Query 028355
Match_columns 210
No_of_seqs 164 out of 649
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 10:13:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028355.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028355hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5066 SCS2 VAMP-associated p 99.9 3.2E-26 7E-31 194.7 11.8 117 77-199 3-121 (242)
2 KOG0439 VAMP-associated protei 99.9 1.4E-25 3E-30 190.4 15.0 132 71-207 3-137 (218)
3 PF00635 Motile_Sperm: MSP (Ma 99.9 2.6E-23 5.7E-28 157.4 12.3 103 77-185 2-108 (109)
4 PF14874 PapD-like: Flagellar- 98.5 2.2E-06 4.9E-11 64.1 10.6 68 75-143 2-72 (102)
5 PF00345 PapD_N: Pili and flag 96.6 0.041 8.9E-07 42.4 10.8 62 77-142 2-72 (122)
6 PRK09918 putative fimbrial cha 94.7 1.4 3.1E-05 38.2 13.7 64 76-143 25-93 (230)
7 PF14646 MYCBPAP: MYCBP-associ 92.6 0.64 1.4E-05 43.7 8.5 67 77-143 231-310 (426)
8 PRK15249 fimbrial chaperone pr 91.1 6.4 0.00014 34.7 12.6 64 76-143 29-103 (253)
9 PRK09926 putative chaperone pr 90.9 1.8 3.9E-05 38.0 8.9 65 75-143 25-99 (246)
10 PF07610 DUF1573: Protein of u 90.7 1 2.2E-05 29.3 5.5 42 99-141 2-44 (45)
11 PRK15299 fimbrial chaperone pr 90.3 8.4 0.00018 33.3 12.4 64 76-143 23-94 (227)
12 PF11614 FixG_C: IG-like fold 90.2 1.4 3.1E-05 33.7 6.9 49 96-144 34-84 (118)
13 PRK11385 putativi pili assembl 89.4 11 0.00025 32.9 12.7 64 76-143 27-102 (236)
14 PRK15295 fimbrial assembly cha 88.7 9.1 0.0002 33.2 11.5 64 76-143 20-90 (226)
15 PRK15246 fimbrial assembly cha 86.0 7.3 0.00016 34.1 9.4 64 76-143 11-84 (233)
16 COG3121 FimC P pilus assembly 85.9 23 0.0005 30.9 12.9 65 76-144 28-99 (235)
17 PRK15208 long polar fimbrial c 84.5 7.5 0.00016 33.7 8.7 64 76-143 22-91 (228)
18 PRK15192 fimbrial chaperone Bc 84.4 28 0.0006 30.6 12.4 62 76-143 23-98 (234)
19 PRK15211 fimbrial chaperone pr 83.0 20 0.00044 31.2 10.8 64 76-143 23-92 (229)
20 PF06280 DUF1034: Fn3-like dom 81.8 3.9 8.5E-05 31.0 5.3 52 92-143 7-79 (112)
21 PRK15290 lfpB fimbrial chapero 79.7 43 0.00093 29.5 12.7 64 76-143 38-109 (243)
22 TIGR03079 CH4_NH3mon_ox_B meth 79.7 4.9 0.00011 37.8 6.0 53 91-143 280-353 (399)
23 smart00809 Alpha_adaptinC2 Ada 79.4 12 0.00026 27.5 7.1 52 92-143 17-72 (104)
24 PF10633 NPCBM_assoc: NPCBM-as 79.2 3.3 7.2E-05 29.4 3.9 54 91-144 3-60 (78)
25 PF06030 DUF916: Bacterial pro 77.1 22 0.00048 27.9 8.3 60 84-143 18-102 (121)
26 PRK15254 fimbrial chaperone pr 75.5 56 0.0012 28.7 12.8 64 76-143 17-86 (239)
27 PF00927 Transglut_C: Transglu 73.6 14 0.0003 27.6 6.2 53 91-143 13-75 (107)
28 PRK15188 fimbrial chaperone pr 71.9 68 0.0015 28.0 12.6 64 76-143 28-97 (228)
29 PF02883 Alpha_adaptinC2: Adap 71.3 35 0.00077 25.5 8.0 53 91-143 22-78 (115)
30 PRK15224 pili assembly chapero 68.7 33 0.00072 30.1 8.2 61 77-143 30-97 (237)
31 PF05506 DUF756: Domain of unk 67.4 21 0.00044 26.0 5.7 44 96-142 21-65 (89)
32 PRK15195 fimbrial chaperone pr 67.0 85 0.0018 27.2 12.6 64 76-143 26-95 (229)
33 PRK15218 fimbrial chaperone pr 66.2 89 0.0019 27.2 12.7 63 77-143 20-92 (226)
34 PF12690 BsuPI: Intracellular 65.2 40 0.00087 24.6 6.9 48 95-142 2-68 (82)
35 PF11611 DUF4352: Domain of un 64.9 41 0.00088 25.0 7.2 54 91-144 34-101 (123)
36 PF14796 AP3B1_C: Clathrin-ada 62.2 87 0.0019 25.7 9.1 92 51-142 32-138 (145)
37 PRK15233 putative fimbrial cha 59.9 65 0.0014 28.6 8.4 61 77-143 42-109 (246)
38 PRK15274 putative periplasmic 59.7 1.3E+02 0.0028 26.8 12.6 64 76-143 27-97 (257)
39 PF02753 PapD_C: Pili assembly 55.3 12 0.00026 25.7 2.5 43 99-141 1-44 (68)
40 PRK15308 putative fimbrial pro 55.0 1.5E+02 0.0032 26.1 10.3 85 76-174 17-119 (234)
41 PF13473 Cupredoxin_1: Cupredo 54.2 81 0.0018 23.3 7.1 53 77-142 30-82 (104)
42 PF03173 CHB_HEX: Putative car 54.1 11 0.00024 31.3 2.5 51 83-143 51-103 (164)
43 PF04744 Monooxygenase_B: Mono 54.0 37 0.0008 32.1 6.1 65 76-143 248-334 (381)
44 PF00553 CBM_2: Cellulose bind 47.9 45 0.00098 24.9 4.8 49 95-143 15-83 (101)
45 PRK15253 putative fimbrial ass 46.0 2.1E+02 0.0045 25.2 11.3 64 76-143 34-107 (242)
46 PRK15285 putative fimbrial cha 45.0 2.2E+02 0.0048 25.2 12.5 63 77-143 27-96 (250)
47 PF13205 Big_5: Bacterial Ig-l 44.3 1.1E+02 0.0024 22.0 6.4 56 84-142 26-84 (107)
48 TIGR02745 ccoG_rdxA_fixG cytoc 40.2 2.2E+02 0.0047 27.3 9.2 69 76-144 327-399 (434)
49 PF07705 CARDB: CARDB; InterP 38.8 1E+02 0.0022 21.6 5.4 53 91-143 17-70 (101)
50 PF07233 DUF1425: Protein of u 38.3 1.5E+02 0.0033 21.9 6.4 50 92-141 23-79 (94)
51 PF05753 TRAP_beta: Translocon 37.3 1.8E+02 0.004 24.4 7.4 52 91-143 36-96 (181)
52 smart00637 CBD_II CBD_II domai 35.9 1.3E+02 0.0029 21.7 5.6 24 119-142 50-75 (92)
53 COG3565 Predicted dioxygenase 34.2 44 0.00096 26.9 2.9 43 67-113 86-128 (138)
54 PF08277 PAN_3: PAN-like domai 34.1 56 0.0012 22.2 3.2 32 79-113 40-71 (71)
55 cd04094 selB_III This family r 33.6 1.8E+02 0.0039 21.2 6.1 32 127-167 54-85 (97)
56 PRK06655 flgD flagellar basal 28.5 2.5E+02 0.0053 24.4 6.9 82 61-142 91-178 (225)
57 COG3354 FlaG Putative archaeal 27.2 1.8E+02 0.0038 24.2 5.4 64 76-142 53-128 (154)
58 PF09640 DUF2027: Domain of un 26.4 1.9E+02 0.0041 24.3 5.5 67 96-174 19-85 (162)
59 smart00605 CW CW domain. 25.6 1.5E+02 0.0033 21.5 4.5 33 83-119 47-80 (94)
60 PF06483 ChiC: Chitinase C; I 25.3 78 0.0017 27.0 3.1 26 107-143 116-141 (180)
61 PRK15249 fimbrial chaperone pr 23.8 1.5E+02 0.0032 26.1 4.8 42 98-140 177-219 (253)
62 PRK15295 fimbrial assembly cha 22.7 1.8E+02 0.0039 25.1 5.0 49 83-140 148-197 (226)
63 TIGR02656 cyanin_plasto plasto 22.3 2.9E+02 0.0063 20.3 5.5 60 75-141 10-75 (99)
64 PRK13198 ureB urease subunit b 21.5 2.3E+02 0.005 23.7 5.0 70 68-142 26-111 (158)
No 1
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=99.94 E-value=3.2e-26 Score=194.71 Aligned_cols=117 Identities=24% Similarity=0.358 Sum_probs=106.2
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEeeecCCCCcCCCCCC
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~~~~p~~~e~~p~~ 156 (210)
|.++| .+.|..++....++.+-|.|++..+|+||||||+|+.||||||.|+|+|++++.|.|+|+ ++..|. .++
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 67888 588888888899999999999999999999999999999999999999999999999997 555555 678
Q ss_pred CCCCCeEEEEEEEeCCCC--CChhhhhhccCCCceEEEEEEEEEe
Q 028355 157 QKSKDKFKIMSLKVKGGI--DYVPELFDEQKDQVTVERILRVVFL 199 (210)
Q Consensus 157 ~~~kDKFlVqs~~v~~~~--d~~~~iwk~~~k~~i~e~kLrV~f~ 199 (210)
.+|+||||||++..+.+. .++.++|++..+.-|+++||||+|.
T Consensus 77 fKCrdKFLiqs~~~~~~l~g~d~ad~wt~~sk~~i~~rkIrcvys 121 (242)
T COG5066 77 FKCRDKFLIQSYRFDWRLSGSDFADHWTSSSKKPIWTRKIRCVYS 121 (242)
T ss_pred ccccceeEEEEeccChhhccchHHHHHHhhccccchhhheeEEee
Confidence 999999999999998754 4679999999888899999999998
No 2
>KOG0439 consensus VAMP-associated protein involved in inositol metabolism [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=1.4e-25 Score=190.39 Aligned_cols=132 Identities=39% Similarity=0.563 Sum_probs=117.0
Q ss_pred CCCCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEeeecCCCCc
Q 028355 71 LPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENN 150 (210)
Q Consensus 71 ~p~~~~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~~~~p~~~ 150 (210)
+..+.+|.++|.++|+|..+..+++.+.|+|+|+++.+||||||||+|++|+|||+.|+|.||+++.|.|.++ |. .
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 3456789999988999999999999999999999999999999999999999999999999999999999886 32 2
Q ss_pred CCCCCCCCCCCeEEEEEEEeCCC-CCChhhhhhccC--CCceEEEEEEEEEecCCCCCCC
Q 028355 151 ERQPLDQKSKDKFKIMSLKVKGG-IDYVPELFDEQK--DQVTVERILRVVFLNAERPSPV 207 (210)
Q Consensus 151 e~~p~~~~~kDKFlVqs~~v~~~-~d~~~~iwk~~~--k~~i~e~kLrV~f~~p~~~s~~ 207 (210)
.. |.+.+++|||+||++.++.+ ...+.++|+..+ +..+.+.+|+|.|+.|..+..+
T Consensus 79 ~~-P~d~~~r~kF~v~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~k~~~~~~~~~~~~~~ 137 (218)
T KOG0439|consen 79 KS-PPDFKSRHKFLIQSLKAPPPTTRDVVDLWKFQKETPKESFETKLRVVFVAPTETDSV 137 (218)
T ss_pred cC-chhhcccceEEEEEEecCCccccchhhhccccccccccccceeeEEEeeCCCCCccc
Confidence 23 67788999999999999986 577899999987 7888999999999988655443
No 3
>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=2.6e-23 Score=157.42 Aligned_cols=103 Identities=31% Similarity=0.486 Sum_probs=82.1
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEeeecCCCCcCCCCCC
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLD 156 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~~~~p~~~e~~p~~ 156 (210)
|.|+|.+.|.|+++.++...+.|+|+|.++.+||||||||++.+|+|+|+.|+|+||+++.|.|+++ |..... .
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 332221 1
Q ss_pred CCCCCeEEEEEEEeCCCCC----ChhhhhhccC
Q 028355 157 QKSKDKFKIMSLKVKGGID----YVPELFDEQK 185 (210)
Q Consensus 157 ~~~kDKFlVqs~~v~~~~d----~~~~iwk~~~ 185 (210)
...+|||+|+++.++++.. ....+|++.+
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 2239999999999987653 3566777653
No 4
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=98.48 E-value=2.2e-06 Score=64.15 Aligned_cols=68 Identities=29% Similarity=0.418 Sum_probs=59.3
Q ss_pred CcEEecCCCceEeeCC-CCCeeEEEEEEECCCCCcEEEEEccCC--CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 75 RRLRLDPSNNLYFPYE-PGKQTRSAVRLKNTSKSHVAFKFQTTA--PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 75 ~~L~i~P~~eL~F~~~-~~k~v~~~LtL~N~S~~~VAFKVKTTa--P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
..|.++|. +|.|-.- .|......|+|+|.+..+..|+|+.-. ...|.|.|..|+|+||++..+.|.+.
T Consensus 2 P~l~v~P~-~ldFG~v~~g~~~~~~v~l~N~s~~p~~f~v~~~~~~~~~~~v~~~~g~l~PG~~~~~~V~~~ 72 (102)
T PF14874_consen 2 PTLEVSPK-ELDFGNVFVGQTYSRTVTLTNTSSIPARFRVRQPESLSSFFSVEPPSGFLAPGESVELEVTFS 72 (102)
T ss_pred CEEEEeCC-EEEeeEEccCCEEEEEEEEEECCCCCEEEEEEeCCcCCCCEEEECCCCEECCCCEEEEEEEEE
Confidence 35899995 9999763 577888999999999999999997533 56899999999999999999999996
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=0.041 Score=42.41 Aligned_cols=62 Identities=19% Similarity=0.367 Sum_probs=50.8
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC---C------cceeecCCeeeeCCCCeEEEEEEe
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA---P------KSCYMRPPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa---P------~~Y~VRP~~GiL~Pges~~I~Vtl 142 (210)
|.|+|. .+.|.. .+....++|+|.++.++.+.+.... . ..|.|-|+.-.|+||++..|.|..
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 678895 888874 2235899999999999999987553 1 268999999999999999999954
No 6
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=94.65 E-value=1.4 Score=38.20 Aligned_cols=64 Identities=16% Similarity=0.175 Sum_probs=49.6
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCC-----cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAP-----KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP-----~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|... +-...|+|+|.++.++......... .-|.|-|+.-.|+||+...|.|.+.
T Consensus 25 ~v~l~~t-Rvi~~~~---~~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~fivtPPl~rl~pg~~q~vRii~~ 93 (230)
T PRK09918 25 GMVPETS-VVIVEES---DGEGSINVKNTDSNPILLYTTLVDLPEDKSKLLLVTPPVARVEPGQSQQVRFILK 93 (230)
T ss_pred eEEEccE-EEEEECC---CCeEEEEEEcCCCCcEEEEEEEecCCCCCCCCEEEcCCeEEECCCCceEEEEEEC
Confidence 4788885 7888643 3347999999999877666543221 3599999999999999999999874
No 7
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=92.61 E-value=0.64 Score=43.74 Aligned_cols=67 Identities=19% Similarity=0.368 Sum_probs=55.3
Q ss_pred EEecCCCceEeeCCCCCeeEEEEE-EECCCCCcEEEEEccCC------------CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVR-LKNTSKSHVAFKFQTTA------------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~Lt-L~N~S~~~VAFKVKTTa------------P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
..+.+.-.|.|...++..+...|. |.|.+..-|-|..+--. ...|+.....|+|.||++..+.|+.+
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 345555689999999987777777 99999999999865322 45688999999999999999999986
No 8
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=91.06 E-value=6.4 Score=34.75 Aligned_cols=64 Identities=17% Similarity=0.200 Sum_probs=48.7
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC------C-----cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P-----KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa------P-----~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.|+|. .+.|+.. .....|+|.|.++.++.-...+.. | .-|.|-|+.--|+||+...|.|...
T Consensus 29 ~l~l~~T-Rviy~~~---~~~~sl~l~N~~~~p~LvQsWv~~~~~~~~p~~~~~~pFivtPPlfrl~p~~~q~lRI~~~ 103 (253)
T PRK15249 29 SVTILGS-RIIYPST---ASSVDVQLKNNDAIPYIVQTWFDDGDMNTSPENSSAMPFIATPPVFRIQPKAGQVVRVIYN 103 (253)
T ss_pred EEEeCce-EEEEeCC---CcceeEEEEcCCCCcEEEEEEEeCCCCCCCccccccCcEEEcCCeEEecCCCceEEEEEEc
Confidence 4889995 8888632 234799999999887666554321 1 1399999999999999999999974
No 9
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=90.89 E-value=1.8 Score=37.99 Aligned_cols=65 Identities=12% Similarity=0.181 Sum_probs=50.7
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCc----------ceeecCCeeeeCCCCeEEEEEEee
Q 028355 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPK----------SCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 75 ~~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~----------~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
--|.++|. .+.|+. ++-...|+|.|.++.++.-.......+ -|.|-|+.-.|+||+...|.|...
T Consensus 25 A~i~l~~T-RvI~~~---~~~~~sv~l~N~~~~p~LvQ~Wvd~~~~~~~p~~~~~pfivtPPl~rl~p~~~q~lRIi~~ 99 (246)
T PRK09926 25 ADIVISGT-RIIYKS---DQKDVNVRLENKGNNPLLVQSWLDTGDDNAEPGSIKVPFTATPPVSRIDPKRGQTIKLMYT 99 (246)
T ss_pred eeEEeCce-EEEEeC---CCceEEEEEEeCCCCcEEEEEEecCCCCccCccccCCCEEEcCCeEEECCCCccEEEEEeC
Confidence 35889995 888874 233479999999998877666543211 399999999999999999999975
No 10
>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=90.75 E-value=1 Score=29.33 Aligned_cols=42 Identities=24% Similarity=0.174 Sum_probs=34.6
Q ss_pred EEEECCCCCcE-EEEEccCCCcceeecCCeeeeCCCCeEEEEEE
Q 028355 99 VRLKNTSKSHV-AFKFQTTAPKSCYMRPPGGVLAPGDSIIATVF 141 (210)
Q Consensus 99 LtL~N~S~~~V-AFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vt 141 (210)
.+|+|.++.++ ..+|+|+ =+-..+......|+||++..|.|+
T Consensus 2 F~~~N~g~~~L~I~~v~ts-CgCt~~~~~~~~i~PGes~~i~v~ 44 (45)
T PF07610_consen 2 FEFTNTGDSPLVITDVQTS-CGCTTAEYSKKPIAPGESGKIKVT 44 (45)
T ss_pred EEEEECCCCcEEEEEeeEc-cCCEEeeCCcceECCCCEEEEEEE
Confidence 57999999865 6777765 567778888899999999999886
No 11
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=90.28 E-value=8.4 Score=33.33 Aligned_cols=64 Identities=9% Similarity=0.198 Sum_probs=48.2
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC--------CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA--------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa--------P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.++|. .+.|+.. +-...|+|.|.++.++.-...... ..-|.|-|+.-.|+||+...|.|...
T Consensus 23 ~i~l~~T-Rvi~~~~---~~~~sl~l~N~~~~p~lvQsWv~~~~~~~~~~~~pfivtPPl~rl~p~~~q~lRI~~~ 94 (227)
T PRK15299 23 GINIGTT-RVIFHGD---AKDASISISNSDNVPYLIQSWAQSISETGASGDAPFMVTPPLFRLNGGQKNVLRIIRT 94 (227)
T ss_pred eEEECce-EEEEeCC---CcEEEEEEEeCCCCcEEEEEEeecCCCCCCcCCCCEEEcCCeEEECCCCccEEEEEEC
Confidence 4788885 7888643 334799999998886655543221 12399999999999999999998874
No 12
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=90.23 E-value=1.4 Score=33.73 Aligned_cols=49 Identities=14% Similarity=0.309 Sum_probs=35.6
Q ss_pred EEEEEEECCCCCcEEEEEccCCCcceee-cCCee-eeCCCCeEEEEEEeee
Q 028355 96 RSAVRLKNTSKSHVAFKFQTTAPKSCYM-RPPGG-VLAPGDSIIATVFKFV 144 (210)
Q Consensus 96 ~~~LtL~N~S~~~VAFKVKTTaP~~Y~V-RP~~G-iL~Pges~~I~Vtl~~ 144 (210)
...|+|.|.+.++.-|.|+...+..+.+ .|... -|+||+...+.|++..
T Consensus 34 ~Y~lkl~Nkt~~~~~~~i~~~g~~~~~l~~~~~~i~v~~g~~~~~~v~v~~ 84 (118)
T PF11614_consen 34 QYTLKLTNKTNQPRTYTISVEGLPGAELQGPENTITVPPGETREVPVFVTA 84 (118)
T ss_dssp EEEEEEEE-SSS-EEEEEEEES-SS-EE-ES--EEEE-TT-EEEEEEEEEE
T ss_pred EEEEEEEECCCCCEEEEEEEecCCCeEEECCCcceEECCCCEEEEEEEEEE
Confidence 4899999999999999999888778888 66455 4999999999999863
No 13
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=89.41 E-value=11 Score=32.95 Aligned_cols=64 Identities=19% Similarity=0.300 Sum_probs=47.4
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccC------------CCcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT------------APKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTT------------aP~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+. +.....|+|.|.++.++.=..+.. ...-|.|-|+.--|+||+...+.|...
T Consensus 27 ~v~l~~T-RvIy~~---~~~~~sv~l~N~~~~p~LvQswv~~~~~~~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~~ 102 (236)
T PRK11385 27 GVVVGGT-RFIFPA---DRESISILLTNTSQESWLINSKINRPTRWAGGEASTVPAPLLAAPPLILLKPGTTGTLRLLRT 102 (236)
T ss_pred eEEeCce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEcccCccccCcccccccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 4778885 788864 233479999999998744333211 112499999999999999999999885
No 14
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=88.74 E-value=9.1 Score=33.20 Aligned_cols=64 Identities=14% Similarity=0.174 Sum_probs=47.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC-------CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA-------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa-------P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+.. .-...|+|.|.++.++.=...... ..-|.|-|+.-.|+||+...|.|...
T Consensus 20 ~i~l~~T-RvI~~~~---~~~~si~i~N~~~~p~LvQsWv~~~~~~~~~~~pFivtPPl~rl~p~~~q~lRI~~~ 90 (226)
T PRK15295 20 SIVVGGT-RLVFDGN---NDESSINVENKDSKANLVQSWLSVVDPQVTNKQAFIITPPLFRLDAGQKNSIRVIRS 90 (226)
T ss_pred cEEeCce-EEEEeCC---CceeEEEEEeCCCCcEEEEEEEeCCCCCCCCCCCEEEcCCeEEECCCCceEEEEEEC
Confidence 4788885 7888642 234799999999886443322211 22499999999999999999999874
No 15
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=85.99 E-value=7.3 Score=34.06 Aligned_cols=64 Identities=17% Similarity=0.294 Sum_probs=47.8
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC------C----cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P----KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa------P----~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.|++. .+.|+. ++....|+|.|.++.++.=...... | .-|.|-|+.-.|+||+...|.|.+.
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 3778885 888874 2334799999999886544442221 1 1499999999999999999999974
No 16
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=85.85 E-value=23 Score=30.86 Aligned_cols=65 Identities=14% Similarity=0.204 Sum_probs=50.8
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC-------CcceeecCCeeeeCCCCeEEEEEEeee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA-------PKSCYMRPPGGVLAPGDSIIATVFKFV 144 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa-------P~~Y~VRP~~GiL~Pges~~I~Vtl~~ 144 (210)
-+.+++. .+.|+.. +....|+|.|.++.++.-.+..-. ..-|.|-|+.-.|+||+...|.|.+..
T Consensus 28 ~v~i~~T-RiI~~~~---~k~~sl~l~N~~~~p~LvQ~wvd~~~~~~~~~~pfvvtPPv~rl~p~~~q~vRi~~~~ 99 (235)
T COG3121 28 GVVLGGT-RIIYPAG---DKETSLTLRNDGNQPYLVQSWVDDGLEPEKSTVPFVVTPPVFRLEPGQEQQLRILYTG 99 (235)
T ss_pred eEEecce-EEEEeCC---CceeEEEEEcCCCCCEEEEEEEcCCCCCccccCCEEecCCeEEECCCCccEEEEEecC
Confidence 4677785 7777643 234799999988889988865442 334999999999999999999999863
No 17
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=84.53 E-value=7.5 Score=33.69 Aligned_cols=64 Identities=13% Similarity=0.222 Sum_probs=46.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEEEEEccC--CC---cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTT--AP---KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VAFKVKTT--aP---~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+.. +-...|+|+|.+++ ++....... .. .-|.|-|+.-.|+||+...|.|...
T Consensus 22 gv~l~~T-RvI~~~~---~~~~si~i~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPl~rl~p~~~q~lRIi~~ 91 (228)
T PRK15208 22 GVALSST-RVIYDGS---KKEASLTVNNKSKTEEFLIQSWIDDANGNKKTPFIITPPLFKLDPTKNNVLRIVNI 91 (228)
T ss_pred cEEeCce-EEEEeCC---CceEEEEEEeCCCCCcEEEEEEEECCCCCccCCEEECCCeEEECCCCccEEEEEEC
Confidence 4788885 8888752 33479999999864 443332221 11 1299999999999999999999874
No 18
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=84.38 E-value=28 Score=30.55 Aligned_cols=62 Identities=13% Similarity=0.128 Sum_probs=46.2
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccC----------C----CcceeecCCeeeeCCCCeEEEEEE
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT----------A----PKSCYMRPPGGVLAPGDSIIATVF 141 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTT----------a----P~~Y~VRP~~GiL~Pges~~I~Vt 141 (210)
-|.++.. .+.|+. +.-...|+|.|.++.+ |=|++. . ..-|.|-|+.-.|+||+...+.|.
T Consensus 23 gi~l~~T-RvIy~~---~~k~~sv~l~N~~~~p--~LvQswv~~~~~w~~~~~~~~~~PFivtPPlfrl~p~~~~~lRI~ 96 (234)
T PRK15192 23 GVVIGGT-RFIYHA---GAPALSVPVSNHSEAS--WLIDTHILPGGRWPGTKNEGNITPFVVTPPLFMLSARQENSMRVV 96 (234)
T ss_pred eEEeCce-EEEEcC---CCceEEEEEEeCCCCc--EEEEEEeccCccccccCCccccCCEEEcCCeEEECCCCceEEEEE
Confidence 3677774 778864 2334799999999886 445541 1 113999999999999999999999
Q ss_pred ee
Q 028355 142 KF 143 (210)
Q Consensus 142 l~ 143 (210)
..
T Consensus 97 ~~ 98 (234)
T PRK15192 97 YT 98 (234)
T ss_pred EC
Confidence 85
No 19
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=83.01 E-value=20 Score=31.22 Aligned_cols=64 Identities=11% Similarity=0.110 Sum_probs=47.5
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC------CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa------P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+. +.-...|+|+|.++.++.-...... ..-|.|-|+.-.|+||+...|.|...
T Consensus 23 ~v~l~~T-RvIy~~---~~~~~si~i~N~~~~p~LvQswv~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI~~~ 92 (229)
T PRK15211 23 AFVLNGT-RFIYDE---GRKNISFEVTNQADQTYGGQVWIDNTTQGSSTVYMVPAPPFFKVRPKEKQIIRIMKT 92 (229)
T ss_pred EEEECce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 3778884 788864 2234799999999887554433211 12499999999999999999999985
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=81.79 E-value=3.9 Score=31.02 Aligned_cols=52 Identities=17% Similarity=0.232 Sum_probs=33.1
Q ss_pred CCeeEEEEEEECCCCCcEEEEEccC-----C---Ccceee--c-----------CCeeeeCCCCeEEEEEEee
Q 028355 92 GKQTRSAVRLKNTSKSHVAFKFQTT-----A---PKSCYM--R-----------PPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 92 ~k~v~~~LtL~N~S~~~VAFKVKTT-----a---P~~Y~V--R-----------P~~GiL~Pges~~I~Vtl~ 143 (210)
+...+..|+|+|.+++.+.|+|.-. . .+.|.. . |..=.|+||++..|.|++.
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 3446789999999999999997644 1 122221 1 2233589999999999986
No 21
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=79.67 E-value=43 Score=29.51 Aligned_cols=64 Identities=6% Similarity=0.127 Sum_probs=48.2
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCC-CcEEEEEccCC---C----cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSK-SHVAFKFQTTA---P----KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~-~~VAFKVKTTa---P----~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+. +.-...|+|+|.++ .++.-...... . .-|.|-|+.-.|+||+...|.|...
T Consensus 38 gv~l~~T-RvIy~~---~~~~~sl~v~N~~~~~p~LvQsWvd~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~~ 109 (243)
T PRK15290 38 GVVIGGT-RVVYLS---NNPDKSISVFSKEEKIPYLIQAWVDPFNKEDKSKAPFTVIPPVSRLEPSQEKVLRIIHT 109 (243)
T ss_pred eEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcccCCEEEcCCeEEECCCCceEEEEEEc
Confidence 4788885 888874 23347999999986 46666654431 1 1399999999999999999999974
No 22
>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=79.66 E-value=4.9 Score=37.81 Aligned_cols=53 Identities=23% Similarity=0.363 Sum_probs=40.3
Q ss_pred CCCeeEEEEEEECCCCCcEEEEEccCCCcce-------eecCCe-------e-------eeCCCCeEEEEEEee
Q 028355 91 PGKQTRSAVRLKNTSKSHVAFKFQTTAPKSC-------YMRPPG-------G-------VLAPGDSIIATVFKF 143 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y-------~VRP~~-------G-------iL~Pges~~I~Vtl~ 143 (210)
+|+..+-.++|+|.++++|-.+==+|+.-|| ...|.. | =|+|||+.+|.|..+
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 6899999999999999999887555554443 333332 2 289999999999986
No 23
>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=79.41 E-value=12 Score=27.55 Aligned_cols=52 Identities=31% Similarity=0.471 Sum_probs=40.2
Q ss_pred CCeeEEEEEEECCCCCcEE-EEEccCCCcceeec--CC-eeeeCCCCeEEEEEEee
Q 028355 92 GKQTRSAVRLKNTSKSHVA-FKFQTTAPKSCYMR--PP-GGVLAPGDSIIATVFKF 143 (210)
Q Consensus 92 ~k~v~~~LtL~N~S~~~VA-FKVKTTaP~~Y~VR--P~-~GiL~Pges~~I~Vtl~ 143 (210)
+...+-.+...|.+..++- |.++-..|+.+.++ |. ...|+||+.+...+.+.
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 3467789999999998774 88888888887776 44 45899999876666664
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=79.21 E-value=3.3 Score=29.40 Aligned_cols=54 Identities=22% Similarity=0.402 Sum_probs=33.1
Q ss_pred CCCeeEEEEEEECCCCCcE-EEEEccCCCccee--ecCCe-eeeCCCCeEEEEEEeee
Q 028355 91 PGKQTRSAVRLKNTSKSHV-AFKFQTTAPKSCY--MRPPG-GVLAPGDSIIATVFKFV 144 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~V-AFKVKTTaP~~Y~--VRP~~-GiL~Pges~~I~Vtl~~ 144 (210)
.|+...-.++++|....++ ..++.-..|.-+. +.|.. +-|+||++..+.+.+..
T Consensus 3 ~G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~~V~v 60 (78)
T PF10633_consen 3 PGETVTVTLTVTNTGTAPLTNVSLSLSLPEGWTVSASPASVPSLPPGESVTVTFTVTV 60 (78)
T ss_dssp TTEEEEEEEEEE--SSS-BSS-EEEEE--TTSE---EEEEE--B-TTSEEEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCceeeEEEEEeCCCCccccCCccccccCCCCCEEEEEEEEEC
Confidence 5777888999999987643 3555555688877 45544 37999999999999863
No 25
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=77.06 E-value=22 Score=27.92 Aligned_cols=60 Identities=22% Similarity=0.267 Sum_probs=43.1
Q ss_pred ceEeeCCCCCeeEEEEEEECCCCCcEEEEEc-----cCCCcc---------------eee-----cCCeeeeCCCCeEEE
Q 028355 84 NLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQ-----TTAPKS---------------CYM-----RPPGGVLAPGDSIIA 138 (210)
Q Consensus 84 eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVK-----TTaP~~---------------Y~V-----RP~~GiL~Pges~~I 138 (210)
...+...+|+...-.|+|+|.+++.+-|+|. |+..+. |.+ .|..-.|+|+++..|
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 4455567888888999999999999999975 333322 121 144467889999988
Q ss_pred EEEee
Q 028355 139 TVFKF 143 (210)
Q Consensus 139 ~Vtl~ 143 (210)
.+.+.
T Consensus 98 ~~~i~ 102 (121)
T PF06030_consen 98 TFTIK 102 (121)
T ss_pred EEEEE
Confidence 88875
No 26
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=75.53 E-value=56 Score=28.69 Aligned_cols=64 Identities=16% Similarity=0.197 Sum_probs=46.2
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEEEEEccC--C---CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTT--A---PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VAFKVKTT--a---P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+. +.-...|+|.|.+++ ++.=..... . ..-|.|-|+.-.|+||+...|.|...
T Consensus 17 ~v~l~~T-RvIy~~---~~~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pFivtPPlfrl~p~~~~~lRI~~~ 86 (239)
T PRK15254 17 AVNVDRT-RIIMDA---PQKTVAITLNNDDKTTPFLAQSWVTDADGVRTDALMALPPLQRIDAGQKSQVRITQV 86 (239)
T ss_pred eEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCEEEcCCeEEECCCCceEEEEEEc
Confidence 4678884 888864 233479999999864 554433221 1 12499999999999999999999874
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=73.62 E-value=14 Score=27.58 Aligned_cols=53 Identities=21% Similarity=0.181 Sum_probs=39.6
Q ss_pred CCCeeEEEEEEECCCCCc--------EEEEEccCCCc--ceeecCCeeeeCCCCeEEEEEEee
Q 028355 91 PGKQTRSAVRLKNTSKSH--------VAFKFQTTAPK--SCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~--------VAFKVKTTaP~--~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|+.....++++|+++.+ .|+-|--|.-. ....+-..+-|+||++..+.+.+.
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 488899999999999987 66666655433 256778899999999999999985
No 28
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=71.92 E-value=68 Score=28.01 Aligned_cols=64 Identities=16% Similarity=0.256 Sum_probs=46.2
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEEEEEcc-C-CC---cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT-T-AP---KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VAFKVKT-T-aP---~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+. +.....|+|+|.+++ +..-.... + .. .-|.|-|+.-.|+||+...+.|...
T Consensus 28 gi~l~~T-RvIy~~---~~~~~sv~i~N~~~~~p~LvQsWv~~~~~~~~~pFivtPPlfrl~~~~~~~lRI~~~ 97 (228)
T PRK15188 28 GIALGAT-RVIYPQ---GSKQTSLPIINSSASNVFLIQSWVANADGSRSTDFIITPPLFVIQPKKENILRIMYV 97 (228)
T ss_pred eEEECcE-EEEEcC---CCceEEEEEEeCCCCccEEEEEEEecCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 4788885 888864 233479999999865 44322222 1 11 2499999999999999999999974
No 29
>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=71.27 E-value=35 Score=25.53 Aligned_cols=53 Identities=28% Similarity=0.493 Sum_probs=37.6
Q ss_pred CCCeeEEEEEEECCCCCcEE-EEEccCCCcceeec--CC-eeeeCCCCeEEEEEEee
Q 028355 91 PGKQTRSAVRLKNTSKSHVA-FKFQTTAPKSCYMR--PP-GGVLAPGDSIIATVFKF 143 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~VA-FKVKTTaP~~Y~VR--P~-~GiL~Pges~~I~Vtl~ 143 (210)
.+...+-.+++.|.+..++. |.++-..|+.|.++ |. ...|+|+..+.-.+.+.
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 35677889999999998775 88877667766555 55 66999999888777764
No 30
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=68.66 E-value=33 Score=30.13 Aligned_cols=61 Identities=11% Similarity=0.201 Sum_probs=44.4
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEcc----CC---CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT----TA---PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKT----Ta---P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
|.++- ..+.|+. +.-...|+|.|.++.+ |-|++ .. ..-|.|-|+.-.|+|++...|.|...
T Consensus 30 v~l~~-TRvIy~~---~~k~~sl~v~N~~~~p--yLvQsWvd~~~~~~~~pFivtPPlfRlep~~~~~lRI~~~ 97 (237)
T PRK15224 30 VKLGA-TRVIYHA---GTAGATLSVSNPQNYP--ILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRIVRT 97 (237)
T ss_pred EEeCc-eEEEEeC---CCcEEEEEEEcCCCCc--EEEEEEEeCCCCCccCCEEECCCeEEECCCCceEEEEEEC
Confidence 55555 3677764 2233699999998876 55554 11 12399999999999999999999984
No 31
>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=67.39 E-value=21 Score=26.05 Aligned_cols=44 Identities=18% Similarity=0.117 Sum_probs=32.6
Q ss_pred EEEEEEECCCCCcEEEEEccCCCccee-ecCCeeeeCCCCeEEEEEEe
Q 028355 96 RSAVRLKNTSKSHVAFKFQTTAPKSCY-MRPPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 96 ~~~LtL~N~S~~~VAFKVKTTaP~~Y~-VRP~~GiL~Pges~~I~Vtl 142 (210)
.-.|+|.|.+...+.|.|... .|. -.|-.=.|.||++..+.+-+
T Consensus 21 ~l~l~l~N~g~~~~~~~v~~~---~y~~~~~~~~~v~ag~~~~~~w~l 65 (89)
T PF05506_consen 21 NLRLTLSNPGSAAVTFTVYDN---AYGGGGPWTYTVAAGQTVSLTWPL 65 (89)
T ss_pred EEEEEEEeCCCCcEEEEEEeC---CcCCCCCEEEEECCCCEEEEEEee
Confidence 358999999999999999872 232 33445566778888888766
No 32
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=67.03 E-value=85 Score=27.24 Aligned_cols=64 Identities=14% Similarity=0.280 Sum_probs=45.4
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEE-EE-EccCC---CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVA-FK-FQTTA---PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VA-FK-VKTTa---P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.+++. .+.|+.. .....|+|.|.+++ +.. .. |.... ..-|.|-|+.--|+||+...|.|...
T Consensus 26 gi~i~~T-RvIy~~~---~~~~si~l~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPlfrl~p~~~q~lRIi~~ 95 (229)
T PRK15195 26 GIALGAT-RVIYPAD---AKQTSLAIRNSHTNERYLVNSWIENSSGVKEKSFIVTPPLFVSEPKSENTLRIIYA 95 (229)
T ss_pred eEEECCe-EEEEeCC---CceEEEEEEeCCCCccEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 4788885 7888643 22379999999865 343 21 11111 12599999999999999999999984
No 33
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=66.20 E-value=89 Score=27.16 Aligned_cols=63 Identities=16% Similarity=0.183 Sum_probs=44.5
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCC----------cceeecCCeeeeCCCCeEEEEEEee
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAP----------KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP----------~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
|.++- ..+.|+. +.-...|+|.|.++.++.=....... .-|.|-|+.-.|+||+...+.|...
T Consensus 20 i~l~~-TRvIy~~---~~~~~si~i~N~~~~pyLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~~~ 92 (226)
T PRK15218 20 IYIYG-TRIIYPA---QKKDITVQLMNDGKRSSLIQAWIDNGDTSLPPEKLQVPFIMTPPVIRVAANSGQQLKIKKL 92 (226)
T ss_pred EEeCc-eEEEEcC---CCcEEEEEEEcCCCCcEEEEEEEeCCCCCCCcccccCCEEECCCeEEECCCCceEEEEEEC
Confidence 55665 3677763 22336999999998864333322111 1499999999999999999999974
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=65.19 E-value=40 Score=24.63 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=25.4
Q ss_pred eEEEEEEECCCCCcEEEEEccCCCcceeec-------------------CCeeeeCCCCeEEEEEEe
Q 028355 95 TRSAVRLKNTSKSHVAFKFQTTAPKSCYMR-------------------PPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 95 v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VR-------------------P~~GiL~Pges~~I~Vtl 142 (210)
+.-.|+|+|.+++.|-+.+.+---=-|.|+ --.=.|+||++....+.+
T Consensus 2 v~~~l~v~N~s~~~v~l~f~sgq~~D~~v~d~~g~~vwrwS~~~~FtQal~~~~l~pGe~~~~~~~~ 68 (82)
T PF12690_consen 2 VEFTLTVTNNSDEPVTLQFPSGQRYDFVVKDKEGKEVWRWSDGKMFTQALQEETLEPGESLTYEETW 68 (82)
T ss_dssp EEEEEEEEE-SSS-EEEEESSS--EEEEEE-TT--EEEETTTT-------EEEEE-TT-EEEEEEEE
T ss_pred EEEEEEEEeCCCCeEEEEeCCCCEEEEEEECCCCCEEEEecCCchhhheeeEEEECCCCEEEEEEEE
Confidence 345677777777777666554333333333 223467788888777776
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=64.89 E-value=41 Score=25.03 Aligned_cols=54 Identities=19% Similarity=0.186 Sum_probs=33.7
Q ss_pred CCCeeEEEEEEECCCCCcEE-----EEEccCCCcceeecC---------CeeeeCCCCeEEEEEEeee
Q 028355 91 PGKQTRSAVRLKNTSKSHVA-----FKFQTTAPKSCYMRP---------PGGVLAPGDSIIATVFKFV 144 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~VA-----FKVKTTaP~~Y~VRP---------~~GiL~Pges~~I~Vtl~~ 144 (210)
.++-+.-.++|+|.+++++. |++.+..-+.|.... ..+-|.||+++...|....
T Consensus 34 g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~l~F~v 101 (123)
T PF11611_consen 34 GNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGKLVFEV 101 (123)
T ss_dssp -SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEEEEEEE
T ss_pred CCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEEEEEEE
Confidence 34556789999999998775 778877666766442 4689999999999988853
No 36
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=62.25 E-value=87 Score=25.67 Aligned_cols=92 Identities=20% Similarity=0.305 Sum_probs=52.0
Q ss_pred cCCCCCCCCCCccc-eeeeccCCCCCcEEecCCC------ceEeeCCC----CCeeEEEEEEECCCCCcEE-EEEccCC-
Q 028355 51 GVPNSSRPATKTVS-YVARSLLPPRRRLRLDPSN------NLYFPYEP----GKQTRSAVRLKNTSKSHVA-FKFQTTA- 117 (210)
Q Consensus 51 ~~~~~~~~~~~~~~-~~a~~~~p~~~~L~i~P~~------eL~F~~~~----~k~v~~~LtL~N~S~~~VA-FKVKTTa- 117 (210)
+.+|-+.+.++.+. .++-+.++.+.+--+++.. +.+|...+ ...+.-.|+++|.++..+. -+|....
T Consensus 32 ~L~~ls~s~~~~~~~~~~ps~v~~k~~eLL~~v~G~GL~v~Y~F~RqP~~~s~~mvsIql~ftN~s~~~i~~I~i~~k~l 111 (145)
T PF14796_consen 32 DLEGLSLSDSSSVPSVVSPSFVPPKKYELLNRVNGKGLSVEYRFSRQPSLYSPSMVSIQLTFTNNSDEPIKNIHIGEKKL 111 (145)
T ss_pred hccCCCcCcccccccccCCcccCcceEEeeeccCCCceeEEEEEccCCcCCCCCcEEEEEEEEecCCCeecceEECCCCC
Confidence 44555554444332 2333444444433333321 34566532 3456678999999998552 3343332
Q ss_pred Ccceee--cCCeeeeCCCCeEEEEEEe
Q 028355 118 PKSCYM--RPPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 118 P~~Y~V--RP~~GiL~Pges~~I~Vtl 142 (210)
+.--+| -|..+.|+||+++.+.+-.
T Consensus 112 ~~g~~i~~F~~I~~L~pg~s~t~~lgI 138 (145)
T PF14796_consen 112 PAGMRIHEFPEIESLEPGASVTVSLGI 138 (145)
T ss_pred CCCcEeeccCcccccCCCCeEEEEEEE
Confidence 223334 4889999999998887765
No 37
>PRK15233 putative fimbrial chaperone protein SefB; Provisional
Probab=59.92 E-value=65 Score=28.57 Aligned_cols=61 Identities=15% Similarity=0.161 Sum_probs=43.1
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEcc----CC---CcceeecCCeeeeCCCCeEEEEEEee
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT----TA---PKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKT----Ta---P~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
|.++-. .+.|+. ++ ....|+|.|.++.+ |-|++ .. ..-|.|-|+.-.|+|++...|.|...
T Consensus 42 i~l~~T-RvIy~~--~~-~~~sl~i~N~~~~p--~LvQsWvd~~~~~~~~pFiVtPPLfRLep~~~~~lRIi~~ 109 (246)
T PRK15233 42 LRLGTT-RVIYKE--DA-PSTSFWIMNEKEYP--ILVQTQVYNDDKSSKAPFIVTPPILKVESNARTRLKVIPT 109 (246)
T ss_pred EEeCce-EEEEeC--CC-cEEEEEEEcCCCCc--EEEEEEEecCCCCccCCEEECCCeEEECCCCceEEEEEEC
Confidence 455553 666653 22 34799999987776 44443 11 12499999999999999999999984
No 38
>PRK15274 putative periplasmic fimbrial chaperone protein SteC; Provisional
Probab=59.66 E-value=1.3e+02 Score=26.80 Aligned_cols=64 Identities=16% Similarity=0.107 Sum_probs=45.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEEEEEccCCC------cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTTAP------KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VAFKVKTTaP------~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.++= ..+.|+. +.-...|+|.|.++. ++.-....... .-|.|-|+.-.|+||+...|.|...
T Consensus 27 gi~l~~-TRvIy~e---~~~~~sv~v~N~~~~~p~LVQsWvdd~~~~~~~~pFivtPPLfRlep~~~q~lRI~~~ 97 (257)
T PRK15274 27 AIVPDR-TRVIFNG---NENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQPL 97 (257)
T ss_pred eEEeCc-eEEEEeC---CCceEEEEEEeCCCCCcEEEEEEccCCCCCcccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 456665 3777763 223479999999876 55444322111 1499999999999999999999974
No 39
>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=55.30 E-value=12 Score=25.72 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=26.9
Q ss_pred EEEECCCCCcEEEE-EccCCCcceeecCCeeeeCCCCeEEEEEE
Q 028355 99 VRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATVF 141 (210)
Q Consensus 99 LtL~N~S~~~VAFK-VKTTaP~~Y~VRP~~GiL~Pges~~I~Vt 141 (210)
|+++|+|..+|.|- ++....++=.--...+.|+|+++..+.+.
T Consensus 1 L~v~NpTPy~vtl~~~~~~~~~~~~~~~~~~mi~P~s~~~~~~~ 44 (68)
T PF02753_consen 1 LTVKNPTPYYVTLSSLKLNGGGKKKKIDNSGMIAPFSSKSFPLP 44 (68)
T ss_dssp EEEEE-SSS-EEEEEEEETHHHCCEECCCETEE-TTEEEEEETS
T ss_pred CEEECCCCcEEEEEeeeecccccccccCCceEECCCCceEEecc
Confidence 78999999999886 44443333233344459999999887744
No 40
>PRK15308 putative fimbrial protein TcfA; Provisional
Probab=55.01 E-value=1.5e+02 Score=26.09 Aligned_cols=85 Identities=12% Similarity=0.172 Sum_probs=58.6
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEcc---CCC---------------cceeecCCeeeeCCCCeEE
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT---TAP---------------KSCYMRPPGGVLAPGDSII 137 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKT---TaP---------------~~Y~VRP~~GiL~Pges~~ 137 (210)
-|.|.|- .+.+.. +.+....++|.|.++++..++|+. ++| ..-.+-|..-+|.||++..
T Consensus 17 ~l~V~Pi-~~~i~a--~~~~~~~v~V~N~g~~~~~vqV~v~r~~~PG~~~e~~~~~~~~~~~eLiaSP~~l~L~pg~~q~ 93 (234)
T PRK15308 17 NMLVYPM-AAEIGA--GREEATSLFVYSKSDHTQYVRTRIKRIEHPATPQEKEVPAGNDIETGLVVSPEKFALPAGTTRT 93 (234)
T ss_pred eEEEEEe-EEEecC--CCcceEEEEEEeCCCCcEEEEEEEEEEcCCCCCCCcccccccCCCCcEEEcCceeEECCCCeEE
Confidence 4788995 666642 334458999999999988777641 222 1367789999999999999
Q ss_pred EEEEeeecCCCCcCCCCCCCCCCCeEEEEEEEeCCCC
Q 028355 138 ATVFKFVEAPENNERQPLDQKSKDKFKIMSLKVKGGI 174 (210)
Q Consensus 138 I~Vtl~~~~p~~~e~~p~~~~~kDKFlVqs~~v~~~~ 174 (210)
|.+.... + + ....-|.|...+++...
T Consensus 94 IRli~lg--~------~---~kE~~YRl~~~pvp~~~ 119 (234)
T PRK15308 94 VRVISLQ--A------P---EREEAWRVYFEPVAELE 119 (234)
T ss_pred EEEEEcC--C------C---CcEEEEEEEEEecCCcc
Confidence 9988742 1 1 12345667777776543
No 41
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=54.22 E-value=81 Score=23.28 Aligned_cols=53 Identities=19% Similarity=0.349 Sum_probs=36.4
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEe
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl 142 (210)
...+|. ++..+ .|+.+ .|+++|.....-.|-+.. +.+ ...|.||++..+.++-
T Consensus 30 ~~f~P~-~i~v~--~G~~v--~l~~~N~~~~~h~~~i~~-----~~~---~~~l~~g~~~~~~f~~ 82 (104)
T PF13473_consen 30 FGFSPS-TITVK--AGQPV--TLTFTNNDSRPHEFVIPD-----LGI---SKVLPPGETATVTFTP 82 (104)
T ss_dssp EEEES--EEEEE--TTCEE--EEEEEE-SSS-EEEEEGG-----GTE---EEEE-TT-EEEEEEEE
T ss_pred CeEecC-EEEEc--CCCeE--EEEEEECCCCcEEEEECC-----Cce---EEEECCCCEEEEEEcC
Confidence 478995 77775 57766 599999999888888876 112 2689999999999864
No 42
>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=54.09 E-value=11 Score=31.34 Aligned_cols=51 Identities=24% Similarity=0.399 Sum_probs=33.7
Q ss_pred CceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCcceeecCCeee--eCCCCeEEEEEEee
Q 028355 83 NNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGV--LAPGDSIIATVFKF 143 (210)
Q Consensus 83 ~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~Gi--L~Pges~~I~Vtl~ 143 (210)
-.|+|..- + -.+... ++ .|+|.-=+-+.|++.|.-|+ |+||+++.|.+.-.
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 57888742 2 233333 33 28898888999999999998 89999999998864
No 43
>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=54.00 E-value=37 Score=32.07 Aligned_cols=65 Identities=18% Similarity=0.251 Sum_probs=44.0
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCCCccee----------------------ecCCeeeeCCC
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCY----------------------MRPPGGVLAPG 133 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~----------------------VRP~~GiL~Pg 133 (210)
.+.++-. .-.|.- +++..+-.|+++|.++++|-.+==+|+.-+|. |.|+ +=|+||
T Consensus 248 ~V~~~v~-~A~Y~v-pgR~l~~~l~VtN~g~~pv~LgeF~tA~vrFln~~v~~~~~~~P~~l~A~~gL~vs~~-~pI~PG 324 (381)
T PF04744_consen 248 SVKVKVT-DATYRV-PGRTLTMTLTVTNNGDSPVRLGEFNTANVRFLNPDVPTDDPDYPDELLAERGLSVSDN-SPIAPG 324 (381)
T ss_dssp SEEEEEE-EEEEES-SSSEEEEEEEEEEESSS-BEEEEEESSS-EEE-TTT-SS-S---TTTEETT-EEES---S-B-TT
T ss_pred ceEEEEe-ccEEec-CCcEEEEEEEEEcCCCCceEeeeEEeccEEEeCcccccCCCCCchhhhccCcceeCCC-CCcCCC
Confidence 4777774 666764 68999999999999999988775455544432 2333 458999
Q ss_pred CeEEEEEEee
Q 028355 134 DSIIATVFKF 143 (210)
Q Consensus 134 es~~I~Vtl~ 143 (210)
|+.+++|..+
T Consensus 325 ETrtl~V~a~ 334 (381)
T PF04744_consen 325 ETRTLTVEAQ 334 (381)
T ss_dssp -EEEEEEEEE
T ss_pred ceEEEEEEee
Confidence 9999999996
No 44
>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=47.87 E-value=45 Score=24.88 Aligned_cols=49 Identities=20% Similarity=0.308 Sum_probs=33.1
Q ss_pred eEEEEEEECCCCCcE-EEEEccCC-----------------CcceeecCCe--eeeCCCCeEEEEEEee
Q 028355 95 TRSAVRLKNTSKSHV-AFKFQTTA-----------------PKSCYMRPPG--GVLAPGDSIIATVFKF 143 (210)
Q Consensus 95 v~~~LtL~N~S~~~V-AFKVKTTa-----------------P~~Y~VRP~~--GiL~Pges~~I~Vtl~ 143 (210)
....|+|+|.++..| .++|.=+- -..|.|+|.. +.|+||+++.+-+...
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 446788888887764 23332221 2458888764 7999999998877764
No 45
>PRK15253 putative fimbrial assembly chaperone protein StcB; Provisional
Probab=45.98 E-value=2.1e+02 Score=25.16 Aligned_cols=64 Identities=14% Similarity=0.204 Sum_probs=45.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEEccCC------C----cceeecCCeeeeCCCCeEEEEEEee
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P----KSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKVKTTa------P----~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
-|.++- ..+.|+. + .-...|+|.|.++.++.=...... + .-|.|-|+.-.|+|++...|.|...
T Consensus 34 gv~l~~-TRvIy~~--~-~k~~sv~i~N~~~~pyLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~~~ 107 (242)
T PRK15253 34 GIVIYG-TRVIYPA--E-KKEVVVQLVNQGEQASLVQSWIDDGNTSLPPEKIQVPFMLTPPVARVAAESGQQIKIKKM 107 (242)
T ss_pred eEEeCc-eEEEEeC--C-CceEEEEEEcCCCCcEEEEEEEECCCCCCCcccccCCEEECCCeEEECCCCceEEEEEEC
Confidence 456665 3777764 2 234699999999886443332211 1 1499999999999999999999864
No 46
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=45.03 E-value=2.2e+02 Score=25.16 Aligned_cols=63 Identities=16% Similarity=0.125 Sum_probs=43.2
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCC-cEEEEEcc--CCCc----ceeecCCeeeeCCCCeEEEEEEee
Q 028355 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT--TAPK----SCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 77 L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~-~VAFKVKT--TaP~----~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
|.++- ..+.|+. +.-...|+|+|.++. ++.-.... ...+ -|.|-|+.-.|+||+...|.|...
T Consensus 27 v~l~~-TRVIy~~---~~~~~sv~i~N~~~~~p~LvQsWvd~~~~~~~~~pFiVtPPlfRl~p~~~~~lRI~~~ 96 (250)
T PRK15285 27 IAPDR-TRLVFRG---EDKSISVDLKNANSKLPYLAQSWVEDEKGVKITSPLIVVPPVQRIEPSAIGQVKIQGM 96 (250)
T ss_pred EEeCc-cEEEEcC---CCceEEEEEEeCCCCCcEEEEEEeeCCCCCcccCCEEEcCCeEEECCCCceEEEEEEC
Confidence 45555 3677764 223379999999865 54433221 1111 399999999999999999999874
No 47
>PF13205 Big_5: Bacterial Ig-like domain
Probab=44.29 E-value=1.1e+02 Score=22.05 Aligned_cols=56 Identities=20% Similarity=0.268 Sum_probs=35.4
Q ss_pred ceEeeCCCC-CeeEEEEEEEC--CCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEe
Q 028355 84 NLYFPYEPG-KQTRSAVRLKN--TSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFK 142 (210)
Q Consensus 84 eL~F~~~~~-k~v~~~LtL~N--~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl 142 (210)
.|.|..+-. ......+.+.. ....+|.+. ....+.+.++|. +-|.+|..+.|.|.-
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 556665533 23445566644 333455555 334488999998 668899999999854
No 48
>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=40.22 E-value=2.2e+02 Score=27.31 Aligned_cols=69 Identities=13% Similarity=0.194 Sum_probs=46.4
Q ss_pred cEEecCCC-ceEeeCCCCC-eeEEEEEEECCCCCcEEEEEccCCCcceeec-C-CeeeeCCCCeEEEEEEeee
Q 028355 76 RLRLDPSN-NLYFPYEPGK-QTRSAVRLKNTSKSHVAFKFQTTAPKSCYMR-P-PGGVLAPGDSIIATVFKFV 144 (210)
Q Consensus 76 ~L~i~P~~-eL~F~~~~~k-~v~~~LtL~N~S~~~VAFKVKTTaP~~Y~VR-P-~~GiL~Pges~~I~Vtl~~ 144 (210)
.|.|.... .|+...+.|. +-...++|.|.+.++..|.++........+. + +.=.|+||+..++.|++..
T Consensus 327 ~~~v~r~r~~l~~~~~~g~i~N~Y~~~i~Nk~~~~~~~~l~v~g~~~~~~~~~~~~i~v~~g~~~~~~v~v~~ 399 (434)
T TIGR02745 327 DLNVLRDRNLLYVRNSDGVVENTYTLKILNKTEQPHEYYLSVLGLPGIKIEGPGAPIHVKAGEKVKLPVFLRT 399 (434)
T ss_pred EEEEEecCCcceEECCCCcEEEEEEEEEEECCCCCEEEEEEEecCCCcEEEcCCceEEECCCCEEEEEEEEEe
Confidence 34444443 3555545553 4458999999999988888876654443333 2 2448999999999999863
No 49
>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=38.83 E-value=1e+02 Score=21.61 Aligned_cols=53 Identities=21% Similarity=0.172 Sum_probs=34.3
Q ss_pred CCCeeEEEEEEECCCCC-cEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEee
Q 028355 91 PGKQTRSAVRLKNTSKS-HVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~-~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
.|+..+-.++|+|.... .=.|+|+-...+...-.-..+-|+||++..+.+.+.
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 47888899999999775 345665532222222222337899999999999985
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=38.27 E-value=1.5e+02 Score=21.91 Aligned_cols=50 Identities=16% Similarity=0.244 Sum_probs=31.6
Q ss_pred CCeeEEEEEEECCCCCc--EEEEEccCCCcceeecCC-----eeeeCCCCeEEEEEE
Q 028355 92 GKQTRSAVRLKNTSKSH--VAFKFQTTAPKSCYMRPP-----GGVLAPGDSIIATVF 141 (210)
Q Consensus 92 ~k~v~~~LtL~N~S~~~--VAFKVKTTaP~~Y~VRP~-----~GiL~Pges~~I~Vt 141 (210)
++..+..+.|+|.++.+ +.||+-==..+-+.|.|. .=.|.++++..|.-.
T Consensus 23 ~g~~~~~~~l~N~~~~~~~l~Yrf~WyD~~G~~v~~~~~~w~~~~l~~~~~~~l~~~ 79 (94)
T PF07233_consen 23 NGLLRAQATLSNKSSKPLTLQYRFYWYDKQGLEVDPEQSPWQSLTLPGGQTVTLSAV 79 (94)
T ss_dssp CCEEEEEEEEEE-SSS-EEEEEEEEEE-TTS-EE--TT---EEEEE-TT-EEEEEEE
T ss_pred CCeEEEEEEEEECCCCcEEEEEEEEEECCCCCCcCCCCCCCEEEEEcCCCEEEEEEE
Confidence 67778999999999875 889987666677777776 446777777666544
No 51
>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=37.25 E-value=1.8e+02 Score=24.37 Aligned_cols=52 Identities=15% Similarity=0.268 Sum_probs=40.1
Q ss_pred CCCeeEEEEEEECCCCCcEEEEEccCC----Ccceeec-----CCeeeeCCCCeEEEEEEee
Q 028355 91 PGKQTRSAVRLKNTSKSHVAFKFQTTA----PKSCYMR-----PPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 91 ~~k~v~~~LtL~N~S~~~VAFKVKTTa----P~~Y~VR-----P~~GiL~Pges~~I~Vtl~ 143 (210)
.|+++.-.++|.|..+. -||.|+-+. ++.|-+- =....|+||+.+.-.+++.
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 47888999999999988 789998777 2445443 1257899999998888875
No 52
>smart00637 CBD_II CBD_II domain.
Probab=35.88 E-value=1.3e+02 Score=21.66 Aligned_cols=24 Identities=21% Similarity=0.256 Sum_probs=18.2
Q ss_pred cceeecCCe--eeeCCCCeEEEEEEe
Q 028355 119 KSCYMRPPG--GVLAPGDSIIATVFK 142 (210)
Q Consensus 119 ~~Y~VRP~~--GiL~Pges~~I~Vtl 142 (210)
..|.++|.. +.|+||+++.+-+..
T Consensus 50 ~~~~~~~~~wn~~i~~G~s~~~gf~~ 75 (92)
T smart00637 50 GHVTATNASWNGTIAPGGSVSFGFQG 75 (92)
T ss_pred CEEEEecCccccccCCCCEEEEEEEe
Confidence 368888644 799999988876555
No 53
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=34.16 E-value=44 Score=26.91 Aligned_cols=43 Identities=28% Similarity=0.368 Sum_probs=32.8
Q ss_pred eeccCCCCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEE
Q 028355 67 ARSLLPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKF 113 (210)
Q Consensus 67 a~~~~p~~~~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKV 113 (210)
|.++.-.+-...+.| .++|.+++|.+ ++|-|..++.+.+-||-
T Consensus 86 aerlea~gi~~~i~P--~vRF~Ge~gEq--~TlFl~DP~gN~lEfK~ 128 (138)
T COG3565 86 AERLEAAGIPFHIPP--KVRFKGEPGEQ--RTLFLFDPSGNALEFKG 128 (138)
T ss_pred HHHHHHcCCCcccCc--eEEecCCccce--EEEEEECCCCCeeeeec
Confidence 555554443445555 89999999987 58999999999999983
No 54
>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=34.12 E-value=56 Score=22.22 Aligned_cols=32 Identities=25% Similarity=0.505 Sum_probs=19.7
Q ss_pred ecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEEE
Q 028355 79 LDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKF 113 (210)
Q Consensus 79 i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFKV 113 (210)
.+......|.+ +. +...-++...++..||||+
T Consensus 40 ~~~~~C~~y~~--~~-i~~v~~~~~~~~~~VA~K~ 71 (71)
T PF08277_consen 40 FDSGKCYLYNY--GS-ISTVQKTDSSSGNKVAFKI 71 (71)
T ss_pred eCCCCEEEEEc--CC-EEEEEEeecCCCeEEEEEC
Confidence 33434555553 44 5455556666778999996
No 55
>cd04094 selB_III This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=33.61 E-value=1.8e+02 Score=21.21 Aligned_cols=32 Identities=28% Similarity=0.331 Sum_probs=23.9
Q ss_pred eeeeCCCCeEEEEEEeeecCCCCcCCCCCCCCCCCeEEEEE
Q 028355 127 GGVLAPGDSIIATVFKFVEAPENNERQPLDQKSKDKFKIMS 167 (210)
Q Consensus 127 ~GiL~Pges~~I~Vtl~~~~p~~~e~~p~~~~~kDKFlVqs 167 (210)
...|.||++..+++.+. .|. -....|+|+|..
T Consensus 54 ~~~~~pg~~~~a~l~l~--~pl-------~~~~gdrfilR~ 85 (97)
T cd04094 54 RDELAPGEEALAQLRLE--EPL-------VALRGDRFILRS 85 (97)
T ss_pred ccccCCCCEEEEEEEEC--CcE-------eecCCCeEEEee
Confidence 45689999999999984 232 345669999964
No 56
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=28.49 E-value=2.5e+02 Score=24.44 Aligned_cols=82 Identities=13% Similarity=0.177 Sum_probs=56.1
Q ss_pred CccceeeeccCCCCCcEEecCCCceEeeCCCCCee-EEEEEEECCCCCcEE-EEEccCCCcceee----cCCeeeeCCCC
Q 028355 61 KTVSYVARSLLPPRRRLRLDPSNNLYFPYEPGKQT-RSAVRLKNTSKSHVA-FKFQTTAPKSCYM----RPPGGVLAPGD 134 (210)
Q Consensus 61 ~~~~~~a~~~~p~~~~L~i~P~~eL~F~~~~~k~v-~~~LtL~N~S~~~VA-FKVKTTaP~~Y~V----RP~~GiL~Pge 134 (210)
..++.|+|..+-..+.+.++......|.+.+.... ...|+|.|.....|. +.+.....+.+.+ +-..|-..|..
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 35567888877677778777644566666654433 579999999888774 7776666777766 34556666666
Q ss_pred eEEEEEEe
Q 028355 135 SIIATVFK 142 (210)
Q Consensus 135 s~~I~Vtl 142 (210)
.+.+.|.-
T Consensus 171 ~Yt~~V~A 178 (225)
T PRK06655 171 NYTIKASA 178 (225)
T ss_pred eEEEEEEE
Confidence 67777764
No 57
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=27.17 E-value=1.8e+02 Score=24.22 Aligned_cols=64 Identities=20% Similarity=0.191 Sum_probs=45.9
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEEEE-----------EccCCCcceeecCCeee-eCCCCeEEEEEEe
Q 028355 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFK-----------FQTTAPKSCYMRPPGGV-LAPGDSIIATVFK 142 (210)
Q Consensus 76 ~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VAFK-----------VKTTaP~~Y~VRP~~Gi-L~Pges~~I~Vtl 142 (210)
-+.=||. .+-..+.. ..-+.++-|||+.++.++|- +.|-+--.|..-+..|+ |.||+--. +|++
T Consensus 53 aIIndPg-~i~~~~~~-g~~t~t~yiKNtG~~~~~fd~~sitVliDG~iv~~a~~~~~~~~gs~i~l~PG~Vg~-ev~v 128 (154)
T COG3354 53 AIINDPG-QIPYVGTD-GPYTYTFYIKNTGSDSIAFDNTSITVLIDGNIVTPAYVTFTSVNGSSIRLSPGQVGR-EVTV 128 (154)
T ss_pred EEecCCC-CCccccCC-CceEEEEEEecCCCcccccCCCeEEEEEcCcEeccceEEEEecCCCeeEecCCceee-EEEe
Confidence 4555674 55555432 34468999999999999996 45556666788888999 99999875 5555
No 58
>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=26.45 E-value=1.9e+02 Score=24.32 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=47.3
Q ss_pred EEEEEEECCCCCcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEeeecCCCCcCCCCCCCCCCCeEEEEEEEeCCCC
Q 028355 96 RSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKFVEAPENNERQPLDQKSKDKFKIMSLKVKGGI 174 (210)
Q Consensus 96 ~~~LtL~N~S~~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~~~~p~~~e~~p~~~~~kDKFlVqs~~v~~~~ 174 (210)
+-..-|.|-|+..+-|-.-+...+.|.+| ..|.|+|+..+-|.-+-.. +...-.+..||.+.-..+.
T Consensus 19 ~fE~YlVNDSNYy~~y~y~~~~g~~w~lr-s~G~iEPNtKl~ieef~~~-----------eLN~~~~v~vQ~iAyK~~K 85 (162)
T PF09640_consen 19 RFECYLVNDSNYYLHYTYLTAEGNSWTLR-SAGEIEPNTKLFIEEFSKE-----------ELNDLERVAVQLIAYKKDK 85 (162)
T ss_dssp -EEEEEEE-SSSEEEEEEEEEETTEEEEE-EEEEE-TTEEEEEEEE-GG-----------GGGG-SSEEEEEEEE-SSS
T ss_pred ceEEEEEecCccEEEEEEEeccCCeEEEE-ecceECCCceeehhhcCHH-----------HhhccceeEEEEEEEcCCC
Confidence 45778999999999999988888899998 6899999999988765421 1123466777777776553
No 59
>smart00605 CW CW domain.
Probab=25.64 E-value=1.5e+02 Score=21.51 Aligned_cols=33 Identities=33% Similarity=0.521 Sum_probs=18.5
Q ss_pred CceEeeCCCCCeeEEEEEEECC-CCCcEEEEEccCCCc
Q 028355 83 NNLYFPYEPGKQTRSAVRLKNT-SKSHVAFKFQTTAPK 119 (210)
Q Consensus 83 ~eL~F~~~~~k~v~~~LtL~N~-S~~~VAFKVKTTaP~ 119 (210)
....|.+ +. + ..|+-.+. +...||||+.++.+.
T Consensus 47 ~C~~f~~--~~-~-~~v~~~~~~~~~~VAfK~~~~~~~ 80 (94)
T smart00605 47 TCYLFSY--GT-V-LTVKKLSSSSGKKVAFKVSTDQPS 80 (94)
T ss_pred ceEEEEc--CC-e-EEEEEccCCCCcEEEEEEeCCCCC
Confidence 4555655 33 2 23343443 456899999865443
No 60
>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=25.32 E-value=78 Score=26.98 Aligned_cols=26 Identities=31% Similarity=0.543 Sum_probs=22.1
Q ss_pred CcEEEEEccCCCcceeecCCeeeeCCCCeEEEEEEee
Q 028355 107 SHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATVFKF 143 (210)
Q Consensus 107 ~~VAFKVKTTaP~~Y~VRP~~GiL~Pges~~I~Vtl~ 143 (210)
+||+||+ |.+.-|+||+++++.+...
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 8889999999999998763
No 61
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=23.76 E-value=1.5e+02 Score=26.10 Aligned_cols=42 Identities=10% Similarity=0.061 Sum_probs=28.0
Q ss_pred EEEEECCCCCcEEEE-EccCCCcceeecCCeeeeCCCCeEEEEE
Q 028355 98 AVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (210)
Q Consensus 98 ~LtL~N~S~~~VAFK-VKTTaP~~Y~VRP~~GiL~Pges~~I~V 140 (210)
.|+|+|++..++.|. ++....+ -.+....|.|.|+++..+.+
T Consensus 177 ~l~v~Nptpyyitl~~l~~~~~~-~~~~~~~~mv~P~s~~~~~l 219 (253)
T PRK15249 177 GIVIVNPQPWFASLSNLNVKVNG-ASYNLDADMIAPFSSQTWWL 219 (253)
T ss_pred EEEEECCCceEEEeeeeeeccCC-eecCCCCceECCCCccEEEc
Confidence 499999999988775 3321112 11222457899999988864
No 62
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=22.69 E-value=1.8e+02 Score=25.13 Aligned_cols=49 Identities=10% Similarity=0.217 Sum_probs=32.7
Q ss_pred CceEeeCCCCCeeEEEEEEECCCCCcEEEE-EccCCCcceeecCCeeeeCCCCeEEEEE
Q 028355 83 NNLYFPYEPGKQTRSAVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATV 140 (210)
Q Consensus 83 ~eL~F~~~~~k~v~~~LtL~N~S~~~VAFK-VKTTaP~~Y~VRP~~GiL~Pges~~I~V 140 (210)
..|.|.... ..|+|+|+|..+|.|- ++... +. +. ..|.|+|+++..+.+
T Consensus 148 ~~L~~~~~~-----~~l~v~NptPyyitl~~l~~~~-~~--~~-~~~mI~P~s~~~~~~ 197 (226)
T PRK15295 148 QQLKWQTAG-----DVITVNNPTPYYMNFASVTLNS-HE--VK-SATFVPPKSSASFKL 197 (226)
T ss_pred hccEEEEcC-----CEEEEECCCceEEEEEEEEECC-cc--cC-CCceECCCCccEEEc
Confidence 356665422 2499999999998765 55432 22 22 258999999988874
No 63
>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=22.35 E-value=2.9e+02 Score=20.25 Aligned_cols=60 Identities=18% Similarity=0.248 Sum_probs=32.2
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCC--cEEEEEccCCCcceeecC----CeeeeCCCCeEEEEEE
Q 028355 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS--HVAFKFQTTAPKSCYMRP----PGGVLAPGDSIIATVF 141 (210)
Q Consensus 75 ~~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~--~VAFKVKTTaP~~Y~VRP----~~GiL~Pges~~I~Vt 141 (210)
.-+..+|. .|.+. .|+. ++++|.... .+.|.=.......-...+ ..+.+.||++..+.+.
T Consensus 10 g~~~F~P~-~i~v~--~G~~----V~~~N~~~~~H~~~~~~~~~~~~~~~~~~~~~~~~~~~~pG~t~~~tF~ 75 (99)
T TIGR02656 10 GALVFEPA-KISIA--AGDT----VEWVNNKGGPHNVVFDEDAVPAGVKELAKSLSHKDLLNSPGESYEVTFS 75 (99)
T ss_pred CceeEeCC-EEEEC--CCCE----EEEEECCCCCceEEECCCCCccchhhhcccccccccccCCCCEEEEEeC
Confidence 34678884 77775 5653 577787543 344421111111101111 2357899999888655
No 64
>PRK13198 ureB urease subunit beta; Reviewed
Probab=21.50 E-value=2.3e+02 Score=23.68 Aligned_cols=70 Identities=19% Similarity=0.274 Sum_probs=41.3
Q ss_pred eccCCCCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCcEE----EEEccCCCc---------ceeecCCee---eeC
Q 028355 68 RSLLPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVA----FKFQTTAPK---------SCYMRPPGG---VLA 131 (210)
Q Consensus 68 ~~~~p~~~~L~i~P~~eL~F~~~~~k~v~~~LtL~N~S~~~VA----FKVKTTaP~---------~Y~VRP~~G---iL~ 131 (210)
+..++++. +.+.+ ..+.++ .|+. +..|+++|+.+.+|- |-+-=+++- -|+..=+.| ..+
T Consensus 26 ~~~~~pGe-i~~~~-g~I~lN--~gr~-~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR~~A~G~RLdIPAGTAVRFE 100 (158)
T PRK13198 26 EQNTPLGG-LVLAE-TPITFN--ENKP-VTKVKVRNTGDRPIQVGSHFHFFEVNRALEFDRAAAYGKRLNISSTTAIRFE 100 (158)
T ss_pred cccCCCce-EEeCC-CCeEeC--CCCc-EEEEEEEeCCCCceEeccccchhhcCccccccHhhhcCcccccCCCCeEeeC
Confidence 44455665 34445 467776 3554 379999999999873 222212221 133332233 579
Q ss_pred CCCeEEEEEEe
Q 028355 132 PGDSIIATVFK 142 (210)
Q Consensus 132 Pges~~I~Vtl 142 (210)
||++.+|.+.-
T Consensus 101 PG~~k~V~LV~ 111 (158)
T PRK13198 101 PGDETEVPLIP 111 (158)
T ss_pred CCCeeEEEEEE
Confidence 99999988664
Done!