Query 047709
Match_columns 93
No_of_seqs 132 out of 1057
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 13:53:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047709.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047709hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02237 glyceraldehyde-3-phos 100.0 4.1E-44 9E-49 284.3 8.7 93 1-93 293-399 (442)
2 PTZ00434 cytosolic glyceraldeh 100.0 3.6E-44 7.7E-49 279.1 7.8 93 1-93 233-342 (361)
3 PRK07403 glyceraldehyde-3-phos 100.0 6.7E-43 1.5E-47 270.2 8.6 93 1-93 218-323 (337)
4 PRK15425 gapA glyceraldehyde-3 100.0 6.1E-43 1.3E-47 269.9 8.0 93 1-93 215-320 (331)
5 PRK07729 glyceraldehyde-3-phos 100.0 9.5E-43 2E-47 269.9 7.0 93 1-93 216-321 (343)
6 PTZ00023 glyceraldehyde-3-phos 100.0 3.8E-42 8.3E-47 266.0 8.6 93 1-93 219-324 (337)
7 TIGR01532 E4PD_g-proteo D-eryt 100.0 3.4E-42 7.4E-47 264.8 8.1 93 1-93 216-321 (325)
8 PLN02358 glyceraldehyde-3-phos 100.0 7.2E-42 1.6E-46 264.4 8.4 93 1-93 221-326 (338)
9 PLN02272 glyceraldehyde-3-phos 100.0 8.4E-42 1.8E-46 270.0 8.9 93 1-93 300-405 (421)
10 PLN03096 glyceraldehyde-3-phos 100.0 1.4E-41 2.9E-46 267.3 8.4 93 1-93 276-381 (395)
11 PTZ00353 glycosomal glyceralde 100.0 1.5E-41 3.2E-46 263.1 8.1 92 1-93 219-324 (342)
12 PRK08955 glyceraldehyde-3-phos 100.0 1.3E-41 2.8E-46 262.6 7.3 93 1-93 216-321 (334)
13 PRK13535 erythrose 4-phosphate 100.0 2.9E-41 6.3E-46 260.9 8.0 93 1-93 218-323 (336)
14 TIGR01534 GAPDH-I glyceraldehy 100.0 1.9E-40 4.1E-45 255.6 8.9 93 1-93 216-323 (327)
15 COG0057 GapA Glyceraldehyde-3- 100.0 2.4E-39 5.3E-44 249.6 8.1 93 1-93 216-321 (335)
16 PRK08289 glyceraldehyde-3-phos 100.0 2.6E-39 5.6E-44 258.3 7.6 92 1-93 353-459 (477)
17 PF02800 Gp_dh_C: Glyceraldehy 100.0 1.7E-34 3.8E-39 202.7 5.1 85 1-85 60-157 (157)
18 KOG0657 Glyceraldehyde 3-phosp 99.9 1.2E-27 2.6E-32 180.9 2.8 62 1-93 200-273 (285)
19 TIGR01546 GAPDH-II_archae glyc 98.6 3.3E-08 7.1E-13 77.0 3.2 36 1-38 195-243 (333)
20 PRK04207 glyceraldehyde-3-phos 98.0 6.5E-06 1.4E-10 63.8 4.6 58 2-62 199-273 (341)
21 TIGR00978 asd_EA aspartate-sem 95.3 0.019 4.1E-07 44.3 3.5 54 2-55 208-282 (341)
22 PRK08664 aspartate-semialdehyd 95.1 0.026 5.7E-07 43.7 3.8 34 5-38 222-268 (349)
23 TIGR01296 asd_B aspartate-semi 94.2 0.019 4.1E-07 44.6 0.9 34 3-36 218-271 (339)
24 PRK14874 aspartate-semialdehyd 94.1 0.037 8E-07 42.7 2.2 32 3-36 222-268 (334)
25 PRK06901 aspartate-semialdehyd 91.9 0.17 3.6E-06 39.8 3.1 34 3-37 208-254 (322)
26 PRK06598 aspartate-semialdehyd 90.7 0.25 5.3E-06 39.3 2.9 31 6-38 258-301 (369)
27 TIGR01745 asd_gamma aspartate- 90.4 0.29 6.3E-06 38.9 3.1 31 6-38 256-299 (366)
28 PRK06728 aspartate-semialdehyd 89.1 0.38 8.2E-06 37.9 2.9 29 6-36 235-276 (347)
29 smart00517 PolyA C-terminal do 83.7 1.3 2.8E-05 27.1 2.6 18 4-21 20-37 (64)
30 COG0136 Asd Aspartate-semialde 76.7 4.4 9.6E-05 32.0 4.1 57 3-61 222-292 (334)
31 PRK09203 rplP 50S ribosomal pr 70.6 8.5 0.00018 26.6 3.9 30 9-38 87-123 (138)
32 PF02192 PI3K_p85B: PI3-kinase 70.2 12 0.00026 23.6 4.2 37 16-53 3-40 (78)
33 TIGR01164 rplP_bact ribosomal 67.1 11 0.00025 25.5 4.0 30 9-38 86-122 (126)
34 COG1220 HslU ATP-dependent pro 63.9 4.8 0.0001 32.7 1.8 30 3-35 318-347 (444)
35 cd01433 Ribosomal_L16_L10e Rib 57.0 21 0.00046 23.3 3.8 30 9-38 66-103 (112)
36 PF00252 Ribosomal_L16: Riboso 54.3 21 0.00045 24.3 3.5 30 9-38 86-123 (133)
37 TIGR01628 PABP-1234 polyadenyl 50.2 14 0.00031 30.0 2.4 18 4-21 520-537 (562)
38 PF03598 CdhC: CO dehydrogenas 48.9 9.9 0.00021 31.0 1.3 35 22-56 243-279 (411)
39 CHL00044 rpl16 ribosomal prote 48.3 36 0.00079 23.4 3.9 30 9-38 87-123 (135)
40 KOG4727 U1-like Zn-finger prot 47.2 5.6 0.00012 29.1 -0.3 29 4-34 91-123 (193)
41 TIGR00390 hslU ATP-dependent p 44.4 14 0.00031 30.3 1.6 29 4-35 316-344 (441)
42 cd06406 PB1_P67 A PB1 domain i 43.0 55 0.0012 20.8 3.9 36 15-51 13-49 (80)
43 PRK05201 hslU ATP-dependent pr 42.8 15 0.00033 30.1 1.6 29 4-35 318-346 (443)
44 smart00143 PI3K_p85B PI3-kinas 42.3 41 0.00089 21.2 3.2 30 16-46 3-33 (78)
45 COG3703 ChaC Uncharacterized p 41.0 33 0.00072 25.2 2.9 24 10-35 67-90 (190)
46 PF00658 PABP: Poly-adenylate 39.5 1.5 3.2E-05 27.3 -3.7 26 4-34 31-56 (72)
47 PRK08040 putative semialdehyde 37.3 29 0.00064 27.1 2.3 24 12-35 230-266 (336)
48 PF10726 DUF2518: Protein of f 34.5 41 0.0009 23.7 2.5 18 22-39 89-106 (145)
49 KOG3422 Mitochondrial ribosoma 33.8 70 0.0015 24.1 3.7 30 9-38 128-165 (221)
50 PLN02968 Probable N-acetyl-gam 31.6 72 0.0016 25.3 3.7 27 12-38 264-303 (381)
51 COG1586 SpeD S-adenosylmethion 31.5 1.5E+02 0.0033 20.6 4.9 57 23-92 30-86 (136)
52 cd01755 PLAT_lipase PLAT/ LH2 30.7 71 0.0015 21.0 3.1 29 58-89 44-72 (120)
53 PF11382 DUF3186: Protein of u 29.3 49 0.0011 25.5 2.4 42 8-50 77-122 (308)
54 COG1329 Transcriptional regula 27.6 63 0.0014 23.3 2.5 36 12-47 43-87 (166)
55 PRK00436 argC N-acetyl-gamma-g 27.6 89 0.0019 24.1 3.6 27 11-37 225-264 (343)
56 KOG4354 N-acetyl-gamma-glutamy 27.1 1.9E+02 0.004 22.8 5.1 57 4-63 226-286 (340)
57 smart00833 CobW_C Cobalamin sy 27.0 1.5E+02 0.0031 17.7 4.4 48 14-62 3-54 (92)
58 PF05534 HicB: HicB family; I 26.8 87 0.0019 17.8 2.6 22 8-38 16-37 (51)
59 TIGR00115 tig trigger factor. 26.8 1.6E+02 0.0034 23.0 4.8 57 4-60 99-160 (408)
60 PLN02383 aspartate semialdehyd 26.3 75 0.0016 24.8 3.0 24 12-35 239-275 (344)
61 cd06095 RP_RTVL_H_like Retrope 25.9 48 0.001 20.2 1.5 21 53-73 1-21 (86)
62 cd01758 PLAT_LPL PLAT/ LH2 dom 24.9 1.2E+02 0.0026 20.8 3.4 28 58-88 46-74 (137)
63 PF12212 PAZ_siRNAbind: Piwi/A 24.7 59 0.0013 18.8 1.6 23 26-48 9-32 (47)
64 COG2037 Ftr Formylmethanofuran 24.7 78 0.0017 24.6 2.7 43 3-47 223-277 (297)
65 PF15221 LEP503: Lens epitheli 24.4 75 0.0016 19.1 2.0 34 4-37 11-47 (61)
66 PF11767 SET_assoc: Histone ly 23.8 66 0.0014 19.5 1.8 19 18-36 6-24 (66)
67 COG0197 RplP Ribosomal protein 23.5 1.6E+02 0.0034 20.8 3.9 30 9-38 90-126 (146)
68 PF13331 DUF4093: Domain of un 23.1 58 0.0013 20.7 1.5 42 23-64 6-48 (87)
69 cd02698 Peptidase_C1A_Cathepsi 22.8 1.3E+02 0.0028 21.8 3.5 28 56-84 160-187 (239)
70 TIGR01850 argC N-acetyl-gamma- 22.7 1.4E+02 0.003 23.1 3.8 27 12-38 229-268 (346)
71 PF00276 Ribosomal_L23: Riboso 22.5 1.3E+02 0.0029 18.9 3.1 22 15-37 23-44 (91)
72 COG4502 5'(3')-deoxyribonucleo 22.4 45 0.00098 24.0 1.0 29 57-88 143-171 (180)
73 COG3061 OapA Cell envelope opa 22.3 3.6E+02 0.0078 20.6 5.9 74 14-93 159-242 (242)
74 COG0466 Lon ATP-dependent Lon 22.3 40 0.00087 29.7 0.8 48 28-77 406-456 (782)
75 COG2442 Uncharacterized conser 22.3 66 0.0014 20.2 1.6 18 22-39 54-71 (79)
76 PRK01490 tig trigger factor; P 22.2 2.2E+02 0.0047 22.5 4.9 57 4-60 111-171 (435)
77 cd01759 PLAT_PL PLAT/LH2 domai 22.2 1.4E+02 0.003 19.8 3.3 27 59-88 43-69 (113)
78 PF02669 KdpC: K+-transporting 21.0 1E+02 0.0023 22.5 2.7 25 22-46 148-172 (188)
79 PRK05671 aspartate-semialdehyd 20.9 1.6E+02 0.0035 22.9 3.9 24 12-35 231-267 (336)
80 TIGR00681 kdpC K+-transporting 20.7 1E+02 0.0022 22.6 2.5 25 22-46 147-171 (187)
81 PTZ00173 60S ribosomal protein 20.3 1.9E+02 0.0042 21.6 4.0 30 9-38 119-157 (213)
No 1
>PLN02237 glyceraldehyde-3-phosphate dehydrogenase B
Probab=100.00 E-value=4.1e-44 Score=284.27 Aligned_cols=93 Identities=39% Similarity=0.688 Sum_probs=90.6
Q ss_pred CceeccCCCCCcceeEEEeCC-------------C-CCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEE
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------K-KATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIF 66 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k-~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~ 66 (93)
|++|||+|+|||+|||||||| | ++++||||++||+|++|+|||||+|+++|+||+||+|++||+||
T Consensus 293 v~~VlP~L~GKl~g~A~RVPt~nvS~vDLt~~l~k~~~t~eein~~~k~aa~~~lkgil~y~~~plVS~Df~~~~~Ssi~ 372 (442)
T PLN02237 293 VSLVLPQLKGKLNGIALRVPTPNVSVVDLVVNVEKKGITAEDVNAAFRKAADGPLKGILAVCDVPLVSVDFRCSDVSSTI 372 (442)
T ss_pred hceecccCCCceeeEEEecccCCceEEEEEEEeCCCCCCHHHHHHHHHHhhccccCCeeeeeCCceeeeeecCCCcceEE
Confidence 589999999999999999999 6 79999999999999999999999999999999999999999999
Q ss_pred eCCCceeecCCeEEEEEEcCCCCccCC
Q 047709 67 DAKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 67 d~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
|+.+|++++++++|+++|||||||||+
T Consensus 373 D~~~t~v~~~~~vKv~aWYDNEwGys~ 399 (442)
T PLN02237 373 DASLTMVMGDDMVKVVAWYDNEWGYSQ 399 (442)
T ss_pred EcccCEEeCCCEEEEEEEeCCchhHHH
Confidence 999999999999999999999999984
No 2
>PTZ00434 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional
Probab=100.00 E-value=3.6e-44 Score=279.11 Aligned_cols=93 Identities=51% Similarity=0.882 Sum_probs=89.9
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|+|||||| |++|+||||++||+||+++|||||+|+++|+||+||+|+|||+|||
T Consensus 233 v~~VlP~L~GKl~G~a~RVPt~nvS~vDLt~~l~k~~t~eein~a~k~aa~~~lkgIl~y~~~plVS~Df~g~~~Ssi~D 312 (361)
T PTZ00434 233 VGMVIPSTKGKLTGMSFRVPTPDVSVVDLTFRATRDTSIQEIDAAIKRASQTYMKGILGFTDDELVSADFINDNRSSIYD 312 (361)
T ss_pred hceeccccCCceeeEEEecccCcEeEEEEEEEeCCCCCHHHHHHHHHHhhhccccCcccccCCCccccccCCCCCCeEEE
Confidence 589999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeec----CCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLS----DNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~----~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++ ++++|+++|||||||||+
T Consensus 313 ~~~t~v~~~~~~~~~vKv~~WYDNEwGys~ 342 (361)
T PTZ00434 313 SKATLQNNLPGERRFFKIVSWYDNEWGYSH 342 (361)
T ss_pred hhhCeEeccCCCCCEEEEEEEecCchHHHH
Confidence 99999986 489999999999999984
No 3
>PRK07403 glyceraldehyde-3-phosphate dehydrogenase; Reviewed
Probab=100.00 E-value=6.7e-43 Score=270.18 Aligned_cols=93 Identities=35% Similarity=0.719 Sum_probs=90.4
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|+|+|||| |++++||||++|++|++++|||||+|+++|+||+||+|+|||+|||
T Consensus 218 v~~vlP~L~gki~g~avRVPt~~vs~~dl~v~l~k~~t~eeI~~~~~~as~~~l~gil~~~~~~~VS~D~~~~~~s~i~D 297 (337)
T PRK07403 218 VALVIPELKGKLNGIALRVPTPNVSVVDLVVQVEKRTITEQVNEVLKDASEGPLKGILEYSDLPLVSSDYRGTDASSIVD 297 (337)
T ss_pred hhhcCcccCCcEEEEEEEeccCCcEEEEEEEEECCCCCHHHHHHHHHHHhhCccccccCeecCCEeeeeecCCCCCEEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 298 ~~~t~v~~~~~~k~~~WyDNE~Gys~ 323 (337)
T PRK07403 298 ASLTMVMGGDMVKVIAWYDNEWGYSQ 323 (337)
T ss_pred cccCEEecCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999984
No 4
>PRK15425 gapA glyceraldehyde-3-phosphate dehydrogenase A; Provisional
Probab=100.00 E-value=6.1e-43 Score=269.89 Aligned_cols=93 Identities=69% Similarity=1.123 Sum_probs=90.4
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+|+|||| +++++||||++|++|++|+|||||+|+++|+||+||+|+|||+|||
T Consensus 215 v~kIlP~L~gkl~g~avRVPv~~gs~~dltv~l~~~~t~eev~~al~~aa~~~l~gil~~~~~~~VS~D~~~~~~ssi~d 294 (331)
T PRK15425 215 VGKVLPELNGKLTGMAFRVPTPNVSVVDLTVRLEKAATYEQIKAAVKAAAEGEMKGVLGYTEDDVVSTDFNGEVCTSVFD 294 (331)
T ss_pred HHhhccccCCeEEEEEEEecccCeEEEEEEEEECCCCCHHHHHHHHHHHhhccccccccccCCcEeeeecCCCCcceEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 295 ~~~t~v~~~~~~k~~~WyDNE~gys~ 320 (331)
T PRK15425 295 AKAGIALNDNFVKLVSWYDNETGYSN 320 (331)
T ss_pred cccCEEecCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999985
No 5
>PRK07729 glyceraldehyde-3-phosphate dehydrogenase; Validated
Probab=100.00 E-value=9.5e-43 Score=269.87 Aligned_cols=93 Identities=39% Similarity=0.720 Sum_probs=90.3
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|+|||||| |++++|+||++|++|++|+|||||+|+++|+||+||+|+|||+|||
T Consensus 216 i~~viP~l~gkl~g~avRVPt~~~s~~dltv~l~k~~t~eev~~~l~~a~~~~l~gil~~~~~~~VS~D~~~~~~s~i~D 295 (343)
T PRK07729 216 LAKVLPHLNGKLHGMALRVPTPNVSLVDLVVDVKRDVTVEEINEAFKTAANGALKGILEFSEEPLVSIDFNTNTHSAIID 295 (343)
T ss_pred HHHhccccCCeEEEEEEEeeecCeEEEEEEEEECCCCCHHHHHHHHHHHhhCchhhccCccCCCccccccCCCCcceEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 296 ~~~t~v~~~~~~K~~~WYDNE~Gys~ 321 (343)
T PRK07729 296 GLSTMVMGDRKVKVLAWYDNEWGYSC 321 (343)
T ss_pred cccCeEecCCEEEEEEEecCchHHHH
Confidence 99999999999999999999999984
No 6
>PTZ00023 glyceraldehyde-3-phosphate dehydrogenase; Provisional
Probab=100.00 E-value=3.8e-42 Score=265.97 Aligned_cols=93 Identities=63% Similarity=1.070 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+|+|||| +++++||||++|++||+|+|||||+|+++|+||+||+|+|||+|||
T Consensus 219 v~kVlPeL~gkl~g~avRVPt~~~s~~dltv~l~k~vt~eev~~al~~aa~~~l~gil~~~~~~~VS~D~~~~~~s~i~d 298 (337)
T PTZ00023 219 VGKVIPELNGKLTGMAFRVPVPDVSVVDLTCKLAKPAKYEEIVAAVKKAAEGPLKGILGYTDDEVVSSDFVHDKRSSIFD 298 (337)
T ss_pred hhheecccCCcEEEEEEEecccCeEEEEEEEEECCCCCHHHHHHHHHHHhcccccCCcCccCCCeeeeecCCCCCCeEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 299 ~~~t~v~~~~~~k~~~WyDNE~gys~ 324 (337)
T PTZ00023 299 VKAGIALNDTFVKLVSWYDNEWGYSN 324 (337)
T ss_pred cccCeEecCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999985
No 7
>TIGR01532 E4PD_g-proteo D-erythrose-4-phosphate dehydrogenase. Accordingly, this model is very close to the corresponding models for GAPDH, and those sequences which hit above trusted here invariably hit between trusted and noise to the GAPDH model (TIGR01534). Similarly, it may be found that there are species outside of the gamma proteobacteria which synthesize pyridoxine and have more than one aparrent GAPDH gene of which one may have E4PD activity - this may necessitate a readjustment of these models. Alternatively, some of the GAPDH enzymes may prove to be bifunctional in certain species.
Probab=100.00 E-value=3.4e-42 Score=264.81 Aligned_cols=93 Identities=28% Similarity=0.567 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|++||||| +++++|+||++|++|++|+|||||+|+++|+||+||+|++||+|||
T Consensus 216 ~~kilP~L~gkl~~~avRVPv~~~s~~dl~v~~~~~~~~eev~~~l~~a~~~~l~gil~~~~~~~vS~D~~~~~~s~i~d 295 (325)
T TIGR01532 216 IERLFPEFAGRFEAIAVRVPTVNVTALDLSVTTKRDVKANEVNRVLREAAQGPLRGIVDYTELPLVSCDFNHDPHSAIVD 295 (325)
T ss_pred HHHhCcccCCeEEEEEEEecccCcEEEEEEEEECCCCCHHHHHHHHHHhhccccccccccccCCccccccCCCCcceEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 296 ~~~t~~~~~~~~k~~~WyDNE~gys~ 321 (325)
T TIGR01532 296 GTQTRVSGPRLVKLLVWCDNEWGFAN 321 (325)
T ss_pred cccCEEecCCEEEEEEEeCCcceeee
Confidence 99999999999999999999999985
No 8
>PLN02358 glyceraldehyde-3-phosphate dehydrogenase
Probab=100.00 E-value=7.2e-42 Score=264.37 Aligned_cols=93 Identities=75% Similarity=1.181 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+|+|||| +++++||||++|++|++++|||||+|+++|+||+||+|+|||+|||
T Consensus 221 ~~kIlP~l~gkl~g~avRVPv~~gs~~dl~v~~~~~~t~eev~~~l~~a~~~~l~gil~~~~~~~VS~D~~~~~~s~i~d 300 (338)
T PLN02358 221 VGKVLPSLNGKLTGMSFRVPTVDVSVVDLTVRLEKAATYDEIKKAIKEESEGKLKGILGYTEDDVVSTDFVGDNRSSIFD 300 (338)
T ss_pred hhhccccCCCcEEEEEEEeeEcCeeEEEEEEEECCCCCHHHHHHHHHHHhhccccCcccccCCceeeeecCCCCcceEEE
Confidence 478999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 301 ~~~t~~~~~~~vk~~~WyDNE~gys~ 326 (338)
T PLN02358 301 AKAGIALSDKFVKLVSWYDNEWGYSS 326 (338)
T ss_pred cccCeEecCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999985
No 9
>PLN02272 glyceraldehyde-3-phosphate dehydrogenase
Probab=100.00 E-value=8.4e-42 Score=270.04 Aligned_cols=93 Identities=69% Similarity=1.118 Sum_probs=90.6
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|+++|||| +++++||||++|++|++|+|||||+|+|+|+||+||+|++||+|||
T Consensus 300 v~kVLP~L~gkl~gtaVRVPv~~gs~~dltv~lek~~s~eev~~alk~a~~~~l~gil~y~~~~lVS~Df~~~~~ssi~D 379 (421)
T PLN02272 300 VGKVLPELNGKLTGMAFRVPTPNVSVVDLTCRLEKSASYEDVKAAIKYASEGPLKGILGYTDEDVVSNDFVGDSRSSIFD 379 (421)
T ss_pred hhhcccccCCcEEEEEEEeccCceEEEEEEEEECCCCCHHHHHHHHHHHhccccccccccccCCEeeeecCCCCCcEEEE
Confidence 478999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 380 ~~~t~~~~~~~vKv~~WYDNEwGys~ 405 (421)
T PLN02272 380 AKAGIGLSASFMKLVSWYDNEWGYSN 405 (421)
T ss_pred cccCeEecCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999985
No 10
>PLN03096 glyceraldehyde-3-phosphate dehydrogenase A; Provisional
Probab=100.00 E-value=1.4e-41 Score=267.26 Aligned_cols=93 Identities=37% Similarity=0.698 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+++|||| +++++|+||++|++|++|+|||||+|+++|+||+||+|+|||+|||
T Consensus 276 v~kVlP~L~gkl~g~avRVPv~~gs~~dltv~~~~~~t~eev~~al~~aa~~~l~gil~~~~~p~VS~Df~~~~~Ssi~d 355 (395)
T PLN03096 276 VALVLPNLKGKLNGIALRVPTPNVSVVDLVVQVEKKTFAEEVNAAFRDAAEKELKGILAVCDEPLVSVDFRCSDVSSTID 355 (395)
T ss_pred hhhcccccCCcEEEEEEEccccceEEEEEEEEECCCCCHHHHHHHHHhhhhccccceEEEeCCCEeeeeecCCCCceEEE
Confidence 478999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 356 ~~~t~v~~~~~vKv~~WYDNE~Gys~ 381 (395)
T PLN03096 356 SSLTMVMGDDMVKVVAWYDNEWGYSQ 381 (395)
T ss_pred cccCEEeCCCEEEEEEEecCchhHHH
Confidence 99999999999999999999999984
No 11
>PTZ00353 glycosomal glyceraldehyde-3-phosphate dehydrogenase; Provisional
Probab=100.00 E-value=1.5e-41 Score=263.11 Aligned_cols=92 Identities=26% Similarity=0.536 Sum_probs=88.3
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|+|+|||| |++++||||++|++||+++|||||+|+|+|+||+||+|+| |+|||
T Consensus 219 v~kVlP~L~gkl~g~avRVPt~~vs~vdltv~~~k~~t~eein~~l~~aa~~~l~gil~~~~~~~VS~Df~~~~-~si~D 297 (342)
T PTZ00353 219 VCKLLPHLVGRISGSAFQVPVKKGCAIDMLVRTKQPVSKEVVDSALAEAASDRLNGVLCISKRDMISVDCIPNG-KLCYD 297 (342)
T ss_pred hhhhccccCCcEEEEEEEccccCeEEEEEEEEECCCCCHHHHHHHHHHHhhcccCCeEEecCCCeeeeEeCCCC-CeEEE
Confidence 578999999999999999999 8999999999999999999999999999999999999999 59999
Q ss_pred CCCceee-cCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISL-SDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~-~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|+++ +++++|+++|||||||||+
T Consensus 298 ~~~t~~~~~~~~vKv~~WYDNE~Gys~ 324 (342)
T PTZ00353 298 ATSSSSSREGEVHKMVLWFDVECYYAA 324 (342)
T ss_pred cccCeEEeCCCEEEEEEEecCchHHHH
Confidence 9999995 7899999999999999984
No 12
>PRK08955 glyceraldehyde-3-phosphate dehydrogenase; Validated
Probab=100.00 E-value=1.3e-41 Score=262.59 Aligned_cols=93 Identities=40% Similarity=0.717 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+++|||| +++++||||++|++|++++|||||+|+|+|+||+||+|+|||+|||
T Consensus 216 ~~kvlP~L~gkl~~~avRVPv~~gs~~dl~v~~~~~~s~eev~~~l~~a~~~~l~gil~~~~~~~vS~D~~~~~~s~i~d 295 (334)
T PRK08955 216 ITEIFPELKGKLNGHAVRVPLANASLTDCVFEVERDTTVEEVNALLKEAAEGELKGILGYEERPLVSIDYKTDPRSSIVD 295 (334)
T ss_pred cceEccccCCcEEEEEEEeccCCeEEEEEEEEECCCCCHHHHHHHHHHhcCCCcCceeccccCCcccceeCCCCchHhee
Confidence 578999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 296 ~~~t~~~~~~~~k~~~WyDNE~gys~ 321 (334)
T PRK08955 296 ALSTMVVNGTQVKLYAWYDNEWGYAN 321 (334)
T ss_pred hhcCEEecCCEEEEEEEeCCchhHHH
Confidence 99999999999999999999999985
No 13
>PRK13535 erythrose 4-phosphate dehydrogenase; Provisional
Probab=100.00 E-value=2.9e-41 Score=260.88 Aligned_cols=93 Identities=26% Similarity=0.515 Sum_probs=90.5
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+++|||| +++++|+||++|++|++|+|||||+|+++|+||+||+|+|||+|||
T Consensus 218 ~~kilP~l~gkv~~~avRVPv~~gs~~dl~v~~~~~~t~eei~~~l~~a~~~~l~gil~~~~~~~VS~D~~~~~~s~i~d 297 (336)
T PRK13535 218 ITRIFPQFNDRFEAISVRVPTINVTAIDLSVTVKKPVKVNEVNQLLQKAAQGAFHGIVDYTELPLVSIDFNHDPHSAIVD 297 (336)
T ss_pred hhhcccCCCCcEEEEEEEeCccCcEEEEEEEEECCCCCHHHHHHHHHHhhhccccccccccCCCccccccCCCCcceEEE
Confidence 478999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++|||||||||+
T Consensus 298 ~~~t~~~~~~~~k~~~WyDNE~gys~ 323 (336)
T PRK13535 298 GTQTRVSGAHLIKTLVWCDNEWGFAN 323 (336)
T ss_pred cccCEEECCCEEEEEEEEcCchHHHH
Confidence 99999999999999999999999984
No 14
>TIGR01534 GAPDH-I glyceraldehyde-3-phosphate dehydrogenase, type I. The noise level is set relative not to E4PD, but the next closest outliers, the class II GAPDH's (found in archaea, TIGR01546) and aspartate semialdehyde dehydrogenase (ASADH, TIGR01296) both of which have highest-scoring hits around -225 to the prior model.
Probab=100.00 E-value=1.9e-40 Score=255.57 Aligned_cols=93 Identities=48% Similarity=0.859 Sum_probs=89.4
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+||++|+++|||| +++++|||+++|++|++++|||||+|+++|+||+||+|+|||+|||
T Consensus 216 ~~kvlP~L~gkv~~~avRVPv~~gs~~dl~v~~~~~~t~eev~~al~~a~~~~l~gil~~~~~~~VS~D~~~~~~s~i~d 295 (327)
T TIGR01534 216 IGKVLPELAGKLTGMAIRVPTPNVSLVDLVLNLEKDTTKEEVNAALKEAAEGSLKGVLGYTEDELVSSDFIGSPYSSIVD 295 (327)
T ss_pred HhhccccCCCeEEEEEEEecccCeEEEEEEEEECCCCCHHHHHHHHHhhhhcccCceeeeeCCCeeeeecCCCCcceEEE
Confidence 478999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeec--CCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLS--DNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~--~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++ ++++|+++|||||||||+
T Consensus 296 ~~~t~~~~~~~~~~k~~~WyDNE~gys~ 323 (327)
T TIGR01534 296 ATATKVTGLGGSLVKVVAWYDNEWGYSN 323 (327)
T ss_pred cccCeEEcCCCCEEEEEEEeCCCceeee
Confidence 99999954 899999999999999985
No 15
>COG0057 GapA Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]
Probab=100.00 E-value=2.4e-39 Score=249.59 Aligned_cols=93 Identities=56% Similarity=0.880 Sum_probs=90.3
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
|++|||||+|||+|||+|||| |++|+||||++||+|+++.|||+++|+|+|+||+||+|++||+|||
T Consensus 216 v~~VlP~L~gKl~g~A~RVPt~~vs~~dl~v~l~k~~t~eeIn~alk~as~~~lkg~~~y~e~~~Vs~D~~~~~~ssI~d 295 (335)
T COG0057 216 VGLVLPELKGKLTGMAIRVPTPNVSVVDLTVELEKEVTVEEINAALKAASEIGLKGILGYTEDPLVSSDFNGDPHSSIFD 295 (335)
T ss_pred hhhhCcccCCceeeEEEEecCCCcEEEEEEEEeCCCCCHHHHHHHHHHhhcccccceeeeEeccccccccCCCcceeEEE
Confidence 578999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEcCCCCccCC
Q 047709 68 AKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+.+|++++++++|+++||||||||++
T Consensus 296 ~~~t~~~~~~~vk~~~wydNE~gys~ 321 (335)
T COG0057 296 ASATIVLGGNLVKLVAWYDNEWGYSN 321 (335)
T ss_pred ccceEeccCcEEEEEEEEeccccchH
Confidence 99999998799999999999999984
No 16
>PRK08289 glyceraldehyde-3-phosphate dehydrogenase; Reviewed
Probab=100.00 E-value=2.6e-39 Score=258.34 Aligned_cols=92 Identities=34% Similarity=0.629 Sum_probs=88.4
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhh-cCccccccceecc-ceEeecCCCCCcceE
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEAS-QGEMKGIFGYIED-DVVSTDFVGDNRSSI 65 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa-~~~lkgil~~t~~-~~VS~Df~g~~~s~i 65 (93)
+++|||+|+|||+|+|||||| +++++|+||++|++|| +++|+|||+|+++ |+||+||+|++||+|
T Consensus 353 v~kVLP~L~GKltg~avRVPt~nvS~vdLtv~l~k~vt~eevn~~lk~aa~~~~L~gil~yt~~~~lVSsDfig~~~SsI 432 (477)
T PRK08289 353 VAKALPELAGKLTGNAIRVPTPNVSMAILNLNLEKETSREELNEYLRQMSLHSPLQNQIDYTDSTEVVSSDFVGSRHAGV 432 (477)
T ss_pred hhhcccccCCcEEEEEEEeccccEEEEEEEEEECCCCCHHHHHHHHHHHhhcCCccceeeecccCCeeeeeecCCCchhh
Confidence 578999999999999999999 8999999999999999 4999999999999 799999999999999
Q ss_pred EeCCCceeecCCeEEEEEEcCCCCccCC
Q 047709 66 FDAKAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 66 ~d~~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
||+.+|++. ++++|+++|||||||||+
T Consensus 433 ~D~~~T~v~-g~~vkv~~WYDNE~GYS~ 459 (477)
T PRK08289 433 VDSQATIVN-GNRAVLYVWYDNEFGYSC 459 (477)
T ss_pred eehhccEEc-CCEEEEEEEecCchhHHH
Confidence 999999998 799999999999999984
No 17
>PF02800 Gp_dh_C: Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; InterPro: IPR020829 Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) plays an important role in glycolysis and gluconeogenesis [] by reversibly catalysing the oxidation and phosphorylation of D-glyceraldehyde-3-phosphate to 1,3-diphospho-glycerate. The enzyme exists as a tetramer of identical subunits, each containing 2 conserved functional domains: an NAD-binding domain, and a highly conserved catalytic domain []. The enzyme has been found to bind to actin and tropomyosin, and may thus have a role in cytoskeleton assembly. Alternatively, the cytoskeleton may provide a framework for precise positioning of the glycolytic enzymes, thus permitting efficient passage of metabolites from enzyme to enzyme []. GAPDH displays diverse non-glycolytic functions as well, its role depending upon its subcellular location. For instance, the translocation of GAPDH to the nucleus acts as a signalling mechanism for programmed cell death, or apoptosis []. The accumulation of GAPDH within the nucleus is involved in the induction of apoptosis, where GAPDH functions in the activation of transcription. The presence of GAPDH is associated with the synthesis of pro-apoptotic proteins like BAX, c-JUN and GAPDH itself. GAPDH has been implicated in certain neurological diseases: GAPDH is able to bind to the gene products from neurodegenerative disorders such as Huntington's disease, Alzheimer's disease, Parkinson's disease and Machado-Joseph disease through stretches encoded by their CAG repeats. Abnormal neuronal apoptosis is associated with these diseases. Propargylamines such as deprenyl increase neuronal survival by interfering with apoptosis signalling pathways via their binding to GAPDH, which decreases the synthesis of pro-apoptotic proteins []. This entry represents the C-terminal domain which is a mixed alpha/antiparallel beta fold.; GO: 0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1DSS_R 1IHY_C 1CRW_R 1IHX_B 1SZJ_R 3HJA_D 2YYY_B 1OBF_O 3PYM_A 2VYN_D ....
Probab=100.00 E-value=1.7e-34 Score=202.68 Aligned_cols=85 Identities=56% Similarity=0.954 Sum_probs=82.2
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEe
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFD 67 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d 67 (93)
+++|||+|+|||+|||||||| |++++||||++|++|++++++||++|+++|+||+||+|++||+|||
T Consensus 60 v~~VlP~L~gki~g~a~rVPt~~~s~~dl~~~l~k~~t~eeV~~~~~~aa~~~~~gil~~~~~~~vS~D~~~~~~s~i~d 139 (157)
T PF02800_consen 60 VGKVLPELNGKITGMAVRVPTPNVSLHDLTVELEKPVTKEEVNEALKQAARGPLKGILGYTEDPLVSSDFNGDRHSSIFD 139 (157)
T ss_dssp HHHHSGGGTTTEEEEEEEESSSSEEEEEEEEEESSSS-HHHHHHHHHHHHHTTTTTTEEEEHSHHHGGGGTTGCSSEEEE
T ss_pred hhhhhhhccCcceeeEEeeeecccCceEEEEecccchhhhhhhhhhhhhhHhhhhhhheecccceEEeccCCCceEEEEE
Confidence 468999999999999999999 8999999999999999999999999999999999999999999999
Q ss_pred CCCceeecCCeEEEEEEc
Q 047709 68 AKAGISLSDNFEKLVSWY 85 (93)
Q Consensus 68 ~~~t~~~~~~~vkl~~Wy 85 (93)
+.++++++++++|+++||
T Consensus 140 ~~~t~v~~~~~vkl~~WY 157 (157)
T PF02800_consen 140 AEATIVVNGNLVKLFAWY 157 (157)
T ss_dssp GGGEEEEETTEEEEEEEE
T ss_pred hHHCeEECCCEEEEEEEC
Confidence 999999999999999999
No 18
>KOG0657 consensus Glyceraldehyde 3-phosphate dehydrogenase [Carbohydrate transport and metabolism]
Probab=99.94 E-value=1.2e-27 Score=180.93 Aligned_cols=62 Identities=58% Similarity=0.993 Sum_probs=58.3
Q ss_pred CceeccCCCCCcceeEEEeCC------------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEeC
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFDA 68 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d~ 68 (93)
||||||||+|||+|||||||| |++++|+||+++|+|++++||||| ||+
T Consensus 200 VgKvipeLngKLtGMAf~Vpt~vsVvdl~~~~~k~a~~ddikkvvk~~~~~~lkGIL--te~------------------ 259 (285)
T KOG0657|consen 200 VGKVIPELNGKLTGMAFRVPTPVSVVDLTCHLEKPAKYDDIKKVVKLASEIPLKGIL--TEH------------------ 259 (285)
T ss_pred HHHHhHHhhCccccceecCCcceEeeeeecccccccchHHHHHHHHHhhcccccccc--ccc------------------
Confidence 689999999999999999999 889999999999999999999999 877
Q ss_pred CCceeecCCeEEEEEEcCCCCccCC
Q 047709 69 KAGISLSDNFEKLVSWYDSDAAFEK 93 (93)
Q Consensus 69 ~~t~~~~~~~vkl~~WyDNE~gys~ 93 (93)
+| ++|||||||||+
T Consensus 260 --------~f---ISWYDNE~GYS~ 273 (285)
T KOG0657|consen 260 --------HF---ISWYDNEFGYSN 273 (285)
T ss_pred --------ce---eeeeccccccch
Confidence 34 899999999985
No 19
>TIGR01546 GAPDH-II_archae glyceraldehyde-3-phosphate dehydrogenase, type II. All of the members of the seed are characterized. See, for instance. This model is very solid, there are no species falling between trusted and noise at this time. The closest relatives scoring in the noise are the class I GAPDH's.
Probab=98.59 E-value=3.3e-08 Score=77.00 Aligned_cols=36 Identities=39% Similarity=0.591 Sum_probs=33.2
Q ss_pred CceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 1 VGKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 1 v~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
+++|||+|+ |+|+|+|||| |++++||||++|+++.+
T Consensus 195 v~~VlP~L~--i~g~AvrVPt~~vs~~dl~v~l~~~~t~eeV~~~l~~~~r 243 (333)
T TIGR01546 195 VQTVIPNLN--IETMAFVVPTTLMHVHSIMVELKKPVTKDDIIDILENTPR 243 (333)
T ss_pred HHHcCCCCC--ccEEEEEeCCCCcEEEEEEEEECCCCCHHHHHHHHHhCCc
Confidence 468999998 9999999999 89999999999999764
No 20
>PRK04207 glyceraldehyde-3-phosphate dehydrogenase; Provisional
Probab=98.04 E-value=6.5e-06 Score=63.84 Aligned_cols=58 Identities=26% Similarity=0.373 Sum_probs=41.2
Q ss_pred ceeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcC----ccccccceeccceEeecCCCCCc
Q 047709 2 GKVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQG----EMKGIFGYIEDDVVSTDFVGDNR 62 (93)
Q Consensus 2 ~~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~----~lkgil~~t~~~~VS~Df~g~~~ 62 (93)
.+++|+|+ ++++++|||| ++++.|||+++|++++.= .-.|+-. +.+++.-.+=.|.|+
T Consensus 199 ~~vlp~l~--i~~~avrVPv~~gh~~~v~v~l~~~~t~eev~~~l~~~~~i~~~~~~~~~~s-~~~~~~~~~~~~rp~ 273 (341)
T PRK04207 199 KTVLPDLD--ITTMAVKVPTTLMHMHSVNVELKKPVTKEEVLEALENTPRILLVRASDGIDS-TAELIEYARDLGRPR 273 (341)
T ss_pred HhhCCCCc--eEEEEEEcCCCCceEEEEEEEECCCCCHHHHHHHHHhCCCCEeeccccCCCC-hHHHhHHHHHcCCCc
Confidence 57899997 9999999999 889999999999998642 1123333 444443333345554
No 21
>TIGR00978 asd_EA aspartate-semialdehyde dehydrogenase (non-peptidoglycan organisms). Two closely related families of aspartate-semialdehyde dehydrogenase are found. They differ by a deep split in phylogenetic and percent identity trees and in gap patterns. Separate models are built for the two types in order to exclude the USG-1 protein, found in several species, which is specifically related to the Bacillus subtilis type of aspartate-semialdehyde dehydrogenase. Members of this type are found primarily in organisms that lack peptidoglycan.
Probab=95.34 E-value=0.019 Score=44.35 Aligned_cols=54 Identities=20% Similarity=0.195 Sum_probs=39.6
Q ss_pred ceeccCCCC--------CcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceeccceEee
Q 047709 2 GKVLPSLNG--------KLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVST 55 (93)
Q Consensus 2 ~~vlPeL~G--------kl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~ 55 (93)
.++|+.++| +++.+++|||+ ++++.++|+++++++.+.++...+.-+.+|.|-.
T Consensus 208 ~~il~~~~~~~~~~~~~~v~~t~~~vPv~rG~~~tv~v~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~fv~~ 282 (341)
T TIGR00978 208 RKILGKLENGKIEPAPFSVSATTTRVPVLDGHTESVHVEFDKKFDIEEIREALKSFRGLPQKLGLPSAPEKPIIV 282 (341)
T ss_pred HHHhCccccCcccCCCceEEEEEEEcCccccEEEEEEEEeCCCCCHHHHHHHHHhCcCccccccCCCCCCCcEEE
Confidence 345666655 38889999999 6789999999999987765544455555666544
No 22
>PRK08664 aspartate-semialdehyde dehydrogenase; Reviewed
Probab=95.15 E-value=0.026 Score=43.68 Aligned_cols=34 Identities=12% Similarity=0.227 Sum_probs=30.7
Q ss_pred ccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 5 LPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 5 lPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
+|+++.+++++++|||+ ++++.+||+++++++..
T Consensus 222 ~~~~~~~v~~t~~~vPv~rG~~~tv~~~l~~~~~~~~v~~~~~~~~~ 268 (349)
T PRK08664 222 IVPADFPISATCHRVPVIDGHTEAVFVKFKEDVDPEEIREALESFKG 268 (349)
T ss_pred ccCCCceEEEEeEEccccccEEEEEEEEeCCCCCHHHHHHHHHhccC
Confidence 68889999999999999 77999999999998755
No 23
>TIGR01296 asd_B aspartate-semialdehyde dehydrogenase (peptidoglycan organisms). Two closely related families of aspartate-semialdehyde dehydrogenase are found. They differ by a deep split in phylogenetic and percent identity trees and in gap patterns. This model represents a branch more closely related to the USG-1 protein than to the other aspartate-semialdehyde dehydrogenases represented in model TIGR00978.
Probab=94.20 E-value=0.019 Score=44.59 Aligned_cols=34 Identities=26% Similarity=0.363 Sum_probs=28.2
Q ss_pred eeccCCC-------CCcceeEEEeCC-------------CCCCHHHHHHHHHHh
Q 047709 3 KVLPSLN-------GKLTGMAFRLPP-------------KKATYDDIKAAHKEA 36 (93)
Q Consensus 3 ~vlPeL~-------Gkl~g~a~RVPt-------------k~~~~~~in~~~k~a 36 (93)
|+.|||+ .++++.++|||+ ++++.++|+++++++
T Consensus 218 ki~~el~~i~~~~~~~v~~t~~rVPv~~G~~~~v~v~~~~~v~~~~i~~~l~~~ 271 (339)
T TIGR01296 218 KMLFETRKIMGIPDFKVSATCVRVPVFTGHSESVNIEFEKEISPEDVRELLKNA 271 (339)
T ss_pred HHHHHHHHHhCCCCCcEEEEeEEccccccEEEEEEEEECCCCCHHHHHHHHhcC
Confidence 3566665 379999999999 789999999999854
No 24
>PRK14874 aspartate-semialdehyde dehydrogenase; Provisional
Probab=94.05 E-value=0.037 Score=42.68 Aligned_cols=32 Identities=28% Similarity=0.543 Sum_probs=27.6
Q ss_pred eec--cCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHh
Q 047709 3 KVL--PSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEA 36 (93)
Q Consensus 3 ~vl--PeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~a 36 (93)
+++ |++ ++++.++|||+ ++++.++|+++++++
T Consensus 222 ~il~~~~~--~v~~t~~rvPv~~G~~~ti~v~~~~~~~~~~v~~~l~~~ 268 (334)
T PRK14874 222 KILGDPDL--KVSATCVRVPVFTGHSESVNIEFEEPISVEEAREILAEA 268 (334)
T ss_pred HHhCCCCC--eEEEEEEEcceeccEEEEEEEEECCCCCHHHHHHHHHcC
Confidence 455 777 59999999999 779999999999984
No 25
>PRK06901 aspartate-semialdehyde dehydrogenase; Provisional
Probab=91.94 E-value=0.17 Score=39.76 Aligned_cols=34 Identities=18% Similarity=0.304 Sum_probs=29.1
Q ss_pred eeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhh
Q 047709 3 KVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEAS 37 (93)
Q Consensus 3 ~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa 37 (93)
|+||+| .+++...+|||+ ++++.+++.++++++.
T Consensus 208 KIl~~l-~~VsaTcVRVPV~~GHs~sV~ve~e~~~~~e~~~~~l~~~~ 254 (322)
T PRK06901 208 KIFPQL-ENVTFHSIQVPVFYGLAQMVTALSEYELDIESQLAEWQQNN 254 (322)
T ss_pred HHhCCc-ccEEEEEEEcceeccEEEEEEEEECCCCCHHHHHHHHHhCC
Confidence 566766 478999999999 8899999999999864
No 26
>PRK06598 aspartate-semialdehyde dehydrogenase; Reviewed
Probab=90.67 E-value=0.25 Score=39.32 Aligned_cols=31 Identities=13% Similarity=0.292 Sum_probs=26.4
Q ss_pred cCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 6 PSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 6 PeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
|+| ++++..+|||+ ++++.+++.+++++++.
T Consensus 258 ~~l--~vs~tcVRVPV~~gHs~sv~ve~~~~~~~~~i~~~L~~~~~ 301 (369)
T PRK06598 258 NPI--PVDGLCVRVGAMRCHSQALTIKLKKDVPLAEIEEILAAHNP 301 (369)
T ss_pred CCC--eEEEEEEEcceeccEEEEEEEEECCCCCHHHHHHHHHhcCC
Confidence 555 48999999999 89999999999998643
No 27
>TIGR01745 asd_gamma aspartate-semialdehyde dehydrogenase, gamma-proteobacterial.
Probab=90.36 E-value=0.29 Score=38.95 Aligned_cols=31 Identities=13% Similarity=0.377 Sum_probs=26.4
Q ss_pred cCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 6 PSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 6 PeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
|.| ++++..+|||+ ++++.+++.++++++..
T Consensus 256 ~~l--~VsaTcVRVPV~~gHs~sv~ve~~~~vs~e~i~~~L~~~~~ 299 (366)
T TIGR01745 256 STI--PVDGLCVRIGALRCHSQAFTIKLKKDVSLETIEEIIRAHNP 299 (366)
T ss_pred CCC--cEEEEEEecceeccEEEEEEEEECCCCCHHHHHHHHHhCCC
Confidence 555 48999999999 88999999999988543
No 28
>PRK06728 aspartate-semialdehyde dehydrogenase; Provisional
Probab=89.13 E-value=0.38 Score=37.93 Aligned_cols=29 Identities=38% Similarity=0.572 Sum_probs=25.4
Q ss_pred cCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHh
Q 047709 6 PSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEA 36 (93)
Q Consensus 6 PeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~a 36 (93)
|+| +++...+|||+ ++++.+++.++++++
T Consensus 235 ~~l--~VsatcvRVPV~~gHs~sv~ve~~~~~~~~~~~~~l~~~ 276 (347)
T PRK06728 235 PNL--KMAATCVRVPVISGHSESVYIELEKEATVAEIKEVLFDA 276 (347)
T ss_pred CCC--cEEEEEEecceeccEEEEEEEEECCCCCHHHHHHHHHcC
Confidence 555 48999999999 889999999999876
No 29
>smart00517 PolyA C-terminal domain of Poly(A)-binding protein. Present also in Drosophila hyperplastics discs protein. Involved in homodimerisation (either directly or indirectly)
Probab=83.66 E-value=1.3 Score=27.15 Aligned_cols=18 Identities=39% Similarity=0.720 Sum_probs=15.1
Q ss_pred eccCCCCCcceeEEEeCC
Q 047709 4 VLPSLNGKLTGMAFRLPP 21 (93)
Q Consensus 4 vlPeL~Gkl~g~a~RVPt 21 (93)
.-|+++||+|||=.-.|.
T Consensus 20 ~~p~~A~KITGMLLEmd~ 37 (64)
T smart00517 20 LEPELAGKITGMLLEMDN 37 (64)
T ss_pred hCcccCCcCeeeeeCCCH
Confidence 459999999999987665
No 30
>COG0136 Asd Aspartate-semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=76.73 E-value=4.4 Score=32.04 Aligned_cols=57 Identities=18% Similarity=0.214 Sum_probs=36.0
Q ss_pred eeccCCCCCcceeEEEeCC-------------CCCCHHHHHHHHHHhhcCccccccceec-cceEeecCCCCC
Q 047709 3 KVLPSLNGKLTGMAFRLPP-------------KKATYDDIKAAHKEASQGEMKGIFGYIE-DDVVSTDFVGDN 61 (93)
Q Consensus 3 ~vlPeL~Gkl~g~a~RVPt-------------k~~~~~~in~~~k~aa~~~lkgil~~t~-~~~VS~Df~g~~ 61 (93)
|+|..-.-++++..+|||+ ++.+.+|+.+.+-..+ +..-++...+ .|+.-.|-.|..
T Consensus 222 KIlg~~~~~VsatcvRVPV~~GHse~v~ve~~~~~~~~e~~~~~l~~a--p~v~v~~~~~~~P~~~~d~~g~~ 292 (334)
T COG0136 222 KILGDPDIKVSATCVRVPVFYGHSEAVTVEFKKDVDPEEIREELLPSA--PGVVVVDNPEDRPQTPLDATGGD 292 (334)
T ss_pred HHhCCCCCceEEEEEEcceecccceEEEEEecCCCCHHHHHHHHhccC--CCcEEEeCCccCccChhhhcCCC
Confidence 4555555689999999999 8899999997664333 3333333222 455555555544
No 31
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=70.59 E-value=8.5 Score=26.56 Aligned_cols=30 Identities=13% Similarity=0.073 Sum_probs=26.5
Q ss_pred CCCcceeEEEeCC-------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP-------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt-------k~~~~~~in~~~k~aa~ 38 (93)
+|++++.+.||++ ...+.+.+.++|+.|+.
T Consensus 87 KG~~~~~varVk~G~iifEi~~~~~~~a~~al~~a~~ 123 (138)
T PRK09203 87 KGSPEYWVAVVKPGRILFEIAGVSEELAREALRLAAA 123 (138)
T ss_pred CCCCcEEEEEECCCCEEEEEeCCCHHHHHHHHHHHhc
Confidence 6889999999999 55888999999999874
No 32
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=70.20 E-value=12 Score=23.56 Aligned_cols=37 Identities=19% Similarity=0.266 Sum_probs=25.7
Q ss_pred EEEeCCCCCCHHHHHH-HHHHhhcCccccccceeccceE
Q 047709 16 AFRLPPKKATYDDIKA-AHKEASQGEMKGIFGYIEDDVV 53 (93)
Q Consensus 16 a~RVPtk~~~~~~in~-~~k~aa~~~lkgil~~t~~~~V 53 (93)
.+||| +.+|..+|++ +.++|..-||-+.|+=-++-+.
T Consensus 3 ~l~~~-~~~Tl~~iK~~lw~~A~~~PL~~~L~~~~~Y~F 40 (78)
T PF02192_consen 3 PLRVS-RDATLSEIKEELWEEAKKYPLFSLLKDPSSYIF 40 (78)
T ss_dssp EEEEE-TT-BHHHHHHHHHHHGGGSTTCCCS--GGGEEE
T ss_pred EEEcc-CcCcHHHHHHHHHHHHHhCChHHHhCCCCcEEE
Confidence 46777 6789999998 5588888898887775554433
No 33
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=67.10 E-value=11 Score=25.52 Aligned_cols=30 Identities=13% Similarity=0.102 Sum_probs=26.0
Q ss_pred CCCcceeEEEeCC-------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP-------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt-------k~~~~~~in~~~k~aa~ 38 (93)
+|++++.+.||+. ...+.+...++|+.|+.
T Consensus 86 KG~~~~~varV~~G~ilfEi~~~~~~~a~~al~~a~~ 122 (126)
T TIGR01164 86 KGNPEYWVAVVKPGKILFEIAGVPEEVAREAFRLAAS 122 (126)
T ss_pred CCCCCEEEEEECCCCEEEEEeCCCHHHHHHHHHHHHh
Confidence 6889999999999 55888999999998864
No 34
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=63.94 E-value=4.8 Score=32.73 Aligned_cols=30 Identities=23% Similarity=0.479 Sum_probs=25.2
Q ss_pred eeccCCCCCcceeEEEeCCCCCCHHHHHHHHHH
Q 047709 3 KVLPSLNGKLTGMAFRLPPKKATYDDIKAAHKE 35 (93)
Q Consensus 3 ~vlPeL~Gkl~g~a~RVPtk~~~~~~in~~~k~ 35 (93)
-+||||.|+|. +||-.++.|.++..+++.+
T Consensus 318 DLiPELQGRfP---IRVEL~~Lt~~Df~rILte 347 (444)
T COG1220 318 DLIPELQGRFP---IRVELDALTKEDFERILTE 347 (444)
T ss_pred hcChhhcCCCc---eEEEcccCCHHHHHHHHcC
Confidence 46899999974 9998888999998888754
No 35
>cd01433 Ribosomal_L16_L10e Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with the 30S subunit, binding of aminoacyl-tRNA and interaction with antibiotics. L16 is required for the function of elongation factor P (EF-P), a protein involved in peptide bond synthesis through the stimulation of peptidyl transferase activity by the ribosome. Mutations in L16 and the adjoining bases of 23S rRNA confer antibiotic resistance in bacteria, suggesting a role for L16 in the formation of the antibiotic binding site. The GTPase RbgA (YlqF) is essential for the assembly of the large subunit, and it is believed to regulate the incorporation of L16. L10e is the archaeal and eukaryotic cytosolic homolog of bacterial L16. L16 and L10e exhibit structural differences at the N-terminus.
Probab=56.96 E-value=21 Score=23.34 Aligned_cols=30 Identities=27% Similarity=0.390 Sum_probs=24.5
Q ss_pred CCCcceeEEEeCC-------CCCC-HHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP-------KKAT-YDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt-------k~~~-~~~in~~~k~aa~ 38 (93)
+|++.+.+.||+. ...+ .+.+.++++.|+.
T Consensus 66 KG~~~~~~a~v~~G~iifEi~~~~~~~~~~~alk~a~~ 103 (112)
T cd01433 66 KGKPEGWVARVKPGQILFEVRGVPEEEVAKEALRRAAK 103 (112)
T ss_pred CCCccEEEEEECCCCEEEEEeCcCcHHHHHHHHHHhhc
Confidence 5889999999998 3344 8889999998874
No 36
>PF00252 Ribosomal_L16: Ribosomal protein L16p/L10e; InterPro: IPR016180 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a structural domain with an alpha/beta-hammerhead fold, where the beta-hammerhead motif is similar to that in barrel-sandwich hybrids. Domains of this structure can be found in ribosomal proteins L10e and L16. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 2ZJR_J 1Y69_K 3DLL_J 2ZJQ_J 2ZJP_J 3PIO_J 3CF5_J 3PIP_J 2ZKR_h 3J11_O ....
Probab=54.26 E-value=21 Score=24.25 Aligned_cols=30 Identities=30% Similarity=0.437 Sum_probs=26.1
Q ss_pred CCCcceeEEEeCC--------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP--------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt--------k~~~~~~in~~~k~aa~ 38 (93)
+|++++.+.||+. ..++.+++.++|+.|+.
T Consensus 86 KG~~~~~~a~V~~G~iifEi~~~v~~~~a~~alk~a~~ 123 (133)
T PF00252_consen 86 KGKIDHWVARVKPGQIIFEIGGKVNEEEAKEALKRAAK 123 (133)
T ss_dssp SCEEEEEEEEESTTEEEEEEESGSCHHHHHHHHHHHHH
T ss_pred CCCccEEEEEECCCcEEEEECCcCCHHHHHHHHHHHHh
Confidence 4789999999999 44899999999999875
No 37
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=50.16 E-value=14 Score=29.96 Aligned_cols=18 Identities=33% Similarity=0.648 Sum_probs=15.0
Q ss_pred eccCCCCCcceeEEEeCC
Q 047709 4 VLPSLNGKLTGMAFRLPP 21 (93)
Q Consensus 4 vlPeL~Gkl~g~a~RVPt 21 (93)
.=|+++||+|||=+=++.
T Consensus 520 ~~~~~~~~~tgm~l~~~~ 537 (562)
T TIGR01628 520 IEPALAAKITGMLLEMDN 537 (562)
T ss_pred hChhhcCcceEEEecCCH
Confidence 459999999999986665
No 38
>PF03598 CdhC: CO dehydrogenase/acetyl-CoA synthase complex beta subunit; InterPro: IPR004461 The carbon monoxide dehydrogenase alpha subunit (1.2.99.2 from EC) catalyses the interconversion of CO and CO2 and the synthesis of acteyl-coA from the methylated corrinoid/iron sulphur protein, CO and CoA. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.; GO: 0018492 carbon-monoxide dehydrogenase (acceptor) activity, 0006084 acetyl-CoA metabolic process; PDB: 2Z8Y_O 1MJG_N 3GIT_A 3S2X_B 3I01_O 3I04_N 1OAO_C 1RU3_A.
Probab=48.85 E-value=9.9 Score=30.97 Aligned_cols=35 Identities=34% Similarity=0.481 Sum_probs=20.7
Q ss_pred CCCCHHHHHHHHHHhhcCcccccccee--ccceEeec
Q 047709 22 KKATYDDIKAAHKEASQGEMKGIFGYI--EDDVVSTD 56 (93)
Q Consensus 22 k~~~~~~in~~~k~aa~~~lkgil~~t--~~~~VS~D 56 (93)
+.=-++.||++++++|+|.+..+--|+ ++|.-||-
T Consensus 243 ~~G~y~~VNe~v~~~S~G~ve~V~LYSime~P~TsCG 279 (411)
T PF03598_consen 243 VKGEYEGVNEAVKKASQGAVERVTLYSIMEDPMTSCG 279 (411)
T ss_dssp TTTEEHHHHHHHHHHTTTS-S---TT-SSSS-----S
T ss_pred ccceeccHHHHHHHhcCCceEEEEEEEeccCCCccch
Confidence 334578999999999999999888887 68887774
No 39
>CHL00044 rpl16 ribosomal protein L16
Probab=48.29 E-value=36 Score=23.37 Aligned_cols=30 Identities=20% Similarity=0.051 Sum_probs=24.8
Q ss_pred CCCcceeEEEeCC-------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP-------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt-------k~~~~~~in~~~k~aa~ 38 (93)
+|++++.+.||+. .-.+.+...++|+.|+.
T Consensus 87 KG~~~~~va~V~~G~ilfEi~g~~~~~ak~al~~a~~ 123 (135)
T CHL00044 87 KGSPEYWVAVVKPGRILYEMGGVSETIARAAIKIAAY 123 (135)
T ss_pred CCCccEEEEEECCCcEEEEEeCCCHHHHHHHHHHHhh
Confidence 6889999999999 44666788899988875
No 40
>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]
Probab=47.18 E-value=5.6 Score=29.12 Aligned_cols=29 Identities=34% Similarity=0.597 Sum_probs=19.6
Q ss_pred eccCCCCCcc----eeEEEeCCCCCCHHHHHHHHH
Q 047709 4 VLPSLNGKLT----GMAFRLPPKKATYDDIKAAHK 34 (93)
Q Consensus 4 vlPeL~Gkl~----g~a~RVPtk~~~~~~in~~~k 34 (93)
.|-++|||-+ ||+||||- .+.+++++-|.
T Consensus 91 flDHiNgKkHqrnlgmsm~ver--st~~qv~erf~ 123 (193)
T KOG4727|consen 91 FLDHINGKKHQRNLGMSMRVER--STLDQVKERFE 123 (193)
T ss_pred HHHHhccHHHHHHHhhhhcchh--hhHHHHHHHHH
Confidence 4678999943 89999994 34455555443
No 41
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=44.40 E-value=14 Score=30.29 Aligned_cols=29 Identities=28% Similarity=0.526 Sum_probs=23.7
Q ss_pred eccCCCCCcceeEEEeCCCCCCHHHHHHHHHH
Q 047709 4 VLPSLNGKLTGMAFRLPPKKATYDDIKAAHKE 35 (93)
Q Consensus 4 vlPeL~Gkl~g~a~RVPtk~~~~~~in~~~k~ 35 (93)
.||||-|+|. +||+.++.+.+++..++.+
T Consensus 316 lIPEl~GR~P---i~v~L~~L~~edL~rILte 344 (441)
T TIGR00390 316 LIPELQGRFP---IRVELQALTTDDFERILTE 344 (441)
T ss_pred ccHHHhCccc---eEEECCCCCHHHHHHHhcC
Confidence 5899999974 8888888888888777744
No 42
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=42.98 E-value=55 Score=20.78 Aligned_cols=36 Identities=8% Similarity=0.143 Sum_probs=22.6
Q ss_pred eEEEeCCCCCCHHHHHHHHHHhhcC-ccccccceeccc
Q 047709 15 MAFRLPPKKATYDDIKAAHKEASQG-EMKGIFGYIEDD 51 (93)
Q Consensus 15 ~a~RVPtk~~~~~~in~~~k~aa~~-~lkgil~~t~~~ 51 (93)
.|+||| ...++.++.+.+++=-+= +-...|.|.+++
T Consensus 13 IaIrvp-~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~ 49 (80)
T cd06406 13 VAIQVA-RGLSYATLLQKISSKLELPAEHITLSYKSEA 49 (80)
T ss_pred EEEEcC-CCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence 699999 667888888877543221 112456676543
No 43
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=42.77 E-value=15 Score=30.14 Aligned_cols=29 Identities=24% Similarity=0.449 Sum_probs=23.1
Q ss_pred eccCCCCCcceeEEEeCCCCCCHHHHHHHHHH
Q 047709 4 VLPSLNGKLTGMAFRLPPKKATYDDIKAAHKE 35 (93)
Q Consensus 4 vlPeL~Gkl~g~a~RVPtk~~~~~~in~~~k~ 35 (93)
.||||-|+|. +||+.++.+.+++..++.+
T Consensus 318 lIPEl~GR~P---i~v~L~~L~~~dL~~ILte 346 (443)
T PRK05201 318 LIPELQGRFP---IRVELDALTEEDFVRILTE 346 (443)
T ss_pred ccHHHhCccc---eEEECCCCCHHHHHHHhcC
Confidence 5899999975 8888888888888766643
No 44
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=42.34 E-value=41 Score=21.24 Aligned_cols=30 Identities=23% Similarity=0.331 Sum_probs=21.9
Q ss_pred EEEeCCCCCCHHHHHHHH-HHhhcCccccccc
Q 047709 16 AFRLPPKKATYDDIKAAH-KEASQGEMKGIFG 46 (93)
Q Consensus 16 a~RVPtk~~~~~~in~~~-k~aa~~~lkgil~ 46 (93)
-++|| +.+|.++|+.-+ ++|...||--.|+
T Consensus 3 ~l~v~-~~aTl~~IK~~lw~~A~~~Pl~~~L~ 33 (78)
T smart00143 3 TLRVL-REATLSTIKHELFKQARKMPLGQLLQ 33 (78)
T ss_pred eEEcc-ccccHHHHHHHHHHHHHhCCHHHHhC
Confidence 36777 788999998765 7777777655454
No 45
>COG3703 ChaC Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]
Probab=40.96 E-value=33 Score=25.22 Aligned_cols=24 Identities=29% Similarity=0.610 Sum_probs=16.5
Q ss_pred CCcceeEEEeCCCCCCHHHHHHHHHH
Q 047709 10 GKLTGMAFRLPPKKATYDDIKAAHKE 35 (93)
Q Consensus 10 Gkl~g~a~RVPtk~~~~~~in~~~k~ 35 (93)
|.-.|++||||- ...+++.+.+.+
T Consensus 67 Gsc~GvafRip~--~~~~~v~~yL~~ 90 (190)
T COG3703 67 GSCEGVAYRIPE--AHAEEVLEYLRE 90 (190)
T ss_pred CcEEEEEEEcCc--hhhHHHHHHHHH
Confidence 557799999994 345666666643
No 46
>PF00658 PABP: Poly-adenylate binding protein, unique domain; InterPro: IPR002004 The polyadenylate-binding protein (PABP) has a conserved C-terminal domain (PABC), which is also found in the hyperplastic discs protein (HYD) family of ubiquitin ligases that contain HECT domains (IPR000569 from INTERPRO) []. PABP recognises the 3' mRNA poly(A) tail and plays an essential role in eukaryotic translation initiation and mRNA stabilisation/degradation. PABC domains of PABP are peptide-binding domains that mediate PABP homo-oligomerisation and protein-protein interactions. In mammals, the PABC domain of PABP functions to recruit several different translation factors to the mRNA poly(A) tail [].; GO: 0003723 RNA binding; PDB: 3KUR_E 1JH4_A 2RQH_B 3KUI_A 3KUS_A 3KUJ_A 3KTR_A 2X04_A 3PTH_A 1JGN_A ....
Probab=39.53 E-value=1.5 Score=27.26 Aligned_cols=26 Identities=27% Similarity=0.570 Sum_probs=17.0
Q ss_pred eccCCCCCcceeEEEeCCCCCCHHHHHHHHH
Q 047709 4 VLPSLNGKLTGMAFRLPPKKATYDDIKAAHK 34 (93)
Q Consensus 4 vlPeL~Gkl~g~a~RVPtk~~~~~~in~~~k 34 (93)
.-|+++||+|||=.=. ..+++...+.
T Consensus 31 ~~p~~A~KITGMLLe~-----~~~ell~ll~ 56 (72)
T PF00658_consen 31 IYPELAGKITGMLLEM-----DNSELLHLLE 56 (72)
T ss_dssp HTHHHHHHHHHHHTTS-----CHHHHHHHHH
T ss_pred hCcchhHHHHHHHhcC-----CHHHHHHHhC
Confidence 3478899999997633 3455554443
No 47
>PRK08040 putative semialdehyde dehydrogenase; Provisional
Probab=37.28 E-value=29 Score=27.14 Aligned_cols=24 Identities=8% Similarity=0.212 Sum_probs=21.0
Q ss_pred cceeEEEeCC-------------CCCCHHHHHHHHHH
Q 047709 12 LTGMAFRLPP-------------KKATYDDIKAAHKE 35 (93)
Q Consensus 12 l~g~a~RVPt-------------k~~~~~~in~~~k~ 35 (93)
++-..+|||+ ++++.+++.+++++
T Consensus 230 vs~t~~~vPv~rG~~~tv~v~~~~~v~~~~i~~~l~~ 266 (336)
T PRK08040 230 ISVSCVQSPVFYGHAQMVHFEALRPLAAEEARDALEQ 266 (336)
T ss_pred EEEEeEEecchhcEEEEEEEEECCCCCHHHHHHHHhc
Confidence 6677899999 67899999999987
No 48
>PF10726 DUF2518: Protein of function (DUF2518); InterPro: IPR019664 This entry contains the Ycf51 protein family, which is conserved in Cyanobacteria. The function is not known.
Probab=34.50 E-value=41 Score=23.73 Aligned_cols=18 Identities=17% Similarity=0.243 Sum_probs=15.6
Q ss_pred CCCCHHHHHHHHHHhhcC
Q 047709 22 KKATYDDIKAAHKEASQG 39 (93)
Q Consensus 22 k~~~~~~in~~~k~aa~~ 39 (93)
...+-+++...++|||.+
T Consensus 89 ~~i~~~~leaTL~QaA~n 106 (145)
T PF10726_consen 89 PDITPEALEATLEQAASN 106 (145)
T ss_pred CCCCHHHHHHHHHHHHHh
Confidence 668899999999999863
No 49
>KOG3422 consensus Mitochondrial ribosomal protein L16 [Translation, ribosomal structure and biogenesis]
Probab=33.82 E-value=70 Score=24.06 Aligned_cols=30 Identities=13% Similarity=0.224 Sum_probs=25.4
Q ss_pred CCCcceeEEEeCC--------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP--------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt--------k~~~~~~in~~~k~aa~ 38 (93)
+|-++...-|||+ -.++.++..+++++||.
T Consensus 128 KGa~d~wva~V~~GrIl~EmgG~~~~~~Ar~al~~aa~ 165 (221)
T KOG3422|consen 128 KGAIDHWVARVKAGRILFEMGGDVEEEEARQALLQAAH 165 (221)
T ss_pred CCCcceeEEEecCCcEEEEeCCcccHHHHHHHHHHHHh
Confidence 4558999999999 33889999999999986
No 50
>PLN02968 Probable N-acetyl-gamma-glutamyl-phosphate reductase
Probab=31.56 E-value=72 Score=25.31 Aligned_cols=27 Identities=19% Similarity=0.150 Sum_probs=22.5
Q ss_pred cceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 12 LTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 12 l~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
++-..+|||+ ++++.+++.++++++..
T Consensus 264 v~ft~~~vPv~rG~~~tv~v~~~~~~~~~~v~~~~~~~y~ 303 (381)
T PLN02968 264 PSFTPHLMPMSRGMQSTVYVHYAPGVTAEDLHQHLKERYE 303 (381)
T ss_pred EEEEeEEeeccccEEEEEEEEeCCCCCHHHHHHHHHHhCC
Confidence 6677889999 67899999999999643
No 51
>COG1586 SpeD S-adenosylmethionine decarboxylase [Amino acid transport and metabolism]
Probab=31.50 E-value=1.5e+02 Score=20.65 Aligned_cols=57 Identities=11% Similarity=0.169 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEeCCCceeecCCeEEEEEEcCCCCccC
Q 047709 23 KATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFDAKAGISLSDNFEKLVSWYDSDAAFE 92 (93)
Q Consensus 23 ~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d~~~t~~~~~~~vkl~~WyDNE~gys 92 (93)
--+.+.|.+++++|++- .+-+--...+-+|.+---|.++ .+-..++-+=.|. |+||+
T Consensus 30 l~d~e~l~~i~~eAa~~-----~gati~~~~~~~f~p~GvSgvv------liaESHitiHTwP--Eyg~A 86 (136)
T COG1586 30 LYDAERLEEILLEAAKI-----AGATILNIAFHKFSPQGVSGVV------LIAESHITIHTWP--EYGYA 86 (136)
T ss_pred hccHHHHHHHHHHHHHH-----hCCEEEEEEeEEecCCCeEEEE------EEEeeeeeEecCC--ccCce
Confidence 35677899999998862 3444444455566544344442 1223467788897 88887
No 52
>cd01755 PLAT_lipase PLAT/ LH2 domain present in connection with a lipase domain. This family contains two major subgroups, the lipoprotein lipase (LPL) and the pancreatic triglyceride lipase. LPL is a key enzyme in catabolism of plasma lipoprotein triglycerides (TGs). The central role of triglyceride lipases is in energy production. In general, PLAT/LH2 domain's proposed function is to mediate interaction with lipids or membrane bound proteins.
Probab=30.71 E-value=71 Score=21.02 Aligned_cols=29 Identities=10% Similarity=0.220 Sum_probs=21.9
Q ss_pred CCCCcceEEeCCCceeecCCeEEEEEEcCCCC
Q 047709 58 VGDNRSSIFDAKAGISLSDNFEKLVSWYDSDA 89 (93)
Q Consensus 58 ~g~~~s~i~d~~~t~~~~~~~vkl~~WyDNE~ 89 (93)
-|..++.++++... + |.+.+|--|+||..
T Consensus 44 ~g~~~sfli~t~~~--l-G~l~~v~~~~dn~~ 72 (120)
T cd01755 44 PNKTYSFLIDTEVD--I-GDLLKVKFKWENNV 72 (120)
T ss_pred CCCEEEEEEEcCCC--c-cceEEEEEEEcCCC
Confidence 45668888887664 2 67889999999974
No 53
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=29.33 E-value=49 Score=25.48 Aligned_cols=42 Identities=21% Similarity=0.424 Sum_probs=28.7
Q ss_pred CCCCcceeEE---EeCC-CCCCHHHHHHHHHHhhcCccccccceecc
Q 047709 8 LNGKLTGMAF---RLPP-KKATYDDIKAAHKEASQGEMKGIFGYIED 50 (93)
Q Consensus 8 L~Gkl~g~a~---RVPt-k~~~~~~in~~~k~aa~~~lkgil~~t~~ 50 (93)
++|+|+|..+ +.|. ..-.++++.+.+++| .+...+.+..++.
T Consensus 77 v~g~L~g~~V~vV~~p~a~~~~~~~v~~~L~~A-GA~v~g~i~lt~~ 122 (308)
T PF11382_consen 77 VAGRLTGRSVAVVTLPGADDEDVDAVRELLEQA-GATVTGRITLTDK 122 (308)
T ss_pred hcCccCCCEEEEEEcCCCChHHHHHHHHHHHHC-CCeEEEEEEEchh
Confidence 6789999874 4454 556677788887765 4566677776643
No 54
>COG1329 Transcriptional regulators, similar to M. xanthus CarD [Transcription]
Probab=27.57 E-value=63 Score=23.30 Aligned_cols=36 Identities=14% Similarity=0.165 Sum_probs=21.7
Q ss_pred cceeEEEeCC---------CCCCHHHHHHHHHHhhcCccccccce
Q 047709 12 LTGMAFRLPP---------KKATYDDIKAAHKEASQGEMKGIFGY 47 (93)
Q Consensus 12 l~g~a~RVPt---------k~~~~~~in~~~k~aa~~~lkgil~~ 47 (93)
.++|-++||| +-+..+++.++++.-.+++..+-+.+
T Consensus 43 ~~dm~v~VP~~ka~~~GiR~v~~~~~l~~~~~vlq~~~~e~~~~w 87 (166)
T COG1329 43 QSDMTVMVPVAKADSVGLRPVVDQEELDRALQVLQGGEREKPTMW 87 (166)
T ss_pred CCCcEEEeeccchhhcCChhhhhhHHHHHHHHHHhccCccccccH
Confidence 4679999999 33556667766654444443333333
No 55
>PRK00436 argC N-acetyl-gamma-glutamyl-phosphate reductase; Validated
Probab=27.56 E-value=89 Score=24.15 Aligned_cols=27 Identities=22% Similarity=0.253 Sum_probs=22.9
Q ss_pred CcceeEEEeCC-------------CCCCHHHHHHHHHHhh
Q 047709 11 KLTGMAFRLPP-------------KKATYDDIKAAHKEAS 37 (93)
Q Consensus 11 kl~g~a~RVPt-------------k~~~~~~in~~~k~aa 37 (93)
+++-...|||+ ++++.+++.++++++=
T Consensus 225 ~v~~t~~~vPv~~G~~~tv~v~~~~~~~~~~~~~~~~~~y 264 (343)
T PRK00436 225 EVSFTPHLVPMTRGILATIYARLKDPVTAEDVRAAYEEFY 264 (343)
T ss_pred CEEEEeEEecccCcEEEEEEEEeCCCCCHHHHHHHHHHHh
Confidence 67788899999 7799999999998643
No 56
>KOG4354 consensus N-acetyl-gamma-glutamyl-phosphate reductase [Amino acid transport and metabolism]
Probab=27.08 E-value=1.9e+02 Score=22.82 Aligned_cols=57 Identities=16% Similarity=0.307 Sum_probs=38.5
Q ss_pred eccCCCCCcceeE--EEeCC-CCCCHHHHHHHHHHhhcCc-cccccceeccceEeecCCCCCcc
Q 047709 4 VLPSLNGKLTGMA--FRLPP-KKATYDDIKAAHKEASQGE-MKGIFGYIEDDVVSTDFVGDNRS 63 (93)
Q Consensus 4 vlPeL~Gkl~g~a--~RVPt-k~~~~~~in~~~k~aa~~~-lkgil~~t~~~~VS~Df~g~~~s 63 (93)
++|++..-|.||. +-||. |.++.||+.+.+|.--+++ |-.+++ |-|+| -|..|..+.
T Consensus 226 F~PHv~qwfqGi~lTi~vpmkksv~~~elr~lyk~~YedE~lvhV~d--dvPlv-kdv~gsh~v 286 (340)
T KOG4354|consen 226 FTPHVMQWFQGIQLTIYVPMKKSVRTEELRQLYKTSYEDEELVHVLD--DVPLV-KDVRGSHYV 286 (340)
T ss_pred echhHHHHhhhceEEEEEeecCcccHHHHHHHHHhhccCcceeeeec--cccce-eccCCccee
Confidence 5788888888886 56677 7899999999998765543 333322 23555 566665543
No 57
>smart00833 CobW_C Cobalamin synthesis protein cobW C-terminal domain. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis PUBMED:12869542. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression PUBMED:7765511.
Probab=26.97 E-value=1.5e+02 Score=17.65 Aligned_cols=48 Identities=19% Similarity=0.187 Sum_probs=32.9
Q ss_pred eeEEEeCCCCCCHHHHHHHHHHhhcC--ccccccceeccc--eEeecCCCCCc
Q 047709 14 GMAFRLPPKKATYDDIKAAHKEASQG--EMKGIFGYIEDD--VVSTDFVGDNR 62 (93)
Q Consensus 14 g~a~RVPtk~~~~~~in~~~k~aa~~--~lkgil~~t~~~--~VS~Df~g~~~ 62 (93)
..+++.+ .+.+.+.+.+.+++-..+ .+||++...+++ .+..+++++.+
T Consensus 3 s~~~~~~-~~~~~~~l~~~l~~l~~~i~R~KG~v~~~~~~~~~~~~q~v~~~~ 54 (92)
T smart00833 3 SFVYRAR-RPFHPQRLLAALDELPEGVLRAKGFFWLASRPDLPGVLSGAGGRL 54 (92)
T ss_pred EEEEecC-CCCCHHHHHHHHHhccCCeEEEEEEEEeCCCCCeEEEEEccCCee
Confidence 3445544 778899999988766533 379999987764 45566676543
No 58
>PF05534 HicB: HicB family; InterPro: IPR008651 This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches [].
Probab=26.80 E-value=87 Score=17.82 Aligned_cols=22 Identities=32% Similarity=0.626 Sum_probs=15.0
Q ss_pred CCCCcceeEEEeCCCCCCHHHHHHHHHHhhc
Q 047709 8 LNGKLTGMAFRLPPKKATYDDIKAAHKEASQ 38 (93)
Q Consensus 8 L~Gkl~g~a~RVPtk~~~~~~in~~~k~aa~ 38 (93)
.+|+| .+|+| .++.+.++.+|+
T Consensus 16 ~sg~~---~lRi~------~~Lh~~l~~~A~ 37 (51)
T PF05534_consen 16 YSGKF---NLRIP------PELHRALAEAAA 37 (51)
T ss_pred CCCce---eeeCC------HHHHHHHHHHHH
Confidence 45665 59999 577777766654
No 59
>TIGR00115 tig trigger factor. Trigger factor is a ribosome-associated molecular chaperone and is the first chaperone to interact with nascent polypeptide. Trigger factor can bind at the same time as the signal recognition particle (SRP), but is excluded by the SRP receptor (FtsY). The central domain of trigger factor has peptidyl-prolyl cis/trans isomerase activity. This protein is found in a single copy in virtually every bacterial genome.
Probab=26.75 E-value=1.6e+02 Score=23.05 Aligned_cols=57 Identities=19% Similarity=0.289 Sum_probs=36.9
Q ss_pred eccCCCC-CcceeEEEeCCCCCCHHHHHHHHHHhhc--Cccccccc--eeccceEeecCCCC
Q 047709 4 VLPSLNG-KLTGMAFRLPPKKATYDDIKAAHKEASQ--GEMKGIFG--YIEDDVVSTDFVGD 60 (93)
Q Consensus 4 vlPeL~G-kl~g~a~RVPtk~~~~~~in~~~k~aa~--~~lkgil~--~t~~~~VS~Df~g~ 60 (93)
+.|++.= ...|..+.+|...+|-++|++.++.-.+ +.+..+=+ ..+...|..||.+.
T Consensus 99 v~Pev~l~~y~~i~v~~~~~~vtde~vd~~i~~l~~~~a~~~~~~~~~~~~gD~V~v~~~~~ 160 (408)
T TIGR00115 99 VYPEVELGDYKGIEVEKPEVEVTDEDVDEELEKLREQNATLVPVERRAAEKGDRVTIDFEGF 160 (408)
T ss_pred ecCceecCCCCceEEEeccCCCCHHHHHHHHHHHHHhCCccccccccccCCCCEEEEEEEEE
Confidence 4576543 3667888888777888899988876442 34433322 34567788887653
No 60
>PLN02383 aspartate semialdehyde dehydrogenase
Probab=26.26 E-value=75 Score=24.82 Aligned_cols=24 Identities=17% Similarity=0.216 Sum_probs=21.4
Q ss_pred cceeEEEeCC-------------CCCCHHHHHHHHHH
Q 047709 12 LTGMAFRLPP-------------KKATYDDIKAAHKE 35 (93)
Q Consensus 12 l~g~a~RVPt-------------k~~~~~~in~~~k~ 35 (93)
++...+|||+ ++++.+++.+++++
T Consensus 239 v~~t~~~vPv~rG~~~sv~v~~~~~v~~~~~~~~l~~ 275 (344)
T PLN02383 239 VTATCIRVPVMRAHAESINLQFEKPLDEATAREILAS 275 (344)
T ss_pred EEEEeEecCccccEEEEEEEEECCCCCHHHHHHHHhc
Confidence 7788999999 67899999999987
No 61
>cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements. This family includes aspartate proteases from retroelements with LTR (long terminal repeats) including the RTVL_H family of human endogenous retrovirus-like elements. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where
Probab=25.94 E-value=48 Score=20.19 Aligned_cols=21 Identities=24% Similarity=0.121 Sum_probs=16.1
Q ss_pred EeecCCCCCcceEEeCCCcee
Q 047709 53 VSTDFVGDNRSSIFDAKAGIS 73 (93)
Q Consensus 53 VS~Df~g~~~s~i~d~~~t~~ 73 (93)
|...+||.|..+++|++++.+
T Consensus 1 ~~v~InG~~~~fLvDTGA~~t 21 (86)
T cd06095 1 VTITVEGVPIVFLVDTGATHS 21 (86)
T ss_pred CEEEECCEEEEEEEECCCCeE
Confidence 345678888889999887754
No 62
>cd01758 PLAT_LPL PLAT/ LH2 domain present in lipoprotein lipase (LPL). LPL is a key enzyme in catabolism of plasma lipoprotein triglycerides (TGs) and has therefeore has a profound influence on triglyceride and high-density lipoprotein (HDL) cholesterol levels in the blood. In general, PLAT/LH2 domain's proposed function is to mediate interaction with lipids or membrane bound proteins.
Probab=24.86 E-value=1.2e+02 Score=20.78 Aligned_cols=28 Identities=14% Similarity=0.246 Sum_probs=20.6
Q ss_pred CCCCcceEEeCCCceeecCCeEEEEE-EcCCC
Q 047709 58 VGDNRSSIFDAKAGISLSDNFEKLVS-WYDSD 88 (93)
Q Consensus 58 ~g~~~s~i~d~~~t~~~~~~~vkl~~-WyDNE 88 (93)
-|..++.++++... + |.+.+|-- |.||-
T Consensus 46 ~G~t~sfLi~t~~d--l-G~L~~vk~~W~~n~ 74 (137)
T cd01758 46 GNKTNSFLITTEKD--I-GDLLMLKLKWEGSS 74 (137)
T ss_pred CCCeEEEEEECCCC--c-CCEEEEEEEEeCCC
Confidence 47889999987664 2 66777766 88875
No 63
>PF12212 PAZ_siRNAbind: Piwi/Argonaute/Zwille siRNA-binding domain; InterPro: IPR021103 This entry represents a siRNA binding repeat found in bacterial and archaeal proteins, which is approximately 50 amino acids in length. There is a conserved LKDIL sequence motif and a single completely conserved residue L that may be functionally important []. ; PDB: 1Z26_A 1Z25_A 1U04_A 3DA5_B.
Probab=24.68 E-value=59 Score=18.75 Aligned_cols=23 Identities=22% Similarity=0.200 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhhcC-cccccccee
Q 047709 26 YDDIKAAHKEASQG-EMKGIFGYI 48 (93)
Q Consensus 26 ~~~in~~~k~aa~~-~lkgil~~t 48 (93)
-..|++.++.|.|+ =||+||.-+
T Consensus 9 ~kaie~iL~~akEN~iLKDIL~~~ 32 (47)
T PF12212_consen 9 SKAIEEILKVAKENGILKDILNAT 32 (47)
T ss_dssp HHHHHHHHHHTTTTEEEEETTSTT
T ss_pred hHHHHHHHHHHHhhcHHHHHhccc
Confidence 35688888888774 478888643
No 64
>COG2037 Ftr Formylmethanofuran:tetrahydromethanopterin formyltransferase [Energy production and conversion]
Probab=24.67 E-value=78 Score=24.60 Aligned_cols=43 Identities=16% Similarity=0.276 Sum_probs=29.7
Q ss_pred eeccCCCCCcceeEEEeCC----------CCCCHHHHHHHHHHhhc--Cccccccce
Q 047709 3 KVLPSLNGKLTGMAFRLPP----------KKATYDDIKAAHKEASQ--GEMKGIFGY 47 (93)
Q Consensus 3 ~vlPeL~Gkl~g~a~RVPt----------k~~~~~~in~~~k~aa~--~~lkgil~~ 47 (93)
+.-|.|++++.+ -+||- .-++.|.|+++++.+-+ ....|++..
T Consensus 223 ~~CPtlkd~ved--s~vPegV~~iyEIVInGl~~eavkeAm~~gIeAa~~v~GVvkI 277 (297)
T COG2037 223 KYCPTLKDVVED--SEVPEGVKAIYEIVINGLDEEAVKEAMRVGIEAACRVPGVVKI 277 (297)
T ss_pred CcCcchhhcccc--ccCCcccCceeEEEecCcCHHHHHHHHHHHHHhhhccCCeEEE
Confidence 345889999877 57787 66788889999886533 234555553
No 65
>PF15221 LEP503: Lens epithelial cell protein LEP503
Probab=24.40 E-value=75 Score=19.11 Aligned_cols=34 Identities=26% Similarity=0.484 Sum_probs=22.6
Q ss_pred eccC-CCCCcceeEEEeCC-C-CCCHHHHHHHHHHhh
Q 047709 4 VLPS-LNGKLTGMAFRLPP-K-KATYDDIKAAHKEAS 37 (93)
Q Consensus 4 vlPe-L~Gkl~g~a~RVPt-k-~~~~~~in~~~k~aa 37 (93)
.||- +.|-+.+..+|||+ | -+-.|-+.+.+|+-+
T Consensus 11 alPfs~~~~l~dtglrvpv~KmGtgweG~~~tLKe~a 47 (61)
T PF15221_consen 11 ALPFSLGRALRDTGLRVPVIKMGTGWEGLQQTLKEVA 47 (61)
T ss_pred hCCccccccccccccCCceeeecchHHHHHHHHHHHH
Confidence 4453 56668888999999 3 245666666666543
No 66
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=23.80 E-value=66 Score=19.50 Aligned_cols=19 Identities=21% Similarity=0.279 Sum_probs=16.8
Q ss_pred EeCCCCCCHHHHHHHHHHh
Q 047709 18 RLPPKKATYDDIKAAHKEA 36 (93)
Q Consensus 18 RVPtk~~~~~~in~~~k~a 36 (93)
.||+..+++++++..||..
T Consensus 6 ~vp~~~~~v~d~K~~Lr~y 24 (66)
T PF11767_consen 6 FVPVHGVTVEDFKKRLRKY 24 (66)
T ss_pred cCCCCCccHHHHHHHHhcC
Confidence 5899999999999999875
No 67
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=23.52 E-value=1.6e+02 Score=20.79 Aligned_cols=30 Identities=27% Similarity=0.345 Sum_probs=23.6
Q ss_pred CCCcceeEEEeCC-------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP-------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt-------k~~~~~~in~~~k~aa~ 38 (93)
+|+..|.+-||+. .-.+-+...++|+.|+.
T Consensus 90 kG~pegwaArVkpG~vlfei~g~~e~~A~EAlr~Aa~ 126 (146)
T COG0197 90 KGKPEGWAARVKPGRVLFEIAGVPEELAREALRRAAA 126 (146)
T ss_pred CCCccEEEEEecCCcEEEEEecCcHHHHHHHHHHHhh
Confidence 3889999999998 44555668889988874
No 68
>PF13331 DUF4093: Domain of unknown function (DUF4093)
Probab=23.08 E-value=58 Score=20.70 Aligned_cols=42 Identities=17% Similarity=0.213 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHhhcCcccccc-ceeccceEeecCCCCCcce
Q 047709 23 KATYDDIKAAHKEASQGEMKGIF-GYIEDDVVSTDFVGDNRSS 64 (93)
Q Consensus 23 ~~~~~~in~~~k~aa~~~lkgil-~~t~~~~VS~Df~g~~~s~ 64 (93)
.++.++|.++++.+........- .+|-+.+....++|.+.|.
T Consensus 6 ~A~~e~I~~AL~~~~~~~~~~~~~~it~~dL~~~GL~g~~~s~ 48 (87)
T PF13331_consen 6 HASPEAIREALENARTEDEEPKESEITWEDLIELGLIGGPDSK 48 (87)
T ss_pred CCCHHHHHHHHHHhCccccCCccCcCCHHHHHHCCCCCCccHH
Confidence 46889999999987643322222 3667777777778776554
No 69
>cd02698 Peptidase_C1A_CathepsinX Cathepsin X; the only papain-like lysosomal cysteine peptidase exhibiting carboxymonopeptidase activity. It can also act as a carboxydipeptidase, like cathepsin B, but has been shown to preferentially cleave substrates through a monopeptidyl carboxypeptidase pathway. The propeptide region of cathepsin X, the shortest among papain-like peptidases, is covalently attached to the active site cysteine in the inactive form of the enzyme. Little is known about the biological function of cathepsin X. Some studies point to a role in early tumorigenesis. A more recent study indicates that cathepsin X expression is restricted to immune cells suggesting a role in phagocytosis and the regulation of the immune response.
Probab=22.85 E-value=1.3e+02 Score=21.80 Aligned_cols=28 Identities=7% Similarity=0.287 Sum_probs=18.6
Q ss_pred cCCCCCcceEEeCCCceeecCCeEEEEEE
Q 047709 56 DFVGDNRSSIFDAKAGISLSDNFEKLVSW 84 (93)
Q Consensus 56 Df~g~~~s~i~d~~~t~~~~~~~vkl~~W 84 (93)
+|. ...+.|++........+|.|.|+.|
T Consensus 160 ~f~-~Y~~GIy~~~~~~~~~~HaV~IVGy 187 (239)
T cd02698 160 ALE-NYTGGVYKEYVQDPLINHIISVAGW 187 (239)
T ss_pred ccc-ccCCeEEccCCCCCcCCeEEEEEEE
Confidence 455 3457898865433334688999998
No 70
>TIGR01850 argC N-acetyl-gamma-glutamyl-phosphate reductase, common form. This model represents the more common of two related families of N-acetyl-gamma-glutamyl-phosphate reductase, an enzyme catalyzing the third step or Arg biosynthesis from Glu. The two families differ by phylogeny, similarity clustering, and the gap architecture in a multiple sequence alignment. Bacterial members of this family tend to be found within Arg biosynthesis operons.
Probab=22.66 E-value=1.4e+02 Score=23.14 Aligned_cols=27 Identities=22% Similarity=0.204 Sum_probs=22.0
Q ss_pred cceeEEEeCC-------------CCCCHHHHHHHHHHhhc
Q 047709 12 LTGMAFRLPP-------------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 12 l~g~a~RVPt-------------k~~~~~~in~~~k~aa~ 38 (93)
++-...|||+ ++++.+++.++++++-+
T Consensus 229 v~ft~~~vPv~rG~~~tv~v~~~~~~~~~~~~~~~~~~y~ 268 (346)
T TIGR01850 229 VSFTPHLVPMTRGILATIYAKLKDGLTEEDLRAAYEEFYA 268 (346)
T ss_pred EEEEeEEeeccccEEEEEEEecCCCCCHHHHHHHHHHHhC
Confidence 6667889998 67899999999986543
No 71
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=22.51 E-value=1.3e+02 Score=18.90 Aligned_cols=22 Identities=27% Similarity=0.359 Sum_probs=18.0
Q ss_pred eEEEeCCCCCCHHHHHHHHHHhh
Q 047709 15 MAFRLPPKKATYDDIKAAHKEAS 37 (93)
Q Consensus 15 ~a~RVPtk~~~~~~in~~~k~aa 37 (93)
.+|+|| ..++.-||++++++.-
T Consensus 23 ~tF~V~-~~atK~~Ik~aie~iy 44 (91)
T PF00276_consen 23 YTFEVD-PRATKTEIKEAIEKIY 44 (91)
T ss_dssp EEEEET-TTSTHHHHHHHHHHHH
T ss_pred EEEEEe-CCCCHHHHHHHHHhhc
Confidence 579999 6678899999998753
No 72
>COG4502 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]
Probab=22.38 E-value=45 Score=24.02 Aligned_cols=29 Identities=28% Similarity=0.785 Sum_probs=20.3
Q ss_pred CCCCCcceEEeCCCceeecCCeEEEEEEcCCC
Q 047709 57 FVGDNRSSIFDAKAGISLSDNFEKLVSWYDSD 88 (93)
Q Consensus 57 f~g~~~s~i~d~~~t~~~~~~~vkl~~WyDNE 88 (93)
|.|++ -.||+..... .++|+++..|||-|
T Consensus 143 F~G~k--IlFdA~HN~n-enRF~Rv~~W~e~e 171 (180)
T COG4502 143 FKGNK--ILFDAHHNKN-ENRFVRVRDWYEAE 171 (180)
T ss_pred ccCce--EEEecccccC-ccceeeeccHHHHH
Confidence 45554 4677766543 46899999999865
No 73
>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]
Probab=22.34 E-value=3.6e+02 Score=20.58 Aligned_cols=74 Identities=14% Similarity=0.124 Sum_probs=41.4
Q ss_pred eeEEEeCC----------CCCCHHHHHHHHHHhhcCccccccceeccceEeecCCCCCcceEEeCCCceeecCCeEEEEE
Q 047709 14 GMAFRLPP----------KKATYDDIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSIFDAKAGISLSDNFEKLVS 83 (93)
Q Consensus 14 g~a~RVPt----------k~~~~~~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i~d~~~t~~~~~~~vkl~~ 83 (93)
..++|||+ .....-|||+..|. +|.=|-.-.+-..+.|-.-.+. ++.++. +++.-+++.++.+.
T Consensus 159 wqsy~V~~G~TLaQlFRdn~LpitDVnAMakv--eGagkpLSnlkaGq~Vki~~na---qG~Vt~-L~le~~n~~vlF~R 232 (242)
T COG3061 159 WQSYTVPQGKTLAQLFRDNNLPITDVNAMAKV--EGAGKPLSNLKAGQKVKISLNA---QGRVTE-LRLETGNNQVLFTR 232 (242)
T ss_pred ceeEEecCCccHHHHHhccCCChHHhHHHHhh--ccCCCchhhccCCCEEEEEEcC---ccceEE-EEeccCCceEEEEE
Confidence 45799998 55677789986553 3332333333344444433332 234442 22333445777777
Q ss_pred EcCCCCccCC
Q 047709 84 WYDSDAAFEK 93 (93)
Q Consensus 84 WyDNE~gys~ 93 (93)
=-|-.|+|++
T Consensus 233 Q~DGSy~r~k 242 (242)
T COG3061 233 QSDGSYIRKK 242 (242)
T ss_pred cCCCcccccC
Confidence 7888888764
No 74
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=22.32 E-value=40 Score=29.68 Aligned_cols=48 Identities=29% Similarity=0.400 Sum_probs=32.2
Q ss_pred HHHHHHHHhhcCccccccceeccceEeecCCCCCcceE---EeCCCceeecCC
Q 047709 28 DIKAAHKEASQGEMKGIFGYIEDDVVSTDFVGDNRSSI---FDAKAGISLSDN 77 (93)
Q Consensus 28 ~in~~~k~aa~~~lkgil~~t~~~~VS~Df~g~~~s~i---~d~~~t~~~~~~ 77 (93)
-|-+.+++| |....++-..|=.-.|+||.|||.|+. .|..+.....||
T Consensus 406 rIiQ~mkka--~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~Dh 456 (782)
T COG0466 406 KIIQGMKKA--GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDH 456 (782)
T ss_pred HHHHHHHHh--CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhc
Confidence 456667776 334456777776778999999999985 565554444333
No 75
>COG2442 Uncharacterized conserved protein [Function unknown]
Probab=22.25 E-value=66 Score=20.18 Aligned_cols=18 Identities=33% Similarity=0.401 Sum_probs=13.9
Q ss_pred CCCCHHHHHHHHHHhhcC
Q 047709 22 KKATYDDIKAAHKEASQG 39 (93)
Q Consensus 22 k~~~~~~in~~~k~aa~~ 39 (93)
...+.++|.++++-|...
T Consensus 54 p~Lt~~dI~aal~ya~~~ 71 (79)
T COG2442 54 PDLTLEDIRAALRYAADR 71 (79)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 558888888888877653
No 76
>PRK01490 tig trigger factor; Provisional
Probab=22.23 E-value=2.2e+02 Score=22.51 Aligned_cols=57 Identities=21% Similarity=0.332 Sum_probs=37.4
Q ss_pred eccCCCC-CcceeEEEeCCCCCCHHHHHHHHHHhhc--Ccccccc-ceeccceEeecCCCC
Q 047709 4 VLPSLNG-KLTGMAFRLPPKKATYDDIKAAHKEASQ--GEMKGIF-GYIEDDVVSTDFVGD 60 (93)
Q Consensus 4 vlPeL~G-kl~g~a~RVPtk~~~~~~in~~~k~aa~--~~lkgil-~~t~~~~VS~Df~g~ 60 (93)
|.|++.- .+.|..+.+|...+|-++|++.+.+-.+ +.+..+= ...+...|..||.|.
T Consensus 111 v~Pev~l~~y~~i~v~~~~~~vtde~vd~~i~~l~~~~a~~~~~~~~~~~gD~V~vd~~~~ 171 (435)
T PRK01490 111 VYPEVELGDYKGLEVEKPVVEVTDEDVDEELERLRKQFATLVPVERPAENGDRVTIDFVGS 171 (435)
T ss_pred ecCCcccCCCCceEEEeccCCCCHHHHHHHHHHHHHhCCccccccccCCCCCEEEEEEEEE
Confidence 5677654 4778888888878888999988876543 3343221 134456777777654
No 77
>cd01759 PLAT_PL PLAT/LH2 domain of pancreatic triglyceride lipase. Lipases hydrolyze phospholipids and triglycerides to generate fatty acids for energy production or for storage and to release inositol phosphates that act as second messengers. The central role of triglyceride lipases is in energy production. The proposed function of PLAT/LH2 domains is to mediate interaction with lipids or membrane bound proteins.
Probab=22.21 E-value=1.4e+02 Score=19.81 Aligned_cols=27 Identities=15% Similarity=0.379 Sum_probs=17.6
Q ss_pred CCCcceEEeCCCceeecCCeEEEEEEcCCC
Q 047709 59 GDNRSSIFDAKAGISLSDNFEKLVSWYDSD 88 (93)
Q Consensus 59 g~~~s~i~d~~~t~~~~~~~vkl~~WyDNE 88 (93)
|.+||.++|+.... |++.++--|++|.
T Consensus 43 g~tys~li~~d~dv---G~l~~Vkf~W~~~ 69 (113)
T cd01759 43 GNTYSAFIDVDVDV---GPLTKVKFIWNNN 69 (113)
T ss_pred CCEEEEEEEccCCC---CCEEEEEEEEeCC
Confidence 46799999977642 5666665444543
No 78
>PF02669 KdpC: K+-transporting ATPase, c chain; InterPro: IPR003820 Kdp, the high affinity ATP-driven K+-transport system of Escherichia coli, is a complex of the membrane-bound subunits KdpA, KdpB, KdpC and the small peptide KdpF. KdpC forms strong interactions with the KdpA subunit, serving to assemble and stabilise the Kdp complex []. It has been suggested that KdpC could be one of the connecting links between the energy providing subunit KdpB and the K+- transporting subunit KdpA []. The K+ transport system actively transports K+ ions via ATP hydrolysis.; GO: 0008556 potassium-transporting ATPase activity, 0006813 potassium ion transport, 0016020 membrane
Probab=21.04 E-value=1e+02 Score=22.48 Aligned_cols=25 Identities=20% Similarity=0.534 Sum_probs=22.2
Q ss_pred CCCCHHHHHHHHHHhhcCccccccc
Q 047709 22 KKATYDDIKAAHKEASQGEMKGIFG 46 (93)
Q Consensus 22 k~~~~~~in~~~k~aa~~~lkgil~ 46 (93)
+..+.++|++++++..++++-|++|
T Consensus 148 rgl~~~~v~~li~~~t~~~~lG~~G 172 (188)
T PF02669_consen 148 RGLSEEEVEALIDKHTEGPLLGFFG 172 (188)
T ss_pred hCcCHHHHHHHHHHHhcCCCcccCC
Confidence 6688999999999999999888777
No 79
>PRK05671 aspartate-semialdehyde dehydrogenase; Reviewed
Probab=20.88 E-value=1.6e+02 Score=22.90 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=20.9
Q ss_pred cceeEEEeCC-------------CCCCHHHHHHHHHH
Q 047709 12 LTGMAFRLPP-------------KKATYDDIKAAHKE 35 (93)
Q Consensus 12 l~g~a~RVPt-------------k~~~~~~in~~~k~ 35 (93)
++-..+|||+ ++++.+++.+++++
T Consensus 231 v~~t~~~vPv~rG~~~tv~v~~~~~~~~~~~~~~l~~ 267 (336)
T PRK05671 231 ISVTCIQVPVFFGDSLSVALQSAAPVDLAAVNAALEA 267 (336)
T ss_pred EEEEeEEechhhhEeeEEEEEECCCCCHHHHHHHHhC
Confidence 6778899999 77899999999984
No 80
>TIGR00681 kdpC K+-transporting ATPase, C subunit. This chain has a single predicted transmembrane region near the amino end. It is part of a K+-transport ATPase that contains two other membrane-bound subunits, KdpA and KdpB, and a small subunit KdpF. KdpA is the K+-translocating subunit, KdpB the ATP-hydrolyzing subunit. During assembly of the complex, KdpA and KdpC bind to each other. This interaction is thought to stabilize the complex [PubMed:9858692]. Data indicates that KdpC might connect the KdpA, the K+-transporting subunit, to KdpB, the ATP-hydrolyzing (energy providing) subunit [PubMed:9858692].
Probab=20.65 E-value=1e+02 Score=22.56 Aligned_cols=25 Identities=20% Similarity=0.525 Sum_probs=22.2
Q ss_pred CCCCHHHHHHHHHHhhcCccccccc
Q 047709 22 KKATYDDIKAAHKEASQGEMKGIFG 46 (93)
Q Consensus 22 k~~~~~~in~~~k~aa~~~lkgil~ 46 (93)
+-.+.++|++++++..++++-|++|
T Consensus 147 rgl~~~~v~~LI~~~t~~~~lG~~G 171 (187)
T TIGR00681 147 RNISPQQLQSLITKHTEGRFLGIFG 171 (187)
T ss_pred hCcCHHHHHHHHHHHhcCCCCCcCC
Confidence 6688999999999999999888877
No 81
>PTZ00173 60S ribosomal protein L10; Provisional
Probab=20.26 E-value=1.9e+02 Score=21.61 Aligned_cols=30 Identities=27% Similarity=0.197 Sum_probs=25.4
Q ss_pred CCCcceeEEEeCC---------CCCCHHHHHHHHHHhhc
Q 047709 9 NGKLTGMAFRLPP---------KKATYDDIKAAHKEASQ 38 (93)
Q Consensus 9 ~Gkl~g~a~RVPt---------k~~~~~~in~~~k~aa~ 38 (93)
.||..|.+.||-. ++.+.+...++|+.|+.
T Consensus 119 fGkp~g~vArVk~Gqiifei~~~~~~~~~AkeALrrA~~ 157 (213)
T PTZ00173 119 FGKPNGTCARVRIGQILLSIRTKEAYVPQAIEALRRAKY 157 (213)
T ss_pred CCCccEEEEEECcCCEEEEEecccCCHHHHHHHHHHhcc
Confidence 5788899999887 66899999999998874
Done!