ML0284

[NP_301324] / ML0540
[NP_301459] /

ML0561

[NP_301475] /

ML0816

[NP_301622] / ML0899
[NP_301683] /

ML1300

[NP_301934]
Length / 200 aa / 137 aa / 105 aa / 156 aa / 341 aa / 505 aa / 262 aa
Possible function / Unknown / Unknown / mIHF / Unknown / Unknown / Unknown / Unknown
Mycobacterium leprae / 2e-110 (200) / 6e-41 (137) / 1e-35 (105) / 4e-76 (156) / 0 (341) / 0 (505) / 1e-152 (262)
Mycobacterium tuberculosis / 8e-89 (200) / 6e-31 (145) / 3e-34 (111) / 1e-48 (154) / 5e-151 (342) / 0 (516) / 3e-121 (262)
Mycobacterium avium / 1e-92 (212) / 1e-32 (154) / 5e-33 (111) / 1e-44 (154) / 3e-148 (366) / 0 (505) / 3e-117 (272)
Mycobacterium bovis / 9e-88 (200) / 6e-31 (145) / 3e-34 (111) / 1e-48 (154) / 9e-140 (285) / 0 (516) / 3e-121 (262)
Nocardia farcinica / 3e-10 (212) / 4e-25 (154) / 6e-28 (106) / 4e-26 (170) / 2e-90 (420) / 2e-127 (564) / 5e-80 (270)
Corynebacterium glutamicum / 1e-17 (266) / 1e-17 (138) / 3e-26 (106) / 2e-15 (193) / 3e-64 (289) / 7e-78 (509) / 5e-35 (235)
Corynebacterium efficiens / 1e-16 (266) / 9e-19 (140) / 6e-26 (106) / 2e-12 (196) / 9e-63 (289) / 4e-74 (521) / 6e-39 (259)
Corynebacterium diphtheriae / --- / 9e-16 (142) / 6e-23 (107) / 5e-17 (186) / 1e-60 (292) / 3e-71 (495) / ---
Corynebacterium jeikeium / 4e-10 (230) / 2e-20 (175) / 9e-27 (106) / 2e-17 (151) / 7e-52 (317) / 2e-65 (557) / ---
Streptomyces avermitilis / 3e-37 (300) / 3e-18 (137) / 1e-15 (107) / 2e-05 (154) / 6e-24 (516) / 9e-47 (466) / 8e-62 (261)
Streptomyces coelicolor / 2e-37 (277) / 6e-18 (143) / 1e-15 (107) / 7e-06 (156) / 2e-28 (559) / --- / 1e-58 (265)
Thermobifida fusca / 3e-20 (219) / 3e-16 (138) / 2e-18 (105) / 9e-07 (156) / 2e-25 (257) / --- / 1e-51 (249)
Propionibacterium acnes / --- / 1e-04 (175) / 2e-11 (106) / --- / --- / 6e-30 (526) / 2e-36 (264)
Nocardioides sp. / 3e-22 (206) / 7e-16 (160) / 4e-12 (108) / 1e-04 (165) / ---* / 3e-40 (564) / 5e-59 (257)
Frankia sp. CcI3 / ---* / 1e-17 (154) / 3e-19 (105) / ---* / ---* / 2e-35 (529) / 3e-53 (259)
Frankia sp. EAN1pec / 4e-11 (219) / 3e-20 (142) / 9e-19 (106) / ---* / ---* / 7e-20 (681) / 1e-53 (391)
Kineococcus radiotolerance / ---* / 2e-09 (90) / 5e-17 (118) / 3e-07 (162) / 1e-18 (271) / 5e-08 (473) / 1e-64 (562)
Brevibacterium linens / 1e-05 (228) / 1e-12 (153) / 8e-12 (103) / 3e-07 (153) / 6e-13 (261) / ---* / 1e-37 (270)
Arthrobacter sp. / ---* / 1e-15 (140) / 4e-11 (116) / ---* / ---* / 7e-22 (380) / 5e-53 (255)
Leifsonia xyli / --- / --- / --- / --- / --- / --- / ---
Tropheryma whipplei Twist / --- / --- / --- / --- / --- / --- / ---
Tropheryma whipplei TW08/27 / --- / --- / --- / --- / --- / --- / ---
Bifidobacterium longum / --- / --- / --- / --- / --- / --- / ---
Non-Actinobacteria / See note 1 / --- / 4.3 (750) / 4.6 (903) / 1.6 (411) / 3e-04 (449) / See note 2
--- / Psychrobacter cryohalolentis / Gibberella
zeae / Burkholderia pseudomallei / Desulfuromonas acetoxidans
126/335 (37%)

Protein

/

ML1706

[NP_302175] /
ML2030
[NP_302360] / ML2428A
[NP_302573] / ML2442
[NP_302583] /

ML2446

[NP_302585] /
ML2687
[NP_302714] /

Tfu_0365

[YP_288426]
Length / 337 aa / 157 aa / 33 aa / 184 aa / 441 aa / 564 aa / 150 aa
Possible function / Unknown / Rpf2 / Unknown / Unknown / lipoprotein / Unknown / Unknown
Mycobacterium leprae / 2e-176 (337) / 2e-87 (157) / 2e-10 (33) / e-103 (184) / 0 (441) / 0 (564) / ---
Mycobacterium tuberculosis / 2e-134 (337) / 3e-51 (176) / 2e-10 (33) / 5e-60 (183) / 0 (451) / 0 (560) / 1e-32 (149)
Mycobacterium avium / 1e-129 (342) / 4e-51 (170) / --- / 2e-70 (169) / 0 (446) / 0 (545) / 2e-32 (204)
Mycobacterium bovis / 2e-134 (337) / 3e-51 (176) / --- / 5e-60 (183) / 0 (451) / 0 (560) / 1e-32 (189)
Nocardia farcinica / 2e-77 (337) / 7e-21 (183) / --- / 6e-50 (167) / 3e-122 (409) / 1e-70 (575) / 2e-30 (206)
Corynebacterium glutamicum / 3e-34 (330) / 7e-19 (199) / 3e-10 (33) / --- / 1e-42 (403) / 1e-60 (486) / 5e-22 (203)
Corynebacterium efficiens / 1e-29 (335) / 4e-18 (197) / 3e-10 (33) / --- / 2e-41 (403) / 2e-65 (572) / 4e-25 (173)
Corynebacterium diphtheriae / 5e-23 (355) / 2e-18 (207) / 2e-10 (75) / --- / 4e-42 (389) / 2e-59 (523) / 3e-21 (185)
Corynebacterium jeikeium / --- / 1e-20 (208) / 3e-10 (33) / 5e-32 (218) / 1e-47 (402) / 6e-61 (541) / 7e-17 (199)
Streptomyces avermitilis / 2e-45 (335) / 2e-19 (227) / --- / 7e-40 (163) / 3e-43 (423) / 9e-43 (505) / 6e-26 (151)
Streptomyces coelicolor / 3e-43 (331) / 5e-20 (244) / 2e-07 (32) / 9e-40 (168) / 1e-42 (424) / 2e-42 (502) / 4e-25 (154)
Thermobifida fusca / 1e-48 (342) / --- / 3e-06 (32) / 1e-35 (173) / 6e-52 (450) / 2e-20 (456) / 6e-87 (150)
Propionibacterium acnes / 1e-31 (328) / --- / 2e-08 (33) / 6e-20 (164) / 4e-43 (427) / 2e-11 (515) / ---
Nocardioides sp. / 3e-16 (165) / 2e-19 (213) / 2e-09 (33) / 4e-20 (164) / 4e-46 (402) / 1e-38 (496) / 5e-28 (125)
Frankia sp. CcI3 / 5e-40 (376) / 1e-18 (387) / 2e-07 (32) / ---* / 6e-42 (464) / 8e-26 (629) / ---*
Frankia sp. EAN1pec / 2e-47 (372) / 2e-09 (268) / 2e-07 (32) / 3e-37 (199) / 8e-44 (476) / 8e-31 (648) / ---*
Kineococcus radiotolerance / 2e-17 (361) / 7e-12 (227) / 5e-07 (32) / ---* / 3e-49 (406) / 6e-25 (470) / 4e-27 (154)
Brevibacterium linens / 5e-10 (384) / 6e-19 (157) / ---* / 4e-26 (178) / 2e-62 (487) / ---* / 5e-25 (192)
Arthrobacter sp. / 4e-34 (341) / 9e-23 (231) / 1e-06 (32) / ---* / 6e-44 (429) / 3e-37 (485) / 2e-29 (193)
Leifsonia xyli / --- / --- / --- / --- / --- / --- / ---
Tropheryma whipplei Twist / --- / --- / --- / --- / --- / --- / ---
Tropheryma whipplei TW08/27 / --- / --- / --- / --- / --- / --- / ---
Bifidobacterium longum / --- / --- / --- / --- / --- / --- / ---
Non-Actinobacteria / 0.008 (355) / 0.11 (228) / 0.012 (136) / 4.2 (610) / 0.097 (2221) / 3.2 (390) / 0.69 (110)
Moorella thermoacetica / Pediococcus
pentosaceus / Dictyostelium discoideum / Theileria annulata / Bacillus
cereus / Aeropyrum pernix / Novosphingobium aromaticivorans
  1. Also found in Idiomarina loihiensis L2TR (-proteobacteria) with E-value of 5e-12 (216 aa) [YP_155014]; Colwellia psychrerythraea 34H (-proteobacteria) with E-value of 7e-08 (221 aa) [YP_268398]; and the next non-actinobacterial hit is Solibacter usitatus with E-value of 0.37 (237 aa).
  2. Also found in Chloroflexus aurantiacus J-10-fl with E-value of 3e-40 (247 aa) [EAO60923]; and the next non-actinobacterial hit is Symbiobacterium thermophilum with E-value of 0.17 (200 aa).

Supplemental Table 1(d). Actinboacterial signature proteins which are mainly lost in Bifodobacterium longum,Tropheryma whipplei, Leifsonia xyli and Corynebacterium species.

Protein

/

ML0115

[NP_301211] /

ML1299

[NP_301933] /

Tfu_0030

[YP_288091] /

Tfu_0751

[YP_288812] /

Tfu_1240

[YP_289301] /

Tfu_1340

[YP_289401]
Length / 174 aa / 196 aa / 103 aa / 280 aa / 153 aa / 120 aa
Possible function / Unknown / Unknown / Unknown / acetyltransferase / Unknown / Unknown
Mycobacterium leprae / 3e-81 (174) / 7e-98 (196) / --- / --- / --- / ---
Mycobacterium tuberculosis / 3e-64 (178) / 8e-86 (195) / 2e-29 (105) / 1e-54 (284) / 1e-06 (115) / 2e-12 (115)
Mycobacterium avium / 1e-63 (168) / 1e-87 (195) / 7e-30 (104) / 1e-54 (284) / 6e-07 (115) / 1e-11 (115)
Mycobacterium bovis / 3e-64 (178) / 8e-86 (195) / 2e-29 (105) / 1e-54 (284) / 1e-06 (115) / 2e-12 (115)
Nocardia farcinica / 1e-52 (204) / 1e-66 (194) / --- / 1e-54 (287) / 1e-37 (150) / 9e-09 (150)
Streptomyces avermitilis / 2e-49 (181) / 5e-37 (196) / 3e-32 (98) / 2e-88 (295) / 9e-41 (151) / 6e-26 (135)
Streptomyces coelicolor / 6e-49 (179) / 1e-34 (196) / 3e-32 (98) / 7e-83 (287) / 3e-57 (156) / 3e-14 (142)
Thermobifida fusca / 4e-49 (186) / 7e-36 (188) / 3e-55 (103) / 3e-149 (280) / 3e-88 (153) / 1e-64 (120)
Propionibacterium acnes / --- / 2e-23 (193) / 7e-32 (103) / 6e-42 (281) / --- / ---
Nocardioides sp. / 4e-50 (192) / 7e-31 (191) / 8e-34 (98) / 3e-60 (281) / 7e-16 (137) / 3e-18 (150)
Frankia sp. CcI3 / 9e-47 (190) / 1e-35 (180) / 1e-31 (124) / 7e-83 (283) / 3e-04 (180) / 4e-07 (180)
Frankia sp. EAN1pec / 3e-46 (210) / 1e-20 (171) / 6e-31 (165) / 8e-88 (283) / 4e-12 (153) / 3e-14 (153)
Kineococcus radiotolerance / 1e-44 (201) / ---* / 1e-29 (161) / 8e-71 (291) / 2e-07 (253) / 3e-15 (144)
Brevibacterium linens / 6e-32 (174) / 7e-28 (187) / ---* / 4e-38 (292) / 4e-09 (153) / 3e-15 (118)
Arthrobacter sp. / 4e-38 (207) / 2e-22 (183) / 9e-28 (94) / 4e-46 (295) / 3e-18 (146) / 3e-09 (245)
Non-Actinobacteria / 0.26 (312) / See note 1 / 2.6 (4448) / 1e-04 (260) / 0.002 (124) / See note 2
Rattus
sp. / Trypanosoma brucei / Bacillus halodurans
42/79 (53%), / Magnetospirillum magnetotacticum
  1. Also found in Chloroflexus aurantiacus J-10-fl with E-value of 6e-14 (175 aa) [EAO60924]; and the next non-actinobacterial hit is Silicibacter pomeroyi (-proteobacteria) with E-value of 3.0 (329 aa);
  2. Also found in M. magnetotacticum MS-1 with E-value of 3e-11 (124) [ZP_00049792]; and the next non-actinobacterial hit is Anaeromyxobacter dehalogenans (-proteobacteria) with E-value of 0.001 (125 aa).

Supplemental Table 2. Proteins specific to the Micrococcineae.

Protein /

Lxx12820

[YP_062227] /

Lxx05060

[YP_061591] /

Lxx12850

[YP_062230]
Length / 166 aa / 498 aa / 221 aa
Possible function / Unknown / Unknown / Unknown
Leifsonia xyli / 2e-89 (166) / 0 (498) / 1e-104 (221)
Tropheryma whipplei Twist / 7e-09 (172) / 2e-33 (613) / 1e-08 (228)
Tropheryma whipplei TW08/27 / 7e-09 (168) / 3e-33 (613) / 6e-07 (208)
Arthrobacter sp. / 1e-05 (149) / --- / ---
Non-Micrococcineae / 0.03 (131) / 0.71 (280) / 0.66 (337)
Ralstonia eutropha / Bradyrhizobium japonicum / Sulfolobus solfataricus
Protein /

Lxx05560

[YP_061629] /

Lxx08840

[YP_061884] /

Lxx10900

[YP_062048] /

Lxx13550

[YP_062289] /

Lxx24950

[YP_063208]
Length / 161 aa / 321 aa / 63 aa / 98 aa / 346 aa
Possible function / Unknown / Unknown / Unknown / Unknown / Unknown
Leifsonia xyli / 2e-80 (161) / 2e-163 (321) / 3e-51 (63) / 4e-52 (98) / 2e-180 (346)
Arthrobacter sp. / 2e-39 (206) / 3e-13 (327) / 9e-06 (76) / --- / 8e-11 (330)
Brevibacterium linens / --- / --- / --- / 5e-15 (130) / 4e-11 (319)
Non-Micrococcineae / 0.032 (262) / 0.021 (220) / 0.66 (362) / 1.5 (202) / 0.15 (345)
Erwinia
carotovora / Sulfolobus acidocaldarius / Sphingopyxis alaskensis / Trichodesmium erythraeum / Frankia
sp.

Supplemental Table 3. Actinobacteria-specific proteins with sporadic distribution

Protein

/

Lxx10420

[YP_062012] /

Tfu_1264

[YP_289325] /

Lxx05320

[YP_061610] /

BL0571

[NP_695759] /

ML1704

[NP_302173]
Length / 252 aa / 194 aa / 334 aa / 215 aa / 232 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / M. avium, 1e-12 (213)
M. tuberculosis, 6e-16 (223)
M. bovis, 6e-16 (223)
N. farcinica, 3e-17 (192)
C. jeikeium, 2e-14 (254)
S. avermitilis, 4e-15 (255)
S. coelicolor, 1e-15 (272)
T. fusca, 6e-19 (247)
F. sp. CcI3, 4e-12 (236)
F. sp. EAN1pec, 9e-12 (296)
K. radiotolerans, 1e-22 (310)
A. sp., 1e-36 (260)
L. xyli, 2e-107 (252)
B. longum, 3e-22 (252)
T. whipplei, 1e-19 (218) / The. fusca, 7e-93 (194)
M. avium, 3e-12 (174)
M. tuberculosis, 3e-13 (175)
M. bovis, 3e-13 (175)
N. farcinica, 9e-13 (164)
C. glutamicum, 6e-11 (165)
C. diphtheriae, 8e-14 (172)
C..efficience, 1e-24 (180)
P. acnes, 8e-11 (169)
Nocardioides sp., 4e-14 (167)
K. radiotolerans, 4e-14 (267)
L. xyli, 4e-10 (221)
A. sp., 2e-12 (373)
R. radiotolerance, 5e-14 (154) / L. xyli, 2e-152 (334)
A. sp., 3e-22 (415)
Br. linens, 4e-08 (421)
T. fusca, 3e-22 (382)
S. avermitilis, 2e-23 (379)
S. coelicolor, 5e-21 (387)
M. avium, 3e-20 (377)
M. tuberculosis, 4e-21 (333)
M. bovis, 4e-21 (333)
K. radiotolerans, 1e-17 (226)
Nocardioides sp., 8e-16 (371)
F. sp. CcI3, 1e-13 (489)
F. sp. EAN1pec, 3e-09 (651) / B. longum, 1e-122 (215)
L. xyli, 1e-30 (436)
A. sp., 1e-37 (440)
M. avium, 6e-18 (461)
M. tuberculosis, 7e-15 (489)
M. bovis, 7e-15 (489)
N. farcinica, 2e-32 (430)
C. glutamicum, 3e-25 (426)
C. diphtheriae, 3e-21 (416)
C. jeikeium, 8e-24 (431)
S. coelicolor, 2e-04 (377)
F. sp. CcI3, 1e-06 (366)
F. sp. EAN1pec, 1e-04 (351) / M. leprae, 5e-126 (232)
M. avium, 4e-99 (221)
M. tuberculosis, 4e-101 (240)
M. bovis, 4e-97 (218)
N. farcinica, 2e-70 (218)
C. glutamicum, 9e-32 (221)
C. efficiens, 7e-32 (220)
C. diphtheriae, 6e-38 (220)
C. jeikeium, 3e-29 (223)
F. sp. CcI3, 2e-32 (352)
F. sp. EAN1pec, 3e-33 (238)
K. radiotolerans, 2e-17 (249)
Nocardioides sp., 1e-26 (207)
Non-Actino / Moorella thermoacetica
0.19 (326) / See note 1 / Enterococcus faecalis
0.064 (1744) / Bacteroides fragilis
0.002 (272) / Chloroflexus aurantiacus
1e-05 (472)

Protein

/ ML2689
[NP_302716] / Lxx08745
[YP_061874] /

ML0271

[NP_301317] /
Lxx18330
[YP_062679] /

Tfu_0540

[YP_288601]
Length / 138 aa / 276 aa / 123 aa / 272 aa / 174 aa
function / Unknown / ABC transporter / Unknown / Unknown / Unknown
Actino-
hit / M. leprae, 3e-75 (138)
M. avium, 4e-62 (138)
M. tuberculosis, 1e-60 (137)
M. bovis,1e-60 (137)
N. farcinica,6e-44 (251)
C. glutamicum, 8e-18 (130)
C. efficiens, 3e-18 (150)
C. diphtheriae,2e-19 (120)
C. jeikeium, 5e-12 (133)
F. sp. CcI3, 2e-27 (135)
F. sp. EAN1pec, 1e-28 (207)
P. acnes, 4e-22 (173) / L. xyli, 2e-134 (276)
A. sp., 4e-25 (308)
F. sp. CcI3, 2e-08 (253)
F. sp. EAN1pec, 5e-25 (276)
K. radiotolerans, 2e-24 (279)
Nocardioides sp., 1e-20 (272)
S. avermitilis, 5e-23 (256)
S. coelicolor, 2e-31 (279)
C. efficience, 7e-25 (277)
C. jeikeium, 4e-08 (270)
T. fusca, 1e-11 (275)
N. farcinica, 2e-09 (266) / M. leprae, 1e-51 (123)
M. avium, 7e-30 (123)
M. tuberculosis, 2e-30 (123)
M. bovis, 2e-30 (123)
N. farcinica, 3e-11 (117)
C. diphtheriae, 4e-08 (118)
T. fusca, 3e-17 (124)
P. acnes, 3e-06 (129)
Nocardioides sp., 6e-08 (136)
A. sp., 4e-10 (138)
Br. linens, 5e-09 (135)
L. xyli, 3e-11 (144) / L. xyli, 1e-142 (272)
A. sp., 3e-70 (255)
K. radiotolerans, 2e-63 (261)
S. avermitilis, 9e-59 (272)
S. coelicolor, 6e-60 (271)
F. sp. CcI3, 9e-59 (375)
F. sp. EAN1pec, 5e-55 (275)
N. farcinica, 6e-58 (265)
C. glutamicum, 5e-43 (271)
C. diphtheriae, 4e-47 (270)
C. efficience, 2e-46 (272)
C. jeikeium, 7e-46 (283) / N. farcinica, 2e-18 (176)
C. glutamicum, 5e-08 (174)
C. efficiens, 2e-07 (175)
C. diphtheriae, 5e-06 (167)
C. jeikeium, 4e-08 (186)
S. avermitilis, 1e-38 (182)
S. coelicolor, 2e-40 (223)
F. sp. CcI3, 6e-28 (168)
F. sp. EAN1pec, 4e-28 (168)
T. fusca, 1e-95 (174)
K. radiotolerans, 1e-17 (180)
Nocardioides sp., 3e-37 (202)
Non-Actino / Canis familiaris
0.006 (3057) / See note 2 / Arabidopsis thaliana
9e-04 (258) / Burkholderia cepacia
0.10 (886) / Burkholderia fungorum
0.2 (676)
Protein / ML2289
[NP_302489] /

ML2581

[NP_302650] /

ML2199

[NP_302441] /

Tfu_1088

[YP_289149] /

Lxx11560

[YP_062109]
Length / 256 aa / 427 aa / 100 aa / 234 aa / 121 aa
function / Unknown / Unknown / SecC / Unknown / electron transport
Actino-
hit / M. leprae, 2e-121 (256)
M. avium, 5e-95 (252)
M. tuberculosis, 9e-87 (256)
M. bovis, 3e-86 (256)
N. farcinica, 2e-64 (248)
C. diphtheriae, 6e-08 (217)
C. jeikeium, 6e-46 (261)
S. avermitilis, 3e-28 (274)
S. coelicolor, 3e-28 (274)
F. sp. CcI3, 2e-27 (343)
F. sp. EAN1pec, 5e-22 (329)
T. fusca, 3e-31 (270) / M. leprae, 0 (427)
M. avium, 1e-168 (413)
M. tuberculosis, 8e-168 (421)
M. bovis, 3e-167 (421)
N. farcinica, 2e-55 (385)
C. glutamicum, 5e-08 (324)
C. efficiens, 1e-06 (329)
C. diphtheriae, 9e-16 (364)
C. jeikeium, 2e-23 (426)
S. avermitilis, 5e-11 (330)
F. sp. CcI3, 1e-08 (311)
T. fusca, 5e-10 (308) / M. leprae, 3e-50 (100)
M. avium, 6e-40 (100)
M. tuberculosis, 4e-41 (100)
M. bovis, 4e-41 (100)
N. farcinica, 3e-32 (101)
S. avermitilis, 4e-11 (95)
S. coelicolor, 7e-12 (95)
F. sp. CcI3, 5e-12 (100)
T. fusca, 2e-12 (98)
P. acnes, 3e-11 (99)
Nocardioides sp., 2e-12 (99) / S. avermitilis, 7e-27 (243)
S. coelicolor, 2e-25 (243)
T. fusca, 9e-128 (234)
P. acnes, 8e-07 (157)
Nocardioides sp., 9e-25 (175)
F. sp. CcI3, 3e-10 (297)
F. sp. EAN1pec, 3e-08 (187)
K. radiotolerans, 1e-11 (182)
B. linens, 4e-09 (254)
A. sp., 4e-07 (309)
L. xyli, 1e-16 (286) / L. xyli, 1e-51 (121)
A. sp., 3e-05 (125)
T. whipplei, 3e-16 (133)
F. sp. CcI3, 5e-22 (198)
F. sp. EAN1pec, 7e-22 (113)
K. radiotolerans, 4e-22 (116)
N. farcinica, 6e-20 (119)
S. avermitilis, 5e-22 (111)
S. coelicolor, 2e-22 (111)
T. fusca, 2e-20 (123)
P. acnes, 7e-19 (118)
Non-Actino / Burkholderia cepacia
3.8 (471) / Tetraodon nigroviridis
0.79 (460) / Solibacter usitatus
0.048 (1203) / Mesorhizobium loti
2.0 (433) / Salmonella enterica
0.87 (650)
Protein / ML1526
[NP_302067] / BL0679
[NP_695864] / BL1479
[NP_696638] / BL0895
[NP_696072] / ML1539
[NP_302072]
Length / 160 aa / 470 aa / 602 aa / 312 aa / 503aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / M. leprae, 2e-63 (160)
M. avium, 1e-42 (151)
M. tuberculosis, 1e-42 (157)
M. bovis, 1e-42 (157)
N. farcinica, 2e-25 (165)
S. avermitilis, 4e-13 (150)
S. coelicolor, 3e-14 (151)
F. sp. CcI3, 1e-13 (166)
K. radiotolerans, 2e-15 (149)
L. xyli, 7e-15 (143)
A. sp., 5e-13 (157) / B. longum, 0 (470)
L. xyli, e-118 (442)
C. glutamicum, 1e-98 (414)
C. diphtheriae, e-118 (417)
S. coelicolor, e-107 (410)
P. acnes, e-107 (472)
K. radiotolerans, 6e-130 (420)
A. sp., 3e-119 (471)
Nocardioides sp., 7e-101 (401)
B. linens, 6e-95 (422) / B. longum, 0 (602)
L. xyli, 4e-04 (604)
N. farcinica, 1e-64 (617)
S. avermitilis, 5e-75 (576)
S. coelicolor, 2e-52 (575)
A. sp., 6e-71 (591)
F. sp. CcI3 8e-58 (598)
B. linens, 7e-33 (594)
Nocardioides sp., 1e-13 (506)
F. sp. EAN1pec, 3e-13 (930) / S. avermitilis, 7e-34 (287)
S. coelicolor, 2e-32 (322)
The. fusca, 9e-21 (281)
P. acnes, 4e-31 (312)
Nocardioides sp., 8e-31 (320)
K. radiotolerans, 2e-36 (309)
B. linens, 3e-18 (202)
A. sp., 1e-31 (283)
L. xyli, 7e-16 (353)
B. longum, 2e-131 (312) / M. leprae, 0 (503)
M. avium, 0 (503)
M. tuberculosis, 0 (503)
M. bovis, 0 (503)
N. farcinica, 2e-34 (493)
S. avermitilis,3e-13 (502)
S. coelicolor, 5e-07 (491)
C. efficiens, 1e-06 (461)
C. glutamicum, 5e-04 (457)
Non-Actino / See note 3 / See note 4 / Enterococcus faecalis
0.001(551) 72/158 (45%) / See note 5 / Yersinia frederiksenii
0.057 (505)
Protein /

Tfu_0967

[YP_289028] /

Tfu_2237

[YP_290293] / ML2143
[NP_302414] / ML0889
[NP_301674] / ML2070
[NP_302380]
Length / 237 aa / 181 aa / 579 aa / 144 aa / 733 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / T. fusca, 6e-125 (237)
S. avermitilis, 3e-16 (264)
S. coelicolor, 1e-15 (264)
F. sp. CcI3, 6e-35 (238)
F. sp. EAN1pec, 1e-31 (235)
N. farcinica, 6e-19 (238)
C. glutamicum, 9e-12 (266)
C. efficience, 2e-13 (290)
A. sp., 4e-15 (274)
K. radiotolerans, 4e-09 (236) / T. fusca, 2e-102 (181)
S. avermitilis, 4e-26 (172)
S. coelicolor, 3e-27 (185)
F. sp. EAN1pec, 3e-13 (168)
M. avium, 3e-11 (167)
M. tuberculosis, 3e-11 (164)
M. bovis, 3e-11 (164)
C. efficience, 6e-09 (161)
A. sp., 4e-18 (158)
B. linens, 5e-14 (192) / M. leprae, 0 (579)
M. avium, 0 (567)
M. tuberculosis, 0 (559)
M. bovis, 0 (548)
N. farcinica, 2e-136 (597)
S. avermitilis, 6e-58 (474)
S. coelicolor, 1e-58 (463)
F. sp. CcI3, 2e-54 (533)
F. sp. EAN1pec, 2e-52 (598)
Nocardioides sp., 4e-54 (449) / M. leprae, 2e-63 (144)
M. avium, 6e-45 (145)
M. tuberculosis, 3e-53 (144)
M. bovis, 3e-53 (144)
N. farcinica, 7e-29 (145)
S. avermitilis, 1e-26 (147)
S. coelicolor, 6e-26 (144)
F. sp. CcI3, 1e-19 (164)
F. sp. EAN1pec, 2e-20 (148)
Nocardioides sp., 6e-20 (146) / M. leprae, 0 (733)
M. avium, 0 (683)
M. tuberculosis, 0 (677)
M. bovis,0 (677)
N. farcinica, 1e-68 (554)
S. avermitilis, 8e-20 (623)
F. sp. CcI3, 9e-14 (655)
F. sp. EAN1pec, 8e-18 (608)
T. fusca, 2e-12 (596)
Non-Actino / Lactobacillus acidophilus
1e-04 (184) 41/67 (61%) / Polyangium cellulosum
0.003 (2439) / Mus musculus
0.017 (1748) / Aspergillus nidulans
0.51 (633) / Gloeobacter violaceus
0.002 (596)

Protein

/

Tfu_0355

[YP_288416] /

Tfu_0458

[YP_288519] /

Lxx12500

[YP_062199] /

Lxx07270

[YP_061760] /

Tfu_0332

[YP_288393]
Length / 151 aa / 216 aa / 237 aa / 160 aa / 238 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / S. avermitilis, 1e-13 (150)
S. coelicolor, 8e-10 (138)
T. fusca, 3e-48 (151)
Nocardioides sp., 5e-06 (135)
K. radiotolerans, 3e-12 (302)
B. linens, 3e-08 (155)
A. sp., 1e-11 (157)
L. xyli, 2e-06 (160)
T. whipplei, 0.006 (123) / S. avermitilis, 7e-25 (237)
S. coelicolor, 3e-23 (238)
T. fusca, 9e-92 (216)
Nocardioides sp., 7e-42 (222)
K. radiotolerans, 3e-38 (249)
A. sp., 2e-26 (258)
L. xyli, 1e-35 (237)
T. whipplei, 4e-30 (212)
B. longum, 3e-19 (312) / S. avermitilis, 1e-23 (237)
S. coelicolor, 1e-22 (238)
T. fusca, 1e-34 (216)
Nocardioides sp., 1e-34 (222)
K. radiotolerans, 1e-31 (249)
A. sp., 5e-23 (258)
L. xyli, 4e-104 (237)
T. whipplei, 5e-30 (212)
B. longum,, 7e-14 (312) / S. avermitilis, 6e-20 (150)
S. coelicolor, 7e-20 (138)
T. fusca, 4e-24 (151)
Nocardioides sp., 2e-14 (135)
K. radiotolerans, 2e-20 (302)
Br. Linens, 5e-14 (155)
A. sp., 5e-21 (157)
L. xyli, 5e-77 (160)
T. whipplei, 5e-16 (123) / T. fusca, 3e-96 (238)
S. avermitilis, 7e-48 (243)
S. coelicolor, 1e-47 (240)
N. farcinica, 6e-40 (275)
Nocardioides sp., 9e-22 (222)
F. sp. CcI3, 8e-39 (230)
F. sp. EAN1pec, 2e-39 (251)
A. sp., 9e-09 (248)
B. linens, 3e-05 (249)
Non-Actino / --- / Paracoccus denitrificans
0.03 (215) / Staphylococcus phage
0.10 (1269) / Gibberella zeae
2.2 (354) / Magnaporthe grisea
0.24 (288)

Protein

/ Lxx07570
[YP_061782] /

Tfu_2382

[YP_290438] /

Tfu_0741

[YP_288802] /

Lxx10335

[YP_062003] / ML2592
[NP_302659]
Length / 127 aa / 67 aa / 310 aa / 78 aa / 531 aa
function / Unknown / Unknown / Unknown / Unknown / mce1D
Actino-
hit / L. xyli, 9e-59 (127)
A. sp., 3e-34 (134)
S. avermitilis, 9e-33 (135)
S. coelicolor, 2e-30 (132)
N. farcinica, 6e-32 (145)
C. glutamicum, 3e-23 (131)
C. diphtheriae, 6e-24 (114)
C. efficience, 1e-23 (128)
C. jeikeium, 1e-24 (122) / T. fusca, 8e-26 (67)
S. avermitilis, 3e-06 (62)
S. coelicolor, 1e-05 (69)
C. glutamicum, 2e-04 (50)
C. diphtheriae, 1e-04 (50)
C. efficience, 4e-04 (50)
C. jeikeium, 2e-04 (64)
B. linens, 1e-05 (57)
K. radiotolerans, 0.002 (53) / T. fusca, 2e-165 (310)
N. farcinica, 2e-68 (330)
C. glutamicum, 8e-68 (297)
C. diphtheriae, 7e-67 (292)
C..efficience, 1e-70 (298)
C. jeikeium, 7e-67 (279)
Nocardioides sp., 2e-67 (303)
A. sp. , 7e-77 (349)
B. linens, 3e-79 (312) / L. xyli, 2e-39 (78)
A. sp., 1e-11 (73)
T. fusca, 3e-13 (74)
Nocardioides sp., 4e-12 (77)
F. sp. CcI3, 7e-11 (66)
F. sp. EAN1pec, 7e-11 (81)
K. radiotolerans, 1e-11 (80)
M. tuberculosis, 8e-07 (62) / M. leprae, 0 (531)
M. avium, 0 (537)
M. tuberculosis, 0 (530)
M. bovis, 0 (530)
N. farcinica, 5e-66 (423)
S. avermitilis, 1e-43 (374)
S. coelicolor, 3e-36 (337)
Nocardioides sp., 7e-36 (404)
Non-Actino / Magnetospirillum agnetotacticum 0.68 (162) / --- / Sinorhizobium meliloti
0.49 (432) / See note 6 / Oryza sativa
3e-06 (1627)
Protein / ML2589
[NP_302656] /

Tfu_2127

[YP_290183] /

Tfu_0998

[YP_289059] / BL1007
[NP_696179] / BL1484
[NP_696643]
Length / 441 aa / 197 aa / 68 aa / 1031 aa / 495 aa
function / mce1A / Unknown / Unknown / Unknown / Unknown
Actino-
hit / M. leprae, 0 (441)
M. avium, 3e-167 (441)
M. tuberculosis, 1e-154 (454)
M. bovis, 1e-154 (454)
N. farcinica, 2e-40 (396)
S. avermitilis, 9e-21 (415)
S. coelicolor, 8e-22 (418)
Nocardioides sp., 3e-24 (436) / S. avermitilis, 2e-53 (195)
S. coelicolor, 1e-53 (195)
T. fusca, 2e-107 (197)
P. acnes, 2e-30 (198)
Nocardioides sp., 5e-45 (198)
K. radiotolerans, 2e-44 (218)
B. linens, 3e-28 (195)
A. sp., 4e-29 (246) / T. fusca, 5e-34 (68)
S. avermitilis, 1e-09 (74)
S. coelicolor, 1e-08 (82)
P. acnes, 0.021 (72)
Nocardioides sp., 1e-04 (86)
F. sp. CcI3, 1e-09 (70)
F. sp. EAN1pec, 8e-08 (70)
K. radiotolerans, 2e-09 (69) / B. longum, 0 (1031)
S. avermitilis, 1e-08 (1225)
S. coelicolor, 1e-08 (1268)
T. fusca, 1e-15 (1074)
T. whipplei, 2e-15 (853)
A. sp., 2e-34 (1097)
B. linens, 1e-20 (1050)
Nocardioides sp., 1e-19 (951) / B. longum, 0 (495)
N. farcinica, 1e-41 (496)
S. coelicolor, 3e-14 (488)
A. sp., 4e-71 (503)
B. linens, 1e-10 (488)
F. sp. CcI3, 3e-10 (500)
F. sp. EAN1pec, 5e-10 (500)
Nocardioides sp., 7e-10 (521)
Non-Actino / Solibacter usitatus
0.13 (357) / Pseudomonas aeruginosa
2.3 (2129) / Anopheles gambiae
0.90 (1698) / Chlorobium tepidum
0.008 (344) / Silicibacter pomeroyi
0.81 (227)
Protein /

Lxx06980

[YP_061735] /

Tfu_2164

[YP_290220] /

Lxx08430

[YP_061848] /

Tfu_2111

[YP_290167] /

Tfu_0565

[YP_288626]
Length / 168 aa / 115 aa / 501 aa / 138 aa / 58 aa
function / Unknown / Unknown / Unknown / SsgA / Unknown
Actino-
hit / L. xyli, 7e-70 (168)
B. linens, 3e-10 (148)
T. whipplei, 1e-04 (145)
N. farcinica, 6e-10 (152)
C. glutamicum, 1e-05 (149)
C. diphtheriae, 4e-06 (147)
C. efficience, 2e-04 (171)
C. jeikeium, 0.007 (170) / T. fusca, 2e-54 (115)
N. farcinica, 2e-09 (116)
C. glutamicum, 7e-09 (131)
C. diphtheriae, 5e-08 (138)
C..efficience, 1e-08 (166)
C. jeikeium, 3e-11 (131)
Nocardioides sp., 4e-11 (149)
F. sp. EAN1pec, 2e-18 (113) / L. xyli, 0 (501)
A. sp., 2e-15 (405)
B. linens, 2e-20 (424)
F. sp. CcI3 4e-17 (385)
F. sp. EAN1pec, 8e-14 (394)
T. fusca, 3e-22 (445)
S. avermitilis, 8e-16 (409)
C. glutamicum, 9e-10 (416) / T. fusca, 3e-74 (138)
S. avermitilis, 3e-28 (159)
S. coelicolor, 4e-28 (159)
Nocardioides sp., 6e-10 (118)
F. sp. CcI3, 1e-29 (143)
F. sp. EAN1pec, 7e-30 (143)
K. radiotolerans, 2e-19 (165) / T. fusca, 7e-17 (58)
S. avermitilis, 2e-10 (107)
S. coelicolor, 1e-10 (61)
P. acnes, 2e-09 (64)
Nocardioides sp., 5e-10 (58)
F. sp. CcI3, 3e-08 (59)
F. sp. EAN1pec, 4e-07 (72)
Non-Actino / Rubrivivax gelatinosus
0.23 (609) / See note 7 / Chromobacterium violaceum
0.008 (351) / Bacteroides fragilis
3.4 (473) / ---

Protein

/ Tfu_0510
[YP_288571] /

Tfu_1067

[YP_289128] /

Tfu_2238

[YP_290294] /

ML2600

[NP_302666] / Lxx09730
[YP_061949]

Length

/ 218 aa / 154 aa / 199 aa / 465 aa / 166 aa

function

/ Unknown / Unknown / Unknown / Unknown / secreted protein
Actino-
hit / T. fusca, 9e-116 (218)
S. avermitilis, 3e-42 (213)
S. coelicolor, 1e-42 (216)
F. sp. CcI3, 1e-36 (264)
F. sp. EAN1pec, 3e-33 (204)
Nocardioides sp., 3e-23 (417)
K. radiotolerans, 2e-33 (244) / T. fusca, 3e-84 (154)
S. avermitilis, 2e-08 (183)
K. radiotolerans, 9e-14 (166)
F. sp. CcI3 1e-10 (159)
F. sp. EAN1pec, 2e-07 (164)
N. farcinica, 1e-09 (153)
M. avium, 3e-08 (146) / The. fusca, 7e-98 (199)
M. avium, 2e-21 (203)
M. tuberculosis, 7e-21 (206)
M. bovis, 7e-21 (206)
C. glutamicum, 5e-16 (203)
C. efficience, 4e-20 (253)
B. linens, 7e-47 (205) / M. leprae, 0 (465)
M. avium, 2e-148 (474)
M. tuberculosis, 8e-164 (452)
M. bovis, 8e-164 (452)
N. farcinica, 2e-72 (452)
S. avermitilis, 1e-44 (432)
F. sp. EAN1pec, 3e-46 (465) / L. xyli, 8e-81 (166)
A. sp., 9e-27 (167)
B. linens, 1e-27 (145)
T. whipplei, 1e-22 (167)
K. radiotolerans, 1e-12 (184)
S. avermitilis, 4e-05 (165)
S. coelicolor, 4e-11 (163)
Non-Actino / Ralstonia solanacearum
1.3 (228) / Burkholderia cepacia
0.14 (254) / Oceanobacillus iheyensis
0.003 (170) / Azotobacter vinelandii
2e-04 (253) 69/154 (44%) / Leishmania major
1.1 (1357)

Protein

/
Lxx24410
[YP_063172] /

Tfu_0889

[YP_288950] /

Tfu_1028

[YP_289089] /

Lxx18480

[YP_062690] / BL1224
[NP_696395]

Length

/ 261 aa / 272 aa / 449 aa / 209 aa / 210 aa

function

/ Unknown / Unknown / Unknown / Unknown / ADP-ribose pyrophosphatase
Actino-
hit / L. xyli, 5e-129 (261)
A. sp., 6e-71 (328)
C. glutamicum, 2e-86 (307)
S. avermitilis, 2e-63 (344)
S. coelicolor, 9e-64 (298)
P. acnes, 4e-58 (346)
K. radiotolerans, 7e-69 (300) / T. fusca, 3e-139 (272)
S. coelicolor, 1e-26 (236)
M. avium, 2e-25 (191)
N. farcinica, 1e-27 (191)
F. sp. CcI3, 4e-31 (366)
F. sp. EAN1pec, 5e-39 (299) / T. fusca, 0 (449)
S. avermitilis, 6e-82 (449)
S. coelicolor, 1e-76 (447)
Nocardioides sp., 4e-4 (421)
F. sp. CcI3, 7e-61 (436)
F. sp. EAN1pec, 2e-67 (543) / L. xyli, 3e-98 (209)
A. sp. , 3e-33 (219)
B. linens, 1e-11 (184)
Nocardioides sp., 6e-13 (232)
B. longum, 8e-21 (224)
K. radiotolerans, 3e-20 (222) / B. longum, e-108 (210)
L. xyli, 3e-41 (191)
S. avermitilis, 1e-44 (175)
S. coelicolor, 2e-47 (178)
A. sp., 3e-40 (179)
B. linens, 6e-35 (179)
Non-Actino / Dehalococcoides ethenogenes
0.21 (571) / Anaeromyxobacter dehalogenans 0.036 (286) / Parachlamydia sp.
3e-04 (222) 49/92 (53%) / --- / See note 8

Protein

/

Lxx06130

[YP_061677] /

Tfu_0342

[YP_288403] /
Lxx21720
[YP_062966] /
Lxx24290
[YP_063167] /

Tfu_1203

[YP_289264]

Length

/ 209 aa / 141 aa / 98 aa / 114 aa / 119 aa

function

/ Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / L. xyli, 8e-82 (209)
A. sp., 2e-13 (199)
Br. linens, 9e-06 (213)
Nocardioides sp., 1e-12 (198)
P. acnes, 2e-08 (211)
C. efficience, 5e-04 (211) / T. fusca, 1e-62 (141)
S. coelicolor, 3e-22 (141)
C. glutamicum, 1e-09 (143)
C. efficience, 9e-12 (145)
Br. linens, 2e-16 (145) / L. xyli, 6e-50 (98)
N. farcinica, 2e-21 (147)
C. glutamicum, 1e-08 (143)
Nocardioides sp., 2e-19 (161)
K. radiotolerans, 3e-06 (180) / L. xyli, 2e-44 (114)
A. sp., 2e-12 (111)
S. avermitilis, 2e-17 (112)
F. sp. CcI3, 9e-09 (81)
F. sp. EAN1pec, 3e-17 (119) / T. fusca, 6e-50 (119)
S. avermitilis, 9e-20 (194)
S. coelicolor, 9e-20 (185)
P. acnes, 3e-14 (121)
Nocardioides sp., 1e-18 (115)
Non-Actino / Sinorhizobium meliloti
2.0 (410) / Rhizobium sp.
5.9 (345) / Thiobacillus denitrificans
9.9 (544) / --- / Trypanosoma brucei
2.0 (746)

Protein

/

Lxx11715

[YP_062125] /

Tfu_1137

[YP_289198] / Tfu_0860
[YP_288921] /

Lxx06110

[YP_061675] /

Tfu_2706

[YP_290762]
Length / 77 aa / 104 aa / 122 aa / 145 aa / 265 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / L. xyli, 3e-40 (77)
A. sp., 3e-09 (86)
S. avermitilis, 1e-09 (80)
Nocardioides sp., 9e-09 (73)
B. linens, 9e-09 (70) / T. fusca, 5e-23 (104)
S. avermitilis, 1e-05 (102)
S. coelicolor, 1e-04 (102)
Nocardioides sp., 3e-06 (100) / T. fusca, 4e-66 (122)
Nocardioides sp., 2e-15 (106)
F. sp. CcI3, 3e-15 (190)
F. sp. EAN1pec, 1e-14 (143) / L. xyli, 2e-76 (145)
A. sp., 4e-14 (158)
B. linens, 7e-09 (123)
Nocardioides sp., 2e-15 (183) / T. fusca, 4e-155 (265)
S. avermitilis 6e-61 (262)
S. coelicolor, 5e-54 (262)
B. linens, 3e-44 (256)
Non-Actino / See note 9 / --- / Burkholderia cepacia
0.062 (116) / Thermoanaerobacter tengcongensis 2e-04 (237) 39/73 (53%) / Neurospora crassa
0.38 (656)

Protein

/

Lxx23490

[YP_063102] /
Lxx20480
[YP_062866] /

Tfu_1606

[YP_289664] /

Lxx19690

[YP_062790] / BL1333
[NP_696497]
Length / 170 aa / 282 aa / 194 aa / 399 aa / 429 aa
function / oxidoreductase / Unknown / Unknown / Unknown / Unknown
Actino-
hit / L. xyli, 6e-59 (170)
A. sp., 3e-17 (252)
S. avermitilis 3e-08 (248)
S. coelicolor, 5e-08 (272) / L. xyli, 9e-142 (282)
C. diphtheriae, 1e-34 (298)
C. jeikeium, 3e-37 (351)
P. acnes, 3e-31 (336) / T. fusca, 3e-79 (194)
S. avermitilis, 3e-35 (193)
K. radiotolerans, 2e-27 (182)
A. sp., 4e-24 (181) / L. xyli, 1e-166 (399)
F. sp. EAN1pec, 1e-21 (460)
S. avermitilis, 2e-21 (455)
S. coelicolor, 5e-08 (314) / B. longum, 0 (429)
S. avermitilis, 2e-94 (410)
S. coelicolor, e-100 (415)
P. acnes, 1e-72 (399)
Non-Actino / Burkholderia ambifaria
0.037 (237) / Methanosarcina acetivorans
0.54 (1057) / --- / Rhodopirellula baltica
0.42 (1277) / See note 10

Protein

/

Tfu_0012

[YP_288075] /

Tfu_0015

[YP_288078] /

Tfu_2265

[YP_290321] /

Tfu_2899

[YP_290955] /

Lxx22880

[YP_063058]
Length / 442 aa / 343 aa / 167 aa / 147 aa / 102 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / T. fusca, 0 (442)
S. avermitilis 3e-100 (444)
S. coelicolor, 2e-104 (444)
B. linens, 6e-70 (504) / T. fusca, 2e-172 (343)
S. avermitilis 2e-16 (357)
S. coelicolor, 9e-15 (355)
B. linens, 3e-30 (329) / T. fusca, 2e-83 (167)
S. avermitilis 2e-06 (155)
S. coelicolor, 3e-06 (155)
A. sp., 6e-04 (123) / T. fusca, 3e-78 (147)
S. coelicolor, 3e-08 (125)
K. radiotolerans, 7e-07 (110) / L. xyli, 4e-49 (102)
K. radiotolerans, 9e-12 (98)
S. coelicolor, 2e-06 (124)
Non-Actino / Chlorobium phaeobacteroides
0.63 (859) / Chlorobium tepidum
0.26 (847) / Symbiobacterium thermophilum 0.52 (395) / Azoarcus sp.
0.92 (1519) / Streptococcus agalactiae
0.021 (96)

Protein

/

Tfu_3004

[YP_291060] /

Tfu_1754

[YP_289812] /

Lxx06210

[YP_061684] /

Tfu_0870

[YP_288931] /

Lxx05200

[YP_061603]
Length / 184 aa / 117 aa / 112 aa / 165 aa / 185 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / T. fusca, 6e-84 (184)
F. sp. CcI3, 9e-14 (192)
F. sp. EAN1pec, 5e-10 (234) / T. fusca, 7e-57 (117)
K. radiotolerans, 5e-17 (111)
N. farcinica, 2e-12 (113) / L. xyli, 4e-55 (112)
K. radiotolerans, 3e-08 (163)
Nocardioides sp., 2e-05 (173) / T. fusca, 1e-78 (165)
Nocardioides sp., 2e-17 (173) / L. xyli, 2e-102 (185)
S. avermitilis, 4e-50 (194)
Non-Actino / Ralstonia solanacearum
0.51 (816) / Tetraodon nigroviridis
0.14 (1547) / Synechocystis sp.
0.10 (1550) / Oryza sativa
0.50 (127) / See note 11

Protein

/

Lxx04780

[YP_061569] /

Tfu_2579

[YP_290635] /

Tfu_1426

[YP_289487] / Tfu_0596
[YP_288657] /

Tfu_1957

[YP_290013]
Length / 341 aa / 92 aa / 599 aa / 384 aa / 108 aa
function / Unknown / Unknown / Unknown / Unknown / Unknown
Actino-
hit / L. xyli, 5e-159 (341)
N. farcinica, 5e-15 (336) / T. fusca, 1e-46 (92)
N. farcinica, 2e-11 (90) / T. fusca, 0 (599)
R. radiotolerance, 1e-85 (484) / T. fusca, 0 (384)
A. sp., 4e-23 (341) / T. fusca 8e-61 (108)
N. farcinica, 1e-11 (96)
Non-Actino / Drosophila pseudoobscura
0.15 (431) / Bos Taurus
2.0 (154) / Cryptococcus neoformans
0.14 (488) / Arabidopsis thaliana
1.2 (316) / Oryza sativa
3.4 (382)
Abbrevations:A. sp., Arthrobacter sp.; B. longum, Bifidobacterium longum; B. linens, Brevibacterium linens; C. glutamicum, Corynebacterium glutamicum; C. efficiens, Corynebacterium efficiens; C. diphtheriae, Corynebacterium diphtheriae; F. sp., Frankia sp.;K. radiotolerans, Kineococcus radiotolerans; L. xyli, Leifsonia xyli; M. leprae, Mycobacterium leprae; M. tuberculosis, Mycobacterium tuberculosis; M. avium, Mycobacterium avium; M. bovis, Mycobacterium bovis; N. farcinica, Nocardia farcinica; P. acnes, Propionibacterium acnes;R.. radiotolerance, Rubrobacter radiotolerance; S. avermitilis, Streptomyces avermitilis; S. coelicolor, Streptomyces coelicolor; T. fusca, Thermobifida fusca; T. whipplei, Tropheryma whipplei.
  1. Also found in Deinococcus geothermalis DSM 11300 with E-value of 5e-18 (163 aa) [ZP_00395938]; and the next non-actinobacterial hit is Nostoc sp. (Cyanobacteria) with E-value of 1.0 (179 aa);
  2. Also found in M. magnetotacticum MS-1 with E-value of 8e-05 (223 aa) [ZP_00209899]; and the next non-actinobacterial hit is Staphylococcus aureus (Firmicutes) with E-value of 0.063 (256 aa);
  3. Also found in M. magnetotacticum MS-1 with E-value of 1e-07 (178 aa) [ZP_00209845]; and the next non-actinobacterial hit is uncultured acidobacteria with E-value of 0.45 (608 aa);
  4. Also found in Anaeromyxobacter dehalogenans 2CP-C (-proteobacteria) with E-value of 1e-61 (409 aa) [ZP_00399948]; and the next non-actinobacterial hit is Theileria annulata (Eukaryota) with E-value of 0.18 (706 aa);
  5. Also found in M. magnetotacticum MS-1 with E-value of 1e-21 (186 aa) [ZP_00049183]; and the next non-actinobacterial hit is Mycobacteriophage 0.002 (948 aa);
  6. Also found in 3 Mycobacteriophage: Mycobacteriophage Barnyard with E-value of 3e-05 (64 aa) [NP_818590]; Mycobacteriophage Bethlehem with E-value of 7e-04 (89 aa) [AAR89801]; Mycobacteriophage Bxb1 with E-value of 0.001 (89 aa) [NP_075339]; and the next non-actinobacterial hit is Trypanosoma cruzi with E-value of 7.6 (427 aa);
  7. Also found in M. magnetotacticum MS-1 with E-value of 1e-10 (88 aa) [ZP_00049152]; and the next non-actinobacterial hit is Desulfovibrio vulgaris ((-proteobacteria)) with E-value of 1.6 (442 aa);
  8. Also found in M. magnetotacticum MS-1 with E-value of 2e-44 (189 aa) [ZP_00049868]; and the next non-actinobacterial hit is Thermus thermophilus with E-value of 0.24 (136 aa);
  9. Also found in M. magnetotacticum MS-1 with E-value of 5e-09 (82 aa) [ZP_00049594]; and no hit was found in other bacteria.
  10. Also found in Syntrophomonas wolfei str. Goettingen (Firmicutes) with E-value of 2e-12 (404 aa) [ZP_00663927]; and the next non-actinobacterial hit is Thermoanaerobacter tengcongensis (Firmicutes) with E-value of 4e-05 (637 aa) and positive match is 59/145 (40%).
  11. Also found in Cytophaga hutchinsonii with E-value of 1e-39(162 aa) [ZP_00309264]; and the next non-actinobacterial hit is Azotobacter vinelandii (-proteobacteria) with E-value of 0.005 (411 aa).