Query 029818
Match_columns 187
No_of_seqs 20 out of 22
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 04:08:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029818.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029818hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08806 Sep15_SelM: Sep15/Sel 76.3 4.1 8.8E-05 29.9 3.6 42 35-79 28-78 (78)
2 PRK13488 chemoreceptor glutami 66.5 11 0.00023 30.9 4.3 51 63-114 106-156 (157)
3 PLN02824 hydrolase, alpha/beta 64.3 32 0.00069 27.8 6.6 53 35-89 13-67 (294)
4 PF03975 CheD: CheD chemotacti 62.0 9.2 0.0002 29.1 3.0 68 37-109 37-108 (114)
5 smart00596 PRE_C2HC PRE_C2HC d 61.1 8.7 0.00019 28.5 2.6 23 68-90 3-25 (69)
6 PRK13494 chemoreceptor glutami 59.8 11 0.00025 31.2 3.4 69 38-111 91-160 (163)
7 PF03066 Nucleoplasmin: Nucleo 59.4 8.8 0.00019 31.1 2.6 27 38-65 86-112 (149)
8 cd06577 PASTA_pknB PASTA domai 58.3 39 0.00085 20.5 5.0 51 59-114 5-58 (62)
9 PRK13490 chemoreceptor glutami 53.7 25 0.00054 28.9 4.4 45 64-109 112-156 (162)
10 PF03793 PASTA: PASTA domain; 52.5 63 0.0014 21.1 5.9 51 59-114 6-58 (63)
11 PRK13498 chemoreceptor glutami 50.9 22 0.00048 29.4 3.7 51 63-114 114-164 (167)
12 PF07458 SPAN-X: Sperm protein 50.1 21 0.00046 28.2 3.3 39 9-49 22-60 (97)
13 TIGR03544 DivI1A_domain DivIVA 49.3 6.6 0.00014 24.5 0.3 16 53-68 9-24 (34)
14 PRK13487 chemoreceptor glutami 48.3 26 0.00057 29.9 3.8 67 38-109 103-171 (201)
15 PRK13495 chemoreceptor glutami 47.3 28 0.00062 28.6 3.8 68 38-110 82-150 (159)
16 cd00174 SH3 Src homology 3 dom 46.7 30 0.00065 20.6 3.0 34 78-124 2-35 (54)
17 COG4970 FimT Tfp pilus assembl 45.0 18 0.00038 30.8 2.3 31 127-157 12-42 (181)
18 PRK13493 chemoreceptor glutami 43.4 34 0.00073 29.5 3.8 66 38-108 117-182 (213)
19 PRK13491 chemoreceptor glutami 41.5 57 0.0012 28.2 4.9 45 63-108 114-158 (199)
20 PRK13497 chemoreceptor glutami 40.9 35 0.00077 28.8 3.5 64 38-108 90-155 (184)
21 smart00326 SH3 Src homology 3 40.0 41 0.0009 20.1 2.9 34 78-124 5-38 (58)
22 PHA02662 ORF131 putative membr 39.6 15 0.00032 32.7 1.1 39 132-172 156-194 (226)
23 PF09469 Cobl: Cordon-bleu ubi 39.5 12 0.00026 28.5 0.5 25 63-87 22-46 (79)
24 PRK02983 lysS lysyl-tRNA synth 38.0 36 0.00078 35.5 3.7 51 64-120 236-291 (1094)
25 PRK02079 pyrroloquinoline quin 37.9 26 0.00056 26.2 2.0 29 86-115 6-34 (88)
26 cd06462 Peptidase_S24_S26 The 37.5 26 0.00057 23.0 1.9 21 100-120 6-27 (84)
27 PRK03592 haloalkane dehalogena 37.1 1.5E+02 0.0033 23.9 6.5 52 34-87 11-62 (295)
28 COG2815 Uncharacterized protei 37.0 91 0.002 28.1 5.6 96 15-116 124-221 (303)
29 PF07865 DUF1652: Protein of u 36.6 57 0.0012 23.9 3.6 40 67-106 2-42 (69)
30 KOG4714 Nucleoporin [Nuclear s 36.2 26 0.00055 32.5 2.1 27 92-118 227-254 (319)
31 PF10087 DUF2325: Uncharacteri 34.6 39 0.00084 24.4 2.5 25 59-83 5-29 (97)
32 PF11739 DctA-YdbH: Dicarboxyl 33.3 74 0.0016 26.1 4.2 57 65-123 65-126 (207)
33 cd03470 Rieske_cytochrome_bc1 33.0 1.3E+02 0.0028 23.5 5.3 79 41-121 14-103 (126)
34 PF11193 DUF2812: Protein of u 32.8 73 0.0016 23.4 3.7 85 43-138 28-114 (115)
35 PF08308 PEGA: PEGA domain; I 32.7 24 0.00051 23.7 1.0 17 109-127 11-27 (71)
36 COG1871 CheD Chemotaxis protei 32.4 57 0.0012 27.7 3.4 48 63-111 113-160 (164)
37 PF11298 DUF3099: Protein of u 31.5 37 0.00081 25.1 1.9 37 130-167 22-58 (73)
38 PF03911 Sec61_beta: Sec61beta 31.4 65 0.0014 21.2 2.9 30 114-143 8-37 (41)
39 cd01090 Creatinase Creatine am 31.0 78 0.0017 26.1 4.0 50 69-120 142-197 (228)
40 PF09299 Mu-transpos_C: Mu tra 30.8 37 0.0008 22.8 1.7 22 88-109 34-55 (62)
41 TIGR03859 PQQ_PqqD coenzyme PQ 30.4 46 0.001 23.9 2.3 31 86-117 1-31 (81)
42 PRK13489 chemoreceptor glutami 30.0 64 0.0014 28.5 3.5 67 38-109 101-169 (233)
43 cd03467 Rieske Rieske domain; 29.9 2E+02 0.0043 20.1 6.0 62 42-122 15-78 (98)
44 PF00120 Gln-synt_C: Glutamine 29.3 37 0.00079 28.6 1.8 80 69-154 120-202 (259)
45 PRK09469 glnA glutamine synthe 28.6 3E+02 0.0066 26.0 7.8 58 69-135 243-303 (469)
46 PF02814 UreE_N: UreE urease a 28.6 94 0.002 21.3 3.5 39 75-118 24-62 (65)
47 PF03054 tRNA_Me_trans: tRNA m 28.5 33 0.00072 31.4 1.5 54 58-118 167-226 (356)
48 KOG0458 Elongation factor 1 al 28.3 41 0.00089 33.6 2.2 38 52-89 320-364 (603)
49 COG4683 Uncharacterized protei 28.2 23 0.0005 28.9 0.4 11 78-88 68-78 (120)
50 PF12158 DUF3592: Protein of u 28.2 1E+02 0.0022 22.6 3.8 13 88-100 94-106 (148)
51 TIGR01708 typeII_sec_gspH gene 27.6 48 0.001 25.1 2.0 24 130-153 11-34 (143)
52 TIGR00653 GlnA glutamine synth 26.7 3.1E+02 0.0068 25.7 7.5 60 69-136 234-296 (460)
53 PF13132 DUF3950: Domain of un 26.6 26 0.00056 22.6 0.3 9 159-167 14-22 (30)
54 PF01522 Polysacc_deac_1: Poly 26.5 47 0.001 23.3 1.7 28 60-87 14-41 (123)
55 PF11768 DUF3312: Protein of u 25.6 55 0.0012 32.3 2.5 31 46-76 388-418 (545)
56 KOG4753 Predicted membrane pro 25.6 1.7E+02 0.0037 24.1 4.9 30 110-139 30-60 (124)
57 cd06311 PBP1_ABC_sugar_binding 25.5 78 0.0017 24.9 2.9 48 68-120 175-223 (274)
58 TIGR02884 spore_pdaA delta-lac 24.8 83 0.0018 26.0 3.1 32 48-82 126-157 (224)
59 PF00352 TBP: Transcription fa 23.5 67 0.0015 23.0 2.1 58 66-127 18-75 (86)
60 COG1459 PulF Type II secretory 23.0 61 0.0013 30.0 2.2 45 120-164 160-204 (397)
61 COG2165 PulG Type II secretory 22.6 1.1E+02 0.0024 21.7 3.0 26 130-155 15-40 (149)
62 PRK10506 hypothetical protein; 21.8 63 0.0014 25.7 1.8 28 129-156 15-42 (162)
63 PF04045 P34-Arc: Arp2/3 compl 21.7 31 0.00067 30.3 0.0 19 99-117 90-108 (241)
64 PF07075 DUF1343: Protein of u 21.5 1.2E+02 0.0025 28.2 3.7 47 60-106 8-63 (365)
65 PF13619 KTSC: KTSC domain 21.5 64 0.0014 21.9 1.6 32 92-123 7-38 (60)
66 COG2402 Predicted nucleic acid 21.5 28 0.00061 28.0 -0.2 44 44-87 72-123 (135)
67 TIGR02754 sod_Ni_protease nick 21.4 62 0.0013 22.6 1.5 17 100-116 4-21 (90)
68 TIGR01710 typeII_sec_gspG gene 21.1 86 0.0019 24.2 2.4 26 129-154 7-32 (134)
69 TIGR03105 gln_synth_III glutam 20.9 5.2E+02 0.011 24.1 7.7 61 69-136 209-274 (435)
70 PRK01253 preprotein translocas 20.6 65 0.0014 22.6 1.4 36 108-143 13-48 (54)
71 cd04861 LigD_Pol_like LigD_Pol 20.5 69 0.0015 28.1 1.9 27 66-95 120-147 (227)
72 cd02987 Phd_like_Phd Phosducin 20.3 1.3E+02 0.0029 24.2 3.4 39 36-77 135-175 (175)
No 1
>PF08806 Sep15_SelM: Sep15/SelM redox domain; InterPro: IPR014912 Sep15 and SelM are eukaryotic selenoproteins that have a thioredoxin-like domain and a surface accessible active site redox motif []. This suggests that they function as thiol-disulphide isomerases involved in disulphide bond formation in the endoplasmic reticulum []. ; PDB: 2A4H_A 2A2P_A.
Probab=76.33 E-value=4.1 Score=29.90 Aligned_cols=42 Identities=31% Similarity=0.616 Sum_probs=29.3
Q ss_pred ccCCeEEEEEEEecCCceeEee---------cCcCCcccchhhHHHHHHHhCce
Q 029818 35 TKVPEVEIHLYRRGEGPIAVFK---------SSLVGWDQDQLDVREILDKYGFK 79 (187)
Q Consensus 35 ~~~peVEV~LyrrGkGPvavFK---------s~LgG~eqDqLev~~Il~k~gLK 79 (187)
...|.|+|+ |.+|+=|.-+|- -++.+|+.|. ++++|.++|++
T Consensus 28 ~~y~~v~vk-~i~G~~P~L~l~d~~g~~~E~i~i~~w~~d~--i~efL~~kgf~ 78 (78)
T PF08806_consen 28 PLYPNVEVK-YIPGAPPELVLLDEDGEEVERINIEKWKTDE--IEEFLNEKGFY 78 (78)
T ss_dssp HHBTTEEEE-EESS---EEEEE-SSS--SEEEE-SSSSHCH--HHHHHHHHT--
T ss_pred hccCceEEE-EeCCCCCEEEEEcCCCCEEEEEEcccCCHHH--HHHHHHHhCCC
Confidence 467888886 899999998883 4678898885 78999999874
No 2
>PRK13488 chemoreceptor glutamine deamidase CheD; Provisional
Probab=66.47 E-value=11 Score=30.86 Aligned_cols=51 Identities=24% Similarity=0.447 Sum_probs=41.0
Q ss_pred ccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCcEEE
Q 029818 63 DQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVY 114 (187)
Q Consensus 63 eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~ 114 (187)
++|---++++|+++|++.+ |-|.....|=.|+||+.+|+-.+-+-+..+..
T Consensus 106 ~rNi~~a~~~L~~~gi~i~-a~dvGG~~gR~i~f~~~tG~v~vk~~~~~~~~ 156 (157)
T PRK13488 106 ERNIESAKETLKKLGIRIV-AEDVGGDYGRTVKFDLKTGKVIVRKANGGKVI 156 (157)
T ss_pred HHHHHHHHHHHHHCCCcEE-EEEcCCCCCcEEEEECCCCEEEEEEcCCceEe
Confidence 4555567899999999865 66777778999999999999988877655544
No 3
>PLN02824 hydrolase, alpha/beta fold family protein
Probab=64.27 E-value=32 Score=27.77 Aligned_cols=53 Identities=25% Similarity=0.264 Sum_probs=39.9
Q ss_pred ccCCeEEEEEEEec-CCceeEeecCcCCcccchhhHHHHHHHhCceEEEeeeCC-Cc
Q 029818 35 TKVPEVEIHLYRRG-EGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVYAFSTG-VG 89 (187)
Q Consensus 35 ~~~peVEV~LyrrG-kGPvavFKs~LgG~eqDqLev~~Il~k~gLKalfAf~p~-~g 89 (187)
.+...+.++.+..| .||.-||=-.+++....=-.+-..|.+.+ .++++|.- .|
T Consensus 13 ~~~~~~~i~y~~~G~~~~~vlllHG~~~~~~~w~~~~~~L~~~~--~vi~~DlpG~G 67 (294)
T PLN02824 13 WRWKGYNIRYQRAGTSGPALVLVHGFGGNADHWRKNTPVLAKSH--RVYAIDLLGYG 67 (294)
T ss_pred EEEcCeEEEEEEcCCCCCeEEEECCCCCChhHHHHHHHHHHhCC--eEEEEcCCCCC
Confidence 34578899988888 58999998888876665545666677765 89999977 44
No 4
>PF03975 CheD: CheD chemotactic sensory transduction; InterPro: IPR005659 CheD deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs). CheD-mediated MCP deamidation is required for productive communication of the conformational signals of the chemoreceptors to the cheA kinase []. CheC is a CheY-P phosphatase (CheY controls flagellar rotation and is activated by phosphorylation). The activity of CheC is enhanced by its interaction with CheD, forming a CheC-CheD heterodimer. It is suggested that CheC exerts its effect on MCP methylation in Bacillus subtilis by controlling the binding of CheD to the MCPs [].; GO: 0050568 protein-glutamine glutaminase activity, 0006935 chemotaxis; PDB: 2F9Z_D.
Probab=62.03 E-value=9.2 Score=29.06 Aligned_cols=68 Identities=24% Similarity=0.288 Sum_probs=39.2
Q ss_pred CCeEEEEEEEecCCceeEee----cCcCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccC
Q 029818 37 VPEVEIHLYRRGEGPIAVFK----SSLVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKD 109 (187)
Q Consensus 37 ~peVEV~LyrrGkGPvavFK----s~LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~d 109 (187)
..+.++.||= =-.+|. +...==++|---++++|++||++.+ |-|.....|=.|+|||.||+-.+-+-+
T Consensus 37 ~~~l~aklfG----Ga~m~~~~~~~~~~IG~rNv~~a~~~L~~~gi~I~-a~dvGG~~~R~v~f~~~tG~v~vk~~~ 108 (114)
T PF03975_consen 37 PSRLEAKLFG----GANMFPGMNSSSFNIGERNVEAARELLAEEGIPIV-AEDVGGNFGRKVRFDPATGEVWVKRIG 108 (114)
T ss_dssp GGG-EEEEEE--------S------SS-HHHHHHHHHHHHHHHTT--EE-EEEE-SSS-EEEEEETTTTEEEEE---
T ss_pred HHHeEEEEee----CcccccccccccCCHHHHHHHHHHHHHHHCCCcEE-EeeCCCCCCcEEEEEcCCCEEEEEECC
Confidence 4567777773 223444 1111124555567799999999866 567777789999999999998877653
No 5
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=61.15 E-value=8.7 Score=28.45 Aligned_cols=23 Identities=17% Similarity=0.319 Sum_probs=20.0
Q ss_pred hHHHHHHHhCceEEEeeeCCCcc
Q 029818 68 DVREILDKYGFKSVYAFSTGVGR 90 (187)
Q Consensus 68 ev~~Il~k~gLKalfAf~p~~gR 90 (187)
++.+=|.+||+..+|++++..++
T Consensus 3 ~I~~~L~~~G~~v~~i~~m~~~~ 25 (69)
T smart00596 3 QIEEALKDIGFPVLFIHNMLNRD 25 (69)
T ss_pred HHHHHHHHcCCceeEEEcccccC
Confidence 46677999999999999999765
No 6
>PRK13494 chemoreceptor glutamine deamidase CheD; Provisional
Probab=59.79 E-value=11 Score=31.17 Aligned_cols=69 Identities=16% Similarity=0.190 Sum_probs=47.9
Q ss_pred CeEEEEEEEecCCceeEeecC-cCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCc
Q 029818 38 PEVEIHLYRRGEGPIAVFKSS-LVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGS 111 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~-LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgs 111 (187)
-+.++.+|== -.+|... ..==++|---++++|+++|++.+ |-|....+|=.|+|||.+|+-.+-+.+.+
T Consensus 91 ~~l~aKifGG----a~m~~~~~~~IG~rNv~~a~~~L~~~gI~i~-a~DvGG~~gR~i~f~~~tG~v~vk~~~~~ 160 (163)
T PRK13494 91 SNLKAKLFGG----TNFMAKGTIKVGLENSEFAVNTLNKYGIPIL-AKDFDQSKSRKIFVFPENFKVIVEYPDGA 160 (163)
T ss_pred HHeEEEEEeC----cccCCcccCChHHHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCEEEEEECCCc
Confidence 3556666622 2345421 11114455567799999999855 77888889999999999999998887655
No 7
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=59.43 E-value=8.8 Score=31.06 Aligned_cols=27 Identities=33% Similarity=0.679 Sum_probs=16.0
Q ss_pred CeEEEEEEEecCCceeEeecCcCCcccc
Q 029818 38 PEVEIHLYRRGEGPIAVFKSSLVGWDQD 65 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~LgG~eqD 65 (187)
|.|..+| ++|.||||+-=-.+-+.+.|
T Consensus 86 ppVtf~L-~~GsGPVhisG~~~~~~~~d 112 (149)
T PF03066_consen 86 PPVTFRL-KCGSGPVHISGQHLVAMEED 112 (149)
T ss_dssp SSEEEEE-EESSS-EEEEEEEEEE----
T ss_pred CCEEEEE-EecCCCEEeeCccccccccc
Confidence 6777777 79999999865444444333
No 8
>cd06577 PASTA_pknB PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis. PknB is a receptor-like transmembrane protein with an extracellular signal sensor domain (containing multiple PASTA domains) and an intracellular, eukaryotic serine/threonine kinase-like domain. The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain.
Probab=58.29 E-value=39 Score=20.45 Aligned_cols=51 Identities=27% Similarity=0.392 Sum_probs=35.2
Q ss_pred cCCcccchhhHHHHHHHhCceEE---EeeeCCCccccceeecCCCCcccccccCCcEEE
Q 029818 59 LVGWDQDQLDVREILDKYGFKSV---YAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVY 114 (187)
Q Consensus 59 LgG~eqDqLev~~Il~k~gLKal---fAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~ 114 (187)
+.|++.+ |+...|++.||+.- +.|+...+-|.-+.-+|..|-.+-+ |+.|.
T Consensus 5 ~~g~~~~--~a~~~l~~~g~~~~~~~~~~~~~~~~g~V~~q~p~~G~~v~~---~~~i~ 58 (62)
T cd06577 5 VVGMTLD--EAKAALEAAGLKVGVVTEEYSDDVPKGTVISQSPAAGTKVKK---GSTVT 58 (62)
T ss_pred cCCCCHH--HHHHHHHHCCCceeeeEeeECCCCCCCEEEEecCCCCCccCC---CCEEE
Confidence 4565544 68899999999886 5566665667778888888876432 55444
No 9
>PRK13490 chemoreceptor glutamine deamidase CheD; Provisional
Probab=53.67 E-value=25 Score=28.88 Aligned_cols=45 Identities=16% Similarity=0.290 Sum_probs=36.5
Q ss_pred cchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccC
Q 029818 64 QDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKD 109 (187)
Q Consensus 64 qDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~d 109 (187)
+|---++.+|+++|++.+ |-|.....|=.|+||+.||+-.+-+-+
T Consensus 112 rNv~~a~~~L~~~gI~i~-a~dvGG~~gR~i~f~~~tG~v~vk~~~ 156 (162)
T PRK13490 112 RNGKAVKKKLKELSIPIL-AEDIGGNKGRTMIFDTSDGKVYIKTVG 156 (162)
T ss_pred HHHHHHHHHHHHcCCcEE-EEECCCCCCcEEEEECCCCEEEEEEcC
Confidence 344457799999999865 667777799999999999998886654
No 10
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=52.53 E-value=63 Score=21.05 Aligned_cols=51 Identities=27% Similarity=0.390 Sum_probs=36.3
Q ss_pred cCCcccchhhHHHHHHHhCce--EEEeeeCCCccccceeecCCCCcccccccCCcEEE
Q 029818 59 LVGWDQDQLDVREILDKYGFK--SVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVY 114 (187)
Q Consensus 59 LgG~eqDqLev~~Il~k~gLK--alfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~ 114 (187)
+-|.+. =|+..+|+++||+ ....++...+-|.=+.-+|..|..+-. |+.|.
T Consensus 6 ~~g~~~--~~a~~~l~~~g~~~~~~~~~~~~~~~g~V~~Q~P~~G~~v~~---~~~I~ 58 (63)
T PF03793_consen 6 LVGMTY--DEAKSILEAAGLTVNVVEEYSDSVPKGTVISQSPAPGTKVKK---GSKIT 58 (63)
T ss_dssp TTTSBH--HHHHHHHHHTT-EEEEEEEEESSSSTTSEEEESSCTTSEEET---TSEEE
T ss_pred cCCCcH--HHHHHHHHHCCCEEEEEEEecCCCCCCEEEEEECCCCCCcCC---CCEEE
Confidence 456444 4688999999994 344467777888899999999988743 55554
No 11
>PRK13498 chemoreceptor glutamine deamidase CheD; Provisional
Probab=50.85 E-value=22 Score=29.36 Aligned_cols=51 Identities=16% Similarity=0.111 Sum_probs=41.2
Q ss_pred ccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCcEEE
Q 029818 63 DQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVY 114 (187)
Q Consensus 63 eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~ 114 (187)
++|---++++|+++|++.+ |-|....+|=.|+||+.||+-++-+-+.+...
T Consensus 114 ~rNi~~a~~~L~~~gi~i~-a~DvGG~~gR~i~f~~~tG~v~vk~~~~~~~~ 164 (167)
T PRK13498 114 DKNIHAALALAEQNGLHLK-AQDLGSTGHRSIIFDLWNGNVWVRHQPMEHRE 164 (167)
T ss_pred HHHHHHHHHHHHHCCCcEE-EEeCCCCCCcEEEEECCCCEEEEEECCCCccc
Confidence 4555567899999999865 66777779999999999999998887666443
No 12
>PF07458 SPAN-X: Sperm protein associated with nucleus, mapped to X chromosome; InterPro: IPR010007 This entry represents SPANX (Sperm Protein Associated with the Nucleus on the X chromosome) family proteins, including N1, N2, N3 and N5. These human sperm proteins are associated with the nucleus and mapped to the X chromosome (SPAN-X) (approximately 100 residues long). SPAN-X proteins are cancer-testis antigens (CTAs), and thus represent potential targets for cancer immunotherapy because they are widely distributed in tumours but not in normal tissues, except testes. They are highly insoluble, acidic, and polymorphic [].
Probab=50.12 E-value=21 Score=28.20 Aligned_cols=39 Identities=21% Similarity=0.440 Sum_probs=30.2
Q ss_pred hHHHHhhhcCCCCCCCCCCCCCccccccCCeEEEEEEEecC
Q 029818 9 INEEIEEERKPITNGSPTNQTPETVKTKVPEVEIHLYRRGE 49 (187)
Q Consensus 9 ~~~ei~ee~~~~~~~~~~s~~~~~~~~~~peVEV~LyrrGk 49 (187)
+|.|++|....+- .|.-.+-++++++.|-|-|--||+++
T Consensus 22 ~nd~mqEt~~~ds--apq~slkK~ktse~~Tilv~~yrk~k 60 (97)
T PF07458_consen 22 KNDEMQETPNRDS--APQQSLKKTKTSEYPTILVFYYRKNK 60 (97)
T ss_pred hhhhhhhcccccc--CcccchhhhccccCCeEEEEEEecCc
Confidence 6788997765554 44444467888999999999999997
No 13
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=49.28 E-value=6.6 Score=24.46 Aligned_cols=16 Identities=38% Similarity=0.690 Sum_probs=13.0
Q ss_pred eEeecCcCCcccchhh
Q 029818 53 AVFKSSLVGWDQDQLD 68 (187)
Q Consensus 53 avFKs~LgG~eqDqLe 68 (187)
+.|+..+.||+++++|
T Consensus 9 ~~F~~~~rGY~~~eVD 24 (34)
T TIGR03544 9 KRFKKKLRGYDAAEVD 24 (34)
T ss_pred CcCCCCCCCCCHHHHH
Confidence 3588889999999865
No 14
>PRK13487 chemoreceptor glutamine deamidase CheD; Provisional
Probab=48.25 E-value=26 Score=29.92 Aligned_cols=67 Identities=13% Similarity=0.051 Sum_probs=47.1
Q ss_pred CeEEEEEEEecCCceeEeecC--cCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccC
Q 029818 38 PEVEIHLYRRGEGPIAVFKSS--LVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKD 109 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~--LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~d 109 (187)
-+.++.||= - -.+|..+ +.==++|-.-++++|+++|++.+ |-|.....|=.|+|||.||+-++-+-+
T Consensus 103 ~~l~aKlfG--G--A~m~~~~~~~~IG~rNi~~a~~~L~~~gI~iv-a~DvGG~~gR~v~f~~~tG~v~vk~~~ 171 (201)
T PRK13487 103 ENLEAKVFG--G--GNVLRGFTSMNVGERNAEFVRDYLQTERIPIV-AEDLLDIYPRKVYFFPTTGKVLVKKLK 171 (201)
T ss_pred HHEEEEEEe--C--CcccCCCccCCchHHHHHHHHHHHHHcCCcEE-EEECCCCCCcEEEEECCCCEEEEEECC
Confidence 355666662 2 2455422 11114566667899999999865 678888899999999999999887663
No 15
>PRK13495 chemoreceptor glutamine deamidase CheD; Provisional
Probab=47.34 E-value=28 Score=28.59 Aligned_cols=68 Identities=25% Similarity=0.348 Sum_probs=46.3
Q ss_pred CeEEEEEEEecCCceeEeecC-cCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCC
Q 029818 38 PEVEIHLYRRGEGPIAVFKSS-LVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDG 110 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~-LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dg 110 (187)
-+.++.||== -.+|..+ +.==++|---++++|+++|++.+ |-|....+|=.|+|||.+|+-++-+-++
T Consensus 82 ~~l~aKifGG----A~m~~~~~~~IG~rNi~~a~~~L~~~gI~i~-a~dvGG~~gR~i~f~~~tG~v~vk~~~~ 150 (159)
T PRK13495 82 ERLEAKIAGG----ASMFESSGMNIGARNVEAVKKHLKDFGIKLV-AEDTGGNRARSIEYNIETGKLLVRKVGG 150 (159)
T ss_pred HHEEEEEEeC----CccCCCCCCChHHHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCEEEEEEcCC
Confidence 3556666622 2445521 11113455557799999999866 6677777999999999999998887653
No 16
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=46.71 E-value=30 Score=20.58 Aligned_cols=34 Identities=15% Similarity=0.372 Sum_probs=22.2
Q ss_pred ceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCCcCCCcc
Q 029818 78 FKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMI 124 (187)
Q Consensus 78 LKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~ 124 (187)
.+++|.|.++.. .-|+++.|++|.+..+.-+.|.
T Consensus 2 ~~a~~~~~~~~~-------------~~l~~~~Gd~v~v~~~~~~~w~ 35 (54)
T cd00174 2 VRALYDYDARDP-------------DELSFKKGDIIEVLEKSDDGWW 35 (54)
T ss_pred EEEEEeeCCCCC-------------CCCCCCCCCEEEEEEcCCCCeE
Confidence 468888888754 3456666887777766444443
No 17
>COG4970 FimT Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=44.98 E-value=18 Score=30.79 Aligned_cols=31 Identities=16% Similarity=0.455 Sum_probs=26.8
Q ss_pred hhHHHHHHHHHHHHHHHHhcCChhHHHhccC
Q 029818 127 VTKILFGLTVITLLITLLFKDRPEWINKLNV 157 (187)
Q Consensus 127 vtri~~gva~vtlmi~~~~k~~Pew~k~~~~ 157 (187)
+.-.++.+|++++|++++.|..-.|+.+-++
T Consensus 12 L~ELliviAIlAIla~~A~P~fs~~i~~~rl 42 (181)
T COG4970 12 LLELLIVLAILAILAVIAAPNFSQWIRSQRL 42 (181)
T ss_pred HHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 4457899999999999999999999987554
No 18
>PRK13493 chemoreceptor glutamine deamidase CheD; Provisional
Probab=43.41 E-value=34 Score=29.54 Aligned_cols=66 Identities=14% Similarity=0.163 Sum_probs=46.8
Q ss_pred CeEEEEEEEecCCceeEeecCcCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCccccccc
Q 029818 38 PEVEIHLYRRGEGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYK 108 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~ 108 (187)
-+.++.|| |- -.+|.....==++|-.-++++|+++|++.+ |-|.....|=.|+|||.+|+-++-+-
T Consensus 117 ~~l~aKif--GG--A~m~~~~~~IG~rNi~~a~~~L~~~gI~Iv-a~DvGG~~gRki~f~~~tG~v~vk~~ 182 (213)
T PRK13493 117 ERLKFKLF--GG--AHLMGYQSLVGEKNVEFVLEYAKREKLNVV-AQDLGGAQPRKLLFDPQTGQAWVKRI 182 (213)
T ss_pred HHeEEEEE--eC--cccccccccHhHHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCEEEEEEc
Confidence 35666666 32 245543221114566678899999999865 67888889999999999999988655
No 19
>PRK13491 chemoreceptor glutamine deamidase CheD; Provisional
Probab=41.51 E-value=57 Score=28.17 Aligned_cols=45 Identities=27% Similarity=0.329 Sum_probs=37.2
Q ss_pred ccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCccccccc
Q 029818 63 DQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYK 108 (187)
Q Consensus 63 eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~ 108 (187)
++|---++++|+++|++.+ |-|.....|=.|+|||.+|+-++-+-
T Consensus 114 ~rNie~a~~~L~~~GI~iv-aeDvGG~~gRkI~f~~~tG~v~vk~~ 158 (199)
T PRK13491 114 QANAAFARRYLRDEGIRCT-AHSLGGNRARRIRFWPKTGRVQQMFL 158 (199)
T ss_pred HHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCEEEEEEc
Confidence 3555567899999999865 77888889999999999999887554
No 20
>PRK13497 chemoreceptor glutamine deamidase CheD; Provisional
Probab=40.87 E-value=35 Score=28.76 Aligned_cols=64 Identities=19% Similarity=0.199 Sum_probs=45.4
Q ss_pred CeEEEEEEEecCCceeEee--cCcCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCccccccc
Q 029818 38 PEVEIHLYRRGEGPIAVFK--SSLVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYK 108 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFK--s~LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~ 108 (187)
-+.++.||= - -.+|. ++.| ++|---++.+|+++|++.+ |-|....+|=.|+|||.+|+-++-+-
T Consensus 90 ~~l~aKifG--G--A~m~~~~~~IG--~rNi~~a~~~L~~~gI~i~-a~DvGG~~gR~v~f~~~tG~v~~k~~ 155 (184)
T PRK13497 90 DRLEAKIFG--G--AKTIATFSNVG--EQNAAFAMQFLRDEGIPVV-GSSTGGEHGRKLEYWPVSGRARQYPL 155 (184)
T ss_pred HHEEEEEEe--C--chhccccccHH--HHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCeEEEEEc
Confidence 356666662 2 23343 2332 5666678899999999865 67887779999999999999876554
No 21
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=39.99 E-value=41 Score=20.07 Aligned_cols=34 Identities=15% Similarity=0.390 Sum_probs=23.0
Q ss_pred ceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCCcCCCcc
Q 029818 78 FKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMI 124 (187)
Q Consensus 78 LKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~ 124 (187)
.+++|.|++... .-|+++.|++|.+-.+.-+.|.
T Consensus 5 ~~a~~~~~~~~~-------------~~l~~~~Gd~v~v~~~~~~~w~ 38 (58)
T smart00326 5 VRALYDYTAQDP-------------DELSFKKGDIITVLEKSDDGWW 38 (58)
T ss_pred EEEeeeeCCCCC-------------CCCCCCCCCEEEEEEcCCCCeE
Confidence 468888887432 2267778888888777555554
No 22
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=39.61 E-value=15 Score=32.68 Aligned_cols=39 Identities=18% Similarity=0.325 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHhcCChhHHHhccCCCCCCchhhhhheee
Q 029818 132 FGLTVITLLITLLFKDRPEWINKLNVPGWNFPPWVIACVVI 172 (187)
Q Consensus 132 ~gva~vtlmi~~~~k~~Pew~k~~~~~~g~fpPWilac~VI 172 (187)
.|=+.+..+.-.+.|-.+. .+..+++++-|||.+.++|+
T Consensus 156 ~aNCgl~~I~~~ltkr~~~--nr~~~~~~~~~~W~i~~~v~ 194 (226)
T PHA02662 156 AANCALARVATALTRRVPA--SRHGLAEGGTPPWTLLLAVA 194 (226)
T ss_pred hhhhhHHHHHHHHhhhccc--cccccccCCCCcchhHHHHH
Confidence 4555555555556676544 77789999999999988887
No 23
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=39.53 E-value=12 Score=28.53 Aligned_cols=25 Identities=28% Similarity=0.664 Sum_probs=15.3
Q ss_pred ccchhhHHHHHHHhCceEEEeeeCC
Q 029818 63 DQDQLDVREILDKYGFKSVYAFSTG 87 (187)
Q Consensus 63 eqDqLev~~Il~k~gLKalfAf~p~ 87 (187)
.+..||+-.=|.++|+|-|||.|..
T Consensus 22 s~e~LdLsKSLndlGirELYA~D~~ 46 (79)
T PF09469_consen 22 SGEELDLSKSLNDLGIRELYAWDTS 46 (79)
T ss_dssp ---B--TTS-HHHHT-SEEEEEE--
T ss_pred CCCcccccccHHHhhHHHHHhhccc
Confidence 3567899999999999999999987
No 24
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=38.04 E-value=36 Score=35.46 Aligned_cols=51 Identities=29% Similarity=0.565 Sum_probs=36.3
Q ss_pred cchhhHHHHHHHhCce---EEEeeeCCCccccceeecCCCCccccccc--CCcEEEeCCCcC
Q 029818 64 QDQLDVREILDKYGFK---SVYAFSTGVGRGVPIRFNRRNGRSMLGYK--DGSVVYMDGEPQ 120 (187)
Q Consensus 64 qDqLev~~Il~k~gLK---alfAf~p~~gRGv~irfnPrnG~SlL~Y~--dgsvI~lDGEPK 120 (187)
.|+..++.|+++||=. +-||+. ++=.+.|+| +|.+.+.|+ .|..|.+ |+|-
T Consensus 236 ~d~~~~~~ll~~yG~~~sls~la~~----~Dk~~~fs~-~g~a~i~Yrv~~~~~i~~-GDPv 291 (1094)
T PRK02983 236 EDELAIRGLLLLYGEDDSLGYFATR----RDKSVVFAP-SGRAAITYRVEVGVCLAS-GDPV 291 (1094)
T ss_pred hhHHHHHHHHHHhCCCCCceeeeec----CCceEEECC-CCCEEEEEEEECCEEEEE-CCCC
Confidence 3556799999999954 233333 344567885 789999999 6666666 8775
No 25
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=37.86 E-value=26 Score=26.17 Aligned_cols=29 Identities=14% Similarity=0.355 Sum_probs=25.1
Q ss_pred CCCccccceeecCCCCcccccccCCcEEEe
Q 029818 86 TGVGRGVPIRFNRRNGRSMLGYKDGSVVYM 115 (187)
Q Consensus 86 p~~gRGv~irfnPrnG~SlL~Y~dgsvI~l 115 (187)
|...||++.+|++..|+-+|=|-.| .|.|
T Consensus 6 p~l~~~~rl~~d~~~~~~vlL~PEg-mi~L 34 (88)
T PRK02079 6 PTLRPGYRFQWEPAQNCHVLLYPEG-MIKL 34 (88)
T ss_pred cccCCCcccccccccCceEEEcCCe-eeee
Confidence 6678999999999999999988866 6776
No 26
>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr
Probab=37.55 E-value=26 Score=23.04 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=17.7
Q ss_pred CCccccc-ccCCcEEEeCCCcC
Q 029818 100 NGRSMLG-YKDGSVVYMDGEPQ 120 (187)
Q Consensus 100 nG~SlL~-Y~dgsvI~lDGEPK 120 (187)
.|.||.| +.+|+++.+|-.++
T Consensus 6 ~g~SM~P~i~~gd~v~i~~~~~ 27 (84)
T cd06462 6 EGDSMEPTIPDGDLVLVDKSSY 27 (84)
T ss_pred cCCCccCcccCCCEEEEEecCC
Confidence 5889998 78999999997665
No 27
>PRK03592 haloalkane dehalogenase; Provisional
Probab=37.13 E-value=1.5e+02 Score=23.94 Aligned_cols=52 Identities=17% Similarity=0.061 Sum_probs=38.2
Q ss_pred cccCCeEEEEEEEecCCceeEeecCcCCcccchhhHHHHHHHhCceEEEeeeCC
Q 029818 34 KTKVPEVEIHLYRRGEGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVYAFSTG 87 (187)
Q Consensus 34 ~~~~peVEV~LyrrGkGPvavFKs~LgG~eqDqLev~~Il~k~gLKalfAf~p~ 87 (187)
...+..++++.-..|.||--||=-.+++...+=-.+-..|.+.+ .++|+|..
T Consensus 11 ~~~~~g~~i~y~~~G~g~~vvllHG~~~~~~~w~~~~~~L~~~~--~via~D~~ 62 (295)
T PRK03592 11 RVEVLGSRMAYIETGEGDPIVFLHGNPTSSYLWRNIIPHLAGLG--RCLAPDLI 62 (295)
T ss_pred EEEECCEEEEEEEeCCCCEEEEECCCCCCHHHHHHHHHHHhhCC--EEEEEcCC
Confidence 34567788888888999988887777666554434555666666 89999986
No 28
>COG2815 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.96 E-value=91 Score=28.11 Aligned_cols=96 Identities=21% Similarity=0.261 Sum_probs=61.7
Q ss_pred hhcCCCCCCCCCCCCCccccccCCeEEEEEEEecCCceeEeecCcCCcccchhhHHHHHHHhCceEEEe--eeCCCcccc
Q 029818 15 EERKPITNGSPTNQTPETVKTKVPEVEIHLYRRGEGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVYA--FSTGVGRGV 92 (187)
Q Consensus 15 ee~~~~~~~~~~s~~~~~~~~~~peVEV~LyrrGkGPvavFKs~LgG~eqDqLev~~Il~k~gLKalfA--f~p~~gRGv 92 (187)
|.++..+.|.==+|.|..-.+-.+...|.|+. .+||--++-=+|.|+.-+| ..+.|+..||+--.. |+-...-|=
T Consensus 124 e~s~e~~~GtVI~Q~PsaGt~~~~~~~v~l~v-S~G~~~~~vpdl~G~t~~~--A~~~L~~~G~~~~~~~~~ss~~~~G~ 200 (303)
T COG2815 124 EVSDEVPAGTVISQSPSAGTEVKPGETVKLTV-SKGPETITVPDLVGMTYDE--ASSNLKAAGLTVNSKEYVSSDRPEGE 200 (303)
T ss_pred cccCCCCCceEEecCCCCCCEeccCCeEEEEE-ecCCCceeccccccccHHH--HHHHHHHhCCCcccccccCCCCCCCe
Confidence 33444444443344433333445666888876 6888889999999999986 789999999997433 333344555
Q ss_pred ceeecCCCCcccccccCCcEEEeC
Q 029818 93 PIRFNRRNGRSMLGYKDGSVVYMD 116 (187)
Q Consensus 93 ~irfnPrnG~SlL~Y~dgsvI~lD 116 (187)
-|-=+|.+|-+ |..|+.|.++
T Consensus 201 Vis~sP~~gt~---v~~gs~i~i~ 221 (303)
T COG2815 201 VISQSPPAGTT---VNVGSKIEIV 221 (303)
T ss_pred EEEeCCCCCcc---cCCCCeEEEE
Confidence 56666666654 4456666554
No 29
>PF07865 DUF1652: Protein of unknown function (DUF1652); InterPro: IPR012448 The proteins in this entry have not been characterised.
Probab=36.62 E-value=57 Score=23.86 Aligned_cols=40 Identities=20% Similarity=0.359 Sum_probs=26.6
Q ss_pred hhHHHHHHHhCceEEEeeeCCCcccccee-ecCCCCccccc
Q 029818 67 LDVREILDKYGFKSVYAFSTGVGRGVPIR-FNRRNGRSMLG 106 (187)
Q Consensus 67 Lev~~Il~k~gLKalfAf~p~~gRGv~ir-fnPrnG~SlL~ 106 (187)
+|+|.|+|.|-+---+..+-..+.-+.|+ |||.+|+..|.
T Consensus 2 lelr~iiE~aflPl~C~ct~~~~~smtvrl~d~~sg~~~l~ 42 (69)
T PF07865_consen 2 LELRQIIEQAFLPLRCECTIAPDGSMTVRLFDPASGRVELT 42 (69)
T ss_pred hHHHHHHHHcCCCceeEEEECCCCcEEEEEecCCCCcEEEE
Confidence 68999999998765555555544333333 59988877543
No 30
>KOG4714 consensus Nucleoporin [Nuclear structure]
Probab=36.16 E-value=26 Score=32.55 Aligned_cols=27 Identities=22% Similarity=0.386 Sum_probs=24.6
Q ss_pred cceeecCCCCccccccc-CCcEEEeCCC
Q 029818 92 VPIRFNRRNGRSMLGYK-DGSVVYMDGE 118 (187)
Q Consensus 92 v~irfnPrnG~SlL~Y~-dgsvI~lDGE 118 (187)
-+++|+|+|+--|+.-+ ||+++..|.-
T Consensus 227 ~eV~FHpk~p~~Lft~sedGslw~wdas 254 (319)
T KOG4714|consen 227 WEVHFHPKNPEHLFTCSEDGSLWHWDAS 254 (319)
T ss_pred hheeccCCCchheeEecCCCcEEEEcCC
Confidence 36899999999999988 9999999986
No 31
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=34.57 E-value=39 Score=24.39 Aligned_cols=25 Identities=28% Similarity=0.432 Sum_probs=22.4
Q ss_pred cCCcccchhhHHHHHHHhCceEEEe
Q 029818 59 LVGWDQDQLDVREILDKYGFKSVYA 83 (187)
Q Consensus 59 LgG~eqDqLev~~Il~k~gLKalfA 83 (187)
.||.++..=+.++++++||.+.++-
T Consensus 5 VGG~~~~~~~~~~~~~~~G~~~~~h 29 (97)
T PF10087_consen 5 VGGREDRERRYKRILEKYGGKLIHH 29 (97)
T ss_pred EcCCcccHHHHHHHHHHcCCEEEEE
Confidence 4888888889999999999998876
No 32
>PF11739 DctA-YdbH: Dicarboxylate transport; InterPro: IPR021730 In certain bacterial families this protein is expressed from the ydbH gene, and there is a suggestion that this is a form of DctA or dicarboxylate transport protein. Dicarboxylate transport proteins are found in aerobic bacteria which grow on succinate or other C4-dicarboxylates [].
Probab=33.35 E-value=74 Score=26.08 Aligned_cols=57 Identities=30% Similarity=0.519 Sum_probs=39.8
Q ss_pred chhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCccc----ccccCCcEEEeCCCcC-CCc
Q 029818 65 DQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSM----LGYKDGSVVYMDGEPQ-DSM 123 (187)
Q Consensus 65 DqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~Sl----L~Y~dgsvI~lDGEPK-dS~ 123 (187)
+.||+.++++.++.+.+.+-=-=+|+ +|++|++. |.++ |.=+.+.+|.|++++. +.+
T Consensus 65 ~~idL~ell~~~~~~~~~~tG~lsG~-lPl~~~~~-~~~I~~G~L~a~~~G~l~~~~~~~~~~l 126 (207)
T PF11739_consen 65 ENIDLAELLALQGQKGISATGRLSGR-LPLRLDDG-GISIRNGRLAARGPGTLRYDPEPAVDAL 126 (207)
T ss_pred cCCCHHHHHhhcCccceEEEEEEEEE-EeEEEECC-eEEEeccEEEcCCCcEEEECChhhHHHH
Confidence 57999999999999887664333444 89999976 4443 3333557888888876 544
No 33
>cd03470 Rieske_cytochrome_bc1 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including uni- and multi-cellular eukaryotes, plants (in their mitochondria) and bacteria. The cytochrome bc(1) and b6f complexes are central components of the respiratory and photosynthetic electron transport chains, respectively, which carry out similar core electron and proton transfer steps. The bc(1) and b6f complexes share a common core structure of three catalytic subunits: cyt b, the Rieske ISP, and either a cyt c1 in the bc(1) complex or cyt f in the b6f complex, which are arranged in an integral membrane-bound dimeric complex. While the core of the b6f complex is similar to that of the bc(1) complex, the domain arrangement outside the core and the complement of prosthetic groups are strikingly different.
Probab=33.01 E-value=1.3e+02 Score=23.48 Aligned_cols=79 Identities=16% Similarity=0.100 Sum_probs=45.2
Q ss_pred EEEEEEecCCceeEeecCc------CCcccchhh---HHHHHHHhCceEEEeeeCC-CccccceeecC-CCCcccccccC
Q 029818 41 EIHLYRRGEGPIAVFKSSL------VGWDQDQLD---VREILDKYGFKSVYAFSTG-VGRGVPIRFNR-RNGRSMLGYKD 109 (187)
Q Consensus 41 EV~LyrrGkGPvavFKs~L------gG~eqDqLe---v~~Il~k~gLKalfAf~p~-~gRGv~irfnP-rnG~SlL~Y~d 109 (187)
...+--+|+ ||.|++..- .+.+.+.+| -...-.+-+-..+||++.. .-.|-.+.+++ ..|.=.-|+ +
T Consensus 14 ~~~v~w~Gk-pv~I~~rt~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~CtH~gc~~~~~~~~~~~~~CPc-H 91 (126)
T cd03470 14 LITVEWRGK-PVFIRRRTPEEIAEAKAVDLSLLDDPDPAANRVRSGKPEWLVVIGICTHLGCVPTYRAGDYGGFFCPC-H 91 (126)
T ss_pred EEEEEECCe-EEEEEECCHHHHhhhhhcchhhcCCccccccccccCCCcEEEEeCcCCCCCCeeccccCCCCEEEecC-c
Confidence 344557888 999999522 111111110 0011112234579999998 44776666776 334444444 5
Q ss_pred CcEEEeCCCcCC
Q 029818 110 GSVVYMDGEPQD 121 (187)
Q Consensus 110 gsvI~lDGEPKd 121 (187)
|+..-++|++..
T Consensus 92 gs~Fdl~G~~~~ 103 (126)
T cd03470 92 GSHYDASGRIRK 103 (126)
T ss_pred CCEECCCCeEec
Confidence 899999998765
No 34
>PF11193 DUF2812: Protein of unknown function (DUF2812); InterPro: IPR021359 This is a bacterial family of uncharacterised proteins, however some members of this family are annotated as membrane proteins.
Probab=32.84 E-value=73 Score=23.35 Aligned_cols=85 Identities=19% Similarity=0.242 Sum_probs=58.0
Q ss_pred EEEEecCCceeEeecCcC--CcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCCcC
Q 029818 43 HLYRRGEGPIAVFKSSLV--GWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQ 120 (187)
Q Consensus 43 ~LyrrGkGPvavFKs~Lg--G~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPK 120 (187)
--|++|.--=.+|+...- -...++-|-.++.++.|-+.|+ .+..+..|...+..+-.. -|+=|-|-+
T Consensus 28 ~~F~k~ep~~~~Y~vd~~~~~~~~~~~~y~~~~e~~GW~~v~----~~~~~~~if~~~~~~~~~-------~i~tD~~~~ 96 (115)
T PF11193_consen 28 YTFEKGEPKDYRYRVDFNDPKSKEEQKEYLEFFEEAGWEYVY----SNFGGWQIFRKEEDDGPP-------EIYTDPESK 96 (115)
T ss_pred EEEEECCCceEEEEEEEccccchhhhHHHHHHHHHCCCEEEe----ccCcEEEEEEEcCCCCCC-------CCcCCHHHH
Confidence 556777744445777766 2345666888999999999998 445778888876653321 466677777
Q ss_pred CCccchhhHHHHHHHHHH
Q 029818 121 DSMIKPVTKILFGLTVIT 138 (187)
Q Consensus 121 dS~~KPvtri~~gva~vt 138 (187)
....+.+.+..+..+++.
T Consensus 97 ~~~~~~~~~~~~~~~l~~ 114 (115)
T PF11193_consen 97 IEMYKRLRKSFLWFFLIF 114 (115)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 777777777666665543
No 35
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins. It is named after the characteristic PEGA sequence motif found in this domain. The secondary structure of this domain is predicted to be beta-strands.
Probab=32.75 E-value=24 Score=23.73 Aligned_cols=17 Identities=35% Similarity=0.698 Sum_probs=13.8
Q ss_pred CCcEEEeCCCcCCCccchh
Q 029818 109 DGSVVYMDGEPQDSMIKPV 127 (187)
Q Consensus 109 dgsvI~lDGEPKdS~~KPv 127 (187)
.|+.||+||+... ..|+
T Consensus 11 ~gA~V~vdg~~~G--~tp~ 27 (71)
T PF08308_consen 11 SGAEVYVDGKYIG--TTPL 27 (71)
T ss_pred CCCEEEECCEEec--cCcc
Confidence 5999999999888 4454
No 36
>COG1871 CheD Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=32.39 E-value=57 Score=27.74 Aligned_cols=48 Identities=27% Similarity=0.357 Sum_probs=39.0
Q ss_pred ccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCc
Q 029818 63 DQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGS 111 (187)
Q Consensus 63 eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgs 111 (187)
+||-.-+.+.|.++|+..| |=|.....|=.|-|||.||+-++-|-+|.
T Consensus 113 ~rNv~~~~~~L~~~~Ipil-aeD~Gg~~gR~i~F~p~tG~v~vr~v~~~ 160 (164)
T COG1871 113 ERNVEFAKEFLKDEGIPIL-AEDTGGDSGRTIEFNPSTGRVRVRTVGGG 160 (164)
T ss_pred hHHHHHHHHHHHHcCCcEE-EhhhCCCCCcEEEEecCCCcEEEEEcCCc
Confidence 5667778899999999866 66666668889999999999988776554
No 37
>PF11298 DUF3099: Protein of unknown function (DUF3099); InterPro: IPR021449 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=31.49 E-value=37 Score=25.05 Aligned_cols=37 Identities=19% Similarity=0.449 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHhcCChhHHHhccCCCCCCchhhh
Q 029818 130 ILFGLTVITLLITLLFKDRPEWINKLNVPGWNFPPWVI 167 (187)
Q Consensus 130 i~~gva~vtlmi~~~~k~~Pew~k~~~~~~g~fpPWil 167 (187)
+++|+-++.+++++++... -|+.-.=+++..+-|||+
T Consensus 22 i~M~~Ri~~fvlA~~~~~~-~~la~~~~~~av~LPwvA 58 (73)
T PF11298_consen 22 IMMGIRIPCFVLAAVVYRL-GWLAWAIIVGAVPLPWVA 58 (73)
T ss_pred HHHHHHHHHHHHHHHHHhh-hHHHHHHHHHhcccchhh
Confidence 5778888888888888776 788888888999999998
No 38
>PF03911 Sec61_beta: Sec61beta family; InterPro: IPR005609 This family consists of Sec61 subunit beta and homologues like archaeal SecG. This subunit is a component of the Sec61/SecYEG protein secretory system.; PDB: 2WWA_C 2WW9_C 3BO0_C 3KCR_C 3BO1_C 2YXR_C 3DKN_C 2YXQ_C 1RH5_C 1RHZ_C ....
Probab=31.44 E-value=65 Score=21.20 Aligned_cols=30 Identities=23% Similarity=0.521 Sum_probs=18.4
Q ss_pred EeCCCcCCCccchhhHHHHHHHHHHHHHHH
Q 029818 114 YMDGEPQDSMIKPVTKILFGLTVITLLITL 143 (187)
Q Consensus 114 ~lDGEPKdS~~KPvtri~~gva~vtlmi~~ 143 (187)
|+|.|-..-=+.|.+.+.++++.++.++++
T Consensus 8 ~y~ed~~giki~P~~Vl~~si~fi~~V~~L 37 (41)
T PF03911_consen 8 YYEEDAPGIKIDPKTVLIISIAFIAIVILL 37 (41)
T ss_dssp -----S-SS-BSCCHHHHHHHHHHHHHHHH
T ss_pred eeeccCCcceeCCeehHHHHHHHHHHHHHH
Confidence 455555545588999999999988877754
No 39
>cd01090 Creatinase Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea.
Probab=31.03 E-value=78 Score=26.12 Aligned_cols=50 Identities=26% Similarity=0.364 Sum_probs=32.6
Q ss_pred HHHHHHHhCceEEEeeeCCCccccceeecCCC-Cccc-----ccccCCcEEEeCCCcC
Q 029818 69 VREILDKYGFKSVYAFSTGVGRGVPIRFNRRN-GRSM-----LGYKDGSVVYMDGEPQ 120 (187)
Q Consensus 69 v~~Il~k~gLKalfAf~p~~gRGv~irfnPrn-G~Sl-----L~Y~dgsvI~lDGEPK 120 (187)
.++.+++||+...|-+.-.++=|+.++..|.. |.++ .+..+|-|+.+ ||.
T Consensus 142 ~~~~~~~~G~~~~~~~~~GHgiGl~~he~~~~~g~~~~~~~~~~Le~GMV~~i--EP~ 197 (228)
T cd01090 142 LNEMYREHDLLRYRTFGYGHSFGVLSHYYGREAGLELREDIDTVLEPGMVVSM--EPM 197 (228)
T ss_pred HHHHHHHcCCCcccccccCcccccccccCCCccccccCCCCCCccCCCCEEEE--CCE
Confidence 35678999998876665557777766665532 3333 44567888876 553
No 40
>PF09299 Mu-transpos_C: Mu transposase, C-terminal; InterPro: IPR015378 This domain is found in various prokaryotic integrases and transposases. It adopts a beta-barrel structure with Greek-key topology []. ; PDB: 1BCO_A 1BCM_B.
Probab=30.81 E-value=37 Score=22.78 Aligned_cols=22 Identities=18% Similarity=0.517 Sum_probs=15.0
Q ss_pred CccccceeecCCCCcccccccC
Q 029818 88 VGRGVPIRFNRRNGRSMLGYKD 109 (187)
Q Consensus 88 ~gRGv~irfnPrnG~SlL~Y~d 109 (187)
.|+-|.|||||.+=..+.=|.+
T Consensus 34 ~g~~V~vryDp~dl~~i~V~~~ 55 (62)
T PF09299_consen 34 IGQKVRVRYDPDDLSRIYVYDE 55 (62)
T ss_dssp S-SEEEEEE-GGGTTEEEEEET
T ss_pred cCCEEEEEECcccCCEEEEEEC
Confidence 6677999999999655555553
No 41
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=30.41 E-value=46 Score=23.85 Aligned_cols=31 Identities=19% Similarity=0.392 Sum_probs=25.4
Q ss_pred CCCccccceeecCCCCcccccccCCcEEEeCC
Q 029818 86 TGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDG 117 (187)
Q Consensus 86 p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDG 117 (187)
|+-.||++.+|++-.|.-+|-+. |..+.||.
T Consensus 1 ~~l~~~~r~~~~~v~~~~Vl~~p-~~~~~Ln~ 31 (81)
T TIGR03859 1 PALRRGYRLQWERAQDCYVLLYP-EGMVKLND 31 (81)
T ss_pred CCCCCCeeeeeccccCcEEEEcC-CceeeeCh
Confidence 55689999999999999888776 56787754
No 42
>PRK13489 chemoreceptor glutamine deamidase CheD; Provisional
Probab=29.97 E-value=64 Score=28.49 Aligned_cols=67 Identities=19% Similarity=0.130 Sum_probs=46.0
Q ss_pred CeEEEEEEEecCCceeEeecC--cCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccC
Q 029818 38 PEVEIHLYRRGEGPIAVFKSS--LVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKD 109 (187)
Q Consensus 38 peVEV~LyrrGkGPvavFKs~--LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~d 109 (187)
-+.++.+|= -| ++|..+ +.==++|--=++++|+++|++.+ |-|.....|=.|+|+|.+|+-++-+-+
T Consensus 101 ~~L~AKifG--GA--~m~~~~~~~~IG~RNieaa~~~L~~~gI~Iv-aeDvGG~~gRkV~f~~~TG~v~Vk~~~ 169 (233)
T PRK13489 101 ERFEAKVFG--GA--AVLAGMTTINIGDRNADFVRRYLALERIRIT-AEDLQGVHPRKVAFMPRTGRAMVKKLR 169 (233)
T ss_pred HHEEEEEEE--Cc--cccCCCCcCChhHHHHHHHHHHHHHcCCcEE-EEeCCCCCCcEEEEECCCCEEEEEEcC
Confidence 356666663 22 345421 11113455567799999999865 678888899999999999999886653
No 43
>cd03467 Rieske Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis.
Probab=29.94 E-value=2e+02 Score=20.13 Aligned_cols=62 Identities=23% Similarity=0.317 Sum_probs=40.4
Q ss_pred EEEEEecCCceeEeecCcCCcccchhhHHHHHHHhCceEEEeeeCC-CccccceeecCCCCcccccccCCcEEEe-CCCc
Q 029818 42 IHLYRRGEGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVYAFSTG-VGRGVPIRFNRRNGRSMLGYKDGSVVYM-DGEP 119 (187)
Q Consensus 42 V~LyrrGkGPvavFKs~LgG~eqDqLev~~Il~k~gLKalfAf~p~-~gRGv~irfnPrnG~SlL~Y~dgsvI~l-DGEP 119 (187)
...+.-+..++.+|+..- -.+|||+.. .-+|.++--...+|..+.---+|+...+ ||++
T Consensus 15 ~~~~~~~~~~~~v~~~~~-------------------~~~~a~~~~CpH~g~~l~~~~~~~~~i~Cp~H~~~f~~~~G~~ 75 (98)
T cd03467 15 GRVVVVGGGPVVVVRREG-------------------GEVYALSNRCTHQGCPLSEGEGEDGCIVCPCHGSRFDLRTGEV 75 (98)
T ss_pred eEEEEECCeEEEEEEeCC-------------------CEEEEEcCcCCCCCccCCcCccCCCEEEeCCCCCEEeCCCccC
Confidence 334444566788887422 468999999 4477777665544444444447888888 9987
Q ss_pred CCC
Q 029818 120 QDS 122 (187)
Q Consensus 120 KdS 122 (187)
...
T Consensus 76 ~~~ 78 (98)
T cd03467 76 VSG 78 (98)
T ss_pred cCC
Confidence 643
No 44
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 2J9I_E 3ZXV_D 1HTQ_D 1HTO_F 2BVC_F 2WGS_G 3ZXR_B 2WHI_D 3NG0_A 1LGR_C ....
Probab=29.30 E-value=37 Score=28.57 Aligned_cols=80 Identities=18% Similarity=0.274 Sum_probs=50.3
Q ss_pred HHHHHHHhCceEEEeeeCC---CccccceeecCCCCcccccccCCcEEEeCCCcCCCccchhhHHHHHHHHHHHHHHHHh
Q 029818 69 VREILDKYGFKSVYAFSTG---VGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMIKPVTKILFGLTVITLLITLLF 145 (187)
Q Consensus 69 v~~Il~k~gLKalfAf~p~---~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~KPvtri~~gva~vtlmi~~~~ 145 (187)
|+.|-++||+.+-|.=.|- .|-|.-+++ |+..-+||.-++.|++..+.+..-....+.|++--+=-++.++
T Consensus 120 ik~vA~~~Gl~atFmpKP~~~~~GsG~H~h~------Sl~~~~~g~n~f~~~~~~~~ls~~~~~flaGll~h~~~l~a~~ 193 (259)
T PF00120_consen 120 IKEVARKHGLTATFMPKPFSGDNGSGMHLHI------SLWDAKDGKNLFYDPDGPAGLSELARHFLAGLLKHAPALTAFT 193 (259)
T ss_dssp HHHHHHHTTEEEE-SSSSSTTSS--BEEEEE------EECHHHTTEETTBSTTSHGHHHHHHHHHHHHHHCHHHHHHHCH
T ss_pred HHHHHHHcCCceeeeccccCCcCccchhhhh------hhhhccccccccccccccccccHHHHHHHHHHHHHHHHHHhhh
Confidence 6788999999999987774 556666665 4555557888888886666677666777777664333333333
Q ss_pred cCChhHHHh
Q 029818 146 KDRPEWINK 154 (187)
Q Consensus 146 k~~Pew~k~ 154 (187)
--.+.-.+.
T Consensus 194 ~pt~nsykR 202 (259)
T PF00120_consen 194 APTVNSYKR 202 (259)
T ss_dssp STSTTHHHH
T ss_pred CccCcchhh
Confidence 334444443
No 45
>PRK09469 glnA glutamine synthetase; Provisional
Probab=28.60 E-value=3e+02 Score=25.96 Aligned_cols=58 Identities=14% Similarity=0.271 Sum_probs=38.1
Q ss_pred HHHHHHHhCceEEEeeeCC---CccccceeecCCCCcccccccCCcEEEeCCCcCCCccchhhHHHHHHH
Q 029818 69 VREILDKYGFKSVYAFSTG---VGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMIKPVTKILFGLT 135 (187)
Q Consensus 69 v~~Il~k~gLKalfAf~p~---~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~KPvtri~~gva 135 (187)
|+.|-++||+.+-|-=.|- .|-|.-+++ ||. .+|.-++.|+++ +-+..-.-..+.|++
T Consensus 243 vk~va~~~g~~atFmpKP~~~~~GsG~H~H~------Sl~--~~g~N~F~~~~~-~~ls~~~~~fiaGlL 303 (469)
T PRK09469 243 VHNVAHAFGKTATFMPKPMFGDNGSGMHCHM------SLS--KNGVNLFAGDKY-AGLSEQALYYIGGII 303 (469)
T ss_pred HHHHHHHhCCEEEEeccccCCCCCceeEEEE------eec--CCCccccCCCCc-CCcCHHHHHHHHHHH
Confidence 6788899999999986663 678888887 443 356666667554 334433334455543
No 46
>PF02814 UreE_N: UreE urease accessory protein, N-terminal domain; InterPro: IPR004029 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The N-terminal domain is termed the peptide-binding domain. Deletion of this domain does not eliminate enzymatic activity, and the truncated protein can still activate urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=28.57 E-value=94 Score=21.32 Aligned_cols=39 Identities=28% Similarity=0.433 Sum_probs=26.7
Q ss_pred HhCceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCC
Q 029818 75 KYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGE 118 (187)
Q Consensus 75 k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGE 118 (187)
.-..|+.+-+...+|+-+-|+.. |. . .-+||++++.|++
T Consensus 24 ~~r~k~r~r~~t~~G~ei~i~L~-r~-~---~L~~GDvL~~d~g 62 (65)
T PF02814_consen 24 DERQKRRLRLTTDDGREIGIDLP-RG-T---VLRDGDVLYLDDG 62 (65)
T ss_dssp GGCTSSEEEEE-TTS-EEEEE-S-ST-T---T--TTEEEEECTS
T ss_pred HHhcceEEEEECCCCCEEEEECC-CC-c---ccCCCCEEEeCCC
Confidence 45678888999999999988884 44 2 2689999999975
No 47
>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.
Probab=28.53 E-value=33 Score=31.40 Aligned_cols=54 Identities=26% Similarity=0.362 Sum_probs=30.4
Q ss_pred CcCCcccchhhHHHHHHHhCceEEEeeeCCCccccceeecCCCC-----cccccccCCcEEEeC-CC
Q 029818 58 SLVGWDQDQLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNG-----RSMLGYKDGSVVYMD-GE 118 (187)
Q Consensus 58 ~LgG~eqDqLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG-----~SlL~Y~dgsvI~lD-GE 118 (187)
|||.++++ |||.|-+++||. ..+...+. -|-|=|.+. ..-++.++|.++-+| |+
T Consensus 167 PLG~~~K~--eVR~iA~~~gl~---~a~k~eSq--~iCFi~~~~~~~fl~~~~~~~~G~ivd~~tG~ 226 (356)
T PF03054_consen 167 PLGELTKE--EVREIAREAGLP---VAEKKESQ--GICFIGDGDYREFLKRYLPEKPGPIVDIDTGK 226 (356)
T ss_dssp TCCCS-HH--HHHHHHHHCT-T---TTT-------SSTTTCCCHHHHHHCTTS----EEEEETT-S-
T ss_pred CCCCCCHH--HHHHHHHhcCCc---ccCccccc--eEEEecCCcHHHhhhhccccccCcccccccce
Confidence 89999977 699999999998 22222223 345555554 234566689999888 65
No 48
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=28.34 E-value=41 Score=33.60 Aligned_cols=38 Identities=34% Similarity=0.649 Sum_probs=30.2
Q ss_pred eeEeecCcCCcccchhh-----HHHHH-HHhCceEE-EeeeCCCc
Q 029818 52 IAVFKSSLVGWDQDQLD-----VREIL-DKYGFKSV-YAFSTGVG 89 (187)
Q Consensus 52 vavFKs~LgG~eqDqLe-----v~~Il-~k~gLKal-fAf~p~~g 89 (187)
||+=|..+.+|+||++| |...| +.+|+|-= +-|=|-+|
T Consensus 320 vaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSG 364 (603)
T KOG0458|consen 320 VAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISG 364 (603)
T ss_pred EEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEeccc
Confidence 78999999999999997 56777 89998743 46666644
No 49
>COG4683 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.20 E-value=23 Score=28.86 Aligned_cols=11 Identities=18% Similarity=0.525 Sum_probs=9.0
Q ss_pred ceEEEeeeCCC
Q 029818 78 FKSVYAFSTGV 88 (187)
Q Consensus 78 LKalfAf~p~~ 88 (187)
.+++|||||.+
T Consensus 68 iRilfAFDP~R 78 (120)
T COG4683 68 IRILFAFDPAR 78 (120)
T ss_pred EEEEEecChHh
Confidence 47899999974
No 50
>PF12158 DUF3592: Protein of unknown function (DUF3592); InterPro: IPR021994 This family of proteins is functionally uncharacterised.This family of proteins is found in bacteria, archaea, eukaryotes and viruses. Proteins in this family are typically between 150 and 242 amino acids in length.
Probab=28.16 E-value=1e+02 Score=22.63 Aligned_cols=13 Identities=31% Similarity=0.646 Sum_probs=9.9
Q ss_pred CccccceeecCCC
Q 029818 88 VGRGVPIRFNRRN 100 (187)
Q Consensus 88 ~gRGv~irfnPrn 100 (187)
.|-=|.++|||+|
T Consensus 94 ~G~~V~V~Y~P~~ 106 (148)
T PF12158_consen 94 IGDTVTVYYNPNN 106 (148)
T ss_pred CcCEEEEEECCcC
Confidence 5667888888887
No 51
>TIGR01708 typeII_sec_gspH general secretion pathway protein H. This model represents GspH, protein H of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=27.62 E-value=48 Score=25.12 Aligned_cols=24 Identities=13% Similarity=0.101 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHhcCChhHHH
Q 029818 130 ILFGLTVITLLITLLFKDRPEWIN 153 (187)
Q Consensus 130 i~~gva~vtlmi~~~~k~~Pew~k 153 (187)
+++.+++++++.+++++..+.|..
T Consensus 11 llvvlaIiail~~~~~~~~~~~~~ 34 (143)
T TIGR01708 11 LLVVLAIMGLVAAAAALSLVSHYG 34 (143)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhh
Confidence 678888889888888888776644
No 52
>TIGR00653 GlnA glutamine synthetase, type I. Alternate name: glutamate--ammonia ligase. This model represents the dodecameric form, which can be subdivided into 1-alpha and 1-beta forms. The phylogeny of the 1-alpha and 1-beta forms appears polyphyletic. E. coli, Synechocystis PCC6803, Aquifex aeolicus, and the crenarcheon Sulfolobus acidocaldarius have form 1-beta, while Bacillus subtilis, Thermotoga maritima, and various euryarchaea has form 1-alpha. The 1-beta dodecamer from the crenarcheon Sulfolobus acidocaldarius differs from that in E. coli in that it is not regulated by adenylylation.
Probab=26.72 E-value=3.1e+02 Score=25.75 Aligned_cols=60 Identities=17% Similarity=0.221 Sum_probs=39.9
Q ss_pred HHHHHHHhCceEEEeeeCC---CccccceeecCCCCcccccccCCcEEEeCCCcCCCccchhhHHHHHHHH
Q 029818 69 VREILDKYGFKSVYAFSTG---VGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMIKPVTKILFGLTV 136 (187)
Q Consensus 69 v~~Il~k~gLKalfAf~p~---~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~KPvtri~~gva~ 136 (187)
|+.|-++||+.+-|.=.|- .|-|.-+++ ||.. +|.-++.|++-.+.+..-....+.|++-
T Consensus 234 ik~vA~~~G~~ATFmpKP~~~~~GSG~H~H~------Sl~d--~g~n~F~d~~~~~~lS~~~~~fiaGiL~ 296 (460)
T TIGR00653 234 VKNVARKHGKTATFMPKPLFGDNGSGMHCHQ------SLWK--DGENLFAGEEGYAGLSETALYYIGGILK 296 (460)
T ss_pred HHHHHHHhCCEEEEecccCCCCCcCceeEEE------CccC--CCeeccCCCCCCcccCHHHHHHHHHHHH
Confidence 5778889999999987774 568888887 4543 4656667765434455444455555543
No 53
>PF13132 DUF3950: Domain of unknown function (DUF3950)
Probab=26.57 E-value=26 Score=22.64 Aligned_cols=9 Identities=44% Similarity=0.866 Sum_probs=8.2
Q ss_pred CCCCchhhh
Q 029818 159 GWNFPPWVI 167 (187)
Q Consensus 159 ~g~fpPWil 167 (187)
.+||++||+
T Consensus 14 ~~NFSaWV~ 22 (30)
T PF13132_consen 14 SGNFSAWVK 22 (30)
T ss_pred CcChHHHHH
Confidence 789999997
No 54
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=26.51 E-value=47 Score=23.35 Aligned_cols=28 Identities=18% Similarity=0.364 Sum_probs=20.0
Q ss_pred CCcccchhhHHHHHHHhCceEEEeeeCC
Q 029818 60 VGWDQDQLDVREILDKYGFKSVYAFSTG 87 (187)
Q Consensus 60 gG~eqDqLev~~Il~k~gLKalfAf~p~ 87 (187)
.|+......+-++|++||+++-|...+.
T Consensus 14 dg~~~~~~~~~~~l~~~~i~at~fv~~~ 41 (123)
T PF01522_consen 14 DGYRDNYDRLLPLLKKYGIPATFFVIGS 41 (123)
T ss_dssp SHCHTHHHHHHHHHHHTT--EEEEE-HH
T ss_pred cCchhhHHHHHHHHHhcccceeeeeccc
Confidence 3455566688899999999999988776
No 55
>PF11768 DUF3312: Protein of unknown function (DUF3312); InterPro: IPR024511 This is a eukaryotic family of uncharacterised proteins that contain WD40 repeats.
Probab=25.62 E-value=55 Score=32.29 Aligned_cols=31 Identities=26% Similarity=0.491 Sum_probs=27.9
Q ss_pred EecCCceeEeecCcCCcccchhhHHHHHHHh
Q 029818 46 RRGEGPIAVFKSSLVGWDQDQLDVREILDKY 76 (187)
Q Consensus 46 rrGkGPvavFKs~LgG~eqDqLev~~Il~k~ 76 (187)
+=-+||++|.+--+|=+.+-||..-+|+.+|
T Consensus 388 ~f~~GPl~vl~~~~G~~~~G~l~~~eL~~~y 418 (545)
T PF11768_consen 388 VFERGPLAVLRFKLGVFTRGDLGLVELISQY 418 (545)
T ss_pred EEcCCCeEEEEEeeccccCCcccHHHHHHHH
Confidence 4457899999999999999999999999987
No 56
>KOG4753 consensus Predicted membrane protein [Function unknown]
Probab=25.57 E-value=1.7e+02 Score=24.11 Aligned_cols=30 Identities=20% Similarity=0.267 Sum_probs=22.9
Q ss_pred CcEEEeCCCcCCCc-cchhhHHHHHHHHHHH
Q 029818 110 GSVVYMDGEPQDSM-IKPVTKILFGLTVITL 139 (187)
Q Consensus 110 gsvI~lDGEPKdS~-~KPvtri~~gva~vtl 139 (187)
++-+++|+.+|.|+ --|+-.|..+|.+..+
T Consensus 30 Dsd~~~~~~~~~s~tr~P~k~i~lavvL~~f 60 (124)
T KOG4753|consen 30 DSDIQIDYSYKVSNTRHPVKEIALAVVLLVF 60 (124)
T ss_pred cccceeecccccCCCCCchHHHHHHHHHHHH
Confidence 56789999999999 5678777766655443
No 57
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.46 E-value=78 Score=24.92 Aligned_cols=48 Identities=23% Similarity=0.352 Sum_probs=27.7
Q ss_pred hHHHHHHHhC-ceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCCcC
Q 029818 68 DVREILDKYG-FKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQ 120 (187)
Q Consensus 68 ev~~Il~k~g-LKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPK 120 (187)
.+.++|++|. +++||+.|-....|+-.... +.|++ .+=.++-.||.|.
T Consensus 175 ~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~-~~g~~----~~~~ivg~d~~~~ 223 (274)
T cd06311 175 VMQDLLTKFPKIDAVWAHDDDMAVGVLAAIK-QAGRT----DIKFVVGGAGSKD 223 (274)
T ss_pred HHHHHHHhCCCcCEEEECCCcHHHHHHHHHH-HcCCC----CCceEEEeCCCHH
Confidence 3556777664 78888887765555443333 34433 2344556677664
No 58
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=24.81 E-value=83 Score=25.96 Aligned_cols=32 Identities=13% Similarity=0.335 Sum_probs=25.0
Q ss_pred cCCceeEeecCcCCcccchhhHHHHHHHhCceEEE
Q 029818 48 GEGPIAVFKSSLVGWDQDQLDVREILDKYGFKSVY 82 (187)
Q Consensus 48 GkGPvavFKs~LgG~eqDqLev~~Il~k~gLKalf 82 (187)
|.-|...||.|.|-+.+ ++.++++++|++.++
T Consensus 126 G~~~~~~fR~P~G~~~~---~~~~~l~~~Gy~~v~ 157 (224)
T TIGR02884 126 GQKEMKYFRPPRGVFSE---RTLAYTKELGYYTVF 157 (224)
T ss_pred CCCCCCEEeCCCCCcCH---HHHHHHHHcCCcEEe
Confidence 44357789999887765 467899999999875
No 59
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=23.53 E-value=67 Score=23.00 Aligned_cols=58 Identities=14% Similarity=0.309 Sum_probs=43.3
Q ss_pred hhhHHHHHHHhCceEEEeeeCCCccccceeecCCCCcccccccCCcEEEeCCCcCCCccchh
Q 029818 66 QLDVREILDKYGFKSVYAFSTGVGRGVPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSMIKPV 127 (187)
Q Consensus 66 qLev~~Il~k~gLKalfAf~p~~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~~KPv 127 (187)
.||+..|-..+ -.+ -|+|+.--|+-+|.. ....+++=|+.|.++..-..-.+..-+-+
T Consensus 18 ~idL~~la~~~-~~~--~YePe~fpgl~~r~~-~p~~t~~IF~sGki~itGaks~~~~~~a~ 75 (86)
T PF00352_consen 18 EIDLEELAEEL-ENV--EYEPERFPGLIYRLR-NPKATVLIFSSGKIVITGAKSEEEAKKAI 75 (86)
T ss_dssp EB-HHHHHHHS-TTE--EEETTTESSEEEEET-TTTEEEEEETTSEEEEEEESSHHHHHHHH
T ss_pred ccCHHHHHhhc-cCc--EEeeccCCeEEEeec-CCcEEEEEEcCCEEEEEecCCHHHHHHHH
Confidence 68999998887 222 799998889999976 45899999999999988765544443333
No 60
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.05 E-value=61 Score=30.05 Aligned_cols=45 Identities=16% Similarity=0.290 Sum_probs=35.2
Q ss_pred CCCccchhhHHHHHHHHHHHHHHHHhcCChhHHHhccCCCCCCch
Q 029818 120 QDSMIKPVTKILFGLTVITLLITLLFKDRPEWINKLNVPGWNFPP 164 (187)
Q Consensus 120 KdS~~KPvtri~~gva~vtlmi~~~~k~~Pew~k~~~~~~g~fpP 164 (187)
+..++-|+-.+.++++++.+|..+++|...+=+.+++.-.-.+.-
T Consensus 160 ~~Al~YP~vll~v~~~v~~~Ll~~VvP~f~~if~~~~~~LP~lT~ 204 (397)
T COG1459 160 KSALIYPLVLLVVALVVVLFLLIFVVPQFAEIFESLGAELPALTQ 204 (397)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHhccHHHHHhhcCCCCcHHHH
Confidence 445677999999999999999999999988877776665554443
No 61
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=22.59 E-value=1.1e+02 Score=21.74 Aligned_cols=26 Identities=27% Similarity=0.350 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHhcCChhHHHhc
Q 029818 130 ILFGLTVITLLITLLFKDRPEWINKL 155 (187)
Q Consensus 130 i~~gva~vtlmi~~~~k~~Pew~k~~ 155 (187)
+++++++++++++++++.......+.
T Consensus 15 lLVvl~Iigil~~~~~p~~~~~~~~~ 40 (149)
T COG2165 15 LLVVLAIIGILAALALPSLQGSIDKA 40 (149)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 67888888999998888877666554
No 62
>PRK10506 hypothetical protein; Provisional
Probab=21.84 E-value=63 Score=25.69 Aligned_cols=28 Identities=14% Similarity=0.374 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHhcCChhHHHhcc
Q 029818 129 KILFGLTVITLLITLLFKDRPEWINKLN 156 (187)
Q Consensus 129 ri~~gva~vtlmi~~~~k~~Pew~k~~~ 156 (187)
-++++++++++|++++++....|+.+.+
T Consensus 15 Ellvvl~Ii~il~~~a~p~~~~~~~~~~ 42 (162)
T PRK10506 15 ELLVVMTIVSILSAWGLYGWQRWQQRQR 42 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888899999999988888776543
No 63
>PF04045 P34-Arc: Arp2/3 complex, 34 kD subunit p34-Arc; InterPro: IPR007188 Arp2/3 protein complex has been implicated in the control of actin polymerisation in cells. The human complex consists of seven subunits, which include the actin related Arp2 and Arp3, and five others referred to as p41-Arc, p34-Arc, p21-Arc, p20-Arc, and p16-Arc []. This family represents the p34-Arc subunit.; GO: 0030833 regulation of actin filament polymerization, 0005856 cytoskeleton; PDB: 2P9L_D 2P9I_D 2P9U_D 3DXM_D 2P9N_D 1TYQ_D 3DXK_D 1K8K_D 2P9S_D 1U2V_D ....
Probab=21.66 E-value=31 Score=30.34 Aligned_cols=19 Identities=16% Similarity=0.524 Sum_probs=13.8
Q ss_pred CCCcccccccCCcEEEeCC
Q 029818 99 RNGRSMLGYKDGSVVYMDG 117 (187)
Q Consensus 99 rnG~SlL~Y~dgsvI~lDG 117 (187)
...+-.|.||++..||+--
T Consensus 90 ~~~~~~i~YR~~E~iyi~~ 108 (241)
T PF04045_consen 90 GEKPAVIHYRDDETIYIKP 108 (241)
T ss_dssp TTT-EEEEECTTEEEEEEE
T ss_pred CCceEEEEeCCCceEEEEe
Confidence 3456788899999888863
No 64
>PF07075 DUF1343: Protein of unknown function (DUF1343); InterPro: IPR008302 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.55 E-value=1.2e+02 Score=28.21 Aligned_cols=47 Identities=26% Similarity=0.365 Sum_probs=33.0
Q ss_pred CCcccchhhHHHHHHHh-CceEEEeeeCCCc-cccce-------eecCCCCccccc
Q 029818 60 VGWDQDQLDVREILDKY-GFKSVYAFSTGVG-RGVPI-------RFNRRNGRSMLG 106 (187)
Q Consensus 60 gG~eqDqLev~~Il~k~-gLKalfAf~p~~g-RGv~i-------rfnPrnG~SlL~ 106 (187)
.|-++|--..-|+|.+. |.+-.--|.|+|| ||-.. ..||++|.-+.+
T Consensus 8 tgv~~~~~~~~d~L~~~~~v~l~alF~PEHG~~G~~~ag~~v~~~~D~~tglpVyS 63 (365)
T PF07075_consen 8 TGVDSDGRHTIDVLAAAPGVNLVALFGPEHGFRGDAQAGEKVEDYIDPRTGLPVYS 63 (365)
T ss_pred cccCCCCcCHHHHHhhCCCCCEEEEecCCCCCccchhcCCcCCCCcCCCCCCeEEE
Confidence 34455555566778877 8888888999988 77654 357777776555
No 65
>PF13619 KTSC: KTSC domain
Probab=21.54 E-value=64 Score=21.87 Aligned_cols=32 Identities=19% Similarity=0.319 Sum_probs=27.5
Q ss_pred cceeecCCCCcccccccCCcEEEeCCCcCCCc
Q 029818 92 VPIRFNRRNGRSMLGYKDGSVVYMDGEPQDSM 123 (187)
Q Consensus 92 v~irfnPrnG~SlL~Y~dgsvI~lDGEPKdS~ 123 (187)
-.+.|||.+..--+-|.+|++-.+.|=|+.-|
T Consensus 7 ~~v~Yd~~~~~L~V~F~~G~~Y~Y~~Vp~~~~ 38 (60)
T PF13619_consen 7 RSVGYDPETRTLEVEFKSGSVYRYFGVPPEVY 38 (60)
T ss_pred cEEeECCCCCEEEEEEcCCCEEEECCCCHHHH
Confidence 35789999999999999999999999887644
No 66
>COG2402 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=21.50 E-value=28 Score=28.01 Aligned_cols=44 Identities=14% Similarity=0.161 Sum_probs=34.6
Q ss_pred EEEecCCceeEeecCcCCccc---chhhHHH-----HHHHhCceEEEeeeCC
Q 029818 44 LYRRGEGPIAVFKSSLVGWDQ---DQLDVRE-----ILDKYGFKSVYAFSTG 87 (187)
Q Consensus 44 LyrrGkGPvavFKs~LgG~eq---DqLev~~-----Il~k~gLKalfAf~p~ 87 (187)
+|+=...+.++++..+....| .++|+-| +|+++|.+-|++||-.
T Consensus 72 ~~~~~~~t~~~~~~a~~~~k~~d~~~~df~Da~~~ala~k~g~~~ilSfD~d 123 (135)
T COG2402 72 LEIFESVTEELEEAAEAVFKRQDDLGLDFVDATSVALAEKLGILKILSFDSD 123 (135)
T ss_pred eEEEecccHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHcCCCcEEEeccc
Confidence 344456678888888887774 7888876 7899999999999975
No 67
>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease. Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.
Probab=21.36 E-value=62 Score=22.57 Aligned_cols=17 Identities=24% Similarity=0.253 Sum_probs=14.3
Q ss_pred CCccccc-ccCCcEEEeC
Q 029818 100 NGRSMLG-YKDGSVVYMD 116 (187)
Q Consensus 100 nG~SlL~-Y~dgsvI~lD 116 (187)
.|-||.| |++|++|.+|
T Consensus 4 ~g~SM~P~l~~GD~vlv~ 21 (90)
T TIGR02754 4 TGVSMSPTLPPGDRIIVV 21 (90)
T ss_pred eCCCccCccCCCCEEEEE
Confidence 4789997 7799999988
No 68
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=21.13 E-value=86 Score=24.15 Aligned_cols=26 Identities=23% Similarity=0.270 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHhcCChhHHHh
Q 029818 129 KILFGLTVITLLITLLFKDRPEWINK 154 (187)
Q Consensus 129 ri~~gva~vtlmi~~~~k~~Pew~k~ 154 (187)
-+++.+++++++++++++..-..+.+
T Consensus 7 EllivlaIigil~~i~~p~~~~~~~~ 32 (134)
T TIGR01710 7 EIMVVLVILGLLAALVAPKLFSQADK 32 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777888888888777765554443
No 69
>TIGR03105 gln_synth_III glutamine synthetase, type III. This family consists of the type III isozyme of glutamine synthetase, originally described in Rhizobium meliloti, where types I and II also occur.
Probab=20.92 E-value=5.2e+02 Score=24.10 Aligned_cols=61 Identities=21% Similarity=0.380 Sum_probs=39.4
Q ss_pred HHHHHHHhCceEEEeeeCC---CccccceeecCCCCcccccccCCcEEEeCCC-cC-CCccchhhHHHHHHHH
Q 029818 69 VREILDKYGFKSVYAFSTG---VGRGVPIRFNRRNGRSMLGYKDGSVVYMDGE-PQ-DSMIKPVTKILFGLTV 136 (187)
Q Consensus 69 v~~Il~k~gLKalfAf~p~---~gRGv~irfnPrnG~SlL~Y~dgsvI~lDGE-PK-dS~~KPvtri~~gva~ 136 (187)
|+.|-++||+.+-|.=.|- .|-|.-++++- .. ++|.-++.|++ |. ..+.+-....+.|++-
T Consensus 209 vk~vA~~~Gl~atFmpKP~~~~~GsG~H~H~Sl------~d-~~g~n~f~d~~~~~~~~lS~~~~~fiaGlL~ 274 (435)
T TIGR03105 209 VKEIAEKHGMRATFMPKPFADLTGNGCHFHLSL------WD-EDGRNLFADDSDPNGLGLSKLAYHFIGGILH 274 (435)
T ss_pred HHHHHHHhCCEEEecCccCCCCCccceEEEEee------ec-CCCcccccCCCCCccccccHHHHHHHHHHHH
Confidence 5778889999999987775 56888888753 21 35656666753 42 2355544556666543
No 70
>PRK01253 preprotein translocase subunit SecG; Reviewed
Probab=20.62 E-value=65 Score=22.59 Aligned_cols=36 Identities=28% Similarity=0.483 Sum_probs=28.2
Q ss_pred cCCcEEEeCCCcCCCccchhhHHHHHHHHHHHHHHH
Q 029818 108 KDGSVVYMDGEPQDSMIKPVTKILFGLTVITLLITL 143 (187)
Q Consensus 108 ~dgsvI~lDGEPKdS~~KPvtri~~gva~vtlmi~~ 143 (187)
+.|-+=|+|-|-..-=+.|.+.++++++++.+++++
T Consensus 13 sAGL~ryy~ed~~~iKi~P~~Vi~~~~~~~~~v~~L 48 (54)
T PRK01253 13 SAGLIRYFEEETEAIKIDPKTVIAIGLALGIFVLVL 48 (54)
T ss_pred cchhhhhhhcccCccccCCeeeeeeHHHHHHHHHHH
Confidence 456667778766666689999999999998887754
No 71
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=20.52 E-value=69 Score=28.10 Aligned_cols=27 Identities=37% Similarity=0.687 Sum_probs=21.2
Q ss_pred hhhHHHHHHHhCceEEEeeeCC-Ccccccee
Q 029818 66 QLDVREILDKYGFKSVYAFSTG-VGRGVPIR 95 (187)
Q Consensus 66 qLev~~Il~k~gLKalfAf~p~-~gRGv~ir 95 (187)
-++|+++|++.||++ |=-+ +|+|+.|.
T Consensus 120 A~~vr~~L~~lgL~~---f~KTSG~kGlHV~ 147 (227)
T cd04861 120 ALLLRELLDELGLES---FPKTSGGKGLHVY 147 (227)
T ss_pred HHHHHHHHHHcCCcc---ceEccCCCeEEEE
Confidence 367899999999996 5555 55999874
No 72
>cd02987 Phd_like_Phd Phosducin (Phd)-like family, Phd subfamily; Phd is a cytosolic regulator of G protein functions. It specifically binds G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane. This impedes the formation of a functional G protein trimer (G protein alphabetagamma), thereby inhibiting G protein-mediated signal transduction. Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=20.34 E-value=1.3e+02 Score=24.21 Aligned_cols=39 Identities=33% Similarity=0.574 Sum_probs=30.6
Q ss_pred cCCeEEEEEEEecCCceeEee--cCcCCcccchhhHHHHHHHhC
Q 029818 36 KVPEVEIHLYRRGEGPIAVFK--SSLVGWDQDQLDVREILDKYG 77 (187)
Q Consensus 36 ~~peVEV~LyrrGkGPvavFK--s~LgG~eqDqLev~~Il~k~g 77 (187)
.+| .+-+|+.|+ .++-+- +.++|.+=+--+|+..|.+||
T Consensus 135 ~vP--Tlllyk~G~-~v~~~vG~~~~~g~~f~~~~le~~L~~~g 175 (175)
T cd02987 135 ALP--ALLVYKGGE-LIGNFVRVTEDLGEDFDAEDLESFLVEYG 175 (175)
T ss_pred CCC--EEEEEECCE-EEEEEechHHhcCCCCCHHHHHHHHHhcC
Confidence 467 678999997 676554 556777888889999999987
Done!