Table 1 Hypothetical proteins in rat brain and their putative functions

Accession

Number /

Protein name

/

Putative function by sequence similarity

(Conserved domain)e) /

Matches

(pMism) /

BLAST

Alignment(identity to, %) /

Theoretical/Observed

pI

/

Mr (kDa)

Metabolism-related
Q8BWM5 / Similar to glycerol-3-phosphate dehydrogenase / Glycerol-3-phosphate dehydrogenase (KOG2711) / 5
(9.43) / NH / 6.46 / 8.23 / 34.6 / 37.2
Q8IY16 / Similar to RIKEN cDNA 2900024O10 gene / Metallo-beta-lactamase superfamily in metabolism
(KOG0813) / 6
(9.25) / NH / 6.42 / 7.85 / 31.3 / 28.5
Q8WX76 / BA113O24.2 / Oxidoreductase (KOG2450) / 5
(7.91) / P30837
(94 %) / 6.54 / 7.75 / 57.2 / 53.5
Q91VA7 / Tumor-related protein / Oxidoreductase (KOG0784) / 7
(10.59) / O77784
(88 %) / 8.76 / 8.30 / 42.2 / 41.5
Q91VD9a) / Hypothetical 79.7 kDa protein / Electron transporter or
NADH dehydrogenase (ubiquinone) (KOG2282) / 5
(9.19) / Q8BM16
(99 %) / 5.51 /
5.45~5.85 / 79.7 / 79.7
Q91WP2a) / Hypothetical 116.4 kDa protein / Oxidoreductase (KOG0450) / 9
(14.69) / Q80Y57
(96 %) / 6.36 / 7.25~7.55 / 116.4 / 115.6
Q921G7 / RIKEN cDNA 0610010I20 gene / Oxidoreductase and electron transport (KOG2415) / 6
(9.06) / Q8BK82
(99 %) / 7.34 /.8.05 / 68.1 / 63.8
Q96IF0 / Aldehyde dehydrogenase 4 family, member A1 / Aldehyde dehydrogenase (KOG2455) / 9
(13.55) / P30038
(99 %) / 8.25./ 8.21 / 61.7 / 61.5
Q9D0K2a) / 2610008O03Rik protein / Coenzyme A transferase (KOG3822) / 6
(12.34) / P55809
(87 %) / 8.73 / 8.33 / 56.0 / 55.5
Cytoskeleton-related
BAC26331 / Dynamin-like 120 kda protein, mitochondrial precursor (large GTP binding protein) (largeg), full insert sequence / Microtubule-associated and GTP binding protein (KOG0447) / 8
(9.41) / O60313
(91 %) / 7.18 / 7.30 / 113.4 / 89.5
Q8N4C4 / Similar to erythrocyte membrane protein band 4.1-like 2 / Cytoskeleton (KOG3527) / 5
(7.95) / O43491
(91 %) / 8.18 / 7.35 / 71.6 / 93.2
Q8R5C5 / Similar to ARP1 actin-related protein 1 homolog B, centractin beta / Cell motility and structure (KOG0676) / 5
(7.52) / P42025
(98 %) / 5.98 / 7.25 / 42.3 / 47.0
Q8WU19b) / Similar to tubulin alpha 2 / Polymer formation (KOG1376) / 6
(9.66) / NH / 4.87 / 5.80 / 37.2 / 59.9
Chaperone-like protein
Q8K0U4 / Similar to KIAA0417 gene product / Molecular chaperone (KOG0101) / 6
(9.28) / O43301
(94 %) / 6.32 / 7.27 / 74.9 / 75.1
Q925I1 / TOB3 / Chaperone-like function (KOG0742) / 5
(8.15) / NH / 9.32 / 7.92 / 66.7 / 100 2
Table 1 (Continued)
Cell division or differentiation-related
Q8N959 / Hypothetical protein FLJ38330 / Cellular differentiation (KOG2931) / 5
(9.53) / NH / 5.89 / 6.90 / 35.2 / 48.2
Q9JJM9 / CDCrel-1A / Cell division and GTP binding (KOG2655) / 7
(9.63) / Q99719
(98 %) / 6.34 / 7.15~7.45 / 43.9 /
41.5~45.5
Proteolysis-related
Q99JW2 / RIKEN cDNA 1110014J22 gene / Proteolysis and peptidolysis (KOG2275) / 7
(8.68) / Q03154
(85 %) / 5.89 / 7.17 / 45.8 / 45.3
Q9QUL6 / N-ethylmaleimide sensitive factor / ATP-dependent peptidase (KOG0741) / 9
(13.22) / P46460
(94 %) / 6.55 / 7.50~8.10 / 82.7 / 76.5
Miscellaneous
O60376c) / P1.11659_4 / Integral membrane protein (KOG2620) / 6
11.14 () / NH / 6.40 / 6.85 / 38.7 / 39.8
Q8BH59 / Solute carrier family 25 / Mitochondrial aspartate or glutamate carrier (KOG0751) / 8
(13.67) / O75746
(94 %) / 8.43 / 8.72 / 74.6 /
68.5~72.2
Q8BIX2 / HSGCN1 homolog / Intracellular transport processes or DNA binding (KOG1242 and KOG2171) / 7
(8.49) / Q9UE60
(91 %) / 6.01 / 7.65 / 115.4 / 115.8
Q9DBM1 / 1300003A17Rik protein / Putative RNA-binding proteins (KOG2138) / 5
(7.55) / NH / 6.53 / 8.51 / 103.0 / 215.8
Q9NW31 / Hypothetical protein FLJ10348 / Multi-protein complexes (PCI domain for signaling) (KOG1497) / 5
(7.93) / Q9Y677
(99 %) / 5.57 / 7.71 / 45.0 / 10.5
Q9Y512 / Protein CGI-51 / Cell surface protein (KOG2602) / 8
(11.26) / NH / 6.44 / 7.85 / 52.0 / 52.5
Unknown
CAD34734b, d) / Homo sapiens sequence 42 from patent wo0222660 / Unknown / 6
(11.71) / P49411
(89 %) / 7.26 / 7.77~7.88 / 49.9 / 46.7
CAD33306 / Homo sapiens sequence 33 from patent wo0218424 / Unknown / 8
(12.65) / NH / 6.67 / 7.37~8.02 / 49.6 / 49.5
Q9CXS1 / 5730568A12Rik protein / Unknown / 8
(13.40) / NH / 7.14 / 8.17 / 41.8 / 41.3
Q9D9F6 / 1700082C19Rik protein / Unknown / 6
(10.17) / NH / 6.00 / 5.45 / 25.6 / 88.9
Q9DA45 / 1700021B03Rik protein / Unknown / 7
(12.80) / NH / 8.83 / 8.50~8.70 / 28.3 / 29.2

Rat proteins were separated by 2-DE and identified by MALDI-MS, following in-gel digestion with trypsin. The spots representing the identified proteins are indicated in Fig 1 and are designated with their accession numbers of SWISS-PROT or the other database (www.ncbi.nlm.gov). The theoretical/observed molecular weight (MW) and pI values, as well as the number of matching peptides (matches) and the probability of assignment (pMism) are given. Some hypothetical proteins were detected in mouse hippocampusa) (Unpublished data, Shin et al., 2003), human mesothelial cell lineb), human lymphocytec) or human bronchial cell lined) (Unpublished data).

e)Accession number of Conserved Domain Database (CDD, www.ncbi.nlm.nih.gov). The sequences of hypothetical proteins were submitted to BLAST and putative conserved domains were obtained by sequence similarity. NH, there were no comparable homologs with known function.