Query 029138
Match_columns 198
No_of_seqs 154 out of 632
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 08:06:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029138.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029138hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00635 Motile_Sperm: MSP (Ma 99.9 2.2E-23 4.8E-28 156.2 11.8 103 77-185 2-108 (109)
2 KOG0439 VAMP-associated protei 99.9 5.3E-23 1.2E-27 172.9 13.5 115 71-190 3-120 (218)
3 COG5066 SCS2 VAMP-associated p 99.9 2.8E-22 6E-27 170.4 11.0 101 77-184 3-106 (242)
4 PF14874 PapD-like: Flagellar- 98.6 1.2E-06 2.6E-11 65.0 10.8 67 76-143 3-72 (102)
5 PF00345 PapD_N: Pili and flag 96.6 0.035 7.6E-07 42.4 10.3 62 77-142 2-72 (122)
6 PRK09918 putative fimbrial cha 94.6 0.7 1.5E-05 39.8 11.6 70 75-148 24-98 (230)
7 PF14646 MYCBPAP: MYCBP-associ 94.1 0.33 7.1E-06 45.3 9.0 68 77-144 231-311 (426)
8 PF07610 DUF1573: Protein of u 92.3 0.66 1.4E-05 30.1 5.9 43 99-142 2-45 (45)
9 PRK09926 putative chaperone pr 92.2 1.3 2.8E-05 38.6 9.2 67 74-144 24-100 (246)
10 PF11614 FixG_C: IG-like fold 90.8 0.88 1.9E-05 34.6 6.1 67 77-143 13-83 (118)
11 PRK15249 fimbrial chaperone pr 90.5 2.2 4.9E-05 37.3 9.1 65 75-143 28-103 (253)
12 PRK15295 fimbrial assembly cha 90.1 2.8 6E-05 36.2 9.3 63 75-143 19-90 (226)
13 PRK15299 fimbrial chaperone pr 89.1 3.8 8.1E-05 35.3 9.3 65 75-143 22-94 (227)
14 PRK15211 fimbrial chaperone pr 88.5 4.2 9E-05 35.3 9.2 65 75-143 22-92 (229)
15 PRK15192 fimbrial chaperone Bc 87.8 4.2 9.1E-05 35.5 8.8 63 75-143 22-98 (234)
16 PRK11385 putativi pili assembl 87.8 4.3 9.3E-05 35.4 8.9 65 75-143 26-102 (236)
17 PRK15208 long polar fimbrial c 87.3 5.3 0.00012 34.4 9.1 65 75-143 21-91 (228)
18 PRK15246 fimbrial assembly cha 86.6 6.2 0.00013 34.3 9.2 64 76-143 11-84 (233)
19 COG3121 FimC P pilus assembly 85.1 17 0.00036 31.5 11.1 66 75-144 27-99 (235)
20 PF06280 DUF1034: Fn3-like dom 83.5 3.8 8.3E-05 30.9 5.7 52 92-143 7-79 (112)
21 PRK15290 lfpB fimbrial chapero 83.0 11 0.00025 32.9 9.2 65 75-143 37-109 (243)
22 PRK15195 fimbrial chaperone pr 82.6 11 0.00024 32.6 8.9 63 75-143 25-95 (229)
23 PRK15254 fimbrial chaperone pr 82.4 30 0.00064 30.3 11.6 65 75-143 16-86 (239)
24 PF10633 NPCBM_assoc: NPCBM-as 79.7 3.5 7.5E-05 29.1 4.1 53 91-143 3-59 (78)
25 TIGR03079 CH4_NH3mon_ox_B meth 78.3 6.5 0.00014 36.9 6.3 53 91-143 280-353 (399)
26 PRK15224 pili assembly chapero 78.3 19 0.00042 31.4 9.1 63 75-143 28-97 (237)
27 PF00927 Transglut_C: Transglu 77.1 10 0.00022 28.2 6.1 53 91-143 13-75 (107)
28 smart00809 Alpha_adaptinC2 Ada 75.1 18 0.00039 26.3 7.0 52 92-143 17-72 (104)
29 PRK15308 putative fimbrial pro 72.1 60 0.0013 28.4 10.5 87 74-174 15-119 (234)
30 PRK15274 putative periplasmic 71.9 37 0.00081 30.0 9.3 67 73-143 24-97 (257)
31 PRK15233 putative fimbrial cha 71.7 40 0.00087 29.7 9.4 63 75-143 40-109 (246)
32 PF05506 DUF756: Domain of unk 67.6 23 0.00051 25.6 6.0 44 96-142 21-65 (89)
33 PF13473 Cupredoxin_1: Cupredo 67.0 28 0.0006 25.7 6.4 60 76-150 29-88 (104)
34 PF12690 BsuPI: Intracellular 66.9 26 0.00057 25.5 6.2 49 95-143 2-69 (82)
35 PF11611 DUF4352: Domain of un 65.9 43 0.00094 24.7 7.4 53 91-143 34-100 (123)
36 PRK15188 fimbrial chaperone pr 63.2 1E+02 0.0022 26.8 11.0 65 75-143 27-97 (228)
37 PF02883 Alpha_adaptinC2: Adap 62.6 21 0.00046 26.6 5.2 53 91-143 22-78 (115)
38 PRK15285 putative fimbrial cha 60.6 89 0.0019 27.5 9.4 64 76-143 26-96 (250)
39 PF03173 CHB_HEX: Putative car 58.5 10 0.00023 31.4 3.0 51 83-143 51-103 (164)
40 PF02753 PapD_C: Pili assembly 58.0 10 0.00022 25.9 2.5 43 99-142 1-45 (68)
41 PF04744 Monooxygenase_B: Mono 55.0 68 0.0015 30.2 8.0 67 74-143 246-334 (381)
42 PRK15218 fimbrial chaperone pr 54.8 1.4E+02 0.0031 25.8 11.6 63 75-143 18-92 (226)
43 PF00553 CBM_2: Cellulose bind 52.3 28 0.00062 25.8 4.3 49 95-143 15-83 (101)
44 PF06030 DUF916: Bacterial pro 49.5 47 0.001 25.9 5.3 60 84-143 18-102 (121)
45 smart00637 CBD_II CBD_II domai 47.0 85 0.0018 22.6 6.0 24 119-142 50-75 (92)
46 PF05753 TRAP_beta: Translocon 46.6 1.3E+02 0.0028 25.2 7.8 52 91-143 36-96 (181)
47 PF07705 CARDB: CARDB; InterP 44.5 1E+02 0.0023 21.4 6.1 53 91-143 17-70 (101)
48 PRK15253 putative fimbrial ass 43.1 2.3E+02 0.0049 24.8 11.6 64 74-143 32-107 (242)
49 TIGR02745 ccoG_rdxA_fixG cytoc 39.6 3.4E+02 0.0074 25.8 12.1 69 75-143 326-398 (434)
50 PF07233 DUF1425: Protein of u 39.0 1.6E+02 0.0034 21.7 6.7 51 92-142 23-80 (94)
51 PF14796 AP3B1_C: Clathrin-ada 35.1 2.5E+02 0.0054 22.9 8.5 57 85-142 73-138 (145)
52 PTZ00128 cytochrome c oxidase 34.9 2E+02 0.0043 25.4 7.3 81 91-174 136-225 (232)
53 PF13205 Big_5: Bacterial Ig-l 34.4 1.7E+02 0.0037 20.8 6.4 56 84-142 26-84 (107)
54 PRK15249 fimbrial chaperone pr 31.8 1.1E+02 0.0024 26.8 5.3 42 98-140 177-219 (253)
55 PRK06655 flgD flagellar basal 30.7 2.4E+02 0.0052 24.4 7.2 83 61-143 91-179 (225)
56 TIGR02656 cyanin_plasto plasto 29.7 2E+02 0.0044 21.0 5.8 61 74-141 9-75 (99)
57 PF09640 DUF2027: Domain of un 29.4 1.5E+02 0.0033 24.8 5.4 68 96-175 19-86 (162)
58 PRK15295 fimbrial assembly cha 28.7 1.5E+02 0.0033 25.4 5.6 39 98-140 158-197 (226)
59 TIGR03096 nitroso_cyanin nitro 28.7 2.4E+02 0.0053 22.7 6.4 69 113-195 48-121 (135)
60 PF04442 CtaG_Cox11: Cytochrom 27.6 3.5E+02 0.0075 22.2 9.2 55 91-145 65-128 (152)
61 COG3565 Predicted dioxygenase 27.0 1.2E+02 0.0025 24.5 4.2 43 66-112 85-127 (138)
62 PF06483 ChiC: Chitinase C; I 26.8 74 0.0016 27.0 3.2 26 107-143 116-141 (180)
63 PF08277 PAN_3: PAN-like domai 26.4 96 0.0021 20.9 3.3 33 78-113 39-71 (71)
64 smart00605 CW CW domain. 23.8 1.9E+02 0.0042 20.8 4.7 33 82-118 46-79 (94)
65 KOG3620 Uncharacterized conser 22.3 2.4E+02 0.0052 31.0 6.5 68 75-143 525-597 (1626)
66 PRK15246 fimbrial assembly cha 21.6 2.2E+02 0.0048 24.6 5.3 39 98-140 154-192 (233)
67 COG3121 FimC P pilus assembly 21.6 2.4E+02 0.0052 24.3 5.5 42 97-140 165-208 (235)
68 PRK09926 putative chaperone pr 21.4 2.8E+02 0.0061 24.0 6.0 54 84-140 161-216 (246)
69 PRK15192 fimbrial chaperone Bc 20.4 2.5E+02 0.0055 24.4 5.4 39 98-140 163-202 (234)
70 COG3354 FlaG Putative archaeal 20.3 3E+02 0.0065 22.8 5.4 67 73-142 50-128 (154)
No 1
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=99.90 E-value=2.2e-23 Score=156.23 Aligned_cols=103 Identities=30% Similarity=0.432 Sum_probs=81.7
Q ss_pred EEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCcCCCCCC
Q 029138 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156 (198)
Q Consensus 77 L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~e~~p~~ 156 (198)
|.|+|.+.|.|+++.++..++.|+|+|+++.+||||||||+|.+|+|+|+.|+|+||+++.|.|+++ |..... .
T Consensus 2 l~v~P~~~i~F~~~~~~~~~~~l~l~N~s~~~i~fKiktt~~~~y~v~P~~G~i~p~~~~~i~I~~~---~~~~~~--~- 75 (109)
T PF00635_consen 2 LSVEPSELIFFNAPFNKQQSCELTLTNPSDKPIAFKIKTTNPNRYRVKPSYGIIEPGESVEITITFQ---PFDFEP--S- 75 (109)
T ss_dssp CEEESSSEEEEESSTSS-EEEEEEEEE-SSSEEEEEEEES-TTTEEEESSEEEE-TTEEEEEEEEE----SSSTTT--T-
T ss_pred eEEeCCcceEEcCCCCceEEEEEEEECCCCCcEEEEEEcCCCceEEecCCCEEECCCCEEEEEEEEE---ecccCC--C-
Confidence 7899999999999999999999999999999999999999999999999999999999999999996 433221 1
Q ss_pred CCCCCeEEEEEEEeCCCCCc----hhhhhhccC
Q 029138 157 QKSKDKFKIMSLKVKGGIDY----VPELVSHIG 185 (198)
Q Consensus 157 ~~~kDKFlVqs~~v~~~~d~----~~elfk~~k 185 (198)
...+|||+|+++.++++... ...+|++++
T Consensus 76 ~~~~dkf~I~~~~~~~~~~~~~~~~~~~~~~~~ 108 (109)
T PF00635_consen 76 NKKKDKFLIQSIVVPDNATDPKKDFKQIWKNGK 108 (109)
T ss_dssp STSSEEEEEEEEEE-TT-SSSHHHHHCCHHHSS
T ss_pred CCCCCEEEEEEEEcCCCccchhhhHHHHHhccC
Confidence 22399999999999877633 455666543
No 2
>KOG0439 consensus VAMP-associated protein involved in inositol metabolism [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.90 E-value=5.3e-23 Score=172.86 Aligned_cols=115 Identities=37% Similarity=0.550 Sum_probs=101.1
Q ss_pred CCCCCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCc
Q 029138 71 LPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENN 150 (198)
Q Consensus 71 ~p~~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~ 150 (198)
+..+.+|.++|.++|+|..+..+++.+.|+|+|+++.+||||||||+|++|+|||+.|+|.||+++.|.|.++ |. .
T Consensus 3 ~~~~~~l~i~P~~~l~F~~~~~~~~~~~l~l~N~t~~~vaFKvktT~p~~y~VrP~~G~i~p~~t~~i~v~~q---~~-~ 78 (218)
T KOG0439|consen 3 LETESLLEIEPSDELVFPLPLNEQVKCSLTLKNPTKLRVAFKVKTTAPKLYCVRPNGGVIDPGSTVEIEVTHQ---PF-E 78 (218)
T ss_pred ccccCccccCCCceEEeccCCCceEEEEEEEecCCCCceEEEEEcCCCCeEEEcCCcceECCCCcEEEEEEec---cC-c
Confidence 3467899999988999999999999999999999999999999999999999999999999999999999987 42 2
Q ss_pred CCCCCCCCCCCeEEEEEEEeCCC-CCchhhhhhccC--CcEEE
Q 029138 151 ERQPLDQKSKDKFKIMSLKVKGG-IDYVPELVSHIG--PFAKY 190 (198)
Q Consensus 151 e~~p~~~~~kDKFlVqs~~v~~~-~d~~~elfk~~k--~~v~~ 190 (198)
+. |.+.+++|||+||++.++.+ .+.+.++|+.++ +.+..
T Consensus 79 ~~-P~d~~~r~kF~v~~~~~~~~~~~~~~~~~~~~k~~~~~~~ 120 (218)
T KOG0439|consen 79 KS-PPDFKSRHKFLIQSLKAPPPTTRDVVDLWKFQKETPKESF 120 (218)
T ss_pred cC-chhhcccceEEEEEEecCCccccchhhhcccccccccccc
Confidence 22 67788999999999999986 566799999887 44433
No 3
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=99.88 E-value=2.8e-22 Score=170.35 Aligned_cols=101 Identities=26% Similarity=0.386 Sum_probs=90.5
Q ss_pred EEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCcCCCCCC
Q 029138 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156 (198)
Q Consensus 77 L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~e~~p~~ 156 (198)
|.++| ++.|..|+..+.++.+.|.|++.++|+||||||+|+.|+||||.|+|+|++++.|.|+|+ ++..|. .++
T Consensus 3 veisp--~~~fy~Plt~~ske~~sv~NnspepvgfKVKTTaPK~YcVRPN~g~Iep~stv~VeVilq---~l~eEp-apd 76 (242)
T COG5066 3 VEISP--QTTFYVPLTNKSKEMFSVQNNSPEPVGFKVKTTAPKDYCVRPNMGLIEPMSTVEVEVILQ---GLTEEP-APD 76 (242)
T ss_pred eEecC--ceEEecccccccceeeEeecCCCCceeEEeeccCCcceeEcCCCceeccCCeeEEEEEee---ccccCC-CCC
Confidence 67788 688888999999999999999999999999999999999999999999999999999997 555554 788
Q ss_pred CCCCCeEEEEEEEeCCCC---Cchhhhhhcc
Q 029138 157 QKSKDKFKIMSLKVKGGI---DYVPELVSHI 184 (198)
Q Consensus 157 ~~~kDKFlVqs~~v~~~~---d~~~elfk~~ 184 (198)
.+|+||||||++..+.+. || +++|+.-
T Consensus 77 fKCrdKFLiqs~~~~~~l~g~d~-ad~wt~~ 106 (242)
T COG5066 77 FKCRDKFLIQSYRFDWRLSGSDF-ADHWTSS 106 (242)
T ss_pred ccccceeEEEEeccChhhccchH-HHHHHhh
Confidence 999999999999998764 55 9999864
No 4
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=98.55 E-value=1.2e-06 Score=65.02 Aligned_cols=67 Identities=30% Similarity=0.418 Sum_probs=59.6
Q ss_pred cEEEcCCCceEeeC-CCCCeeEEEEEEECCCCCeEEEEEeeCC--CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 76 RLRLDPSNNLYFPY-EPGKQTRSAVRLKNTSKSHVAFKFQTTA--PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 76 ~L~v~P~~~L~F~~-~~~k~v~s~LtL~N~S~~~VAFKVKTTa--P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
.|.++|. +|.|-. ..|......|+|+|.+..++.|+|+.-. ...|.|.|..|+|+||+++.+.|.+.
T Consensus 3 ~l~v~P~-~ldFG~v~~g~~~~~~v~l~N~s~~p~~f~v~~~~~~~~~~~v~~~~g~l~PG~~~~~~V~~~ 72 (102)
T PF14874_consen 3 TLEVSPK-ELDFGNVFVGQTYSRTVTLTNTSSIPARFRVRQPESLSSFFSVEPPSGFLAPGESVELEVTFS 72 (102)
T ss_pred EEEEeCC-EEEeeEEccCCEEEEEEEEEECCCCCEEEEEEeCCcCCCCEEEECCCCEECCCCEEEEEEEEE
Confidence 5899996 999976 4678888999999999999999997643 57899999999999999999999996
No 5
>PF00345 PapD_N: Pili and flagellar-assembly chaperone, PapD N-terminal domain; InterPro: IPR016147 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the N-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of seven strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2CO6_B 2CO7_B 1L4I_B 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 3DSN_D 2OS7_B ....
Probab=96.61 E-value=0.035 Score=42.44 Aligned_cols=62 Identities=19% Similarity=0.367 Sum_probs=51.5
Q ss_pred EEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC---C------CcEEecCCceeeCCCCeEEEEEEe
Q 029138 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA---P------KSCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 77 L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa---P------~~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
|.|+|. .+.|+. .+....++|+|.++.++.+.+.... . +-+.|-|+.-.|+||++..|.|..
T Consensus 2 i~i~~t-rii~~~---~~~~~~i~v~N~~~~~~~vq~~v~~~~~~~~~~~~~~~~vsPp~~~L~pg~~q~vRv~~ 72 (122)
T PF00345_consen 2 IQISPT-RIIFNE---SQRSASITVTNNSDQPYLVQVWVYDQDDEDEDEPTDPFIVSPPIFRLEPGESQTVRVYR 72 (122)
T ss_dssp EEESSS-EEEEET---TSSEEEEEEEESSSSEEEEEEEEEETTSTTSSSSSSSEEEESSEEEEETTEEEEEEEEE
T ss_pred EEEccE-EEEEeC---CCCEEEEEEEcCCCCcEEEEEEEEcCCCcccccccccEEEeCCceEeCCCCcEEEEEEe
Confidence 678886 888884 2235799999999999999987653 1 269999999999999999999944
No 6
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=94.62 E-value=0.7 Score=39.83 Aligned_cols=70 Identities=16% Similarity=0.177 Sum_probs=52.2
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCC-----CcEEecCCceeeCCCCeEEEEEEeeecCCC
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAP-----KSCYMRPPGGVLAPGDSIIATVFKFVEAPE 148 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP-----~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~ 148 (198)
--|.+.|. .+.|.. ++....|+|+|.++.++.-....... .-|.|.|+.-.|+||+...|.|.+....|.
T Consensus 24 a~v~l~~t-Rvi~~~---~~~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~fivtPPl~rl~pg~~q~vRii~~~~lp~ 98 (230)
T PRK09918 24 AGMVPETS-VVIVEE---SDGEGSINVKNTDSNPILLYTTLVDLPEDKSKLLLVTPPVARVEPGQSQQVRFILKSGSPL 98 (230)
T ss_pred eeEEEccE-EEEEEC---CCCeEEEEEEcCCCCcEEEEEEEecCCCCCCCCEEEcCCeEEECCCCceEEEEEECCCCCC
Confidence 35788886 888874 23347999999999876666544221 359999999999999999999988633343
No 7
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=94.07 E-value=0.33 Score=45.28 Aligned_cols=68 Identities=19% Similarity=0.358 Sum_probs=56.5
Q ss_pred EEEcCCCceEeeCCCCCeeEEEEE-EECCCCCeEEEEEeeCC------------CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 77 LRLDPSNNLYFPYEPGKQTRSAVR-LKNTSKSHVAFKFQTTA------------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 77 L~v~P~~~L~F~~~~~k~v~s~Lt-L~N~S~~~VAFKVKTTa------------P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
..+.+.-.|.|...++..+...|. |.|.+..-|-|..+--. ...|......|+|.||++..|.|+.+
T Consensus 231 ~~~~~~~~l~Fe~~p~e~~~~~v~~l~N~Gt~~I~y~W~~~~~~~~~~~~~~~~~~~F~Fd~~~gvilPGe~~~~~~~F~ 310 (426)
T PF14646_consen 231 PEVSISIRLTFECHPGERVSKEVVRLENNGTTAIYYSWRRVPFFKNFGSLFRAQDQRFYFDTSSGVILPGETRNFPFMFK 310 (426)
T ss_pred CccCcceEEEEEcccCceeeEEEEEEecCCceEEEEEEEecccccccchhccccCCeEEEeCCCCEECCCceEEEEEEEe
Confidence 445555689999998887777777 99999999999976432 35699999999999999999999997
Q ss_pred e
Q 029138 144 V 144 (198)
Q Consensus 144 ~ 144 (198)
.
T Consensus 311 s 311 (426)
T PF14646_consen 311 S 311 (426)
T ss_pred C
Confidence 3
No 8
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=92.32 E-value=0.66 Score=30.08 Aligned_cols=43 Identities=23% Similarity=0.182 Sum_probs=34.7
Q ss_pred EEEECCCCCeE-EEEEeeCCCCcEEecCCceeeCCCCeEEEEEEe
Q 029138 99 VRLKNTSKSHV-AFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 99 LtL~N~S~~~V-AFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
++|+|+++.++ ..+|+++. +-..+......|.||++..|.|++
T Consensus 2 F~~~N~g~~~L~I~~v~tsC-gCt~~~~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 2 FEFTNTGDSPLVITDVQTSC-GCTTAEYSKKPIAPGESGKIKVTY 45 (45)
T ss_pred EEEEECCCCcEEEEEeeEcc-CCEEeeCCcceECCCCEEEEEEEC
Confidence 57999999854 56677654 677888888999999999999863
No 9
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=92.16 E-value=1.3 Score=38.64 Aligned_cols=67 Identities=12% Similarity=0.165 Sum_probs=51.9
Q ss_pred CCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCC----------cEEecCCceeeCCCCeEEEEEEee
Q 029138 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPK----------SCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 74 ~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~----------~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
.--|.++|. .+.|+. ++-...|+|.|.++.++.-..-....+ -|.|.|+.-.|+||+...|.|...
T Consensus 24 ~A~i~l~~T-RvI~~~---~~~~~sv~l~N~~~~p~LvQ~Wvd~~~~~~~p~~~~~pfivtPPl~rl~p~~~q~lRIi~~ 99 (246)
T PRK09926 24 IADIVISGT-RIIYKS---DQKDVNVRLENKGNNPLLVQSWLDTGDDNAEPGSIKVPFTATPPVSRIDPKRGQTIKLMYT 99 (246)
T ss_pred eeeEEeCce-EEEEeC---CCceEEEEEEeCCCCcEEEEEEecCCCCccCccccCCCEEEcCCeEEECCCCccEEEEEeC
Confidence 356889996 899984 223479999999998776665443211 399999999999999999999986
Q ss_pred e
Q 029138 144 V 144 (198)
Q Consensus 144 ~ 144 (198)
.
T Consensus 100 ~ 100 (246)
T PRK09926 100 A 100 (246)
T ss_pred C
Confidence 3
No 10
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=90.78 E-value=0.88 Score=34.63 Aligned_cols=67 Identities=13% Similarity=0.288 Sum_probs=38.8
Q ss_pred EEEcCCCceEee-CCCCC-eeEEEEEEECCCCCeEEEEEeeCCCCcEEe-cCCce-eeCCCCeEEEEEEee
Q 029138 77 LRLDPSNNLYFP-YEPGK-QTRSAVRLKNTSKSHVAFKFQTTAPKSCYM-RPPGG-VLAPGDSIIATVFKF 143 (198)
Q Consensus 77 L~v~P~~~L~F~-~~~~k-~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~V-rP~~G-iL~Pgesi~I~Vtl~ 143 (198)
|.|-+..-..|. .+.|. +=...|+|.|.+.++..|.|+...+..+.+ .|... -|.||+...+.|.+.
T Consensus 13 ~~V~rdr~~ly~~~~dg~I~N~Y~lkl~Nkt~~~~~~~i~~~g~~~~~l~~~~~~i~v~~g~~~~~~v~v~ 83 (118)
T PF11614_consen 13 LNVLRDRGPLYRELSDGSIRNQYTLKLTNKTNQPRTYTISVEGLPGAELQGPENTITVPPGETREVPVFVT 83 (118)
T ss_dssp EEEEE-SS---------SEEEEEEEEEEE-SSS-EEEEEEEES-SS-EE-ES--EEEE-TT-EEEEEEEEE
T ss_pred EEEEecCCCcEEEcCCCeEEEEEEEEEEECCCCCEEEEEEEecCCCeEEECCCcceEECCCCEEEEEEEEE
Confidence 344443333333 33443 223799999999999999999988888888 66555 499999999999886
No 11
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=90.49 E-value=2.2 Score=37.35 Aligned_cols=65 Identities=17% Similarity=0.194 Sum_probs=49.0
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------C-----CcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P-----KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa------P-----~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.|+|. .+.|+.. +....|+|.|.++.++.-..-+.. | .-|.|.|+.--|+||+...|.|...
T Consensus 28 A~l~l~~T-Rviy~~~---~~~~sl~l~N~~~~p~LvQsWv~~~~~~~~p~~~~~~pFivtPPlfrl~p~~~q~lRI~~~ 103 (253)
T PRK15249 28 ASVTILGS-RIIYPST---ASSVDVQLKNNDAIPYIVQTWFDDGDMNTSPENSSAMPFIATPPVFRIQPKAGQVVRVIYN 103 (253)
T ss_pred eEEEeCce-EEEEeCC---CcceeEEEEcCCCCcEEEEEEEeCCCCCCCccccccCcEEEcCCeEEecCCCceEEEEEEc
Confidence 45889986 8888742 234799999999887555543221 1 1399999999999999999999885
No 12
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=90.14 E-value=2.8 Score=36.17 Aligned_cols=63 Identities=16% Similarity=0.224 Sum_probs=47.9
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CC-------CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TA-------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT--Ta-------P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+.. +....|+|.|.++.++. |++ .. ..-|.|.|+.=.|+||+...|.|...
T Consensus 19 A~i~l~~T-RvI~~~~---~~~~si~i~N~~~~p~L--vQsWv~~~~~~~~~~~pFivtPPl~rl~p~~~q~lRI~~~ 90 (226)
T PRK15295 19 ASIVVGGT-RLVFDGN---NDESSINVENKDSKANL--VQSWLSVVDPQVTNKQAFIITPPLFRLDAGQKNSIRVIRS 90 (226)
T ss_pred ccEEeCce-EEEEeCC---CceeEEEEEeCCCCcEE--EEEEEeCCCCCCCCCCCEEEcCCeEEECCCCceEEEEEEC
Confidence 34788885 8888752 23479999999988644 443 11 12499999999999999999999885
No 13
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=89.06 E-value=3.8 Score=35.25 Aligned_cols=65 Identities=9% Similarity=0.192 Sum_probs=48.8
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC--------CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA--------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa--------P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.++|. .+.|+.. +-...|+|.|.++.++.-..-... ..-|.|.|+.-.|+||+...|.|...
T Consensus 22 a~i~l~~T-Rvi~~~~---~~~~sl~l~N~~~~p~lvQsWv~~~~~~~~~~~~pfivtPPl~rl~p~~~q~lRI~~~ 94 (227)
T PRK15299 22 AGINIGTT-RVIFHGD---AKDASISISNSDNVPYLIQSWAQSISETGASGDAPFMVTPPLFRLNGGQKNVLRIIRT 94 (227)
T ss_pred eeEEECce-EEEEeCC---CcEEEEEEEeCCCCcEEEEEEeecCCCCCCcCCCCEEEcCCeEEECCCCccEEEEEEC
Confidence 45888886 8888743 234799999998876554432211 12399999999999999999999885
No 14
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=88.49 E-value=4.2 Score=35.30 Aligned_cols=65 Identities=11% Similarity=0.107 Sum_probs=48.4
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa------P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+.. .-...|+|+|.++.++.-...... ..-|.|.|+.-.|+||+...|.|...
T Consensus 22 A~v~l~~T-RvIy~~~---~~~~si~i~N~~~~p~LvQswv~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI~~~ 92 (229)
T PRK15211 22 AAFVLNGT-RFIYDEG---RKNISFEVTNQADQTYGGQVWIDNTTQGSSTVYMVPAPPFFKVRPKEKQIIRIMKT 92 (229)
T ss_pred EEEEECce-EEEEcCC---CceEEEEEEeCCCCcEEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 34788885 8888742 234799999999887444332211 12499999999999999999999986
No 15
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=87.85 E-value=4.2 Score=35.45 Aligned_cols=63 Identities=13% Similarity=0.123 Sum_probs=47.8
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeC----------C----CCcEEecCCceeeCCCCeEEEEE
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT----------A----PKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTT----------a----P~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
--|.++.. .+.|+. ++-...|+|.|.++.+ |=|++. . ..-|.|.|+.-.|+||+...+.|
T Consensus 22 Agi~l~~T-RvIy~~---~~k~~sv~l~N~~~~p--~LvQswv~~~~~w~~~~~~~~~~PFivtPPlfrl~p~~~~~lRI 95 (234)
T PRK15192 22 AGVVIGGT-RFIYHA---GAPALSVPVSNHSEAS--WLIDTHILPGGRWPGTKNEGNITPFVVTPPLFMLSARQENSMRV 95 (234)
T ss_pred eeEEeCce-EEEEcC---CCceEEEEEEeCCCCc--EEEEEEeccCccccccCCccccCCEEEcCCeEEECCCCceEEEE
Confidence 34777875 888875 2234799999999886 555552 1 11399999999999999999999
Q ss_pred Eee
Q 029138 141 FKF 143 (198)
Q Consensus 141 tl~ 143 (198)
...
T Consensus 96 ~~~ 98 (234)
T PRK15192 96 VYT 98 (234)
T ss_pred EEC
Confidence 886
No 16
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=87.81 E-value=4.3 Score=35.37 Aligned_cols=65 Identities=18% Similarity=0.292 Sum_probs=48.4
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeC------------CCCcEEecCCceeeCCCCeEEEEEEe
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT------------APKSCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTT------------aP~~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
--|.+++. .+.|+. ++....|+|.|.++.+..=..... ...-|.|.|+.=-|+||+...+.|.+
T Consensus 26 A~v~l~~T-RvIy~~---~~~~~sv~l~N~~~~p~LvQswv~~~~~~~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~ 101 (236)
T PRK11385 26 AGVVVGGT-RFIFPA---DRESISILLTNTSQESWLINSKINRPTRWAGGEASTVPAPLLAAPPLILLKPGTTGTLRLLR 101 (236)
T ss_pred eeEEeCce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEcccCccccCcccccccCCEEEcCCeEEECCCCceEEEEEE
Confidence 45788885 888884 223479999999998644333211 11249999999999999999999988
Q ss_pred e
Q 029138 143 F 143 (198)
Q Consensus 143 ~ 143 (198)
.
T Consensus 102 ~ 102 (236)
T PRK11385 102 T 102 (236)
T ss_pred C
Confidence 6
No 17
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=87.25 E-value=5.3 Score=34.38 Aligned_cols=65 Identities=14% Similarity=0.264 Sum_probs=46.7
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEE-EEeeCCC----CcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAF-KFQTTAP----KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAF-KVKTTaP----~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.++|. .+.|+.. +-...|+|+|.+++ ++.. ..-.... .-|.|.|+.-.|+||+...|.|...
T Consensus 21 agv~l~~T-RvI~~~~---~~~~si~i~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPl~rl~p~~~q~lRIi~~ 91 (228)
T PRK15208 21 GGVALSST-RVIYDGS---KKEASLTVNNKSKTEEFLIQSWIDDANGNKKTPFIITPPLFKLDPTKNNVLRIVNI 91 (228)
T ss_pred ccEEeCce-EEEEeCC---CceEEEEEEeCCCCCcEEEEEEEECCCCCccCCEEECCCeEEECCCCccEEEEEEC
Confidence 35888886 8888852 23479999999864 3332 2211111 1399999999999999999999875
No 18
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=86.62 E-value=6.2 Score=34.28 Aligned_cols=64 Identities=17% Similarity=0.294 Sum_probs=47.5
Q ss_pred cEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------C----CcEEecCCceeeCCCCeEEEEEEee
Q 029138 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P----KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 76 ~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa------P----~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
-|.|++. .+.|+. ++....|+|.|.++.++.=..-... | .-|.|.|+.=.|+||+...|.|.+.
T Consensus 11 ~v~l~~T-RvI~~~---~~~~~sv~l~N~~~~p~LvQsWvd~~~~~~~p~~~~~pFivtPPlfrl~~~~~~~lRI~~~ 84 (233)
T PRK15246 11 AVNIDRT-RIIFAS---DDVAQSLTLSNDNTTPMLLQVWTDAGNIDASPDNSKTPLVALPPVFKMQPGELRTLRLLLS 84 (233)
T ss_pred EEEECce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEEeCCCCccCcccccCcEEECCcceEECCCCceEEEEEEC
Confidence 4778885 888884 2234799999999886443332111 1 1499999999999999999999985
No 19
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.11 E-value=17 Score=31.52 Aligned_cols=66 Identities=14% Similarity=0.198 Sum_probs=52.2
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC-------CCcEEecCCceeeCCCCeEEEEEEeee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA-------PKSCYMRPPGGVLAPGDSIIATVFKFV 144 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTa-------P~~Y~VrP~~GiL~Pgesi~I~Vtl~~ 144 (198)
--+.+++. .+.|+.+ +....|+|.|..+.++.-.+..-. ..-|.|.|+.=.|+||+...|.|.+..
T Consensus 27 A~v~i~~T-RiI~~~~---~k~~sl~l~N~~~~p~LvQ~wvd~~~~~~~~~~pfvvtPPv~rl~p~~~q~vRi~~~~ 99 (235)
T COG3121 27 AGVVLGGT-RIIYPAG---DKETSLTLRNDGNQPYLVQSWVDDGLEPEKSTVPFVVTPPVFRLEPGQEQQLRILYTG 99 (235)
T ss_pred eeEEecce-EEEEeCC---CceeEEEEEcCCCCCEEEEEEEcCCCCCccccCCEEecCCeEEECCCCccEEEEEecC
Confidence 35777875 7888743 234799999988889998866542 345999999999999999999999973
No 20
>PF06280 DUF1034: Fn3-like domain (DUF1034); InterPro: IPR010435 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain of unknown function is present in bacterial and plant peptidases belonging to MEROPS peptidase family S8 (subfamily S8A subtilisin, clan SB). It is C-terminal to and adjacent to the S8 peptidase domain and can be found in conjunction with the PA (Protease associated) domain (IPR003137 from INTERPRO) and additionally in Gram-positive bacteria with the surface protein anchor domain (IPR001899 from INTERPRO).; GO: 0004252 serine-type endopeptidase activity, 0005618 cell wall, 0016020 membrane; PDB: 3EIF_A 1XF1_B.
Probab=83.46 E-value=3.8 Score=30.86 Aligned_cols=52 Identities=17% Similarity=0.225 Sum_probs=33.3
Q ss_pred CCeeEEEEEEECCCCCeEEEEEeeC-----C---CCcEEe-c------------CCceeeCCCCeEEEEEEee
Q 029138 92 GKQTRSAVRLKNTSKSHVAFKFQTT-----A---PKSCYM-R------------PPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 92 ~k~v~s~LtL~N~S~~~VAFKVKTT-----a---P~~Y~V-r------------P~~GiL~Pgesi~I~Vtl~ 143 (198)
+...+..|+|+|.+++.+.|++.-. . .+.|.. . |..=.|.||++..|.|++.
T Consensus 7 ~~~~~~~itl~N~~~~~~ty~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~vTV~ag~s~~v~vti~ 79 (112)
T PF06280_consen 7 GNKFSFTITLHNYGDKPVTYTLSHVPVLTDKTDTEEGYSILVPPVPSISTVSFSPDTVTVPAGQSKTVTVTIT 79 (112)
T ss_dssp -SEEEEEEEEEE-SSS-EEEEEEEE-EEEEEE--ETTEEEEEEEE----EEE---EEEEE-TTEEEEEEEEEE
T ss_pred CCceEEEEEEEECCCCCEEEEEeeEEEEeeEeeccCCcccccccccceeeEEeCCCeEEECCCCEEEEEEEEE
Confidence 3446789999999999999998654 0 122221 1 2222689999999999997
No 21
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=83.00 E-value=11 Score=32.93 Aligned_cols=65 Identities=6% Similarity=0.122 Sum_probs=48.7
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCC-CeEEEEEeeCC---C----CcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSK-SHVAFKFQTTA---P----KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~-~~VAFKVKTTa---P----~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+. ++-...|+|+|.++ .+..-..-... . .-|.|.|+.-.|+||+...|.|...
T Consensus 37 Agv~l~~T-RvIy~~---~~~~~sl~v~N~~~~~p~LvQsWvd~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~~ 109 (243)
T PRK15290 37 AGVVIGGT-RVVYLS---NNPDKSISVFSKEEKIPYLIQAWVDPFNKEDKSKAPFTVIPPVSRLEPSQEKVLRIIHT 109 (243)
T ss_pred EeEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcccCCEEEcCCeEEECCCCceEEEEEEc
Confidence 44888885 888884 22346999999986 46655554331 1 1399999999999999999999986
No 22
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=82.59 E-value=11 Score=32.56 Aligned_cols=63 Identities=14% Similarity=0.287 Sum_probs=46.8
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEee---CC----CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT---TA----PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAFKVKT---Ta----P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+... -...|+|.|.+++ +.. |++ .. ..-|.|.|+.=-|+||+...|.|...
T Consensus 25 Agi~i~~T-RvIy~~~~---~~~si~l~N~~~~~~~L--vQsWv~~~~~~~~~pfivtPPlfrl~p~~~q~lRIi~~ 95 (229)
T PRK15195 25 GGIALGAT-RVIYPADA---KQTSLAIRNSHTNERYL--VNSWIENSSGVKEKSFIVTPPLFVSEPKSENTLRIIYA 95 (229)
T ss_pred eeEEECCe-EEEEeCCC---ceEEEEEEeCCCCccEE--EEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 45888886 88888432 2379999999865 333 432 11 12499999999999999999999886
No 23
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=82.37 E-value=30 Score=30.26 Aligned_cols=65 Identities=17% Similarity=0.201 Sum_probs=47.1
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEeeC-CC----CcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTT-AP----KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAFKVKTT-aP----~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+. ++....|+|.|.+++ ++.=..-.. .. .-|.|.|+.-.|+||+...|.|...
T Consensus 16 A~v~l~~T-RvIy~~---~~~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pFivtPPlfrl~p~~~~~lRI~~~ 86 (239)
T PRK15254 16 AAVNVDRT-RIIMDA---PQKTVAITLNNDDKTTPFLAQSWVTDADGVRTDALMALPPLQRIDAGQKSQVRITQV 86 (239)
T ss_pred EeEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCEEEcCCeEEECCCCceEEEEEEc
Confidence 35778885 888884 223479999999864 554433221 11 2499999999999999999999874
No 24
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=79.70 E-value=3.5 Score=29.11 Aligned_cols=53 Identities=21% Similarity=0.389 Sum_probs=32.6
Q ss_pred CCCeeEEEEEEECCCCCeE-EEEEeeCCCCcEE--ecCCc-eeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSHV-AFKFQTTAPKSCY--MRPPG-GVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~V-AFKVKTTaP~~Y~--VrP~~-GiL~Pgesi~I~Vtl~ 143 (198)
.|+...-.++++|....++ ..++.-..|+-+. ..|.. +-|.||++..+.+.+.
T Consensus 3 ~G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~~V~ 59 (78)
T PF10633_consen 3 PGETVTVTLTVTNTGTAPLTNVSLSLSLPEGWTVSASPASVPSLPPGESVTVTFTVT 59 (78)
T ss_dssp TTEEEEEEEEEE--SSS-BSS-EEEEE--TTSE---EEEEE--B-TTSEEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCceeeEEEEEeCCCCccccCCccccccCCCCCEEEEEEEEE
Confidence 5777888999999987542 2445445688777 55554 3799999999999987
No 25
>TIGR03079 CH4_NH3mon_ox_B methane monooxygenase/ammonia monooxygenase, subunit B. Both ammonia oxidizers such as Nitrosomonas europaea and methanotrophs (obligate methane oxidizers) such as Methylococcus capsulatus each can grow only on their own characteristic substrate. However, both groups have the ability to oxidize both substrates, and so the relevant enzymes must be named here according to their ability to oxidze both. The protein family represented here reflects subunit B of both the particulate methane monooxygenase of methylotrophs and the ammonia monooxygenase of nitrifying bacteria.
Probab=78.33 E-value=6.5 Score=36.92 Aligned_cols=53 Identities=21% Similarity=0.304 Sum_probs=40.1
Q ss_pred CCCeeEEEEEEECCCCCeEEEEEeeCCC-------CcEEecCCce--------------eeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSHVAFKFQTTAP-------KSCYMRPPGG--------------VLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VAFKVKTTaP-------~~Y~VrP~~G--------------iL~Pgesi~I~Vtl~ 143 (198)
+|+..+-.++++|.++++|-.+==+|+. +.|...|... =|+|||+.+|.|..+
T Consensus 280 PGR~l~~~~~VTN~g~~~vrlgEF~TA~vRFlN~~~v~~~~~~yP~~lla~GL~v~d~~pI~PGETr~v~v~aq 353 (399)
T TIGR03079 280 PGRALRVTMEITNNGDQVISIGEFTTAGIRFMNANGVRVLDPDYPRELLAEGLEVDDQSAIAPGETVEVKMEAK 353 (399)
T ss_pred CCcEEEEEEEEEcCCCCceEEEeEeecceEeeCcccccccCCCChHHHhhccceeCCCCCcCCCcceEEEEEEe
Confidence 6899999999999999999877444443 3344444332 289999999999997
No 26
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=78.33 E-value=19 Score=31.42 Aligned_cols=63 Identities=13% Similarity=0.191 Sum_probs=46.8
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee---CC----CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT---TA----PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT---Ta----P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.++- ..+.|+. ++-...|+|.|.++.+ |-|++ .. ..-|.|.|+.=.|+|++...|.|.+.
T Consensus 28 agv~l~~-TRvIy~~---~~k~~sl~v~N~~~~p--yLvQsWvd~~~~~~~~pFivtPPlfRlep~~~~~lRI~~~ 97 (237)
T PRK15224 28 FSVKLGA-TRVIYHA---GTAGATLSVSNPQNYP--ILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRIVRT 97 (237)
T ss_pred EEEEeCc-eEEEEeC---CCcEEEEEEEcCCCCc--EEEEEEEeCCCCCccCCEEECCCeEEECCCCceEEEEEEC
Confidence 3466665 4788874 2234699999998876 66665 11 12399999999999999999999985
No 27
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=77.11 E-value=10 Score=28.16 Aligned_cols=53 Identities=21% Similarity=0.181 Sum_probs=39.5
Q ss_pred CCCeeEEEEEEECCCCCe--------EEEEEeeCCCC--cEEecCCceeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSH--------VAFKFQTTAPK--SCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~--------VAFKVKTTaP~--~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
.|+.....++++|+++.+ .++-|--|.-- ....+-..+-|.||++..+.+.+.
T Consensus 13 vG~d~~v~v~~~N~~~~~l~~v~~~l~~~~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i~ 75 (107)
T PF00927_consen 13 VGQDFTVSVSFTNPSSEPLRNVSLNLCAFTVEYTGLTRDQFKKEKFEVTLKPGETKSVEVTIT 75 (107)
T ss_dssp TTSEEEEEEEEEE-SSS-EECEEEEEEEEEEECTTTEEEEEEEEEEEEEE-TTEEEEEEEEE-
T ss_pred CCCCEEEEEEEEeCCcCccccceeEEEEEEEEECCcccccEeEEEcceeeCCCCEEEEEEEEE
Confidence 588999999999999987 56666655432 256778889999999999999985
No 28
>smart00809 Alpha_adaptinC2 Adaptin C-terminal domain. Adaptins are components of the adaptor complexes which link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. Gamma-adaptin is a subunit of the golgi adaptor. Alpha adaptin is a heterotetramer that regulates clathrin-bud formation. The carboxyl-terminal appendage of the alpha subunit regulates translocation of endocytic accessory proteins to the bud site. This Ig-fold domain is found in alpha, beta and gamma adaptins and consists of a beta-sandwich containing 7 strands in 2 beta-sheets in a greek-key topology PUBMED:10430869, PUBMED:12176391. The adaptor appendage contains an additional N-terminal strand.
Probab=75.09 E-value=18 Score=26.34 Aligned_cols=52 Identities=31% Similarity=0.484 Sum_probs=39.9
Q ss_pred CCeeEEEEEEECCCCCeEE-EEEeeCCCCcEEec--CCce-eeCCCCeEEEEEEee
Q 029138 92 GKQTRSAVRLKNTSKSHVA-FKFQTTAPKSCYMR--PPGG-VLAPGDSIIATVFKF 143 (198)
Q Consensus 92 ~k~v~s~LtL~N~S~~~VA-FKVKTTaP~~Y~Vr--P~~G-iL~Pgesi~I~Vtl~ 143 (198)
+.+..-.+...|.+..+|- |.++-..|+.+.++ |..| .|+||+.+.-.+.+.
T Consensus 17 ~~~~~i~~~~~N~s~~~it~f~~~~avpk~~~l~l~~~s~~~l~p~~~i~q~~~i~ 72 (104)
T smart00809 17 PGLIRITLTFTNKSPSPITNFSFQAAVPKSLKLQLQPPSSPTLPPGGQITQVLKVE 72 (104)
T ss_pred CCeEEEEEEEEeCCCCeeeeEEEEEEcccceEEEEcCCCCCccCCCCCEEEEEEEE
Confidence 3467789999999988776 88887778777665 6654 899999877777664
No 29
>PRK15308 putative fimbrial protein TcfA; Provisional
Probab=72.06 E-value=60 Score=28.40 Aligned_cols=87 Identities=13% Similarity=0.182 Sum_probs=60.8
Q ss_pred CCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee---CCC---------------CcEEecCCceeeCCCCe
Q 029138 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT---TAP---------------KSCYMRPPGGVLAPGDS 135 (198)
Q Consensus 74 ~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT---TaP---------------~~Y~VrP~~GiL~Pges 135 (198)
.--|.|.|- .+.+.. +.+....++|.|.++++..++|+. ++| .--.+-|+.-+|.||++
T Consensus 15 aa~l~V~Pi-~~~i~a--~~~~~~~v~V~N~g~~~~~vqV~v~r~~~PG~~~e~~~~~~~~~~~eLiaSP~~l~L~pg~~ 91 (234)
T PRK15308 15 RANMLVYPM-AAEIGA--GREEATSLFVYSKSDHTQYVRTRIKRIEHPATPQEKEVPAGNDIETGLVVSPEKFALPAGTT 91 (234)
T ss_pred hceEEEEEe-EEEecC--CCcceEEEEEEeCCCCcEEEEEEEEEEcCCCCCCCcccccccCCCCcEEEcCceeEECCCCe
Confidence 345788886 666653 334457999999999988887753 332 13778899999999999
Q ss_pred EEEEEEeeecCCCCcCCCCCCCCCCCeEEEEEEEeCCCC
Q 029138 136 IIATVFKFVEAPENNERQPLDQKSKDKFKIMSLKVKGGI 174 (198)
Q Consensus 136 i~I~Vtl~~e~P~~~e~~p~~~~~kDKFlVqs~~v~~~~ 174 (198)
..|.|..... | ....-|.|...+++...
T Consensus 92 q~IRli~lg~-~----------~kE~~YRl~~~pvp~~~ 119 (234)
T PRK15308 92 RTVRVISLQA-P----------EREEAWRVYFEPVAELE 119 (234)
T ss_pred EEEEEEEcCC-C----------CcEEEEEEEEEecCCcc
Confidence 9999987521 1 12345666666666543
No 30
>PRK15274 putative periplasmic fimbrial chaperone protein SteC; Provisional
Probab=71.91 E-value=37 Score=30.04 Aligned_cols=67 Identities=15% Similarity=0.106 Sum_probs=47.1
Q ss_pred CCCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEeeCCC------CcEEecCCceeeCCCCeEEEEEEee
Q 029138 73 PRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTTAP------KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 73 ~~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAFKVKTTaP------~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
..--|.++- ..+.|+. ++-...|+|.|.++. ++.-..-.... .-|.|.|+.-.|+||+...|.|...
T Consensus 24 a~Agi~l~~-TRvIy~e---~~~~~sv~v~N~~~~~p~LVQsWvdd~~~~~~~~pFivtPPLfRlep~~~q~lRI~~~ 97 (257)
T PRK15274 24 SHSAIVPDR-TRVIFNG---NENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQPL 97 (257)
T ss_pred heeeEEeCc-eEEEEeC---CCceEEEEEEeCCCCCcEEEEEEccCCCCCcccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 345577775 4888874 223469999999866 54433321111 1499999999999999999999875
No 31
>PRK15233 putative fimbrial chaperone protein SefB; Provisional
Probab=71.68 E-value=40 Score=29.71 Aligned_cols=63 Identities=14% Similarity=0.149 Sum_probs=45.5
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--C-C----CCcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--T-A----PKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT--T-a----P~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.++-. .+.|+... ....|+|.|.++.+ |-|++ . . ..-|.|.|+.=.|+||+...|.|.+.
T Consensus 40 Agi~l~~T-RvIy~~~~---~~~sl~i~N~~~~p--~LvQsWvd~~~~~~~~pFiVtPPLfRLep~~~~~lRIi~~ 109 (246)
T PRK15233 40 YGLRLGTT-RVIYKEDA---PSTSFWIMNEKEYP--ILVQTQVYNDDKSSKAPFIVTPPILKVESNARTRLKVIPT 109 (246)
T ss_pred eeEEeCce-EEEEeCCC---cEEEEEEEcCCCCc--EEEEEEEecCCCCccCCEEECCCeEEECCCCceEEEEEEC
Confidence 34666653 77776322 34799999987776 55554 1 1 12499999999999999999999985
No 32
>PF05506 DUF756: Domain of unknown function (DUF756); InterPro: IPR008475 This domain is found, normally as a tandem repeat, at the C terminus of bacterial phospholipase C proteins.; GO: 0004629 phospholipase C activity, 0016042 lipid catabolic process
Probab=67.63 E-value=23 Score=25.58 Aligned_cols=44 Identities=20% Similarity=0.127 Sum_probs=32.0
Q ss_pred EEEEEEECCCCCeEEEEEeeCCCCcEE-ecCCceeeCCCCeEEEEEEe
Q 029138 96 RSAVRLKNTSKSHVAFKFQTTAPKSCY-MRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 96 ~s~LtL~N~S~~~VAFKVKTTaP~~Y~-VrP~~GiL~Pgesi~I~Vtl 142 (198)
.-.|+|.|.....+.|.|...+ |. -.|-.=.|.||+++.+.+-+
T Consensus 21 ~l~l~l~N~g~~~~~~~v~~~~---y~~~~~~~~~v~ag~~~~~~w~l 65 (89)
T PF05506_consen 21 NLRLTLSNPGSAAVTFTVYDNA---YGGGGPWTYTVAAGQTVSLTWPL 65 (89)
T ss_pred EEEEEEEeCCCCcEEEEEEeCC---cCCCCCEEEEECCCCEEEEEEee
Confidence 3589999999999999998732 22 33444456778888877766
No 33
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=66.97 E-value=28 Score=25.69 Aligned_cols=60 Identities=18% Similarity=0.324 Sum_probs=37.4
Q ss_pred cEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCc
Q 029138 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENN 150 (198)
Q Consensus 76 ~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~ 150 (198)
....+|+ +|..+ .|+.+ .|+++|.....-.|.+..- . -...|.||++..++++-. .|+.+
T Consensus 29 ~~~f~P~-~i~v~--~G~~v--~l~~~N~~~~~h~~~i~~~-----~---~~~~l~~g~~~~~~f~~~--~~G~y 88 (104)
T PF13473_consen 29 DFGFSPS-TITVK--AGQPV--TLTFTNNDSRPHEFVIPDL-----G---ISKVLPPGETATVTFTPL--KPGEY 88 (104)
T ss_dssp -EEEES--EEEEE--TTCEE--EEEEEE-SSS-EEEEEGGG-----T---EEEEE-TT-EEEEEEEE---S-EEE
T ss_pred CCeEecC-EEEEc--CCCeE--EEEEEECCCCcEEEEECCC-----c---eEEEECCCCEEEEEEcCC--CCEEE
Confidence 3588896 88777 57766 5999999988877877651 1 126799999999998654 34433
No 34
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=66.90 E-value=26 Score=25.50 Aligned_cols=49 Identities=16% Similarity=0.199 Sum_probs=25.7
Q ss_pred eEEEEEEECCCCCeEEEEEeeCCCCcEEec-------------------CCceeeCCCCeEEEEEEee
Q 029138 95 TRSAVRLKNTSKSHVAFKFQTTAPKSCYMR-------------------PPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 95 v~s~LtL~N~S~~~VAFKVKTTaP~~Y~Vr-------------------P~~GiL~Pgesi~I~Vtl~ 143 (198)
+.-.|+|+|.+++.|-+.+-+-.-=-|.|+ -..=.|+||++....++..
T Consensus 2 v~~~l~v~N~s~~~v~l~f~sgq~~D~~v~d~~g~~vwrwS~~~~FtQal~~~~l~pGe~~~~~~~~~ 69 (82)
T PF12690_consen 2 VEFTLTVTNNSDEPVTLQFPSGQRYDFVVKDKEGKEVWRWSDGKMFTQALQEETLEPGESLTYEETWD 69 (82)
T ss_dssp EEEEEEEEE-SSS-EEEEESSS--EEEEEE-TT--EEEETTTT-------EEEEE-TT-EEEEEEEES
T ss_pred EEEEEEEEeCCCCeEEEEeCCCCEEEEEEECCCCCEEEEecCCchhhheeeEEEECCCCEEEEEEEEC
Confidence 345677777777777666544322222333 2334688888888888874
No 35
>PF11611 DUF4352: Domain of unknown function (DUF4352); InterPro: IPR021652 This entry is represented by Bacteriophage A118, Gp32. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a group of putative lipoproteins of unknown function.; PDB: 3CFU_A.
Probab=65.89 E-value=43 Score=24.68 Aligned_cols=53 Identities=17% Similarity=0.168 Sum_probs=33.0
Q ss_pred CCCeeEEEEEEECCCCCeEE-----EEEeeCCCCcEEecC---------CceeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSHVA-----FKFQTTAPKSCYMRP---------PGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VA-----FKVKTTaP~~Y~VrP---------~~GiL~Pgesi~I~Vtl~ 143 (198)
.++-+.-.++|+|.+++++. |++.+..-..|.... ..+-|.||+++...|...
T Consensus 34 g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~l~F~ 100 (123)
T PF11611_consen 34 GNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGKLVFE 100 (123)
T ss_dssp -SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEEEEEE
T ss_pred CCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEEEEEE
Confidence 34556779999999998776 678766656655333 458999999999999886
No 36
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=63.17 E-value=1e+02 Score=26.76 Aligned_cols=65 Identities=15% Similarity=0.249 Sum_probs=47.0
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEee-C-CC---CcEEecCCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT-T-AP---KSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAFKVKT-T-aP---~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
--|.+++. .+.|+.. .-...|+|+|.+++ +..-..-. . .. .-|.|.|+.-.|+||+...+.|...
T Consensus 27 Agi~l~~T-RvIy~~~---~~~~sv~i~N~~~~~p~LvQsWv~~~~~~~~~pFivtPPlfrl~~~~~~~lRI~~~ 97 (228)
T PRK15188 27 GGIALGAT-RVIYPQG---SKQTSLPIINSSASNVFLIQSWVANADGSRSTDFIITPPLFVIQPKKENILRIMYV 97 (228)
T ss_pred ceEEECcE-EEEEcCC---CceEEEEEEeCCCCccEEEEEEEecCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 45888885 8888852 23479999999865 33322211 1 11 2499999999999999999999885
No 37
>PF02883 Alpha_adaptinC2: Adaptin C-terminal domain; InterPro: IPR008152 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. AP (adaptor protein) complexes are found in coated vesicles and clathrin-coated pits. AP complexes connect cargo proteins and lipids to clathrin at vesicle budding sites, as well as binding accessory proteins that regulate coat assembly and disassembly (such as AP180, epsins and auxilin). There are different AP complexes in mammals. AP1 is responsible for the transport of lysosomal hydrolases between the TGN and endosomes []. AP2 associates with the plasma membrane and is responsible for endocytosis []. AP3 is responsible for protein trafficking to lysosomes and other related organelles []. AP4 is less well characterised. AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). For example, in AP1 these subunits are gamma-1-adaptin, beta-1-adaptin, mu-1 and sigma-1, while in AP2 they are alpha-adaptin, beta-2-adaptin, mu-2 and sigma-2. Each subunit has a specific function. Adaptins recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal ear (appendage) domains. Mu recognises tyrosine-based sorting signals within the cytoplasmic domains of transmembrane cargo proteins []. One function of clathrin and AP2 complex-mediated endocytosis is to regulate the number of GABA(A) receptors available at the cell surface []. GGAs (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) are a family of monomeric clathrin adaptor proteins that are conserved from yeasts to humans. GGAs regulate clathrin-mediated the transport of proteins (such as mannose 6-phosphate receptors) from the TGN to endosomes and lysosomes through interactions with TGN-sorting receptors, sometimes in conjunction with AP-1 [, ]. GGAs bind cargo, membranes, clathrin and accessory factors. GGA1, GGA2 and GGA3 all contain a domain homologous to the ear domain of gamma-adaptin. GGAs are composed of a single polypeptide with four domains: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The VHS domain is responsible for endocytosis and signal transduction, recognising transmembrane cargo through the ACLL sequence in the cytoplasmic domains of sorting receptors []. The GAT domain (also found in Tom1 proteins) interacts with ARF (ADP-ribosylation factor) to regulate membrane trafficking [], and with ubiquitin for receptor sorting []. The hinge region contains a clathrin box for recognition and binding to clathrin, similar to that found in AP adaptins. The GAE domain is similar to the AP gamma-adaptin ear domain, and is responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. This entry represents a beta-sandwich structural motif found in the appendage (ear) domain of alpha-, beta- and gamma-adaptin from AP clathrin adaptor complexes, and the GAE (gamma-adaptin ear) domain of GGA adaptor proteins. These domains have an immunoglobulin-like beta-sandwich fold containing 7 or 8 strands in 2 beta-sheets in a Greek key topology [, ]. Although these domains share a similar fold, there is little sequence identity between the alpha/beta-adaptins and gamma-adaptin/GAE. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030131 clathrin adaptor complex; PDB: 3MNM_B 3ZY7_B 1GYU_A 1GYW_B 2A7B_A 1GYV_A 2E9G_A 1E42_B 2G30_A 2IV9_B ....
Probab=62.65 E-value=21 Score=26.56 Aligned_cols=53 Identities=28% Similarity=0.491 Sum_probs=35.9
Q ss_pred CCCeeEEEEEEECCCCCeEE-EEEeeCCCCc--EEecCC-ceeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSHVA-FKFQTTAPKS--CYMRPP-GGVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VA-FKVKTTaP~~--Y~VrP~-~GiL~Pgesi~I~Vtl~ 143 (198)
.+...+-.++..|.+..++- |.++-..|+. ..+.|. ...|+|+..+.-.+.+.
T Consensus 22 ~~~~~~i~~~f~N~s~~~it~f~~q~avpk~~~l~l~~~s~~~i~p~~~i~Q~~~v~ 78 (115)
T PF02883_consen 22 NPNQGRIKLTFGNKSSQPITNFSFQAAVPKSFKLQLQPPSSSTIPPGQQITQVIKVE 78 (115)
T ss_dssp ETTEEEEEEEEEE-SSS-BEEEEEEEEEBTTSEEEEEESS-SSB-TTTEEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCcceEEEEEEeccccEEEEeCCCCCeeCCCCeEEEEEEEE
Confidence 46677889999999888666 6666655554 555566 45999999987666664
No 38
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=60.58 E-value=89 Score=27.49 Aligned_cols=64 Identities=16% Similarity=0.120 Sum_probs=44.0
Q ss_pred cEEEcCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEee--CCCC----cEEecCCceeeCCCCeEEEEEEee
Q 029138 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT--TAPK----SCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 76 ~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~-~VAFKVKT--TaP~----~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
-|.++- ..+.|+. ..-...|+|+|.++. ++.-..-. ...+ -|.|.|+.-.|+||+...|.|...
T Consensus 26 gv~l~~-TRVIy~~---~~~~~sv~i~N~~~~~p~LvQsWvd~~~~~~~~~pFiVtPPlfRl~p~~~~~lRI~~~ 96 (250)
T PRK15285 26 AIAPDR-TRLVFRG---EDKSISVDLKNANSKLPYLAQSWVEDEKGVKITSPLIVVPPVQRIEPSAIGQVKIQGM 96 (250)
T ss_pred eEEeCc-cEEEEcC---CCceEEEEEEeCCCCCcEEEEEEeeCCCCCcccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 455665 3788874 223369999999865 53333211 1111 399999999999999999999875
No 39
>PF03173 CHB_HEX: Putative carbohydrate binding domain; InterPro: IPR004866 This domain represents the N-terminal domain in chitobiases and beta-hexosaminidases 3.2.1.52 from EC. Chitobiases degrade chitin, which forms the exoskeleton in insects and crustaceans, and which is one of the most abundant polysaccharides on earth []. Beta-hexosaminidases are composed of either a HexA/HexB heterodimer or a HexB homodimer, and can hydrolyse diverse substrates, including GM(2)-gangliosides; mutations in this enzyme are associated with Tay-Sachs disease []. HexB is structurally similar to chitobiase, consisting of a beta sandwich structure; this structure is similar to that found in the cellulose-binding domain of cellulase from Cellulomonas fimi (IPR001919 from INTERPRO), suggesting that it may function as a carbohydrate-binding domain.; GO: 0030246 carbohydrate binding; PDB: 1C7T_A 1QBA_A 1QBB_A 1C7S_A.
Probab=58.49 E-value=10 Score=31.35 Aligned_cols=51 Identities=24% Similarity=0.399 Sum_probs=33.3
Q ss_pred CceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcEEecCCcee--eCCCCeEEEEEEee
Q 029138 83 NNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGV--LAPGDSIIATVFKF 143 (198)
Q Consensus 83 ~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~Gi--L~Pgesi~I~Vtl~ 143 (198)
..|+|..- + -.+... ++ .|+|.-=+-+.|++.|.-|+ |+||+++.|.+.-.
T Consensus 51 W~IYf~~i--r---~i~~~~--s~---~f~i~hinGDl~kl~Pt~~F~gl~~Ges~~I~~~~~ 103 (164)
T PF03173_consen 51 WAIYFSSI--R---PILQVD--SD---QFKITHINGDLHKLTPTAGFKGLAPGESLEIPFVGE 103 (164)
T ss_dssp -EEEEE-S--S----EEEES--ST---TEEEEE-STTEEEEEE-TT---B-TTEEEEEEEEEE
T ss_pred eEEEEecc--e---eeeccC--CC---CeEEEEEcCeEEEEeECCCCCccCCCCEEEEEEEcc
Confidence 56777742 2 233333 33 28888878899999999997 89999999999865
No 40
>PF02753 PapD_C: Pili assembly chaperone PapD, C-terminal domain; InterPro: IPR016148 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the C-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of eight strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2UY7_C 2UY6_A 2W07_A 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 1PDK_A 2XG4_A ....
Probab=58.01 E-value=10 Score=25.90 Aligned_cols=43 Identities=16% Similarity=0.123 Sum_probs=27.4
Q ss_pred EEEECCCCCeEEEEE-eeCCCC-cEEecCCceeeCCCCeEEEEEEe
Q 029138 99 VRLKNTSKSHVAFKF-QTTAPK-SCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 99 LtL~N~S~~~VAFKV-KTTaP~-~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
|+++|+|..+|.|-= +....+ ...+ ...+.|+|+++..+.+..
T Consensus 1 L~v~NpTPy~vtl~~~~~~~~~~~~~~-~~~~mi~P~s~~~~~~~~ 45 (68)
T PF02753_consen 1 LTVKNPTPYYVTLSSLKLNGGGKKKKI-DNSGMIAPFSSKSFPLPA 45 (68)
T ss_dssp EEEEE-SSS-EEEEEEEETHHHCCEEC-CCETEE-TTEEEEEETST
T ss_pred CEEECCCCcEEEEEeeeeccccccccc-CCceEECCCCceEEeccC
Confidence 789999999999874 444333 3333 444499999998877543
No 41
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=55.03 E-value=68 Score=30.23 Aligned_cols=67 Identities=18% Similarity=0.232 Sum_probs=44.4
Q ss_pred CCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCCcE----------------------EecCCceeeC
Q 029138 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSC----------------------YMRPPGGVLA 131 (198)
Q Consensus 74 ~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKTTaP~~Y----------------------~VrP~~GiL~ 131 (198)
...+.++-. .-.|.. +++..+-.|+++|.++++|-..==+|+.-+| .|.|+ +=|+
T Consensus 246 ~~~V~~~v~-~A~Y~v-pgR~l~~~l~VtN~g~~pv~LgeF~tA~vrFln~~v~~~~~~~P~~l~A~~gL~vs~~-~pI~ 322 (381)
T PF04744_consen 246 PNSVKVKVT-DATYRV-PGRTLTMTLTVTNNGDSPVRLGEFNTANVRFLNPDVPTDDPDYPDELLAERGLSVSDN-SPIA 322 (381)
T ss_dssp -SSEEEEEE-EEEEES-SSSEEEEEEEEEEESSS-BEEEEEESSS-EEE-TTT-SS-S---TTTEETT-EEES---S-B-
T ss_pred CCceEEEEe-ccEEec-CCcEEEEEEEEEcCCCCceEeeeEEeccEEEeCcccccCCCCCchhhhccCcceeCCC-CCcC
Confidence 334777775 667765 6888999999999999998877444443333 33343 3489
Q ss_pred CCCeEEEEEEee
Q 029138 132 PGDSIIATVFKF 143 (198)
Q Consensus 132 Pgesi~I~Vtl~ 143 (198)
|||+.++.|..+
T Consensus 323 PGETrtl~V~a~ 334 (381)
T PF04744_consen 323 PGETRTLTVEAQ 334 (381)
T ss_dssp TT-EEEEEEEEE
T ss_pred CCceEEEEEEee
Confidence 999999999997
No 42
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=54.78 E-value=1.4e+02 Score=25.77 Aligned_cols=63 Identities=17% Similarity=0.202 Sum_probs=46.0
Q ss_pred CcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CCC----------CcEEecCCceeeCCCCeEEEEEEe
Q 029138 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TAP----------KSCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT--TaP----------~~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
--|.++- ..+.|+. ++-...|+|.|.++.+ |-|++ ... .-|.|.|+.=.|+||+...+.|..
T Consensus 18 Agi~l~~-TRvIy~~---~~~~~si~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~~ 91 (226)
T PRK15218 18 SGIYIYG-TRIIYPA---QKKDITVQLMNDGKRS--SLIQAWIDNGDTSLPPEKLQVPFIMTPPVIRVAANSGQQLKIKK 91 (226)
T ss_pred eeEEeCc-eEEEEcC---CCcEEEEEEEcCCCCc--EEEEEEEeCCCCCCCcccccCCEEECCCeEEECCCCceEEEEEE
Confidence 3466665 3788874 2234699999999886 44443 111 149999999999999999999998
Q ss_pred e
Q 029138 143 F 143 (198)
Q Consensus 143 ~ 143 (198)
.
T Consensus 92 ~ 92 (226)
T PRK15218 92 L 92 (226)
T ss_pred C
Confidence 5
No 43
>PF00553 CBM_2: Cellulose binding domain; InterPro: IPR001919 The microbial degradation of cellulose and xylans requires several types of enzyme such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) []. Structurally, cellulases and xylanases generally consist of a catalytic domain joined to a cellulose-binding domain (CBD) by a short linker sequence rich in proline and/or hydroxy-amino acids. The CBD domain is found either at the N-terminal or at the C-terminal extremity of these enzymes. As it is shown in the following schematic representation, there are two conserved cysteines in this CBD domain - one at each extremity of the domain - which have been shown [] to be involved in a disulphide bond. There are also four conserved tryptophan, two are involved in cellulose binding. The CBD of a number of bacterial cellulases has been shown to consist of about 105 amino acid residues [, ]. +-------------------------------------------------+ | | xCxxxxWxxxxxNxxxWxxxxxxxWxxxxxxxxWNxxxxxGxxxxxxxxxxCx 'C': conserved cysteine involved in a disulphide bond. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0030246 carbohydrate binding, 0005975 carbohydrate metabolic process; PDB: 2CZN_A 2CWR_A 1HEH_C 1HEJ_C 3NDZ_E 3NDY_E 2XBD_A 1E5C_A 1XBD_A 1E5B_A ....
Probab=52.33 E-value=28 Score=25.83 Aligned_cols=49 Identities=22% Similarity=0.371 Sum_probs=34.4
Q ss_pred eEEEEEEECCCCCeE-EEEEeeCCC-----------------CcEEecCCc--eeeCCCCeEEEEEEee
Q 029138 95 TRSAVRLKNTSKSHV-AFKFQTTAP-----------------KSCYMRPPG--GVLAPGDSIIATVFKF 143 (198)
Q Consensus 95 v~s~LtL~N~S~~~V-AFKVKTTaP-----------------~~Y~VrP~~--GiL~Pgesi~I~Vtl~ 143 (198)
....|+|+|.++..| .++|.-+-| ..|.|+|.. +.|+||+++.+-+...
T Consensus 15 f~~~v~v~N~~~~~i~~W~v~~~~~~~~~i~~~Wna~~s~~g~~~~v~~~~wn~~i~~G~s~~~Gf~~~ 83 (101)
T PF00553_consen 15 FQGEVTVTNNGSSPINGWTVTFTFPSGQTITSSWNATVSQSGNTVTVTNPSWNGTIAPGGSVTFGFQAS 83 (101)
T ss_dssp EEEEEEEEESSSSTEESEEEEEEESTTEEEEEEESCEEEEETTEEEEEESSTCSEEEESEEEEEEEEEE
T ss_pred eEEEEEEEECCCCccCCEEEEEEeCCCCEEeeeeccEEEecCCEEEEEcCCcCcccCCCCeEEEEEEEe
Confidence 446789999887764 233332222 468888765 7999999998887775
No 44
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=49.46 E-value=47 Score=25.91 Aligned_cols=60 Identities=20% Similarity=0.240 Sum_probs=41.8
Q ss_pred ceEeeCCCCCeeEEEEEEECCCCCeEEEEEee-----CCCCc--E-------------E-----ecCCceeeCCCCeEEE
Q 029138 84 NLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT-----TAPKS--C-------------Y-----MRPPGGVLAPGDSIIA 138 (198)
Q Consensus 84 ~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT-----TaP~~--Y-------------~-----VrP~~GiL~Pgesi~I 138 (198)
...+...+++...-.|+|+|.+++.+.|+|.. +..+. | . =.|..-.|.|+++..|
T Consensus 18 YFdL~~~P~q~~~l~v~i~N~s~~~~tv~v~~~~A~Tn~nG~I~Y~~~~~~~d~sl~~~~~~~v~~~~~Vtl~~~~sk~V 97 (121)
T PF06030_consen 18 YFDLKVKPGQKQTLEVRITNNSDKEITVKVSANTATTNDNGVIDYSQNNPKKDKSLKYPFSDLVKIPKEVTLPPNESKTV 97 (121)
T ss_pred eEEEEeCCCCEEEEEEEEEeCCCCCEEEEEEEeeeEecCCEEEEECCCCcccCcccCcchHHhccCCcEEEECCCCEEEE
Confidence 44445667888888999999999999999863 22221 1 1 1133356888888888
Q ss_pred EEEee
Q 029138 139 TVFKF 143 (198)
Q Consensus 139 ~Vtl~ 143 (198)
.+.+.
T Consensus 98 ~~~i~ 102 (121)
T PF06030_consen 98 TFTIK 102 (121)
T ss_pred EEEEE
Confidence 88875
No 45
>smart00637 CBD_II CBD_II domain.
Probab=46.99 E-value=85 Score=22.57 Aligned_cols=24 Identities=21% Similarity=0.256 Sum_probs=18.9
Q ss_pred CcEEecCCc--eeeCCCCeEEEEEEe
Q 029138 119 KSCYMRPPG--GVLAPGDSIIATVFK 142 (198)
Q Consensus 119 ~~Y~VrP~~--GiL~Pgesi~I~Vtl 142 (198)
..|.++|.. +.|+||+++.+-+..
T Consensus 50 ~~~~~~~~~wn~~i~~G~s~~~gf~~ 75 (92)
T smart00637 50 GHVTATNASWNGTIAPGGSVSFGFQG 75 (92)
T ss_pred CEEEEecCccccccCCCCEEEEEEEe
Confidence 368898655 799999998876665
No 46
>PF05753 TRAP_beta: Translocon-associated protein beta (TRAPB); InterPro: IPR008856 This family consists of several eukaryotic translocon-associated protein beta (TRAPB) or signal sequence receptor beta subunit (SSR-beta) proteins. The normal translocation of nascent polypeptides into the lumen of the endoplasmic reticulum (ER) is thought to be aided in part by a translocon-associated protein (TRAP) complex consisting of 4 protein subunits. The association of mature proteins with the ER and Golgi, or other intracellular locales, such as lysosomes, depends on the initial targeting of the nascent polypeptide to the ER membrane. A similar scenario must also exist for proteins destined for secretion [].; GO: 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=46.63 E-value=1.3e+02 Score=25.18 Aligned_cols=52 Identities=15% Similarity=0.256 Sum_probs=40.9
Q ss_pred CCCeeEEEEEEECCCCCeEEEEEeeCC----CCcEEecCC-----ceeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKSHVAFKFQTTA----PKSCYMRPP-----GGVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VAFKVKTTa----P~~Y~VrP~-----~GiL~Pgesi~I~Vtl~ 143 (198)
.|+++.-.++|.|..+. -||.|+-++ ++.|-+.-- ...|+||+.+.-.+++.
T Consensus 36 ~g~~v~V~~~iyN~G~~-~A~dV~l~D~~fp~~~F~lvsG~~s~~~~~i~pg~~vsh~~vv~ 96 (181)
T PF05753_consen 36 EGEDVTVTYTIYNVGSS-AAYDVKLTDDSFPPEDFELVSGSLSASWERIPPGENVSHSYVVR 96 (181)
T ss_pred CCcEEEEEEEEEECCCC-eEEEEEEECCCCCccccEeccCceEEEEEEECCCCeEEEEEEEe
Confidence 48888899999999988 789999887 255554322 36899999998888876
No 47
>PF07705 CARDB: CARDB; InterPro: IPR011635 The APHP (acidic peptide-dependent hydrolases/peptidase) domain is found in a variety of different proteins.; PDB: 2KUT_A 2L0D_A 3IDU_A 2KL6_A.
Probab=44.49 E-value=1e+02 Score=21.39 Aligned_cols=53 Identities=21% Similarity=0.172 Sum_probs=34.8
Q ss_pred CCCeeEEEEEEECCCCC-eEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEee
Q 029138 91 PGKQTRSAVRLKNTSKS-HVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~-~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
.|+..+-.++|+|.... .=.|+|+-...+.-.-.-..+-|+||++..+.+.+.
T Consensus 17 ~g~~~~i~~~V~N~G~~~~~~~~v~~~~~~~~~~~~~i~~L~~g~~~~v~~~~~ 70 (101)
T PF07705_consen 17 PGEPVTITVTVKNNGTADAENVTVRLYLDGNSVSTVTIPSLAPGESETVTFTWT 70 (101)
T ss_dssp TTSEEEEEEEEEE-SSS-BEEEEEEEEETTEEEEEEEESEB-TTEEEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCCCCEEEEEEECCceeccEEECCcCCCcEEEEEEEEE
Confidence 57888889999999765 344666543333322222237899999999999986
No 48
>PRK15253 putative fimbrial assembly chaperone protein StcB; Provisional
Probab=43.14 E-value=2.3e+02 Score=24.78 Aligned_cols=64 Identities=17% Similarity=0.264 Sum_probs=47.0
Q ss_pred CCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CC------C----CcEEecCCceeeCCCCeEEEEEE
Q 029138 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TA------P----KSCYMRPPGGVLAPGDSIIATVF 141 (198)
Q Consensus 74 ~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKVKT--Ta------P----~~Y~VrP~~GiL~Pgesi~I~Vt 141 (198)
---|.++-. .+.|+.. .-...|+|.|.++.+ |=|++ .. | .-|.|.|+.=.|+||+...|.|.
T Consensus 32 ~Agv~l~~T-RvIy~~~---~k~~sv~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~ 105 (242)
T PRK15253 32 HAGIVIYGT-RVIYPAE---KKEVVVQLVNQGEQA--SLVQSWIDDGNTSLPPEKIQVPFMLTPPVARVAAESGQQIKIK 105 (242)
T ss_pred eeeEEeCce-EEEEeCC---CceEEEEEEcCCCCc--EEEEEEEECCCCCCCcccccCCEEECCCeEEECCCCceEEEEE
Confidence 345777754 8888742 234699999999876 44444 11 1 14999999999999999999998
Q ss_pred ee
Q 029138 142 KF 143 (198)
Q Consensus 142 l~ 143 (198)
..
T Consensus 106 ~~ 107 (242)
T PRK15253 106 KM 107 (242)
T ss_pred EC
Confidence 65
No 49
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=39.57 E-value=3.4e+02 Score=25.83 Aligned_cols=69 Identities=14% Similarity=0.219 Sum_probs=47.0
Q ss_pred CcEEEcCCCc-eEeeCCCCC-eeEEEEEEECCCCCeEEEEEeeCCCCcEEec-C-CceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNN-LYFPYEPGK-QTRSAVRLKNTSKSHVAFKFQTTAPKSCYMR-P-PGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~-L~F~~~~~k-~v~s~LtL~N~S~~~VAFKVKTTaP~~Y~Vr-P-~~GiL~Pgesi~I~Vtl~ 143 (198)
-.|.|..... |+...++|. +-...++|.|.+.++..|.++........+. + ..=.|+||+..++.|++.
T Consensus 326 ~~~~v~r~r~~l~~~~~~g~i~N~Y~~~i~Nk~~~~~~~~l~v~g~~~~~~~~~~~~i~v~~g~~~~~~v~v~ 398 (434)
T TIGR02745 326 MDLNVLRDRNLLYVRNSDGVVENTYTLKILNKTEQPHEYYLSVLGLPGIKIEGPGAPIHVKAGEKVKLPVFLR 398 (434)
T ss_pred eEEEEEecCCcceEECCCCcEEEEEEEEEEECCCCCEEEEEEEecCCCcEEEcCCceEEECCCCEEEEEEEEE
Confidence 3455555533 554445553 3447999999999988888887654443333 2 234899999999999886
No 50
>PF07233 DUF1425: Protein of unknown function (DUF1425); InterPro: IPR010824 This family consists of several hypothetical bacterial proteins of around 125 residues in length. Several members of this family are described as putative lipoproteins and are often known as YcfL. The function of this family is unknown.; PDB: 3O0L_A.
Probab=39.04 E-value=1.6e+02 Score=21.74 Aligned_cols=51 Identities=16% Similarity=0.237 Sum_probs=32.5
Q ss_pred CCeeEEEEEEECCCCCe--EEEEEeeCCCCcEEecCC-----ceeeCCCCeEEEEEEe
Q 029138 92 GKQTRSAVRLKNTSKSH--VAFKFQTTAPKSCYMRPP-----GGVLAPGDSIIATVFK 142 (198)
Q Consensus 92 ~k~v~s~LtL~N~S~~~--VAFKVKTTaP~~Y~VrP~-----~GiL~Pgesi~I~Vtl 142 (198)
++..+..+.|+|.++.+ +.||+-==..+-+.|.|. .=.|.+++++.|.-.-
T Consensus 23 ~g~~~~~~~l~N~~~~~~~l~Yrf~WyD~~G~~v~~~~~~w~~~~l~~~~~~~l~~~a 80 (94)
T PF07233_consen 23 NGLLRAQATLSNKSSKPLTLQYRFYWYDKQGLEVDPEQSPWQSLTLPGGQTVTLSAVA 80 (94)
T ss_dssp CCEEEEEEEEEE-SSS-EEEEEEEEEE-TTS-EE--TT---EEEEE-TT-EEEEEEE-
T ss_pred CCeEEEEEEEEECCCCcEEEEEEEEEECCCCCCcCCCCCCCEEEEEcCCCEEEEEEEC
Confidence 66778999999999874 888887667777888877 3467888877766554
No 51
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=35.15 E-value=2.5e+02 Score=22.90 Aligned_cols=57 Identities=18% Similarity=0.265 Sum_probs=37.5
Q ss_pred eEeeCCC----CCeeEEEEEEECCCCCeEEEEEeeCCCC---cEEec--CCceeeCCCCeEEEEEEe
Q 029138 85 LYFPYEP----GKQTRSAVRLKNTSKSHVAFKFQTTAPK---SCYMR--PPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 85 L~F~~~~----~k~v~s~LtL~N~S~~~VAFKVKTTaP~---~Y~Vr--P~~GiL~Pgesi~I~Vtl 142 (198)
..|.+.+ ...+.-.|+++|.++..|. .|+--.++ --+|. |..+.|+||+++.+.+-.
T Consensus 73 Y~F~RqP~~~s~~mvsIql~ftN~s~~~i~-~I~i~~k~l~~g~~i~~F~~I~~L~pg~s~t~~lgI 138 (145)
T PF14796_consen 73 YRFSRQPSLYSPSMVSIQLTFTNNSDEPIK-NIHIGEKKLPAGMRIHEFPEIESLEPGASVTVSLGI 138 (145)
T ss_pred EEEccCCcCCCCCcEEEEEEEEecCCCeec-ceEECCCCCCCCcEeeccCcccccCCCCeEEEEEEE
Confidence 4565532 3456678999999997543 34333332 33444 888999999998877755
No 52
>PTZ00128 cytochrome c oxidase assembly protein-like; Provisional
Probab=34.86 E-value=2e+02 Score=25.40 Aligned_cols=81 Identities=17% Similarity=0.241 Sum_probs=48.8
Q ss_pred CCCeeEEEEEEECCCCCeEE----EEEeeCCCCcEEecCC-----ceeeCCCCeEEEEEEeeecCCCCcCCCCCCCCCCC
Q 029138 91 PGKQTRSAVRLKNTSKSHVA----FKFQTTAPKSCYMRPP-----GGVLAPGDSIIATVFKFVEAPENNERQPLDQKSKD 161 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VA----FKVKTTaP~~Y~VrP~-----~GiL~Pgesi~I~Vtl~~e~P~~~e~~p~~~~~kD 161 (198)
+|+.....-..+|.++++|. |-|--..-..|.-+=- .=.|+|||+++.-|....+ |.-.++ ++.+.-+
T Consensus 136 pGE~~lv~Y~a~N~sd~~i~G~A~ynV~P~~Ag~YFnKieCFCF~eQ~L~pgE~~~MPV~F~ID-P~i~~D--~~~~~v~ 212 (232)
T PTZ00128 136 PGETALAFYRAKNRSDKPVIGVATYHIAPPEAGLYFNKIQCFCFEEQRLNPHEEVDMPVFFYID-PDILND--PRLKWVD 212 (232)
T ss_pred CCCeEEEEEEEECCCCCcEEEEEecccCHHHHhhhccceeeecccccccCCCCeEecCEEEEEC-CCCCCC--cccCCcC
Confidence 56777788899999998663 2222111233433332 3479999999977776643 332232 3355677
Q ss_pred eEEEEEEEeCCCC
Q 029138 162 KFKIMSLKVKGGI 174 (198)
Q Consensus 162 KFlVqs~~v~~~~ 174 (198)
.+.+-+..-+-..
T Consensus 213 ~ITLSYTFF~~~~ 225 (232)
T PTZ00128 213 EITLSYTFFEAES 225 (232)
T ss_pred EEEEEEEEEecCC
Confidence 7877777655443
No 53
>PF13205 Big_5: Bacterial Ig-like domain
Probab=34.45 E-value=1.7e+02 Score=20.81 Aligned_cols=56 Identities=20% Similarity=0.267 Sum_probs=35.3
Q ss_pred ceEeeCCCCC-eeEEEEEEEC--CCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEe
Q 029138 84 NLYFPYEPGK-QTRSAVRLKN--TSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFK 142 (198)
Q Consensus 84 ~L~F~~~~~k-~v~s~LtL~N--~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl 142 (198)
.|.|..+.+. .....+.+.. ....+|.+. ....+.+.++|. +-|.+|....|.|.-
T Consensus 26 ~i~Fs~~v~~~s~~~~~~~~~~~~~~~~v~~~--~~~~~~~~i~p~-~~L~~~t~Y~v~i~~ 84 (107)
T PF13205_consen 26 VITFSEPVDPASVSSAITITDSNGSGVPVSFS--SWDGNTLTITPS-QPLKPGTTYTVTIDS 84 (107)
T ss_pred EEEECCceecCccceEEEEEecCCCcEEEEEE--EccCCEEEEEEC-CcCCCCCEEEEEECC
Confidence 5566655432 3445556643 344455555 334488899998 558899999998854
No 54
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=31.79 E-value=1.1e+02 Score=26.80 Aligned_cols=42 Identities=10% Similarity=0.066 Sum_probs=28.9
Q ss_pred EEEEECCCCCeEEEE-EeeCCCCcEEecCCceeeCCCCeEEEEE
Q 029138 98 AVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 98 ~LtL~N~S~~~VAFK-VKTTaP~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
.|+++|++..++.|. ++....++ .+....|.|.|+++..+.+
T Consensus 177 ~l~v~Nptpyyitl~~l~~~~~~~-~~~~~~~mv~P~s~~~~~l 219 (253)
T PRK15249 177 GIVIVNPQPWFASLSNLNVKVNGA-SYNLDADMIAPFSSQTWWL 219 (253)
T ss_pred EEEEECCCceEEEeeeeeeccCCe-ecCCCCceECCCCccEEEc
Confidence 599999999999876 33222221 2223457899999988864
No 55
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=30.71 E-value=2.4e+02 Score=24.38 Aligned_cols=83 Identities=13% Similarity=0.164 Sum_probs=57.3
Q ss_pred CccchhhhhcCCCCCcEEEcCCCceEeeCCCCCee-EEEEEEECCCCCeEE-EEEeeCCCCcEEe----cCCceeeCCCC
Q 029138 61 KTVSYVARSLLPPRRRLRLDPSNNLYFPYEPGKQT-RSAVRLKNTSKSHVA-FKFQTTAPKSCYM----RPPGGVLAPGD 134 (198)
Q Consensus 61 ~~~~~~~~~~~p~~~~L~v~P~~~L~F~~~~~k~v-~s~LtL~N~S~~~VA-FKVKTTaP~~Y~V----rP~~GiL~Pge 134 (198)
..++.|+|..+-.+..+.++......|.+.+.... ...|+|+|-..+.|. +.+....++.+.+ +...|-..|..
T Consensus 91 ~a~~lIGk~V~~~~~~~~~~~~~~~~~~~~l~~~a~~vti~I~D~~G~~Vrt~~lg~~~aG~~~f~WDG~d~~G~~lp~G 170 (225)
T PRK06655 91 QASSLVGRGVLVPGDTVLVGTGGTTPFGVELPSAADNVTVTITDSAGQVVRTIDLGAQSAGVVSFTWDGTDTDGNALPDG 170 (225)
T ss_pred HHHHhcCCeEEEecceEEecCCCceEEEEEcCCCCcEEEEEEEcCCCCEEEEEecCCcCCCceeEEECCCCCCCCcCCCe
Confidence 46678888877778888887644666666544433 578999998777774 6665566777665 46667666666
Q ss_pred eEEEEEEee
Q 029138 135 SIIATVFKF 143 (198)
Q Consensus 135 si~I~Vtl~ 143 (198)
...+.|...
T Consensus 171 ~Yt~~V~A~ 179 (225)
T PRK06655 171 NYTIKASAS 179 (225)
T ss_pred eEEEEEEEE
Confidence 677777653
No 56
>TIGR02656 cyanin_plasto plastocyanin. Members of this family are plastocyanin, a blue copper protein related to pseudoazurin, halocyanin, amicyanin, etc. This protein, located in the thylakoid luman, performs electron transport to photosystem I in Cyanobacteria and chloroplasts.
Probab=29.68 E-value=2e+02 Score=21.01 Aligned_cols=61 Identities=18% Similarity=0.255 Sum_probs=33.3
Q ss_pred CCcEEEcCCCceEeeCCCCCeeEEEEEEECCCC--CeEEEEEeeCCCCcEEecC----CceeeCCCCeEEEEEE
Q 029138 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSK--SHVAFKFQTTAPKSCYMRP----PGGVLAPGDSIIATVF 141 (198)
Q Consensus 74 ~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~--~~VAFKVKTTaP~~Y~VrP----~~GiL~Pgesi~I~Vt 141 (198)
+..+..+|+ .|.+. .|+. ++++|... ..+.|.=.....+.-...+ ..+.+.||++..+++.
T Consensus 9 ~g~~~F~P~-~i~v~--~G~~----V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~~~tF~ 75 (99)
T TIGR02656 9 KGALVFEPA-KISIA--AGDT----VEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESYEVTFS 75 (99)
T ss_pred CCceeEeCC-EEEEC--CCCE----EEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEEEEEeC
Confidence 445788885 88877 5653 57778643 3444421111111101111 2357899999888655
No 57
>PF09640 DUF2027: Domain of unknown function (DUF2027); InterPro: IPR018598 This protein domain is of unknown function. though putatively involved in DNA mismatch repair. It is associated with IPR002625 from INTERPRO. ; PDB: 2HUH_A.
Probab=29.40 E-value=1.5e+02 Score=24.77 Aligned_cols=68 Identities=16% Similarity=0.247 Sum_probs=48.1
Q ss_pred EEEEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCcCCCCCCCCCCCeEEEEEEEeCCCCC
Q 029138 96 RSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLDQKSKDKFKIMSLKVKGGID 175 (198)
Q Consensus 96 ~s~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~e~~p~~~~~kDKFlVqs~~v~~~~d 175 (198)
+-..=|.|-|+..+.|-..+...+.|.+| ..|.|+|+-.+-|.-.-.. +...-.+..||-+.-..++.
T Consensus 19 ~fE~YlVNDSNYy~~y~y~~~~g~~w~lr-s~G~iEPNtKl~ieef~~~-----------eLN~~~~v~vQ~iAyK~~K~ 86 (162)
T PF09640_consen 19 RFECYLVNDSNYYLHYTYLTAEGNSWTLR-SAGEIEPNTKLFIEEFSKE-----------ELNDLERVAVQLIAYKKDKT 86 (162)
T ss_dssp -EEEEEEE-SSSEEEEEEEEEETTEEEEE-EEEEE-TTEEEEEEEE-GG-----------GGGG-SSEEEEEEEE-SSS-
T ss_pred ceEEEEEecCccEEEEEEEeccCCeEEEE-ecceECCCceeehhhcCHH-----------HhhccceeEEEEEEEcCCCc
Confidence 34677899999999999998888899998 6899999999888765431 12245678888888776663
No 58
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=28.72 E-value=1.5e+02 Score=25.43 Aligned_cols=39 Identities=10% Similarity=0.240 Sum_probs=28.7
Q ss_pred EEEEECCCCCeEEEE-EeeCCCCcEEecCCceeeCCCCeEEEEE
Q 029138 98 AVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 98 ~LtL~N~S~~~VAFK-VKTTaP~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
.|+++|++..+|.|- ++... +. +. ..|.|.|+++..+.+
T Consensus 158 ~l~v~NptPyyitl~~l~~~~-~~--~~-~~~mI~P~s~~~~~~ 197 (226)
T PRK15295 158 VITVNNPTPYYMNFASVTLNS-HE--VK-SATFVPPKSSASFKL 197 (226)
T ss_pred EEEEECCCceEEEEEEEEECC-cc--cC-CCceECCCCccEEEc
Confidence 499999999999875 55432 22 22 358999999988874
No 59
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=28.66 E-value=2.4e+02 Score=22.74 Aligned_cols=69 Identities=16% Similarity=0.121 Sum_probs=41.7
Q ss_pred EeeCCCCcEEecCCceeeCCCCeEEEEEEeeecCCCCcCCCCCCCCCCCeEEEEE----EEeCCCCCchhhhhhccCCcE
Q 029138 113 FQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLDQKSKDKFKIMS----LKVKGGIDYVPELVSHIGPFA 188 (198)
Q Consensus 113 VKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~~e~P~~~e~~p~~~~~kDKFlVqs----~~v~~~~d~~~elfk~~k~~v 188 (198)
+++=.-..|.+.|..=.+..|..+.+.++-. . .+.+-|.|.. ..+..++.. .=-|.-.+..+
T Consensus 48 ~~~i~a~n~~~~P~~I~VkaGD~Vtl~vtN~--d-----------~~~H~f~i~~~gis~~I~pGet~-TitF~adKpG~ 113 (135)
T TIGR03096 48 VKNIRAFNVLNEPEALVVKKGTPVKVTVENK--S-----------PISEGFSIDAYGISEVIKAGETK-TISFKADKAGA 113 (135)
T ss_pred EEEEEeeeeEEcCCEEEECCCCEEEEEEEeC--C-----------CCccceEECCCCcceEECCCCeE-EEEEECCCCEE
Confidence 3433357899999999999999998888632 0 1345555542 233333221 11345455555
Q ss_pred -EEEeeee
Q 029138 189 -KYFCLAF 195 (198)
Q Consensus 189 -~~~c~~~ 195 (198)
.|||...
T Consensus 114 Y~y~C~~H 121 (135)
T TIGR03096 114 FTIWCQLH 121 (135)
T ss_pred EEEeCCCC
Confidence 7999764
No 60
>PF04442 CtaG_Cox11: Cytochrome c oxidase assembly protein CtaG/Cox11; InterPro: IPR007533 Cytochrome c oxidase assembly protein is essential for the assembly of functional cytochrome oxidase protein. In eukaryotes it is an integral protein of the mitochondrial inner membrane. Cox11 is essential for the insertion of Cu(I) ions to form the CuB site. This is essential for the stability of other structures in subunit I, for example haems a and a3, and the magnesium/manganese centre. Cox11 is probably only required in sub-stoichiometric amounts relative to the structural units []. The C-terminal region of the protein is known to form a dimer. Each monomer coordinates one Cu(I) ion via three conserved cysteine residues (111, 208 and 210) in Saccharomyces cerevisiae (P19516 from SWISSPROT). Met 224 is also thought to play a role in copper transfer or stabilising the copper site [].; GO: 0005507 copper ion binding; PDB: 1SO9_A 1SP0_A.
Probab=27.57 E-value=3.5e+02 Score=22.25 Aligned_cols=55 Identities=16% Similarity=0.286 Sum_probs=31.0
Q ss_pred CCCeeEEEEEEECCCCCeEE----EEEeeCCCCcEEecCCc-----eeeCCCCeEEEEEEeeec
Q 029138 91 PGKQTRSAVRLKNTSKSHVA----FKFQTTAPKSCYMRPPG-----GVLAPGDSIIATVFKFVE 145 (198)
Q Consensus 91 ~~k~v~s~LtL~N~S~~~VA----FKVKTTaP~~Y~VrP~~-----GiL~Pgesi~I~Vtl~~e 145 (198)
+|+.....-..+|.++++|. |-|--..-..|..|-.+ =.|+|||+++.-|....+
T Consensus 65 pGe~~~~~y~a~N~s~~~i~g~A~~nV~P~~a~~YF~KieCFCF~eQ~L~pgE~~~mPv~F~ID 128 (152)
T PF04442_consen 65 PGETALVFYEATNPSDKPITGQAIPNVTPGEAGKYFNKIECFCFEEQTLAPGETVDMPVVFYID 128 (152)
T ss_dssp TT--EEEEEEEEE-SSS-EE---EEEE-SSS-STTECCS-TTS-S--EE-TT-EEEEEEEEEE-
T ss_pred CCCEEEEEEEEECCCCCcEEEEEeeeECHHHhhhhccccceEeccCcCcCCCCeEEEEEEEEEC
Confidence 46666788899999998763 44543444555555443 479999999988777643
No 61
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=26.98 E-value=1.2e+02 Score=24.53 Aligned_cols=43 Identities=28% Similarity=0.422 Sum_probs=32.4
Q ss_pred hhhhcCCCCCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEE
Q 029138 66 VARSLLPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFK 112 (198)
Q Consensus 66 ~~~~~~p~~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFK 112 (198)
+|+++=..+-...+.| .++|.+++|.+ .++=|..++.+.+-||
T Consensus 85 laerlea~gi~~~i~P--~vRF~Ge~gEq--~TlFl~DP~gN~lEfK 127 (138)
T COG3565 85 LAERLEAAGIPFHIPP--KVRFKGEPGEQ--RTLFLFDPSGNALEFK 127 (138)
T ss_pred HHHHHHHcCCCcccCc--eEEecCCccce--EEEEEECCCCCeeeee
Confidence 4555443444444555 89999999987 5899999999999998
No 62
>PF06483 ChiC: Chitinase C; InterPro: IPR009470 This ~170 aa region is found at the C-terminal to the catalytic domain (IPR001223 from INTERPRO) found in members of glycoside hydrolase family 18.
Probab=26.83 E-value=74 Score=27.03 Aligned_cols=26 Identities=31% Similarity=0.543 Sum_probs=21.9
Q ss_pred CeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEEEee
Q 029138 107 SHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 107 ~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~Vtl~ 143 (198)
++|+||+ |...-|+||+++++.+...
T Consensus 116 Hrvs~tl-----------p~wqslapG~s~~~~~~Yy 141 (180)
T PF06483_consen 116 HRVSFTL-----------PAWQSLAPGASVELDMVYY 141 (180)
T ss_pred EEEEEEC-----------CCccccCCCCEEEEeEEEE
Confidence 4788887 6777899999999999875
No 63
>PF08277 PAN_3: PAN-like domain; InterPro: IPR006583 PAN domains have significant functional versatility fulfilling diverse biological functions by mediating protein-protein or protein-carbohydrate interactions []. These domains contain a hair-pin loop like structure, similar to knottins, but the pattern of disulphide bonds differs The PAN-3 or CW is a domain associated with a number of Caenorhabditis elegans hypothetical proteins.
Probab=26.43 E-value=96 Score=20.88 Aligned_cols=33 Identities=24% Similarity=0.472 Sum_probs=20.4
Q ss_pred EEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEE
Q 029138 78 RLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKF 113 (198)
Q Consensus 78 ~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFKV 113 (198)
..++.....|.+ +. +...-++...+...||||+
T Consensus 39 ~~~~~~C~~y~~--~~-i~~v~~~~~~~~~~VA~K~ 71 (71)
T PF08277_consen 39 YFDSGKCYLYNY--GS-ISTVQKTDSSSGNKVAFKI 71 (71)
T ss_pred EeCCCCEEEEEc--CC-EEEEEEeecCCCeEEEEEC
Confidence 333445666664 44 4455556666678999996
No 64
>smart00605 CW CW domain.
Probab=23.78 E-value=1.9e+02 Score=20.84 Aligned_cols=33 Identities=33% Similarity=0.522 Sum_probs=19.1
Q ss_pred CCceEeeCCCCCeeEEEEEEECC-CCCeEEEEEeeCCC
Q 029138 82 SNNLYFPYEPGKQTRSAVRLKNT-SKSHVAFKFQTTAP 118 (198)
Q Consensus 82 ~~~L~F~~~~~k~v~s~LtL~N~-S~~~VAFKVKTTaP 118 (198)
.....|.+ +. + ..|+-.+. +...||||+.++.+
T Consensus 46 ~~C~~f~~--~~-~-~~v~~~~~~~~~~VAfK~~~~~~ 79 (94)
T smart00605 46 ETCYLFSY--GT-V-LTVKKLSSSSGKKVAFKVSTDQP 79 (94)
T ss_pred CceEEEEc--CC-e-EEEEEccCCCCcEEEEEEeCCCC
Confidence 34666765 43 2 23444443 45689999986544
No 65
>KOG3620 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.32 E-value=2.4e+02 Score=30.98 Aligned_cols=68 Identities=22% Similarity=0.313 Sum_probs=52.9
Q ss_pred CcEEEcCCCceEeeCC-CCCeeEEEEEEECCCCCeEEEEE-eeCCCCcEEec---CCceeeCCCCeEEEEEEee
Q 029138 75 RRLRLDPSNNLYFPYE-PGKQTRSAVRLKNTSKSHVAFKF-QTTAPKSCYMR---PPGGVLAPGDSIIATVFKF 143 (198)
Q Consensus 75 ~~L~v~P~~~L~F~~~-~~k~v~s~LtL~N~S~~~VAFKV-KTTaP~~Y~Vr---P~~GiL~Pgesi~I~Vtl~ 143 (198)
.-|.+.|. +|.|.-. +||.+++.|.|.|--+++|.-|= .-..+-+|+.+ -+.+.|+||.-..|-=.++
T Consensus 525 GsL~~iPe-qi~f~ptFPgK~v~~~L~i~nSF~~~v~v~~i~l~edvrf~fk~f~~n~~~l~pg~ltk~griyF 597 (1626)
T KOG3620|consen 525 GSLEIIPE-QISFKPTFPGKMVTAVLSIRNSFTHPVHVKGISLAEDVRFRFKDFNANGTTLAPGTLTKVGRIYF 597 (1626)
T ss_pred ceeEechh-hhccCCCCCcceeeeeeehhcccCcceeeeeeeeccCcceeeecccCCccccccccccccceEEe
Confidence 45788996 9999876 58999999999999998887663 33445566665 4678999999888776665
No 66
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=21.61 E-value=2.2e+02 Score=24.63 Aligned_cols=39 Identities=15% Similarity=0.267 Sum_probs=26.9
Q ss_pred EEEEECCCCCeEEEEEeeCCCCcEEecCCceeeCCCCeEEEEE
Q 029138 98 AVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 98 ~LtL~N~S~~~VAFKVKTTaP~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
.|++.|+|..+|.|--..-..+. + ....|.|+++..+.+
T Consensus 154 ~l~v~NpTPyyvtl~~l~~~~~~--~--~~~mi~P~s~~~~~~ 192 (233)
T PRK15246 154 TIRIVNPTSWYMSLTLTMDNKKS--I--GDIMVAPKTALDVPL 192 (233)
T ss_pred EEEEECCCCcEEEEEeEEECCcc--c--CcceECCCCccEEEc
Confidence 49999999999988632222222 2 246899999887764
No 67
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=21.60 E-value=2.4e+02 Score=24.32 Aligned_cols=42 Identities=14% Similarity=0.077 Sum_probs=30.6
Q ss_pred EEEEEECCCCCeEEEE--EeeCCCCcEEecCCceeeCCCCeEEEEE
Q 029138 97 SAVRLKNTSKSHVAFK--FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 97 s~LtL~N~S~~~VAFK--VKTTaP~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
..|+++|++..+|.|- .-.. .++-.. -..+.|.|+++..+.+
T Consensus 165 ~~l~v~Nptpy~vtl~~~~l~~-~~~~~~-~~~~mv~P~s~~~~~l 208 (235)
T COG3121 165 NLLTVKNPTPYYVTLANLTLNV-GGRKLG-LNSGMVAPFSTRQFPL 208 (235)
T ss_pred CEEEEECCCCcEEEEEEEEEee-CceecC-CCcceECCCccceeec
Confidence 5899999999999998 3333 333222 6788999999887544
No 68
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=21.43 E-value=2.8e+02 Score=24.01 Aligned_cols=54 Identities=19% Similarity=0.233 Sum_probs=33.1
Q ss_pred ceEeeCCCCCeeEEEEEEECCCCCeEEEE-EeeCCC-CcEEecCCceeeCCCCeEEEEE
Q 029138 84 NLYFPYEPGKQTRSAVRLKNTSKSHVAFK-FQTTAP-KSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 84 ~L~F~~~~~k~v~s~LtL~N~S~~~VAFK-VKTTaP-~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
.|.|....+.. ...|+++|++..++.|. ++.... +.+.+ ..+.|.|+++..+.+
T Consensus 161 ~L~~~~~~~~~-~~~L~v~Nptpy~itl~~l~~~~~g~~~~~--~~~mi~P~s~~~~~l 216 (246)
T PRK09926 161 ALKWSWAGSEG-KASLRVTNPTPYYVSFSSGDLEAGGKRYPV--DSKMIAPFSDESMKV 216 (246)
T ss_pred ccEEEEecCCC-eEEEEEECCCceEEEEEeeeeecCCeeccc--CcceECCCCcceEec
Confidence 45565432221 24599999999988775 332222 22322 347899999988864
No 69
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=20.44 E-value=2.5e+02 Score=24.41 Aligned_cols=39 Identities=15% Similarity=0.225 Sum_probs=27.2
Q ss_pred EEEEECCCCCeEEEE-EeeCCCCcEEecCCceeeCCCCeEEEEE
Q 029138 98 AVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (198)
Q Consensus 98 ~LtL~N~S~~~VAFK-VKTTaP~~Y~VrP~~GiL~Pgesi~I~V 140 (198)
.|+++|+|..+|.|. ++... +. + ...+.|+|.++..+.+
T Consensus 163 ~l~v~NpTPyyvtl~~l~v~~-~~--~-~~~~miaPfs~~~~~~ 202 (234)
T PRK15192 163 GATVRNPTPYYVTLFLLRANE-RA--Q-DNAGVVAPFATRQTDW 202 (234)
T ss_pred EEEEECCCCcEEEEEeEEEcC-cc--c-CCCceECCCCccEEec
Confidence 499999999999885 33322 21 2 2346899999887765
No 70
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=20.31 E-value=3e+02 Score=22.84 Aligned_cols=67 Identities=19% Similarity=0.166 Sum_probs=46.7
Q ss_pred CCCcEEEcCCCceEeeCCCCCeeEEEEEEECCCCCeEEEE-----------EeeCCCCcEEecCCcee-eCCCCeEEEEE
Q 029138 73 PRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFK-----------FQTTAPKSCYMRPPGGV-LAPGDSIIATV 140 (198)
Q Consensus 73 ~~~~L~v~P~~~L~F~~~~~k~v~s~LtL~N~S~~~VAFK-----------VKTTaP~~Y~VrP~~Gi-L~Pgesi~I~V 140 (198)
..=.+.=+|. .+-..+.. ..-+-++-+||+.++.++|- +.+-+.-.|..-+..|+ |.||+--. .|
T Consensus 50 ~dFaIIndPg-~i~~~~~~-g~~t~t~yiKNtG~~~~~fd~~sitVliDG~iv~~a~~~~~~~~gs~i~l~PG~Vg~-ev 126 (154)
T COG3354 50 TDFAIINDPG-QIPYVGTD-GPYTYTFYIKNTGSDSIAFDNTSITVLIDGNIVTPAYVTFTSVNGSSIRLSPGQVGR-EV 126 (154)
T ss_pred ccEEEecCCC-CCccccCC-CceEEEEEEecCCCcccccCCCeEEEEEcCcEeccceEEEEecCCCeeEecCCceee-EE
Confidence 3334555675 55555432 33457899999999999985 44555567888899999 99999885 55
Q ss_pred Ee
Q 029138 141 FK 142 (198)
Q Consensus 141 tl 142 (198)
++
T Consensus 127 ~v 128 (154)
T COG3354 127 TV 128 (154)
T ss_pred Ee
Confidence 55
Done!