Query 024770
Match_columns 262
No_of_seqs 172 out of 664
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 07:16:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0439 VAMP-associated protei 100.0 1.3E-30 2.8E-35 229.0 15.3 188 69-260 3-217 (218)
2 COG5066 SCS2 VAMP-associated p 99.9 8.1E-26 1.8E-30 200.3 11.7 118 75-197 3-122 (242)
3 PF00635 Motile_Sperm: MSP (Ma 99.9 2.3E-22 5E-27 157.4 11.6 102 75-181 2-107 (109)
4 PF14874 PapD-like: Flagellar- 98.3 6.3E-06 1.4E-10 64.0 10.0 66 74-140 3-71 (102)
5 PF00345 PapD_N: Pili and flag 96.2 0.11 2.3E-06 41.7 11.3 62 75-140 2-72 (122)
6 PF14646 MYCBPAP: MYCBP-associ 93.0 2.2 4.8E-05 41.8 13.1 118 75-213 231-361 (426)
7 PRK09918 putative fimbrial cha 92.2 2.6 5.6E-05 38.1 11.6 63 74-140 25-92 (230)
8 PF07610 DUF1573: Protein of u 90.0 1.2 2.7E-05 30.2 5.6 42 97-139 2-44 (45)
9 PRK09926 putative chaperone pr 88.9 8.8 0.00019 35.1 12.1 63 74-140 26-98 (246)
10 PRK15299 fimbrial chaperone pr 87.5 15 0.00034 33.0 12.6 63 74-140 23-93 (227)
11 PF11614 FixG_C: IG-like fold 87.3 1.8 4E-05 34.5 5.9 67 75-141 13-83 (118)
12 PRK15295 fimbrial assembly cha 87.0 11 0.00024 34.1 11.4 60 75-140 21-89 (226)
13 PRK15249 fimbrial chaperone pr 85.8 8.1 0.00018 35.5 10.0 62 75-140 30-102 (253)
14 PRK11385 putativi pili assembl 85.3 17 0.00038 33.2 11.8 63 74-140 27-101 (236)
15 PRK15211 fimbrial chaperone pr 83.8 11 0.00023 34.4 9.8 62 75-140 24-91 (229)
16 PRK15192 fimbrial chaperone Bc 83.4 21 0.00046 32.7 11.5 60 75-140 24-97 (234)
17 PRK15188 fimbrial chaperone pr 82.2 33 0.00071 31.3 12.3 63 74-140 28-96 (228)
18 PF06280 DUF1034: Fn3-like dom 79.2 5.2 0.00011 31.6 5.4 51 90-140 7-78 (112)
19 PRK15208 long polar fimbrial c 79.1 18 0.00039 32.7 9.5 63 74-140 22-90 (228)
20 PRK15195 fimbrial chaperone pr 75.4 25 0.00053 31.9 9.3 61 74-140 26-94 (229)
21 COG3121 FimC P pilus assembly 73.7 66 0.0014 29.2 11.6 111 75-200 29-147 (235)
22 PRK15246 fimbrial assembly cha 72.5 77 0.0017 28.9 13.5 60 75-140 12-83 (233)
23 PRK15233 putative fimbrial cha 71.1 34 0.00074 31.7 9.2 46 93-140 56-108 (246)
24 smart00809 Alpha_adaptinC2 Ada 70.7 28 0.0006 26.6 7.4 51 90-140 17-71 (104)
25 PRK15218 fimbrial chaperone pr 69.4 50 0.0011 30.0 9.8 60 75-140 20-91 (226)
26 PF10633 NPCBM_assoc: NPCBM-as 68.5 10 0.00022 28.0 4.4 52 89-140 3-58 (78)
27 PRK15254 fimbrial chaperone pr 68.3 54 0.0012 30.1 9.8 62 75-140 18-85 (239)
28 PRK15224 pili assembly chapero 68.1 50 0.0011 30.3 9.6 60 75-140 30-96 (237)
29 TIGR03079 CH4_NH3mon_ox_B meth 66.0 17 0.00038 35.8 6.4 52 89-140 280-352 (399)
30 PF02883 Alpha_adaptinC2: Adap 65.0 23 0.0005 27.7 6.0 51 90-140 23-77 (115)
31 PF00927 Transglut_C: Transglu 63.9 25 0.00055 27.3 6.0 52 89-140 13-74 (107)
32 PRK15290 lfpB fimbrial chapero 62.4 73 0.0016 29.3 9.6 110 75-198 39-156 (243)
33 PRK15253 putative fimbrial ass 61.6 86 0.0019 28.8 9.9 60 75-140 35-106 (242)
34 PF11611 DUF4352: Domain of un 60.3 34 0.00074 26.5 6.2 54 88-141 33-100 (123)
35 PF06030 DUF916: Bacterial pro 59.6 63 0.0014 26.5 7.8 59 82-140 18-101 (121)
36 PF05506 DUF756: Domain of unk 59.2 33 0.00071 26.1 5.7 44 94-140 21-65 (89)
37 PRK15285 putative fimbrial cha 57.7 1.1E+02 0.0024 28.3 9.9 62 75-140 27-95 (250)
38 PF02753 PapD_C: Pili assembly 57.6 9.9 0.00021 27.3 2.5 42 97-139 1-44 (68)
39 PRK15308 putative fimbrial pro 55.8 1.4E+02 0.0031 27.4 10.2 86 73-171 16-119 (234)
40 PRK15274 putative periplasmic 54.3 1.4E+02 0.003 27.8 10.0 60 75-140 28-96 (257)
41 PF12690 BsuPI: Intracellular 50.1 68 0.0015 24.5 6.1 21 93-113 2-22 (82)
42 PF03173 CHB_HEX: Putative car 48.3 17 0.00036 31.6 2.8 32 109-140 69-102 (164)
43 PF13473 Cupredoxin_1: Cupredo 39.2 1.5E+02 0.0033 22.7 6.8 52 76-140 31-82 (104)
44 PF05753 TRAP_beta: Translocon 39.1 1.4E+02 0.0031 26.2 7.2 51 89-140 36-95 (181)
45 PF00553 CBM_2: Cellulose bind 38.7 75 0.0016 24.7 4.9 48 93-140 15-82 (101)
46 PF04744 Monooxygenase_B: Mono 37.3 1.5E+02 0.0032 29.4 7.6 66 72-140 246-333 (381)
47 PRK06655 flgD flagellar basal 36.0 1.5E+02 0.0033 26.9 7.1 81 60-140 92-178 (225)
48 smart00637 CBD_II CBD_II domai 34.6 1.6E+02 0.0034 22.3 6.0 24 117-140 50-75 (92)
49 PF08277 PAN_3: PAN-like domai 34.3 60 0.0013 23.1 3.5 28 81-111 44-71 (71)
50 PF07705 CARDB: CARDB; InterP 30.6 1.6E+02 0.0035 21.5 5.5 52 89-140 17-69 (101)
51 PF07233 DUF1425: Protein of u 30.6 2.3E+02 0.0049 22.0 6.4 51 90-140 23-80 (94)
52 PRK15249 fimbrial chaperone pr 29.5 1.1E+02 0.0024 28.2 5.1 42 96-138 177-219 (253)
53 PHA01327 hypothetical protein 29.2 50 0.0011 23.1 2.1 13 241-253 20-32 (49)
54 COG3565 Predicted dioxygenase 26.9 1.1E+02 0.0023 26.0 4.1 43 64-110 85-127 (138)
55 PF13205 Big_5: Bacterial Ig-l 26.3 2.7E+02 0.0058 20.8 6.1 56 82-140 26-84 (107)
56 PRK15295 fimbrial assembly cha 26.2 1.5E+02 0.0033 26.8 5.4 50 81-139 148-198 (226)
57 PRK15192 fimbrial chaperone Bc 25.2 1.7E+02 0.0036 26.8 5.5 48 82-138 154-202 (234)
58 PRK15246 fimbrial assembly cha 24.9 1.6E+02 0.0036 26.8 5.4 49 81-138 144-192 (233)
59 PF11538 Snurportin1: Snurport 23.7 62 0.0013 22.1 1.8 15 241-255 14-28 (40)
60 COG3121 FimC P pilus assembly 23.7 1.9E+02 0.0041 26.2 5.6 51 82-139 157-209 (235)
61 TIGR02745 ccoG_rdxA_fixG cytoc 23.3 5.7E+02 0.012 25.6 9.2 71 71-141 324-398 (434)
62 PF06483 ChiC: Chitinase C; I 23.3 92 0.002 27.8 3.3 27 105-142 116-142 (180)
63 PF14796 AP3B1_C: Clathrin-ada 23.2 4.8E+02 0.01 22.4 8.2 49 91-140 85-138 (145)
64 smart00605 CW CW domain. 22.4 1.9E+02 0.0041 22.0 4.6 33 81-117 47-80 (94)
65 PF08402 TOBE_2: TOBE domain; 21.7 2.7E+02 0.006 19.0 7.1 64 75-139 1-68 (75)
66 PF07103 DUF1365: Protein of u 21.5 5.7E+02 0.012 23.5 8.3 65 75-140 101-187 (254)
67 PRK15224 pili assembly chapero 20.7 2.2E+02 0.0049 26.1 5.4 49 81-138 160-209 (237)
68 PRK09926 putative chaperone pr 20.3 2.7E+02 0.0059 25.4 5.9 55 82-139 161-217 (246)
No 1
>KOG0439 consensus VAMP-associated protein involved in inositol metabolism [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=1.3e-30 Score=229.03 Aligned_cols=188 Identities=35% Similarity=0.501 Sum_probs=164.2
Q ss_pred CCCCCcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEeeccCCCCC
Q 024770 69 LPKRRRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENN 148 (262)
Q Consensus 69 l~~~~lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl~v~qp~~~ 148 (262)
+..+.+|.|+|..+|.|.++..+++.+.|+|+|+++.+||||||||+|++|||||+.|+|.||+++.|.|.+ +| ..
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 LETESLLEIEPSDELVFPLPLNEQVKCSLTLKNPTKLRVAFKVKTTAPKLYCVRPNGGVIDPGSTVEIEVTH---QP-FE 78 (218)
T ss_pred ccccCccccCCCceEEeccCCCceEEEEEEEecCCCCceEEEEEcCCCCeEEEcCCcceECCCCcEEEEEEe---cc-Cc
Confidence 356788999998899999999999999999999999999999999999999999999999999999999988 66 44
Q ss_pred CCCCCCCCCCeEEEEEEEeCCC-CCchhhhhhccC--CCcceeEEEEEEEeCCCCCChHHHHH---HhhhhhHHHHHHHh
Q 024770 149 EKPMYQKSRDKFKIISMKVKAD-VDYVPELFDEQK--DQTAAEQILRVVFLNPERPEPALEKL---KRQLADADAAVAAR 222 (262)
Q Consensus 149 e~p~~~k~kDKFlVqS~~v~~~-~d~~~elfk~~~--~~~i~e~kLrVvf~~p~~psp~~e~l---~~~l~ea~~~~~a~ 222 (262)
..|.+++|+|||+||++.++.+ .....++|+..+ +..+.+.+++|.|+.|..+..+.+.. .++.++.++...+.
T Consensus 79 ~~P~d~~~r~kF~v~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (218)
T KOG0439|consen 79 KSPPDFKSRHKFLIQSLKAPPPTTRDVVDLWKFQKETPKESFETKLRVVFVAPTETDSVVAKLQKAKKKEAEKEAFGEAT 158 (218)
T ss_pred cCchhhcccceEEEEEEecCCccccchhhhccccccccccccceeeEEEeeCCCCCcccccccccccccCCccccccccc
Confidence 5578899999999999999875 667899999988 78899999999999988776665555 66777778888888
Q ss_pred cCCCCCC---CCcccccccchhhH------------------HHHHHHHHHHhhccccC
Q 024770 223 KKPPEDT---GPRIIGEGLVIDEW------------------KERRERYLARQQVEGVD 260 (262)
Q Consensus 223 k~~~~~~---~p~~~~e~~~i~~~------------------~~~r~~~~~~~~~~~~~ 260 (262)
+...... .+...++.+++++| +++++++++.+|.+...
T Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 217 (218)
T KOG0439|consen 159 KEASDGEVCVKSKEFGEKLELKEELKAFKLKANKVDEERLLKKKKEGRLLAELQAELVI 217 (218)
T ss_pred cccCcccccchhhhhhccccchhhhhccccccccccccchhhhhhhHHHHHhhhhhhcc
Confidence 8776654 36678899999999 88999999999987654
No 2
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=99.93 E-value=8.1e-26 Score=200.25 Aligned_cols=118 Identities=22% Similarity=0.324 Sum_probs=108.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEeeccCCCCCCCCCCC
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENNEKPMYQ 154 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl~v~qp~~~e~p~~~ 154 (262)
|.|+| .+.|+-++....++.+.|.|++..+|+||||||+|+.||||||.|+|+|++++.|.|+| ++..+|+-+|.
T Consensus 3 veisp--~~~fy~Plt~~ske~~sv~NnspepvgfKVKTTaPK~YcVRPN~g~Iep~stv~VeVil---q~l~eEpapdf 77 (242)
T COG5066 3 VEISP--QTTFYVPLTNKSKEMFSVQNNSPEPVGFKVKTTAPKDYCVRPNMGLIEPMSTVEVEVIL---QGLTEEPAPDF 77 (242)
T ss_pred eEecC--ceEEecccccccceeeEeecCCCCceeEEeeccCCcceeEcCCCceeccCCeeEEEEEe---eccccCCCCCc
Confidence 67888 48888888999999999999999999999999999999999999999999999999999 88889998999
Q ss_pred CCCCeEEEEEEEeCCCC--CchhhhhhccCCCcceeEEEEEEEeC
Q 024770 155 KSRDKFKIISMKVKADV--DYVPELFDEQKDQTAAEQILRVVFLN 197 (262)
Q Consensus 155 k~kDKFlVqS~~v~~~~--d~~~elfk~~~~~~i~e~kLrVvf~~ 197 (262)
+|+||||||++..+.+. .+..++|....+.-+.++||||+|..
T Consensus 78 KCrdKFLiqs~~~~~~l~g~d~ad~wt~~sk~~i~~rkIrcvyse 122 (242)
T COG5066 78 KCRDKFLIQSYRFDWRLSGSDFADHWTSSSKKPIWTRKIRCVYSE 122 (242)
T ss_pred cccceeEEEEeccChhhccchHHHHHHhhccccchhhheeEEeec
Confidence 99999999999997654 45699999998888999999999974
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=99.88 E-value=2.3e-22 Score=157.43 Aligned_cols=102 Identities=28% Similarity=0.457 Sum_probs=81.6
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEeeccCCCCCCCCCCC
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENNEKPMYQ 154 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl~v~qp~~~e~p~~~ 154 (262)
|.|+|.+.|.|.++.++...+.|+|+|+++.+||||||||+|.+|+|+|+.|+|+||+++.|.|++ +|..... ..
T Consensus 2 l~v~P~~~i~F~~~~~~~~~~~l~l~N~s~~~i~fKiktt~~~~y~v~P~~G~i~p~~~~~i~I~~---~~~~~~~--~~ 76 (109)
T PF00635_consen 2 LSVEPSELIFFNAPFNKQQSCELTLTNPSDKPIAFKIKTTNPNRYRVKPSYGIIEPGESVEITITF---QPFDFEP--SN 76 (109)
T ss_dssp CEEESSSEEEEESSTSS-EEEEEEEEE-SSSEEEEEEEES-TTTEEEESSEEEE-TTEEEEEEEEE----SSSTTT--TS
T ss_pred eEEeCCcceEEcCCCCceEEEEEEEECCCCCcEEEEEEcCCCceEEecCCCEEECCCCEEEEEEEE---EecccCC--CC
Confidence 789999999999999999999999999999999999999999999999999999999999999998 5543322 12
Q ss_pred CCCCeEEEEEEEeCCCCC----chhhhhhcc
Q 024770 155 KSRDKFKIISMKVKADVD----YVPELFDEQ 181 (262)
Q Consensus 155 k~kDKFlVqS~~v~~~~d----~~~elfk~~ 181 (262)
..+|||+|+++.++++.. .+..+|++.
T Consensus 77 ~~~dkf~I~~~~~~~~~~~~~~~~~~~~~~~ 107 (109)
T PF00635_consen 77 KKKDKFLIQSIVVPDNATDPKKDFKQIWKNG 107 (109)
T ss_dssp TSSEEEEEEEEEE-TT-SSSHHHHHCCHHHS
T ss_pred CCCCEEEEEEEEcCCCccchhhhHHHHHhcc
Confidence 239999999999977653 345666654
No 4
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=98.32 E-value=6.3e-06 Score=64.01 Aligned_cols=66 Identities=27% Similarity=0.427 Sum_probs=58.5
Q ss_pred cEEecCCCceEeecC-CCCeEEEEEEEEcCCCCeEEEEEeecC--CCceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYE-AGKQVRSAIKIKNTSKSHVAFKFQTTA--PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e-~~k~~~s~LtL~N~S~~~VAFKVKTTa--Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
.|.++|. .|.|-.= .|......|+|+|.+..+..|+|+.-. ...|.|.|..|+|+||+++.|.|.+
T Consensus 3 ~l~v~P~-~ldFG~v~~g~~~~~~v~l~N~s~~p~~f~v~~~~~~~~~~~v~~~~g~l~PG~~~~~~V~~ 71 (102)
T PF14874_consen 3 TLEVSPK-ELDFGNVFVGQTYSRTVTLTNTSSIPARFRVRQPESLSSFFSVEPPSGFLAPGESVELEVTF 71 (102)
T ss_pred EEEEeCC-EEEeeEEccCCEEEEEEEEEECCCCCEEEEEEeCCcCCCCEEEECCCCEECCCCEEEEEEEE
Confidence 5899997 9999754 477889999999999999999997643 5689999999999999999999998
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=96.20 E-value=0.11 Score=41.67 Aligned_cols=62 Identities=21% Similarity=0.391 Sum_probs=51.0
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecC----C-----CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA----P-----KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa----P-----k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.|+|. .+.|.... ....++|+|.++.++.+.+.... + .-|.|-|+.-.|+||++..|.|..
T Consensus 2 i~i~~t-rii~~~~~---~~~~i~v~N~~~~~~~vq~~v~~~~~~~~~~~~~~~~vsPp~~~L~pg~~q~vRv~~ 72 (122)
T PF00345_consen 2 IQISPT-RIIFNESQ---RSASITVTNNSDQPYLVQVWVYDQDDEDEDEPTDPFIVSPPIFRLEPGESQTVRVYR 72 (122)
T ss_dssp EEESSS-EEEEETTS---SEEEEEEEESSSSEEEEEEEEEETTSTTSSSSSSSEEEESSEEEEETTEEEEEEEEE
T ss_pred EEEccE-EEEEeCCC---CEEEEEEEcCCCCcEEEEEEEEcCCCcccccccccEEEeCCceEeCCCCcEEEEEEe
Confidence 678886 78887532 36899999999999999987654 1 268999999999999999999954
No 6
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=92.97 E-value=2.2 Score=41.78 Aligned_cols=118 Identities=14% Similarity=0.294 Sum_probs=78.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEE-EEcCCCCeEEEEEeec------------CCCceeecCCceeeCCCCeEEEEEEee
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIK-IKNTSKSHVAFKFQTT------------APKSCFMRPPGAILAPGESLIATVFKF 141 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~Lt-L~N~S~~~VAFKVKTT------------aPk~Y~VRPn~GiI~Pgesv~I~Vtl~ 141 (262)
..+.+.-.|.|...++......|. |.|.+...|-|.-+-- ....|+.....|+|.||++..|.|+.
T Consensus 231 ~~~~~~~~l~Fe~~p~e~~~~~v~~l~N~Gt~~I~y~W~~~~~~~~~~~~~~~~~~~F~Fd~~~gvilPGe~~~~~~~F- 309 (426)
T PF14646_consen 231 PEVSISIRLTFECHPGERVSKEVVRLENNGTTAIYYSWRRVPFFKNFGSLFRAQDQRFYFDTSSGVILPGETRNFPFMF- 309 (426)
T ss_pred CccCcceEEEEEcccCceeeEEEEEEecCCceEEEEEEEecccccccchhccccCCeEEEeCCCCEECCCceEEEEEEE-
Confidence 445555589999999987777777 9999999999984332 24568899999999999999999997
Q ss_pred ccCCCCCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCCCCChHHHHHHhhhh
Q 024770 142 VELPENNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPERPEPALEKLKRQLA 213 (262)
Q Consensus 142 v~qp~~~e~p~~~k~kDKFlVqS~~v~~~~d~~~elfk~~~~~~i~e~kLrVvf~~p~~psp~~e~l~~~l~ 213 (262)
+|... .-.+....+..- +.+|. ......+|+.+-++|..-....+.+++.|+
T Consensus 310 --~s~~~-----Gif~E~W~L~t~---------P~l~~----~~~l~v~L~G~~~~~~~~~~~~~~~~~~l~ 361 (426)
T PF14646_consen 310 --KSRKV-----GIFKERWELRTF---------PPLFG----GASLTVRLHGVCTPPDEYLDKRKMLEEELA 361 (426)
T ss_pred --eCCCc-----eEEEEEEEEEEe---------ccccC----CCceEEEEEEEEcCchHhHHHHHHHHHHHH
Confidence 45321 223444444442 22333 222466777777666444444555555443
No 7
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=92.20 E-value=2.6 Score=38.10 Aligned_cols=63 Identities=17% Similarity=0.214 Sum_probs=48.4
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCC-----CceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAP-----KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaP-----k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.+.|. .+.|.... ...+|+|+|.++.++...+..... .-|.|-|+.-.|+||+...|.|.+
T Consensus 25 ~v~l~~t-Rvi~~~~~---~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~fivtPPl~rl~pg~~q~vRii~ 92 (230)
T PRK09918 25 GMVPETS-VVIVEESD---GEGSINVKNTDSNPILLYTTLVDLPEDKSKLLLVTPPVARVEPGQSQQVRFIL 92 (230)
T ss_pred eEEEccE-EEEEECCC---CeEEEEEEcCCCCcEEEEEEEecCCCCCCCCEEEcCCeEEECCCCceEEEEEE
Confidence 3778886 77777533 358999999998876665543221 249999999999999999999987
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=89.97 E-value=1.2 Score=30.23 Aligned_cols=42 Identities=26% Similarity=0.184 Sum_probs=33.9
Q ss_pred EEEEcCCCCeE-EEEEeecCCCceeecCCceeeCCCCeEEEEEE
Q 024770 97 IKIKNTSKSHV-AFKFQTTAPKSCFMRPPGAILAPGESLIATVF 139 (262)
Q Consensus 97 LtL~N~S~~~V-AFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vt 139 (262)
++|+|.++.++ ..+|+|+ =+-..+......|.||++..|.|+
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 67999998654 5667665 577778888899999999999986
No 9
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=88.86 E-value=8.8 Score=35.07 Aligned_cols=63 Identities=6% Similarity=0.185 Sum_probs=48.6
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCC----------ceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPK----------SCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk----------~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.|+|. .+.|.... -..+|+|.|.++.++.--.-....+ -|.|-|+.-.|+||+...|.|.+
T Consensus 26 ~i~l~~T-RvI~~~~~---~~~sv~l~N~~~~p~LvQ~Wvd~~~~~~~p~~~~~pfivtPPl~rl~p~~~q~lRIi~ 98 (246)
T PRK09926 26 DIVISGT-RIIYKSDQ---KDVNVRLENKGNNPLLVQSWLDTGDDNAEPGSIKVPFTATPPVSRIDPKRGQTIKLMY 98 (246)
T ss_pred eEEeCce-EEEEeCCC---ceEEEEEEeCCCCcEEEEEEecCCCCccCccccCCCEEEcCCeEEECCCCccEEEEEe
Confidence 4888886 78887533 3589999999988766554332211 29999999999999999999997
No 10
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=87.49 E-value=15 Score=33.04 Aligned_cols=63 Identities=14% Similarity=0.266 Sum_probs=46.6
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecC--------CCceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA--------PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa--------Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.|+|. .+.|.... -..+|+|.|.++.++.-..-... ..-|.|-|+.-.|+||+...|.|..
T Consensus 23 ~i~l~~T-Rvi~~~~~---~~~sl~l~N~~~~p~lvQsWv~~~~~~~~~~~~pfivtPPl~rl~p~~~q~lRI~~ 93 (227)
T PRK15299 23 GINIGTT-RVIFHGDA---KDASISISNSDNVPYLIQSWAQSISETGASGDAPFMVTPPLFRLNGGQKNVLRIIR 93 (227)
T ss_pred eEEECce-EEEEeCCC---cEEEEEEEeCCCCcEEEEEEeecCCCCCCcCCCCEEEcCCeEEECCCCccEEEEEE
Confidence 3778886 77776542 36899999998876544432211 1239999999999999999999987
No 11
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=87.34 E-value=1.8 Score=34.50 Aligned_cols=67 Identities=15% Similarity=0.274 Sum_probs=38.8
Q ss_pred EEecCCCceEee-cCCCC-eEEEEEEEEcCCCCeEEEEEeecCCCceee-cCCce-eeCCCCeEEEEEEee
Q 024770 75 LKLDPANKLYFP-YEAGK-QVRSAIKIKNTSKSHVAFKFQTTAPKSCFM-RPPGA-ILAPGESLIATVFKF 141 (262)
Q Consensus 75 L~IdP~~~L~F~-~e~~k-~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~V-RPn~G-iI~Pgesv~I~Vtl~ 141 (262)
+.|-+..-..|. -..|. .-.-.|+|.|.+..+..|.|+...+..+.+ .|... -|+||++..+.|++.
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 444444333344 33333 445799999999999999999988888888 66555 499999999988873
No 12
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=87.04 E-value=11 Score=34.12 Aligned_cols=60 Identities=18% Similarity=0.273 Sum_probs=45.6
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee--c--C-----CCceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT--T--A-----PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT--T--a-----Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.+++. .+.|.... -..+|+|.|.++.+ |=|++ . . ..-|.|-|+.=.|+||+...|.|..
T Consensus 21 i~l~~T-RvI~~~~~---~~~si~i~N~~~~p--~LvQsWv~~~~~~~~~~~pFivtPPl~rl~p~~~q~lRI~~ 89 (226)
T PRK15295 21 IVVGGT-RLVFDGNN---DESSINVENKDSKA--NLVQSWLSVVDPQVTNKQAFIITPPLFRLDAGQKNSIRVIR 89 (226)
T ss_pred EEeCce-EEEEeCCC---ceeEEEEEeCCCCc--EEEEEEEeCCCCCCCCCCCEEEcCCeEEECCCCceEEEEEE
Confidence 778886 77777533 35899999998875 44553 1 1 1249999999999999999999987
No 13
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=85.79 E-value=8.1 Score=35.53 Aligned_cols=62 Identities=15% Similarity=0.251 Sum_probs=46.8
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecC------C-----CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA------P-----KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa------P-----k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.|+|. .+.|.... -..+|+|.|.++.++....-+.+ | .-|.|-|+.--|+||+...|.|.+
T Consensus 30 l~l~~T-Rviy~~~~---~~~sl~l~N~~~~p~LvQsWv~~~~~~~~p~~~~~~pFivtPPlfrl~p~~~q~lRI~~ 102 (253)
T PRK15249 30 VTILGS-RIIYPSTA---SSVDVQLKNNDAIPYIVQTWFDDGDMNTSPENSSAMPFIATPPVFRIQPKAGQVVRVIY 102 (253)
T ss_pred EEeCce-EEEEeCCC---cceeEEEEcCCCCcEEEEEEEeCCCCCCCccccccCcEEEcCCeEEecCCCceEEEEEE
Confidence 788886 77776433 35799999998876555442211 1 139999999999999999999997
No 14
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=85.28 E-value=17 Score=33.18 Aligned_cols=63 Identities=19% Similarity=0.362 Sum_probs=45.8
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeec------------CCCceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTT------------APKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTT------------aPk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.+++. -+.|+.. ....+|+|.|.++.++.=-.... ...-|.|-|+.=-|+||+...|.|.+
T Consensus 27 ~v~l~~T-RvIy~~~---~~~~sv~l~N~~~~p~LvQswv~~~~~~~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~ 101 (236)
T PRK11385 27 GVVVGGT-RFIFPAD---RESISILLTNTSQESWLINSKINRPTRWAGGEASTVPAPLLAAPPLILLKPGTTGTLRLLR 101 (236)
T ss_pred eEEeCce-EEEEcCC---CceEEEEEEeCCCCcEEEEEEcccCccccCcccccccCCEEEcCCeEEECCCCceEEEEEE
Confidence 3677775 6777653 23689999999988643333111 11249999999999999999999997
No 15
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=83.82 E-value=11 Score=34.39 Aligned_cols=62 Identities=13% Similarity=0.161 Sum_probs=45.6
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecC------CCceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA------PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa------Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.+++. -+.|+... -..+|+|.|.++.++.-...... .--|.|.|+.=.|+||+...|.|.+
T Consensus 24 v~l~~T-RvIy~~~~---~~~si~i~N~~~~p~LvQswv~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI~~ 91 (229)
T PRK15211 24 FVLNGT-RFIYDEGR---KNISFEVTNQADQTYGGQVWIDNTTQGSSTVYMVPAPPFFKVRPKEKQIIRIMK 91 (229)
T ss_pred EEECce-EEEEcCCC---ceEEEEEEeCCCCcEEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEE
Confidence 677775 67776533 36899999999876443332211 1249999999999999999999997
No 16
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=83.40 E-value=21 Score=32.65 Aligned_cols=60 Identities=12% Similarity=0.189 Sum_probs=44.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeec----------C----CCceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTT----------A----PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTT----------a----Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++.. -+.|+.. .-..+|+|.|.++.+ |=|++. . ..-|.|-|+.-.|+||+...|.|..
T Consensus 24 i~l~~T-RvIy~~~---~k~~sv~l~N~~~~p--~LvQswv~~~~~w~~~~~~~~~~PFivtPPlfrl~p~~~~~lRI~~ 97 (234)
T PRK15192 24 VVIGGT-RFIYHAG---APALSVPVSNHSEAS--WLIDTHILPGGRWPGTKNEGNITPFVVTPPLFMLSARQENSMRVVY 97 (234)
T ss_pred EEeCce-EEEEcCC---CceEEEEEEeCCCCc--EEEEEEeccCccccccCCccccCCEEEcCCeEEECCCCceEEEEEE
Confidence 566664 6666653 235799999999875 555551 1 1139999999999999999999997
No 17
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=82.22 E-value=33 Score=31.28 Aligned_cols=63 Identities=16% Similarity=0.331 Sum_probs=44.9
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEE--EeecCC---CceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFK--FQTTAP---KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFK--VKTTaP---k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.+++. .+.|+.. .-..+|+|+|.+++ +..-. |..... .-|.|.|+.-.|+||+...|.|..
T Consensus 28 gi~l~~T-RvIy~~~---~~~~sv~i~N~~~~~p~LvQsWv~~~~~~~~~pFivtPPlfrl~~~~~~~lRI~~ 96 (228)
T PRK15188 28 GIALGAT-RVIYPQG---SKQTSLPIINSSASNVFLIQSWVANADGSRSTDFIITPPLFVIQPKKENILRIMY 96 (228)
T ss_pred eEEECcE-EEEEcCC---CceEEEEEEeCCCCccEEEEEEEecCCCCccCCEEEcCCeEEECCCCceEEEEEE
Confidence 4778886 7777753 23689999999864 33322 111111 249999999999999999999997
No 18
>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=79.16 E-value=5.2 Score=31.61 Aligned_cols=51 Identities=18% Similarity=0.284 Sum_probs=32.2
Q ss_pred CCeEEEEEEEEcCCCCeEEEEEeec-----C---CCceee--c-----------CCceeeCCCCeEEEEEEe
Q 024770 90 GKQVRSAIKIKNTSKSHVAFKFQTT-----A---PKSCFM--R-----------PPGAILAPGESLIATVFK 140 (262)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VAFKVKTT-----a---Pk~Y~V--R-----------Pn~GiI~Pgesv~I~Vtl 140 (262)
+...+..|+|+|.++..+.|+|.-. . .+.|.. . |..=.|+||++..|.|++
T Consensus 7 ~~~~~~~itl~N~~~~~~ty~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~vTV~ag~s~~v~vti 78 (112)
T PF06280_consen 7 GNKFSFTITLHNYGDKPVTYTLSHVPVLTDKTDTEEGYSILVPPVPSISTVSFSPDTVTVPAGQSKTVTVTI 78 (112)
T ss_dssp -SEEEEEEEEEE-SSS-EEEEEEEE-EEEEEE--ETTEEEEEEEE----EEE---EEEEE-TTEEEEEEEEE
T ss_pred CCceEEEEEEEECCCCCEEEEEeeEEEEeeEeeccCCcccccccccceeeEEeCCCeEEECCCCEEEEEEEE
Confidence 4457789999999999999997554 1 122221 1 222258899999999998
No 19
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=79.14 E-value=18 Score=32.65 Aligned_cols=63 Identities=13% Similarity=0.251 Sum_probs=44.9
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEee--cCC---CceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT--TAP---KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT--TaP---k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.++|. .+.|.... -..+|+|.|.+++ ++....-. ... .-|.|-|+.-.|+||+...|.|..
T Consensus 22 gv~l~~T-RvI~~~~~---~~~si~i~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPl~rl~p~~~q~lRIi~ 90 (228)
T PRK15208 22 GVALSST-RVIYDGSK---KEASLTVNNKSKTEEFLIQSWIDDANGNKKTPFIITPPLFKLDPTKNNVLRIVN 90 (228)
T ss_pred cEEeCce-EEEEeCCC---ceEEEEEEeCCCCCcEEEEEEEECCCCCccCCEEECCCeEEECCCCccEEEEEE
Confidence 3778886 77777643 3689999999864 33322211 111 129999999999999999999986
No 20
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=75.36 E-value=25 Score=31.94 Aligned_cols=61 Identities=16% Similarity=0.362 Sum_probs=44.5
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEee---c-C---CCceeecCCceeeCCCCeEEEEEEe
Q 024770 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT---T-A---PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 74 lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT---T-a---Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
-|.+++. .+.|..... ..+|+|.|.++. +.. |++ + . ..-|.|-|+.=-|+||+...|.|..
T Consensus 26 gi~i~~T-RvIy~~~~~---~~si~l~N~~~~~~~L--vQsWv~~~~~~~~~pfivtPPlfrl~p~~~q~lRIi~ 94 (229)
T PRK15195 26 GIALGAT-RVIYPADAK---QTSLAIRNSHTNERYL--VNSWIENSSGVKEKSFIVTPPLFVSEPKSENTLRIIY 94 (229)
T ss_pred eEEECCe-EEEEeCCCc---eEEEEEEeCCCCccEE--EEEEecCCCCCccCCEEEcCCeEEECCCCceEEEEEE
Confidence 3778886 677764333 389999999864 333 443 1 1 1249999999999999999999997
No 21
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.71 E-value=66 Score=29.22 Aligned_cols=111 Identities=12% Similarity=0.194 Sum_probs=70.5
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeec-------CCCceeecCCceeeCCCCeEEEEEEeeccCCCC
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTT-------APKSCFMRPPGAILAPGESLIATVFKFVELPEN 147 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTT-------aPk~Y~VRPn~GiI~Pgesv~I~Vtl~v~qp~~ 147 (262)
+.+++. -+.|+.... ...|+|.|.++.++.-.+.-- ...-|-|-|+.=.|+||+.-.|.|.+ ...
T Consensus 29 v~i~~T-RiI~~~~~k---~~sl~l~N~~~~p~LvQ~wvd~~~~~~~~~~pfvvtPPv~rl~p~~~q~vRi~~---~~~- 100 (235)
T COG3121 29 VVLGGT-RIIYPAGDK---ETSLTLRNDGNQPYLVQSWVDDGLEPEKSTVPFVVTPPVFRLEPGQEQQLRILY---TGN- 100 (235)
T ss_pred EEecce-EEEEeCCCc---eeEEEEEcCCCCCEEEEEEEcCCCCCccccCCEEecCCeEEECCCCccEEEEEe---cCC-
Confidence 667775 677765433 579999998888988885443 23349999999999999999999998 222
Q ss_pred CCCCCCCCCCCeEEEEEEEeCCCC-CchhhhhhccCCCcceeEEEEEEEeCCCC
Q 024770 148 NEKPMYQKSRDKFKIISMKVKADV-DYVPELFDEQKDQTAAEQILRVVFLNPER 200 (262)
Q Consensus 148 ~e~p~~~k~kDKFlVqS~~v~~~~-d~~~elfk~~~~~~i~e~kLrVvf~~p~~ 200 (262)
..|.|.. .-|-+....+++.. +.-.. + .-......+|++-|-++.-
T Consensus 101 -~lP~drE--slf~lnv~eIPp~~~~~~~~---n-~lq~a~r~riKlf~RP~~l 147 (235)
T COG3121 101 -KLPADRE--SLFRLNVDEIPPKSKDDKGP---N-VLQLALRSRIKLFYRPAGL 147 (235)
T ss_pred -CCCCCce--eEEEEEeeecCCCCcccCCc---c-eEEEEeeeeeeEEECcccC
Confidence 1233433 44555555554432 11000 0 0133467788887766543
No 22
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=72.54 E-value=77 Score=28.90 Aligned_cols=60 Identities=20% Similarity=0.406 Sum_probs=45.6
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee--cC------CC----ceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT--TA------PK----SCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT--Ta------Pk----~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.|++. -+.|+.. ....+|+|.|.++.+ |-|++ .. |. -|.|-|+.=.|+||+...|.|.+
T Consensus 12 v~l~~T-RvI~~~~---~~~~sv~l~N~~~~p--~LvQsWvd~~~~~~~p~~~~~pFivtPPlfrl~~~~~~~lRI~~ 83 (233)
T PRK15246 12 VNIDRT-RIIFASD---DVAQSLTLSNDNTTP--MLLQVWTDAGNIDASPDNSKTPLVALPPVFKMQPGELRTLRLLL 83 (233)
T ss_pred EEECce-EEEEcCC---CceEEEEEEeCCCCc--EEEEEEEeCCCCccCcccccCcEEECCcceEECCCCceEEEEEE
Confidence 677886 7777753 335899999999875 44444 11 11 49999999999999999999997
No 23
>PRK15233 putative fimbrial chaperone protein SefB; Provisional
Probab=71.05 E-value=34 Score=31.66 Aligned_cols=46 Identities=15% Similarity=0.121 Sum_probs=36.2
Q ss_pred EEEEEEEEcCCCCeEEEEEee----cC---CCceeecCCceeeCCCCeEEEEEEe
Q 024770 93 VRSAIKIKNTSKSHVAFKFQT----TA---PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 93 ~~s~LtL~N~S~~~VAFKVKT----Ta---Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
...+|+|.|.++.+ |-|++ .. ..-|.|.|+.=.|+||+...|.|.+
T Consensus 56 ~~~sl~i~N~~~~p--~LvQsWvd~~~~~~~~pFiVtPPLfRLep~~~~~lRIi~ 108 (246)
T PRK15233 56 PSTSFWIMNEKEYP--ILVQTQVYNDDKSSKAPFIVTPPILKVESNARTRLKVIP 108 (246)
T ss_pred cEEEEEEEcCCCCc--EEEEEEEecCCCCccCCEEECCCeEEECCCCceEEEEEE
Confidence 35799999987765 55554 11 1249999999999999999999997
No 24
>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=70.74 E-value=28 Score=26.61 Aligned_cols=51 Identities=29% Similarity=0.524 Sum_probs=39.3
Q ss_pred CCeEEEEEEEEcCCCCeEE-EEEeecCCCceeec--CCce-eeCCCCeEEEEEEe
Q 024770 90 GKQVRSAIKIKNTSKSHVA-FKFQTTAPKSCFMR--PPGA-ILAPGESLIATVFK 140 (262)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VA-FKVKTTaPk~Y~VR--Pn~G-iI~Pgesv~I~Vtl 140 (262)
+....-.+...|.+..++. |.++-..|+.+.++ |..| .|+||+.+.-.+.+
T Consensus 17 ~~~~~i~~~~~N~s~~~it~f~~~~avpk~~~l~l~~~s~~~l~p~~~i~q~~~i 71 (104)
T smart00809 17 PGLIRITLTFTNKSPSPITNFSFQAAVPKSLKLQLQPPSSPTLPPGGQITQVLKV 71 (104)
T ss_pred CCeEEEEEEEEeCCCCeeeeEEEEEEcccceEEEEcCCCCCccCCCCCEEEEEEE
Confidence 3467889999999987776 88888888887776 5544 89999876666665
No 25
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=69.41 E-value=50 Score=30.01 Aligned_cols=60 Identities=15% Similarity=0.230 Sum_probs=42.9
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee--cCC----------CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT--TAP----------KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT--TaP----------k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++-. -+.|+.. .-..+|+|.|.++.+ |=|++ ... .-|.|.|+.=.|+||+...|.|.+
T Consensus 20 i~l~~T-RvIy~~~---~~~~si~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~~ 91 (226)
T PRK15218 20 IYIYGT-RIIYPAQ---KKDITVQLMNDGKRS--SLIQAWIDNGDTSLPPEKLQVPFIMTPPVIRVAANSGQQLKIKK 91 (226)
T ss_pred EEeCce-EEEEcCC---CcEEEEEEEcCCCCc--EEEEEEEeCCCCCCCcccccCCEEECCCeEEECCCCceEEEEEE
Confidence 455543 5556542 235789999999875 55544 111 149999999999999999999997
No 26
>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=68.51 E-value=10 Score=28.00 Aligned_cols=52 Identities=23% Similarity=0.404 Sum_probs=31.0
Q ss_pred CCCeEEEEEEEEcCCCCeE-EEEEeecCCCcee--ecCCc-eeeCCCCeEEEEEEe
Q 024770 89 AGKQVRSAIKIKNTSKSHV-AFKFQTTAPKSCF--MRPPG-AILAPGESLIATVFK 140 (262)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~V-AFKVKTTaPk~Y~--VRPn~-GiI~Pgesv~I~Vtl 140 (262)
.|....-.++|+|....++ ..++.-..|.-.. ..|.. +-|+||++..+.+.+
T Consensus 3 ~G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~~V 58 (78)
T PF10633_consen 3 PGETVTVTLTVTNTGTAPLTNVSLSLSLPEGWTVSASPASVPSLPPGESVTVTFTV 58 (78)
T ss_dssp TTEEEEEEEEEE--SSS-BSS-EEEEE--TTSE---EEEEE--B-TTSEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCceeeEEEEEeCCCCccccCCccccccCCCCCEEEEEEEE
Confidence 4677888999999986542 2455445587766 44544 369999999999887
No 27
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=68.26 E-value=54 Score=30.08 Aligned_cols=62 Identities=13% Similarity=0.187 Sum_probs=44.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEee--cCC---CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT--TAP---KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT--TaP---k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.+++. .+.|.... -..+|+|.|.++. ++.-..-. ... .-|.|-|+.-.|+||+...|.|.+
T Consensus 18 v~l~~T-RvIy~~~~---~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pFivtPPlfrl~p~~~~~lRI~~ 85 (239)
T PRK15254 18 VNVDRT-RIIMDAPQ---KTVAITLNNDDKTTPFLAQSWVTDADGVRTDALMALPPLQRIDAGQKSQVRITQ 85 (239)
T ss_pred EEECce-EEEEeCCC---ceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCEEEcCCeEEECCCCceEEEEEE
Confidence 677775 67777532 3589999999753 54333211 111 249999999999999999999987
No 28
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=68.07 E-value=50 Score=30.31 Aligned_cols=60 Identities=12% Similarity=0.228 Sum_probs=43.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee----cCC---CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT----TAP---KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT----TaP---k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++-. -+.|+.. .-..+|+|.|.++.+ |=|++ ... .-|.|.|+.=.|+|++...|.|.+
T Consensus 30 v~l~~T-RvIy~~~---~k~~sl~v~N~~~~p--yLvQsWvd~~~~~~~~pFivtPPlfRlep~~~~~lRI~~ 96 (237)
T PRK15224 30 VKLGAT-RVIYHAG---TAGATLSVSNPQNYP--ILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRIVR 96 (237)
T ss_pred EEeCce-EEEEeCC---CcEEEEEEEcCCCCc--EEEEEEEeCCCCCccCCEEECCCeEEECCCCceEEEEEE
Confidence 444443 5555542 235789999998765 66666 111 139999999999999999999997
No 29
>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=65.95 E-value=17 Score=35.76 Aligned_cols=52 Identities=23% Similarity=0.334 Sum_probs=38.2
Q ss_pred CCCeEEEEEEEEcCCCCeEEEEEeecCC-------CceeecCCce--------------eeCCCCeEEEEEEe
Q 024770 89 AGKQVRSAIKIKNTSKSHVAFKFQTTAP-------KSCFMRPPGA--------------ILAPGESLIATVFK 140 (262)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~VAFKVKTTaP-------k~Y~VRPn~G--------------iI~Pgesv~I~Vtl 140 (262)
+|+..+-+++|+|.++.+|-.+==+|+. ..|...|... =|.|||+.+|.|..
T Consensus 280 PGR~l~~~~~VTN~g~~~vrlgEF~TA~vRFlN~~~v~~~~~~yP~~lla~GL~v~d~~pI~PGETr~v~v~a 352 (399)
T TIGR03079 280 PGRALRVTMEITNNGDQVISIGEFTTAGIRFMNANGVRVLDPDYPRELLAEGLEVDDQSAIAPGETVEVKMEA 352 (399)
T ss_pred CCcEEEEEEEEEcCCCCceEEEeEeecceEeeCcccccccCCCChHHHhhccceeCCCCCcCCCcceEEEEEE
Confidence 5788999999999999999888444443 3344444332 28899999999886
No 30
>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=64.97 E-value=23 Score=27.72 Aligned_cols=51 Identities=27% Similarity=0.521 Sum_probs=35.9
Q ss_pred CCeEEEEEEEEcCCCCeEE-EEEeecCCCceeec--CC-ceeeCCCCeEEEEEEe
Q 024770 90 GKQVRSAIKIKNTSKSHVA-FKFQTTAPKSCFMR--PP-GAILAPGESLIATVFK 140 (262)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VA-FKVKTTaPk~Y~VR--Pn-~GiI~Pgesv~I~Vtl 140 (262)
+....-.++..|.+..++. |.++-..|+.|.++ |. ...|+|+..+.-.+.+
T Consensus 23 ~~~~~i~~~f~N~s~~~it~f~~q~avpk~~~l~l~~~s~~~i~p~~~i~Q~~~v 77 (115)
T PF02883_consen 23 PNQGRIKLTFGNKSSQPITNFSFQAAVPKSFKLQLQPPSSSTIPPGQQITQVIKV 77 (115)
T ss_dssp TTEEEEEEEEEE-SSS-BEEEEEEEEEBTTSEEEEEESS-SSB-TTTEEEEEEEE
T ss_pred CCEEEEEEEEEECCCCCcceEEEEEEeccccEEEEeCCCCCeeCCCCeEEEEEEE
Confidence 5678889999999988776 77777667766554 66 5599998887776665
No 31
>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=63.88 E-value=25 Score=27.31 Aligned_cols=52 Identities=21% Similarity=0.235 Sum_probs=39.0
Q ss_pred CCCeEEEEEEEEcCCCCe--------EEEEEeecCCC--ceeecCCceeeCCCCeEEEEEEe
Q 024770 89 AGKQVRSAIKIKNTSKSH--------VAFKFQTTAPK--SCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~--------VAFKVKTTaPk--~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
.|+.....++++|+++.+ .++-|--|.-. .+..+-..+-|.||++..+.+.+
T Consensus 13 vG~d~~v~v~~~N~~~~~l~~v~~~l~~~~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~~i 74 (107)
T PF00927_consen 13 VGQDFTVSVSFTNPSSEPLRNVSLNLCAFTVEYTGLTRDQFKKEKFEVTLKPGETKSVEVTI 74 (107)
T ss_dssp TTSEEEEEEEEEE-SSS-EECEEEEEEEEEEECTTTEEEEEEEEEEEEEE-TTEEEEEEEEE
T ss_pred CCCCEEEEEEEEeCCcCccccceeEEEEEEEEECCcccccEeEEEcceeeCCCCEEEEEEEE
Confidence 488899999999999876 56666655332 25677889999999999999997
No 32
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=62.42 E-value=73 Score=29.27 Aligned_cols=110 Identities=8% Similarity=0.121 Sum_probs=64.5
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCC-CeEEEEEeec--C-C-C---ceeecCCceeeCCCCeEEEEEEeeccCCC
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSK-SHVAFKFQTT--A-P-K---SCFMRPPGAILAPGESLIATVFKFVELPE 146 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~-~~VAFKVKTT--a-P-k---~Y~VRPn~GiI~Pgesv~I~Vtl~v~qp~ 146 (262)
|.+++. -+.|+... -..+|+|.|.++ .++.--.-.. + . + -|.|-|+.-.|+||+...|.|.+ ...
T Consensus 39 v~l~~T-RvIy~~~~---~~~sl~v~N~~~~~p~LvQsWvd~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~---~~~ 111 (243)
T PRK15290 39 VVIGGT-RVVYLSNN---PDKSISVFSKEEKIPYLIQAWVDPFNKEDKSKAPFTVIPPVSRLEPSQEKVLRIIH---TKG 111 (243)
T ss_pred EEECce-EEEEeCCC---ceEEEEEEeCCCCCcEEEEEEEecCCCCCcccCCEEEcCCeEEECCCCceEEEEEE---cCC
Confidence 777886 77777532 357999999986 4555444332 1 1 1 39999999999999999999997 211
Q ss_pred CCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCC
Q 024770 147 NNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNP 198 (262)
Q Consensus 147 ~~e~p~~~k~kDKFlVqS~~v~~~~d~~~elfk~~~~~~i~e~kLrVvf~~p 198 (262)
...|.|.. --|-+....+++..+. .+ + ..-......++++-|-+.
T Consensus 112 -~~LP~DRE--Slf~lnv~eIPp~~~~-~~--~-n~L~iair~rIKlFyRP~ 156 (243)
T PRK15290 112 -VSLPDDRE--SVFWLNIKNIPPSASN-KA--T-NSLEIAVKTRIKLFWRPA 156 (243)
T ss_pred -CCCCCCee--EEEEEEEEEcCCCCcc-cc--c-ceEEEEEEEeeeEEEecc
Confidence 11233333 3344445555542211 00 0 011234567777777543
No 33
>PRK15253 putative fimbrial assembly chaperone protein StcB; Provisional
Probab=61.64 E-value=86 Score=28.80 Aligned_cols=60 Identities=17% Similarity=0.293 Sum_probs=43.4
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee---cC-----C----CceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---TA-----P----KSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---Ta-----P----k~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++-. -+.|+.. .-..+|+|.|.++.+ |=|++ .. | .-|.|.|+.=.|+||+...|.|..
T Consensus 35 v~l~~T-RvIy~~~---~k~~sv~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI~~ 106 (242)
T PRK15253 35 IVIYGT-RVIYPAE---KKEVVVQLVNQGEQA--SLVQSWIDDGNTSLPPEKIQVPFMLTPPVARVAAESGQQIKIKK 106 (242)
T ss_pred EEeCce-EEEEeCC---CceEEEEEEcCCCCc--EEEEEEEECCCCCCCcccccCCEEECCCeEEECCCCceEEEEEE
Confidence 555554 5666643 235789999999875 55554 11 1 149999999999999999999986
No 34
>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=60.27 E-value=34 Score=26.53 Aligned_cols=54 Identities=20% Similarity=0.217 Sum_probs=33.2
Q ss_pred CCCCeEEEEEEEEcCCCCeEE-----EEEeecCCCceeecC---------CceeeCCCCeEEEEEEee
Q 024770 88 EAGKQVRSAIKIKNTSKSHVA-----FKFQTTAPKSCFMRP---------PGAILAPGESLIATVFKF 141 (262)
Q Consensus 88 e~~k~~~s~LtL~N~S~~~VA-----FKVKTTaPk~Y~VRP---------n~GiI~Pgesv~I~Vtl~ 141 (262)
+.++-+.-.++|+|.++..+. |++.+..-..|.... ..+-|.||+++...|...
T Consensus 33 ~g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~l~F~ 100 (123)
T PF11611_consen 33 EGNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGKLVFE 100 (123)
T ss_dssp --SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEEEEEE
T ss_pred CCCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEEEEEE
Confidence 345567789999999998776 788877666665332 468999999999999874
No 35
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=59.60 E-value=63 Score=26.50 Aligned_cols=59 Identities=20% Similarity=0.231 Sum_probs=40.9
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEEEe-----ecCCCc--e-------------e-----ecCCceeeCCCCeEEE
Q 024770 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQ-----TTAPKS--C-------------F-----MRPPGAILAPGESLIA 136 (262)
Q Consensus 82 ~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVK-----TTaPk~--Y-------------~-----VRPn~GiI~Pgesv~I 136 (262)
...+...++....-.|+|+|.++..+.|+|. |+..+. | . =.|..-.|+|+++..|
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 4445566678888999999999999999974 333331 1 1 1233356888888888
Q ss_pred EEEe
Q 024770 137 TVFK 140 (262)
Q Consensus 137 ~Vtl 140 (262)
.+.+
T Consensus 98 ~~~i 101 (121)
T PF06030_consen 98 TFTI 101 (121)
T ss_pred EEEE
Confidence 8876
No 36
>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=59.20 E-value=33 Score=26.07 Aligned_cols=44 Identities=16% Similarity=0.114 Sum_probs=31.4
Q ss_pred EEEEEEEcCCCCeEEEEEeecCCCcee-ecCCceeeCCCCeEEEEEEe
Q 024770 94 RSAIKIKNTSKSHVAFKFQTTAPKSCF-MRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 94 ~s~LtL~N~S~~~VAFKVKTTaPk~Y~-VRPn~GiI~Pgesv~I~Vtl 140 (262)
.-.|+|.|.+...+.|.|... .|. -.|-.=.|.||+++.+.+-+
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 568999999999999999872 122 23444456668887777765
No 37
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=57.68 E-value=1.1e+02 Score=28.30 Aligned_cols=62 Identities=15% Similarity=0.185 Sum_probs=41.0
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEE--EeecCCC----ceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFK--FQTTAPK----SCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFK--VKTTaPk----~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++-. -+.|+.. .-..+|+|+|.++. ++.-. |-....+ -|.|.|+.-.|+||+...|.|..
T Consensus 27 v~l~~T-RVIy~~~---~~~~sv~i~N~~~~~p~LvQsWvd~~~~~~~~~pFiVtPPlfRl~p~~~~~lRI~~ 95 (250)
T PRK15285 27 IAPDRT-RLVFRGE---DKSISVDLKNANSKLPYLAQSWVEDEKGVKITSPLIVVPPVQRIEPSAIGQVKIQG 95 (250)
T ss_pred EEeCcc-EEEEcCC---CceEEEEEEeCCCCCcEEEEEEeeCCCCCcccCCEEEcCCeEEECCCCceEEEEEE
Confidence 444443 5666542 23579999999864 43222 2111111 39999999999999999999996
No 38
>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=57.62 E-value=9.9 Score=27.33 Aligned_cols=42 Identities=14% Similarity=0.097 Sum_probs=27.0
Q ss_pred EEEEcCCCCeEEEEE-eecCCC-ceeecCCceeeCCCCeEEEEEE
Q 024770 97 IKIKNTSKSHVAFKF-QTTAPK-SCFMRPPGAILAPGESLIATVF 139 (262)
Q Consensus 97 LtL~N~S~~~VAFKV-KTTaPk-~Y~VRPn~GiI~Pgesv~I~Vt 139 (262)
|+++|+|..+|.|-= +....+ ...+ ...++|+|+++..+.+.
T Consensus 1 L~v~NpTPy~vtl~~~~~~~~~~~~~~-~~~~mi~P~s~~~~~~~ 44 (68)
T PF02753_consen 1 LTVKNPTPYYVTLSSLKLNGGGKKKKI-DNSGMIAPFSSKSFPLP 44 (68)
T ss_dssp EEEEE-SSS-EEEEEEEETHHHCCEEC-CCETEE-TTEEEEEETS
T ss_pred CEEECCCCcEEEEEeeeeccccccccc-CCceEECCCCceEEecc
Confidence 789999999999874 443333 3333 44449999999887766
No 39
>PRK15308 putative fimbrial protein TcfA; Provisional
Probab=55.84 E-value=1.4e+02 Score=27.41 Aligned_cols=86 Identities=10% Similarity=0.157 Sum_probs=59.4
Q ss_pred CcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEee---cCC---------------CceeecCCceeeCCCCeE
Q 024770 73 RRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---TAP---------------KSCFMRPPGAILAPGESL 134 (262)
Q Consensus 73 ~lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---TaP---------------k~Y~VRPn~GiI~Pgesv 134 (262)
--|.|.|- .+.+.. +.+....++|+|.++.+..++|.. ++| .--.+-|+.-+|.||++-
T Consensus 16 a~l~V~Pi-~~~i~a--~~~~~~~v~V~N~g~~~~~vqV~v~r~~~PG~~~e~~~~~~~~~~~eLiaSP~~l~L~pg~~q 92 (234)
T PRK15308 16 ANMLVYPM-AAEIGA--GREEATSLFVYSKSDHTQYVRTRIKRIEHPATPQEKEVPAGNDIETGLVVSPEKFALPAGTTR 92 (234)
T ss_pred ceEEEEEe-EEEecC--CCcceEEEEEEeCCCCcEEEEEEEEEEcCCCCCCCcccccccCCCCcEEEcCceeEECCCCeE
Confidence 34788886 666653 334568999999999988877643 332 136778999999999999
Q ss_pred EEEEEeeccCCCCCCCCCCCCCCCeEEEEEEEeCCCC
Q 024770 135 IATVFKFVELPENNEKPMYQKSRDKFKIISMKVKADV 171 (262)
Q Consensus 135 ~I~Vtl~v~qp~~~e~p~~~k~kDKFlVqS~~v~~~~ 171 (262)
.|.|... .+.. .-..|.|.-.+++...
T Consensus 93 ~IRli~l--g~~~--------kE~~YRl~~~pvp~~~ 119 (234)
T PRK15308 93 TVRVISL--QAPE--------REEAWRVYFEPVAELE 119 (234)
T ss_pred EEEEEEc--CCCC--------cEEEEEEEEEecCCcc
Confidence 9998862 1211 2355777777776543
No 40
>PRK15274 putative periplasmic fimbrial chaperone protein SteC; Provisional
Probab=54.34 E-value=1.4e+02 Score=27.76 Aligned_cols=60 Identities=15% Similarity=0.179 Sum_probs=42.1
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEee----cC----CCceeecCCceeeCCCCeEEEEEEe
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT----TA----PKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT----Ta----Pk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
|.++-. -+.|+.. ....+|+|.|.++. + |=|++ .. ..-|.|.|+.-.|+||+...|.|..
T Consensus 28 i~l~~T-RvIy~e~---~~~~sv~v~N~~~~~p--~LVQsWvdd~~~~~~~~pFivtPPLfRlep~~~q~lRI~~ 96 (257)
T PRK15274 28 IVPDRT-RVIFNGN---ENSITVTLKNGNATLP--YLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQP 96 (257)
T ss_pred EEeCce-EEEEeCC---CceEEEEEEeCCCCCc--EEEEEEccCCCCCcccCCEEEcCCeEEECCCCceEEEEEE
Confidence 555553 5666642 23579999999865 4 33333 11 0149999999999999999999997
No 41
>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=50.06 E-value=68 Score=24.52 Aligned_cols=21 Identities=24% Similarity=0.471 Sum_probs=12.8
Q ss_pred EEEEEEEEcCCCCeEEEEEee
Q 024770 93 VRSAIKIKNTSKSHVAFKFQT 113 (262)
Q Consensus 93 ~~s~LtL~N~S~~~VAFKVKT 113 (262)
+.-.|+|+|.++..|-+.+-+
T Consensus 2 v~~~l~v~N~s~~~v~l~f~s 22 (82)
T PF12690_consen 2 VEFTLTVTNNSDEPVTLQFPS 22 (82)
T ss_dssp EEEEEEEEE-SSS-EEEEESS
T ss_pred EEEEEEEEeCCCCeEEEEeCC
Confidence 445677888877777766544
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=48.34 E-value=17 Score=31.64 Aligned_cols=32 Identities=31% Similarity=0.424 Sum_probs=25.9
Q ss_pred EEEeecCCCceeecCCcee--eCCCCeEEEEEEe
Q 024770 109 FKFQTTAPKSCFMRPPGAI--LAPGESLIATVFK 140 (262)
Q Consensus 109 FKVKTTaPk~Y~VRPn~Gi--I~Pgesv~I~Vtl 140 (262)
|+|.-=+-+.|++.|.-|+ |+||+++.|.+.-
T Consensus 69 f~i~hinGDl~kl~Pt~~F~gl~~Ges~~I~~~~ 102 (164)
T PF03173_consen 69 FKITHINGDLHKLTPTAGFKGLAPGESLEIPFVG 102 (164)
T ss_dssp EEEEE-STTEEEEEE-TT---B-TTEEEEEEEEE
T ss_pred eEEEEEcCeEEEEeECCCCCccCCCCEEEEEEEc
Confidence 8898888999999999998 8999999999984
No 43
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=39.19 E-value=1.5e+02 Score=22.73 Aligned_cols=52 Identities=19% Similarity=0.339 Sum_probs=33.3
Q ss_pred EecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEe
Q 024770 76 KLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 76 ~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
.++|. .+..+. |+.+ .|+++|.....-.|-+.. +.+ ...|.||++..++++-
T Consensus 31 ~f~P~-~i~v~~--G~~v--~l~~~N~~~~~h~~~i~~-----~~~---~~~l~~g~~~~~~f~~ 82 (104)
T PF13473_consen 31 GFSPS-TITVKA--GQPV--TLTFTNNDSRPHEFVIPD-----LGI---SKVLPPGETATVTFTP 82 (104)
T ss_dssp EEES--EEEEET--TCEE--EEEEEE-SSS-EEEEEGG-----GTE---EEEE-TT-EEEEEEEE
T ss_pred eEecC-EEEEcC--CCeE--EEEEEECCCCcEEEEECC-----Cce---EEEECCCCEEEEEEcC
Confidence 77886 676664 5443 488999988888887755 111 2679999999999853
No 44
>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=39.12 E-value=1.4e+02 Score=26.20 Aligned_cols=51 Identities=20% Similarity=0.271 Sum_probs=36.5
Q ss_pred CCCeEEEEEEEEcCCCCeEEEEEeecCC----CceeecC-----CceeeCCCCeEEEEEEe
Q 024770 89 AGKQVRSAIKIKNTSKSHVAFKFQTTAP----KSCFMRP-----PGAILAPGESLIATVFK 140 (262)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~VAFKVKTTaP----k~Y~VRP-----n~GiI~Pgesv~I~Vtl 140 (262)
.|+.+...++|+|..+. -||.|+=++. ..|-+-- ....|+||+++.-.+++
T Consensus 36 ~g~~v~V~~~iyN~G~~-~A~dV~l~D~~fp~~~F~lvsG~~s~~~~~i~pg~~vsh~~vv 95 (181)
T PF05753_consen 36 EGEDVTVTYTIYNVGSS-AAYDVKLTDDSFPPEDFELVSGSLSASWERIPPGENVSHSYVV 95 (181)
T ss_pred CCcEEEEEEEEEECCCC-eEEEEEEECCCCCccccEeccCceEEEEEEECCCCeEEEEEEE
Confidence 47889999999999665 8999999882 3344321 13567777777776666
No 45
>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=38.71 E-value=75 Score=24.75 Aligned_cols=48 Identities=19% Similarity=0.398 Sum_probs=31.5
Q ss_pred EEEEEEEEcCCCCeE-----EEEEe-------------ecCCCceeecCCc--eeeCCCCeEEEEEEe
Q 024770 93 VRSAIKIKNTSKSHV-----AFKFQ-------------TTAPKSCFMRPPG--AILAPGESLIATVFK 140 (262)
Q Consensus 93 ~~s~LtL~N~S~~~V-----AFKVK-------------TTaPk~Y~VRPn~--GiI~Pgesv~I~Vtl 140 (262)
....|+|+|.++..| .|.+. +..-..|.|+|.. +.|+||+++.+-+..
T Consensus 15 f~~~v~v~N~~~~~i~~W~v~~~~~~~~~i~~~Wna~~s~~g~~~~v~~~~wn~~i~~G~s~~~Gf~~ 82 (101)
T PF00553_consen 15 FQGEVTVTNNGSSPINGWTVTFTFPSGQTITSSWNATVSQSGNTVTVTNPSWNGTIAPGGSVTFGFQA 82 (101)
T ss_dssp EEEEEEEEESSSSTEESEEEEEEESTTEEEEEEESCEEEEETTEEEEEESSTCSEEEESEEEEEEEEE
T ss_pred eEEEEEEEECCCCccCCEEEEEEeCCCCEEeeeeccEEEecCCEEEEEcCCcCcccCCCCeEEEEEEE
Confidence 445788888876653 33322 1112468888764 799999998887765
No 46
>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=37.29 E-value=1.5e+02 Score=29.41 Aligned_cols=66 Identities=20% Similarity=0.230 Sum_probs=42.4
Q ss_pred CCcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCce----------------------eecCCceeeC
Q 024770 72 RRRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSC----------------------FMRPPGAILA 129 (262)
Q Consensus 72 ~~lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y----------------------~VRPn~GiI~ 129 (262)
...+.++-. +-.|.- +++...-+|+++|.++++|-..==+|+.-+| .|.|+ +=|.
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 666654 5889999999999999999887434433332 23333 4589
Q ss_pred CCCeEEEEEEe
Q 024770 130 PGESLIATVFK 140 (262)
Q Consensus 130 Pgesv~I~Vtl 140 (262)
|||+.+|+|..
T Consensus 323 PGETrtl~V~a 333 (381)
T PF04744_consen 323 PGETRTLTVEA 333 (381)
T ss_dssp TT-EEEEEEEE
T ss_pred CCceEEEEEEe
Confidence 99999999986
No 47
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=36.03 E-value=1.5e+02 Score=26.91 Aligned_cols=81 Identities=11% Similarity=0.095 Sum_probs=57.0
Q ss_pred ccccchhccCCCCCcEEecCCCceEeecCCCCe-EEEEEEEEcCCCCeEE-EEEeecCCCceee----cCCceeeCCCCe
Q 024770 60 SVSSVARSLLPKRRRLKLDPANKLYFPYEAGKQ-VRSAIKIKNTSKSHVA-FKFQTTAPKSCFM----RPPGAILAPGES 133 (262)
Q Consensus 60 ~~~~~~~sll~~~~lL~IdP~~~L~F~~e~~k~-~~s~LtL~N~S~~~VA-FKVKTTaPk~Y~V----RPn~GiI~Pges 133 (262)
.++.|+|..+-....+.++......|.+.+... ....|+|+|.....|. +.+....++.+.+ +...|-..|...
T Consensus 92 a~~lIGk~V~~~~~~~~~~~~~~~~~~~~l~~~a~~vti~I~D~~G~~Vrt~~lg~~~aG~~~f~WDG~d~~G~~lp~G~ 171 (225)
T PRK06655 92 ASSLVGRGVLVPGDTVLVGTGGTTPFGVELPSAADNVTVTITDSAGQVVRTIDLGAQSAGVVSFTWDGTDTDGNALPDGN 171 (225)
T ss_pred HHHhcCCeEEEecceEEecCCCceEEEEEcCCCCcEEEEEEEcCCCCEEEEEecCCcCCCceeEEECCCCCCCCcCCCee
Confidence 456677777777788888774467777775543 3689999999888775 7776666777766 455676666666
Q ss_pred EEEEEEe
Q 024770 134 LIATVFK 140 (262)
Q Consensus 134 v~I~Vtl 140 (262)
..+.|.-
T Consensus 172 Yt~~V~A 178 (225)
T PRK06655 172 YTIKASA 178 (225)
T ss_pred EEEEEEE
Confidence 7777753
No 48
>smart00637 CBD_II CBD_II domain.
Probab=34.58 E-value=1.6e+02 Score=22.28 Aligned_cols=24 Identities=17% Similarity=0.129 Sum_probs=17.9
Q ss_pred CceeecCCc--eeeCCCCeEEEEEEe
Q 024770 117 KSCFMRPPG--AILAPGESLIATVFK 140 (262)
Q Consensus 117 k~Y~VRPn~--GiI~Pgesv~I~Vtl 140 (262)
..|.++|.. +.|+||+++.+-+..
T Consensus 50 ~~~~~~~~~wn~~i~~G~s~~~gf~~ 75 (92)
T smart00637 50 GHVTATNASWNGTIAPGGSVSFGFQG 75 (92)
T ss_pred CEEEEecCccccccCCCCEEEEEEEe
Confidence 368888644 799999998776553
No 49
>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=34.30 E-value=60 Score=23.09 Aligned_cols=28 Identities=29% Similarity=0.529 Sum_probs=17.6
Q ss_pred CceEeecCCCCeEEEEEEEEcCCCCeEEEEE
Q 024770 81 NKLYFPYEAGKQVRSAIKIKNTSKSHVAFKF 111 (262)
Q Consensus 81 ~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKV 111 (262)
.-..|.+ +. +...-++...+...||||+
T Consensus 44 ~C~~y~~--~~-i~~v~~~~~~~~~~VA~K~ 71 (71)
T PF08277_consen 44 KCYLYNY--GS-ISTVQKTDSSSGNKVAFKI 71 (71)
T ss_pred CEEEEEc--CC-EEEEEEeecCCCeEEEEEC
Confidence 3444544 43 4455556666678999996
No 50
>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=30.62 E-value=1.6e+02 Score=21.46 Aligned_cols=52 Identities=21% Similarity=0.192 Sum_probs=33.6
Q ss_pred CCCeEEEEEEEEcCCCC-eEEEEEeecCCCceeecCCceeeCCCCeEEEEEEe
Q 024770 89 AGKQVRSAIKIKNTSKS-HVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 89 ~~k~~~s~LtL~N~S~~-~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
.|+...-.++|+|.... .=.|+|+-...+...-.-..+-|.||++..+.+.+
T Consensus 17 ~g~~~~i~~~V~N~G~~~~~~~~v~~~~~~~~~~~~~i~~L~~g~~~~v~~~~ 69 (101)
T PF07705_consen 17 PGEPVTITVTVKNNGTADAENVTVRLYLDGNSVSTVTIPSLAPGESETVTFTW 69 (101)
T ss_dssp TTSEEEEEEEEEE-SSS-BEEEEEEEEETTEEEEEEEESEB-TTEEEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCCCCEEEEEEECCceeccEEECCcCCCcEEEEEEEE
Confidence 47788899999999764 34566654333332222333788999999999987
No 51
>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=30.61 E-value=2.3e+02 Score=21.99 Aligned_cols=51 Identities=14% Similarity=0.251 Sum_probs=32.8
Q ss_pred CCeEEEEEEEEcCCCCe--EEEEEeecCCCceeecCC-----ceeeCCCCeEEEEEEe
Q 024770 90 GKQVRSAIKIKNTSKSH--VAFKFQTTAPKSCFMRPP-----GAILAPGESLIATVFK 140 (262)
Q Consensus 90 ~k~~~s~LtL~N~S~~~--VAFKVKTTaPk~Y~VRPn-----~GiI~Pgesv~I~Vtl 140 (262)
+......+.|+|.++.+ +.||+-==+..-+-|.|. .=+|.++++..|.-.-
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 66788999999999764 888987777777778777 3467777777776663
No 52
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=29.48 E-value=1.1e+02 Score=28.16 Aligned_cols=42 Identities=14% Similarity=0.082 Sum_probs=28.5
Q ss_pred EEEEEcCCCCeEEEE-EeecCCCceeecCCceeeCCCCeEEEEE
Q 024770 96 AIKIKNTSKSHVAFK-FQTTAPKSCFMRPPGAILAPGESLIATV 138 (262)
Q Consensus 96 ~LtL~N~S~~~VAFK-VKTTaPk~Y~VRPn~GiI~Pgesv~I~V 138 (262)
.|+|+|+|..++.|- ++....++ .+....|+|.|+++..+.+
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 599999999999886 33222221 2223458899999988764
No 53
>PHA01327 hypothetical protein
Probab=29.24 E-value=50 Score=23.07 Aligned_cols=13 Identities=46% Similarity=1.086 Sum_probs=11.2
Q ss_pred hhHHHHHHHHHHH
Q 024770 241 DEWKERRERYLAR 253 (262)
Q Consensus 241 ~~~~~~r~~~~~~ 253 (262)
.+|.|||+++-.|
T Consensus 20 e~wqer~drmkkr 32 (49)
T PHA01327 20 EEWQERKDRMKKR 32 (49)
T ss_pred HHHHHHHHHHHHH
Confidence 6899999999774
No 54
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=26.94 E-value=1.1e+02 Score=25.99 Aligned_cols=43 Identities=26% Similarity=0.376 Sum_probs=31.2
Q ss_pred chhccCCCCCcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEE
Q 024770 64 VARSLLPKRRRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFK 110 (262)
Q Consensus 64 ~~~sll~~~~lL~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFK 110 (262)
+|.-|-.-+--..|.| .++|.++++.+ .++-|..++.+.+-||
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 3344433333344444 79999999985 7899999999999998
No 55
>PF13205 Big_5: Bacterial Ig-like domain
Probab=26.32 E-value=2.7e+02 Score=20.80 Aligned_cols=56 Identities=25% Similarity=0.318 Sum_probs=35.3
Q ss_pred ceEeecCCC-CeEEEEEEEEc--CCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEe
Q 024770 82 KLYFPYEAG-KQVRSAIKIKN--TSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (262)
Q Consensus 82 ~L~F~~e~~-k~~~s~LtL~N--~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl 140 (262)
.|.|.-+.+ ......+.+.+ ....+|.+. ....+.+.+.|. +-|.+|..+.|+|.-
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 555655543 24445666644 334455555 334488889998 557889999999853
No 56
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=26.24 E-value=1.5e+02 Score=26.76 Aligned_cols=50 Identities=12% Similarity=0.224 Sum_probs=34.4
Q ss_pred CceEeecCCCCeEEEEEEEEcCCCCeEEEE-EeecCCCceeecCCceeeCCCCeEEEEEE
Q 024770 81 NKLYFPYEAGKQVRSAIKIKNTSKSHVAFK-FQTTAPKSCFMRPPGAILAPGESLIATVF 139 (262)
Q Consensus 81 ~~L~F~~e~~k~~~s~LtL~N~S~~~VAFK-VKTTaPk~Y~VRPn~GiI~Pgesv~I~Vt 139 (262)
..|.|....+ .|+|.|+|..+|.|- ++... +. +. +.|+|.|+++..+.+-
T Consensus 148 ~~L~~~~~~~-----~l~v~NptPyyitl~~l~~~~-~~--~~-~~~mI~P~s~~~~~~~ 198 (226)
T PRK15295 148 QQLKWQTAGD-----VITVNNPTPYYMNFASVTLNS-HE--VK-SATFVPPKSSASFKLG 198 (226)
T ss_pred hccEEEEcCC-----EEEEECCCceEEEEEEEEECC-cc--cC-CCceECCCCccEEEcc
Confidence 3677765332 499999999999875 55432 22 22 3589999999888653
No 57
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=25.15 E-value=1.7e+02 Score=26.82 Aligned_cols=48 Identities=10% Similarity=0.200 Sum_probs=31.5
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEEE-eecCCCceeecCCceeeCCCCeEEEEE
Q 024770 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFKF-QTTAPKSCFMRPPGAILAPGESLIATV 138 (262)
Q Consensus 82 ~L~F~~e~~k~~~s~LtL~N~S~~~VAFKV-KTTaPk~Y~VRPn~GiI~Pgesv~I~V 138 (262)
.|.|....+ .|++.|+|..+|.|-= +-. .+. + ...++|+|.++..+.+
T Consensus 154 ~L~~~~~~~-----~l~v~NpTPyyvtl~~l~v~-~~~--~-~~~~miaPfs~~~~~~ 202 (234)
T PRK15192 154 HLIWSLTPD-----GATVRNPTPYYVTLFLLRAN-ERA--Q-DNAGVVAPFATRQTDW 202 (234)
T ss_pred heEEEEcCC-----EEEEECCCCcEEEEEeEEEc-Ccc--c-CCCceECCCCccEEec
Confidence 455654332 3999999999998852 322 222 2 2347899999887765
No 58
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=24.91 E-value=1.6e+02 Score=26.76 Aligned_cols=49 Identities=22% Similarity=0.320 Sum_probs=32.9
Q ss_pred CceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeecCCceeeCCCCeEEEEE
Q 024770 81 NKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATV 138 (262)
Q Consensus 81 ~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~V 138 (262)
..|.|....+ .|+|.|+|..+|.|---.-..+. + ...+|.|+++..+.+
T Consensus 144 ~~L~~~~~~~-----~l~v~NpTPyyvtl~~l~~~~~~--~--~~~mi~P~s~~~~~~ 192 (233)
T PRK15246 144 KKLRFIAKEN-----TIRIVNPTSWYMSLTLTMDNKKS--I--GDIMVAPKTALDVPL 192 (233)
T ss_pred hccEEEEcCC-----EEEEECCCCcEEEEEeEEECCcc--c--CcceECCCCccEEEc
Confidence 3777775433 49999999999988632222222 2 246899999887764
No 59
>PF11538 Snurportin1: Snurportin1; InterPro: IPR024721 Snurportin-1 is a nuclear import receptor that contains an N-terminal importin beta binding domain which is essential for its function as an snRNP-specific nuclear import receptor []. Snurportin-1 interacts with m3G-cap where it enhances the m3G-cap dependent nuclear import of U snRNPs in Xenopus laevis oocytes and digitonin-permeabilized HeLa cells []. This entry represents the snurportin-1 N-terminal importin beta binding domain (IBB). The essential role of the IBB domain for snurportin-1 function suggests that snurportin-1 cooperates with importin beta in mediating nuclear import of snRNPs.; GO: 0005515 protein binding; PDB: 3LWW_D 3NC0_E 3NBZ_E 2Q5D_C 3NBY_B 3GB8_B 3GJX_B 2QNA_B 2P8Q_B.
Probab=23.73 E-value=62 Score=22.09 Aligned_cols=15 Identities=40% Similarity=0.645 Sum_probs=11.8
Q ss_pred hhHHHHHHHHHHHhh
Q 024770 241 DEWKERRERYLARQQ 255 (262)
Q Consensus 241 ~~~~~~r~~~~~~~~ 255 (262)
.+=.|||+++|++|-
T Consensus 14 ~~Q~eRR~~~Le~QK 28 (40)
T PF11538_consen 14 LDQEERRREFLERQK 28 (40)
T ss_dssp CSHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHH
Confidence 345799999999874
No 60
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.70 E-value=1.9e+02 Score=26.23 Aligned_cols=51 Identities=14% Similarity=0.088 Sum_probs=36.3
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEE--EeecCCCceeecCCceeeCCCCeEEEEEE
Q 024770 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFK--FQTTAPKSCFMRPPGAILAPGESLIATVF 139 (262)
Q Consensus 82 ~L~F~~e~~k~~~s~LtL~N~S~~~VAFK--VKTTaPk~Y~VRPn~GiI~Pgesv~I~Vt 139 (262)
.|.|.... ..|+++|++..+|.|- .-+. .++-.. -..+.|.|+++..+.+-
T Consensus 157 ~L~~~~~~-----~~l~v~Nptpy~vtl~~~~l~~-~~~~~~-~~~~mv~P~s~~~~~l~ 209 (235)
T COG3121 157 KLTWSRSG-----NLLTVKNPTPYYVTLANLTLNV-GGRKLG-LNSGMVAPFSTRQFPLP 209 (235)
T ss_pred eEEEEEcC-----CEEEEECCCCcEEEEEEEEEee-CceecC-CCcceECCCccceeecC
Confidence 56666543 5899999999999998 3333 333333 78899999998885443
No 61
>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=23.30 E-value=5.7e+02 Score=25.60 Aligned_cols=71 Identities=17% Similarity=0.209 Sum_probs=46.9
Q ss_pred CCCcEEecCCCc-eEeecCCCC-eEEEEEEEEcCCCCeEEEEEeecCCCceeec-C-CceeeCCCCeEEEEEEee
Q 024770 71 KRRRLKLDPANK-LYFPYEAGK-QVRSAIKIKNTSKSHVAFKFQTTAPKSCFMR-P-PGAILAPGESLIATVFKF 141 (262)
Q Consensus 71 ~~~lL~IdP~~~-L~F~~e~~k-~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VR-P-n~GiI~Pgesv~I~Vtl~ 141 (262)
++-.|.|..... |+...+.|. .-.-.++|.|.+..+..|.++........+. + +.=.|+||+...+.|++.
T Consensus 324 ~~~~~~v~r~r~~l~~~~~~g~i~N~Y~~~i~Nk~~~~~~~~l~v~g~~~~~~~~~~~~i~v~~g~~~~~~v~v~ 398 (434)
T TIGR02745 324 EPMDLNVLRDRNLLYVRNSDGVVENTYTLKILNKTEQPHEYYLSVLGLPGIKIEGPGAPIHVKAGEKVKLPVFLR 398 (434)
T ss_pred CceEEEEEecCCcceEECCCCcEEEEEEEEEEECCCCCEEEEEEEecCCCcEEEcCCceEEECCCCEEEEEEEEE
Confidence 344466666544 444444443 4567999999999888887777654443333 2 244899999999888874
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=23.30 E-value=92 Score=27.82 Aligned_cols=27 Identities=30% Similarity=0.533 Sum_probs=23.5
Q ss_pred CeEEEEEeecCCCceeecCCceeeCCCCeEEEEEEeec
Q 024770 105 SHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFV 142 (262)
Q Consensus 105 ~~VAFKVKTTaPk~Y~VRPn~GiI~Pgesv~I~Vtl~v 142 (262)
++|+||+ |...-|+||+++++.+...+
T Consensus 116 Hrvs~tl-----------p~wqslapG~s~~~~~~YyL 142 (180)
T PF06483_consen 116 HRVSFTL-----------PAWQSLAPGASVELDMVYYL 142 (180)
T ss_pred EEEEEEC-----------CCccccCCCCEEEEeEEEEe
Confidence 6889888 88899999999999998753
No 63
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=23.23 E-value=4.8e+02 Score=22.35 Aligned_cols=49 Identities=18% Similarity=0.239 Sum_probs=33.0
Q ss_pred CeEEEEEEEEcCCCCeEEEEEeecCCC---ceeec--CCceeeCCCCeEEEEEEe
Q 024770 91 KQVRSAIKIKNTSKSHVAFKFQTTAPK---SCFMR--PPGAILAPGESLIATVFK 140 (262)
Q Consensus 91 k~~~s~LtL~N~S~~~VAFKVKTTaPk---~Y~VR--Pn~GiI~Pgesv~I~Vtl 140 (262)
..+.-.|+++|.++..+. .|+--.++ --+++ |..+.|+||+++.+.+-.
T Consensus 85 ~mvsIql~ftN~s~~~i~-~I~i~~k~l~~g~~i~~F~~I~~L~pg~s~t~~lgI 138 (145)
T PF14796_consen 85 SMVSIQLTFTNNSDEPIK-NIHIGEKKLPAGMRIHEFPEIESLEPGASVTVSLGI 138 (145)
T ss_pred CcEEEEEEEEecCCCeec-ceEECCCCCCCCcEeeccCcccccCCCCeEEEEEEE
Confidence 456678999999986442 23322222 33444 889999999998877654
No 64
>smart00605 CW CW domain.
Probab=22.43 E-value=1.9e+02 Score=21.98 Aligned_cols=33 Identities=33% Similarity=0.493 Sum_probs=18.7
Q ss_pred CceEeecCCCCeEEEEEEEEcC-CCCeEEEEEeecCCC
Q 024770 81 NKLYFPYEAGKQVRSAIKIKNT-SKSHVAFKFQTTAPK 117 (262)
Q Consensus 81 ~~L~F~~e~~k~~~s~LtL~N~-S~~~VAFKVKTTaPk 117 (262)
....|.+ +. ...|+-.+. +...||||+.++.+.
T Consensus 47 ~C~~f~~--~~--~~~v~~~~~~~~~~VAfK~~~~~~~ 80 (94)
T smart00605 47 TCYLFSY--GT--VLTVKKLSSSSGKKVAFKVSTDQPS 80 (94)
T ss_pred ceEEEEc--CC--eEEEEEccCCCCcEEEEEEeCCCCC
Confidence 3455665 32 233444443 457899999866444
No 65
>PF08402 TOBE_2: TOBE domain; InterPro: IPR013611 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (e.g. P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT). Found in ABC transporters immediately after the ATPase domain. A strong RPE motif is found at the presumed N terminus of the domain. ; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1Q12_A 1Q1B_C 2AWN_D 3RLF_B 3PUX_B 2R6G_B 3PUV_B 1Q1E_A 3PV0_B 2AWO_A ....
Probab=21.71 E-value=2.7e+02 Score=19.00 Aligned_cols=64 Identities=14% Similarity=0.238 Sum_probs=39.9
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEeecCCCceeec-CCce---eeCCCCeEEEEEE
Q 024770 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMR-PPGA---ILAPGESLIATVF 139 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VR-Pn~G---iI~Pgesv~I~Vt 139 (262)
|.|-|. .|.+....+....+.|.-.--....+-+.+++..-....+. ++.. .+.+|+.+.|.+.
T Consensus 1 l~iRPE-~i~l~~~~~~~~~g~V~~~~~~G~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~G~~v~l~~~ 68 (75)
T PF08402_consen 1 LGIRPE-DIRLSPEGENRLPGTVVSVEFLGSETRYTVRLEGGEELVVRVPNSQRDSPLEPGDEVRLSWD 68 (75)
T ss_dssp EEE-GG-GEEEESSTTTEEEEEEEEEEEESSEEEEEEEETTSSEEEEEEESSG-TTT--TTSEEEEEEE
T ss_pred CEECcc-eeEEECCCCCeEEEEEEEEEECCCEEEEEEEECCCCEEEEEecCccccCCCCCCCEEEEEEC
Confidence 456675 67775222336666666555567788888888777664444 4444 6889999888876
No 66
>PF07103 DUF1365: Protein of unknown function (DUF1365); InterPro: IPR010775 This family consists of several bacterial and plant proteins of around 250 residues in length. The function of this family is unknown.
Probab=21.46 E-value=5.7e+02 Score=23.54 Aligned_cols=65 Identities=20% Similarity=0.382 Sum_probs=46.8
Q ss_pred EEecCCCceEeecCCC-CeEEEEEEEEcC-CCCeEEEEEee------------cCCCceeecCCce--------eeCCCC
Q 024770 75 LKLDPANKLYFPYEAG-KQVRSAIKIKNT-SKSHVAFKFQT------------TAPKSCFMRPPGA--------ILAPGE 132 (262)
Q Consensus 75 L~IdP~~~L~F~~e~~-k~~~s~LtL~N~-S~~~VAFKVKT------------TaPk~Y~VRPn~G--------iI~Pge 132 (262)
...+|. .++|.+..+ +.......+.|+ -+.+.+|=+.. +.+|.|.|-|-.. +-.|++
T Consensus 101 y~FNPv-Sfyyc~d~~~~l~~vvaEV~NTPfgErH~Yvl~~~~~~~~~~~~~~~~~K~FHVSPF~~~~g~Y~~~~~~p~~ 179 (254)
T PF07103_consen 101 YVFNPV-SFYYCYDADGQLRAVVAEVNNTPFGERHCYVLPADQGRPIDESFRFTFPKAFHVSPFNPMDGRYRFRFRDPGD 179 (254)
T ss_pred eEeCCe-EEEEEEcCCCCEEEEEEEEeCCCCCcEEEEEecccccCccCcCceeEecceeeECCCCCCCCEEEEEEcCCCc
Confidence 568998 899999754 456678899999 77766665554 4577788888653 455677
Q ss_pred eEEEEEEe
Q 024770 133 SLIATVFK 140 (262)
Q Consensus 133 sv~I~Vtl 140 (262)
.+.|.|.+
T Consensus 180 ~l~v~I~~ 187 (254)
T PF07103_consen 180 RLSVRIDL 187 (254)
T ss_pred ceEEEEEe
Confidence 77776665
No 67
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=20.71 E-value=2.2e+02 Score=26.07 Aligned_cols=49 Identities=10% Similarity=0.127 Sum_probs=32.8
Q ss_pred CceEeecCCCCeEEEEEEEEcCCCCeEEEE-EeecCCCceeecCCceeeCCCCeEEEEE
Q 024770 81 NKLYFPYEAGKQVRSAIKIKNTSKSHVAFK-FQTTAPKSCFMRPPGAILAPGESLIATV 138 (262)
Q Consensus 81 ~~L~F~~e~~k~~~s~LtL~N~S~~~VAFK-VKTTaPk~Y~VRPn~GiI~Pgesv~I~V 138 (262)
..|.|....+ .|++.|+|..+|.|- ++- ..+. +. +.++|.|.++..+.+
T Consensus 160 ~~L~~~~~g~-----~l~v~NpTPYyvtl~~l~~-~~~~--~~-~~~miaPfs~~~~~~ 209 (237)
T PRK15224 160 GNLRWVETGN-----KLKVENPTPFYMNLASVTV-GGKP--IT-GLEYIPPFADKTLNM 209 (237)
T ss_pred hccEEEEcCC-----EEEEECCCCcEEEeEeEEE-CCcc--cC-CceeECCCCccEEEc
Confidence 3777775433 499999999999875 333 2222 22 246899999887753
No 68
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=20.30 E-value=2.7e+02 Score=25.36 Aligned_cols=55 Identities=15% Similarity=0.201 Sum_probs=34.2
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEE-Eeec-CCCceeecCCceeeCCCCeEEEEEE
Q 024770 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFK-FQTT-APKSCFMRPPGAILAPGESLIATVF 139 (262)
Q Consensus 82 ~L~F~~e~~k~~~s~LtL~N~S~~~VAFK-VKTT-aPk~Y~VRPn~GiI~Pgesv~I~Vt 139 (262)
.|.|....+. ....|+++|+|..++.|- ++-. ..+.+.+ ..+.|.|+++..+.+-
T Consensus 161 ~L~~~~~~~~-~~~~L~v~Nptpy~itl~~l~~~~~g~~~~~--~~~mi~P~s~~~~~l~ 217 (246)
T PRK09926 161 ALKWSWAGSE-GKASLRVTNPTPYYVSFSSGDLEAGGKRYPV--DSKMIAPFSDESMKVK 217 (246)
T ss_pred ccEEEEecCC-CeEEEEEECCCceEEEEEeeeeecCCeeccc--CcceECCCCcceEecC
Confidence 5677643322 124599999999988875 3322 2222322 3478999998887643
Done!