Table 2 A selected list of protein family/motifs identified by SVD-derived singular triplets (st's). In this summary table, unique example proteins (rsv-gi#) were chosen from the 5 to 40 "top five" proteins identified as members of a given family by as many as 8 distinct right singular vectors. As examples, six individual ras proteins representing six broad categories of ras (highlighted in italics) are defined by a total of 13 right singular vectors, and 18 ribosomal proteins (highlighted in bold) are defined by a total of 65 right singular vectors. The lengths of continuous copep strings identified from the corresponding left singular vectors and their specificities (E-values) as revealed by pairwise BLAST are also provided.
triplet | # | rsv-gi# | Name | Protein Description | lsv copep string (E-value) |
|---|---|---|---|---|---|
421a | 1 | 11415030 | HIST1H4J | H4 histone family, member E | 62 aa's (1e-54) |
417a | 2 | 21166389 | HIST1H2BC | H2B histone family, member L | 75 aa's (4e-67) |
413a | 1 | 31560385 | Rpl21 | ribosomal protein L21 | 60 aa's (2e-55) |
408 | 1 | 4501885 | ACTB | beta actin; beta cytoskeletal actin | 42 aa's (9e-38) |
405 | 1 | 4506661 | Rpl7a | ribosomal protein 7a | 79 aa's (3e-62) |
392a | 1 | 5174735 | TUBB2 | tubulin, beta, 2 | 45 aa's (7e-41) |
389a | 2 | 13569962 | RAB1B | RAB1B, RAS oncogene family; small GTP-binding | 14 aa's (2e-11) |
389 | 3 | 6677781 | Rpl29 | ribosomal protein L29 | 77 aa's (3e-60) |
387 | 3 | 31981690 | Hspa8 | heat shock 70kD protein 8 | 40 aa's (2e-35) |
385a | 1 | 11024714 | UBB | ubiquitin B precursor; polyubiquitin B | 77 aa's (2e-68) |
378a | 5 | 26051216 | CAMK2B | calmodulin-dependent protein kinase IIB isoform 7 | 14 aa's (2e-10) |
373a | 2 | 4502201 | ARF1 | ADP-ribosylation factor 1 | 86 aa's (1e-41) |
371a | 3 | 6679439 | Ppia | peptidylprolyl isomerase A; cyclophilin A | 55 aa's (2e-48) |
368a | 5 | 25150942 | Tcb-1 | transposable element tcb1 transposase (1O615) | 88 aa's (7e-74) |
363 | 3 | 33149310 | UBE2D3 | ubiquitin-conjugating enzyme E2D 3 isoform 1 | 138 aa's (7e-91) |
354 | 3 | 4502549 | CALM2 | calmodulin 2; phosphorylase kinase delta | 40 aa's (1e-19) |
352a | 4 | 17105394 | RPL23A | ribosomal protein L23a | 44 aa's (3e-33) |
350a | 4 | 9845511 | RAC1 | ras-related C3 botox sub 1 isoform Rac1, rho | 15 aa's (2e-12) |
347a | 3 | 51873060 | Eef1a1 | eukaryotic translation elongation factor 1 alpha 1 | 24 aa's (4e-19) |
345 | 2 | 27679110 | Rpl17 | ribosomal protein L17 (L23) | 92 aa's (2e-89) |
341a | 5 | 31980772 | Ppp1cc | protein phosphatase 1, catalytic, gamma isoform | 20 aa's (5e-17) |
337 | 5 | 24648716 | mod(mdg4) | modifier of mdg4 | 32 aa's (2e-29) |
334 | 5 | 24653107 | Galpha49B | G protein alpha49B | 19 aa's (9e-18) |
333a | 3 | 4506633 | RPL31 | ribosomal protein L31 | 78 aa's (8e-74) |
329a | 2 | 34878793 | Pcdha13 | protocadherin alpha 13 | 17 aa's (8e-14) |
327 | 3 | 32307119 | PPP2R2B | Serine/threonine protein phosphatase 2A, neuronal | 23 aa's (7e-20) |
324 | 1 | 31982919 | ZNF430 | zinc finger protein 430 | 18 aa's (3e-11) |
322a | 3 | 34871376 | LOC287293 | similar to high mobility group 1 protein | 15 aa's (9e-13) |
321a | 3 | 4504445 | HNRPA1 | heterogeneous nuclear ribonucleoprotein A1 | 23 aa's (2e-18) |
320a | 2 | 25141298 | kin-1 | cyclic AMP-dependent catalytic subunit (kin-1) | 66 aa's (4e-62) |
316a | 5 | 22094075 | Slc25a5 | solute carrier family 25; adenine nucleotide | 27 aa's (7e-22) |
308a | 3 | 9845502 | LAMR1 | laminin receptor 1 (67kD, ribosomal protein SA) | 68 aa's (1e-60) |
304 | 3 | 6978809 | Eno1 | enolase 1, alpha | 32 aa's (3e-27) |
301 | 4 | 27676004 | LOC365206 | similar to ribosomal protein L9 | 139 aa's (1e-13) |
295 | 2 | 31083250 | PPP2R5C | Ser/threo protein phosphatase 2A, 56 kD regulator, | 16 aa's (6e-12) |
292 | 4 | 31560517 | Rpl27a | ribosomal protein L27a | 58 aa's (7e-56) |
291 | 2 | 15011936 | RPS26 | ribosomal protein S26 | 77 aa's (7e-64) |
288 | 1 | 22129671 | Olfr493 | olfactory receptor MOR204–35 | 12 aa's (3e-08) |
287 | 2 | 38076430 | LOC193565 | similar to T-cell receptor alpha chain | 16 aa's (2e-12) |
285a | 3 | 6754140 | H2-Q7 | histocompatibility 2, Q region locus 7 | 19 aa's (5e-16) |
280a | 5 | 16418339 | Rpl10 | ribosomal protein 10 | 27 aa's (4e-23) |
277a | 1 | 15718763 | KRAS2 | cellular c-Ki-ras2 proto-oncogene | 9 aa's (2e-06) |
277 | 2 | 27689505 | Rab5c | similar to Rab5c protein | 17 aa's (4e-13) |
276 | 4 | 24580529 | M(2)21AB | Minute (2) 21AB CG2674-PA | 25 aa's (5e-20) |
272 | 1 | 25742772 | Kcna2 | potassium voltage-gated channel, shaker-related, | 12 aa's (1e-09) |
270 | 4 | 33186863 | Rpl13 | ribosomal protein L13 | 11 aa's (3e-09) |
266 | 4 | 4506697 | RPS20 | ribosomal protein S20 | 54 aa's (2e-49) |
256 | 3 | 4506597 | RPL12 | ribosomal protein L12 | 34 aa's (8e-30) |
253a | 6 | 15809016 | MRLC2 | myosin regulatory light chain MRCL2 | 19 aa's (7e-16) |
247 | 3 | 31981515 | Rpl7 | ribosomal protein L7 | 10 aa's (4e-08) |
240a | 5 | 24639734 | Dlc | dynein light chain ATPase | 22 aa's (4e-21) |
237a | 4 | 34865959 | gpdh | similar to glyceraldehyde-3-phosphate | 16 aa's (7e-13) |
236a | 2 | 10835049 | ARHA | Aplysia ras-related homolog 12; oncogene RHO | 9 aa's (9e-07) |
230 | 6 | 15431293 | RPL15 | ribosomal protein L15 | 11 aa's (6e-09) |
224 | 5 | 13592069 | Rps10 | ribosomal protein S10 | 81 aa's (1e-78) |
197a | 2 | 14249144 | Rab11b | RAB11B, member RAS oncogene family | 15 aa's (4e-12) |
190a | 6 | 4506621 | RPL26 | ribosomal protein L26 | 16 aa's (8e-14) |
183a | 5 | 14277700 | RPS12 | ribosomal protein S12 | 13 aa's (1e-10) |