Query 025361
Match_columns 254
No_of_seqs 169 out of 666
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:03:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025361.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025361hhsearch_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 2.8E-28 6E-33 213.2 13.7 172 69-244 3-183 (218)
2 COG5066 SCS2 VAMP-associated p 99.9 1.3E-25 2.9E-30 198.0 11.8 119 75-198 3-123 (242)
3 PF00635 Motile_Sperm: MSP (Ma 99.9 3.8E-22 8.1E-27 155.5 11.4 102 75-181 2-107 (109)
4 PF14874 PapD-like: Flagellar- 98.3 7.9E-06 1.7E-10 63.1 9.9 66 74-140 3-71 (102)
5 PF00345 PapD_N: Pili and flag 96.3 0.088 1.9E-06 42.0 11.3 62 75-140 2-72 (122)
6 PF14646 MYCBPAP: MYCBP-associ 93.5 1.6 3.5E-05 42.5 12.9 121 75-216 231-364 (426)
7 PRK09918 putative fimbrial cha 93.1 3.2 7E-05 37.3 13.4 108 74-199 25-137 (230)
8 PRK09926 putative chaperone pr 91.1 4.6 9.9E-05 36.7 12.0 63 74-140 26-98 (246)
9 PRK11385 putativi pili assembl 89.7 12 0.00026 34.1 13.5 61 74-140 27-101 (236)
10 PF07610 DUF1573: Protein of u 89.4 1.4 3E-05 29.9 5.5 43 97-140 2-45 (45)
11 PRK15299 fimbrial chaperone pr 89.4 7.3 0.00016 35.0 11.7 111 74-199 23-141 (227)
12 PRK15295 fimbrial assembly cha 89.2 8.9 0.00019 34.5 12.1 60 75-140 21-89 (226)
13 PRK15249 fimbrial chaperone pr 89.1 10 0.00022 34.8 12.6 62 75-140 30-102 (253)
14 PRK15211 fimbrial chaperone pr 88.7 9.2 0.0002 34.6 11.9 62 75-140 24-91 (229)
15 PRK15192 fimbrial chaperone Bc 88.2 14 0.00031 33.6 12.8 60 75-140 24-97 (234)
16 PF11614 FixG_C: IG-like fold 87.6 2.4 5.2E-05 33.7 6.7 67 75-141 13-83 (118)
17 PRK15246 fimbrial assembly cha 87.1 21 0.00046 32.4 13.3 111 75-199 12-134 (233)
18 PRK15188 fimbrial chaperone pr 85.2 22 0.00047 32.3 12.3 63 74-140 28-96 (228)
19 PRK15208 long polar fimbrial c 84.4 20 0.00043 32.2 11.7 63 74-140 22-90 (228)
20 COG3121 FimC P pilus assembly 83.5 34 0.00074 30.9 13.2 112 75-201 29-148 (235)
21 PRK15195 fimbrial chaperone pr 82.0 30 0.00065 31.2 11.8 61 74-140 26-94 (229)
22 PRK15254 fimbrial chaperone pr 79.6 39 0.00084 30.9 11.8 62 75-140 18-85 (239)
23 PRK15218 fimbrial chaperone pr 79.0 50 0.0011 29.9 12.3 60 75-140 20-91 (226)
24 PF06280 DUF1034: Fn3-like dom 78.4 5 0.00011 31.5 5.0 51 90-140 7-78 (112)
25 PF10633 NPCBM_assoc: NPCBM-as 70.2 7.8 0.00017 28.5 4.0 52 89-140 3-58 (78)
26 PRK15290 lfpB fimbrial chapero 68.2 97 0.0021 28.3 13.7 111 75-199 39-157 (243)
27 PRK15233 putative fimbrial cha 68.0 56 0.0012 30.1 9.9 46 93-140 56-108 (246)
28 PRK15224 pili assembly chapero 67.8 53 0.0011 30.0 9.6 60 75-140 30-96 (237)
29 PF00927 Transglut_C: Transglu 66.9 19 0.0004 27.9 5.7 52 89-140 13-74 (107)
30 smart00809 Alpha_adaptinC2 Ada 65.2 38 0.00083 25.7 7.1 51 90-140 17-71 (104)
31 TIGR03079 CH4_NH3mon_ox_B meth 65.1 18 0.00038 35.6 6.2 52 89-140 280-352 (399)
32 PRK15308 putative fimbrial pro 63.7 81 0.0018 28.8 10.0 85 74-171 17-119 (234)
33 PRK15285 putative fimbrial cha 61.3 1.3E+02 0.0029 27.6 11.4 60 75-140 27-95 (250)
34 PRK15253 putative fimbrial ass 61.0 1.3E+02 0.0029 27.4 12.3 60 75-140 35-106 (242)
35 PF11611 DUF4352: Domain of un 58.7 53 0.0012 25.3 7.0 54 88-141 33-100 (123)
36 PF06030 DUF916: Bacterial pro 58.5 62 0.0014 26.4 7.6 59 82-140 18-101 (121)
37 PF05506 DUF756: Domain of unk 57.9 33 0.00072 25.9 5.6 44 94-140 21-65 (89)
38 PF02883 Alpha_adaptinC2: Adap 57.7 34 0.00074 26.6 5.7 51 90-140 23-77 (115)
39 PF12690 BsuPI: Intracellular 54.6 55 0.0012 24.9 6.2 48 93-140 2-68 (82)
40 PF02753 PapD_C: Pili assembly 54.0 12 0.00025 26.8 2.3 43 97-140 1-45 (68)
41 PRK15274 putative periplasmic 52.5 1.7E+02 0.0037 27.1 10.2 60 75-140 28-96 (257)
42 PF13473 Cupredoxin_1: Cupredo 48.0 1E+02 0.0023 23.6 7.0 53 75-140 30-82 (104)
43 PF03173 CHB_HEX: Putative car 47.2 17 0.00036 31.5 2.6 32 109-140 69-102 (164)
44 PF04744 Monooxygenase_B: Mono 38.6 1.3E+02 0.0028 29.7 7.4 67 72-141 246-334 (381)
45 PF07705 CARDB: CARDB; InterP 34.9 1.1E+02 0.0024 22.3 5.2 52 89-140 17-69 (101)
46 smart00637 CBD_II CBD_II domai 34.4 1.5E+02 0.0033 22.2 5.9 24 117-140 50-75 (92)
47 PF00553 CBM_2: Cellulose bind 34.0 90 0.002 24.2 4.7 49 92-140 14-82 (101)
48 PF08277 PAN_3: PAN-like domai 32.8 66 0.0014 22.7 3.5 31 78-111 41-71 (71)
49 PRK15295 fimbrial assembly cha 30.2 1.2E+02 0.0025 27.4 5.3 49 82-139 149-198 (226)
50 PF05753 TRAP_beta: Translocon 29.9 2.4E+02 0.0053 24.6 7.2 51 89-140 36-95 (181)
51 TIGR02745 ccoG_rdxA_fixG cytoc 29.8 3.7E+02 0.0081 26.8 9.2 71 71-141 324-398 (434)
52 PRK15249 fimbrial chaperone pr 29.6 1E+02 0.0022 28.2 5.0 42 96-138 177-219 (253)
53 PF14796 AP3B1_C: Clathrin-ada 28.7 3.7E+02 0.008 22.9 8.2 59 82-140 72-138 (145)
54 PRK03879 ribonuclease P protei 28.4 34 0.00074 27.1 1.4 17 228-244 23-40 (96)
55 PF13205 Big_5: Bacterial Ig-l 28.1 2.3E+02 0.0051 21.0 6.1 56 82-140 26-84 (107)
56 PRK06655 flgD flagellar basal 28.0 2.7E+02 0.0058 25.2 7.3 81 60-140 92-178 (225)
57 smart00538 POP4 A domain found 27.8 36 0.00077 26.7 1.4 17 228-244 21-38 (92)
58 PF07233 DUF1425: Protein of u 26.4 2.7E+02 0.0059 21.4 6.2 51 90-140 23-80 (94)
59 COG3121 FimC P pilus assembly 24.8 1.9E+02 0.0042 26.1 5.8 51 82-139 157-209 (235)
60 PRK15246 fimbrial assembly cha 23.9 1.6E+02 0.0036 26.6 5.2 49 81-138 144-192 (233)
61 PF11616 EZH2_WD-Binding: WD r 23.9 21 0.00045 22.9 -0.5 9 240-248 19-27 (30)
62 smart00605 CW CW domain. 23.7 1.7E+02 0.0037 22.1 4.6 33 81-117 47-80 (94)
63 PF07103 DUF1365: Protein of u 23.2 5.1E+02 0.011 23.7 8.3 65 75-140 101-187 (254)
64 PF01868 UPF0086: Domain of un 23.2 44 0.00096 25.9 1.2 16 229-244 23-39 (89)
65 PRK15192 fimbrial chaperone Bc 22.1 1.9E+02 0.0042 26.3 5.3 48 82-138 154-202 (234)
66 PRK09926 putative chaperone pr 21.3 2.4E+02 0.0051 25.6 5.7 55 82-139 161-217 (246)
67 PF06483 ChiC: Chitinase C; I 21.1 1.1E+02 0.0024 27.2 3.3 26 105-141 116-141 (180)
No 1
>KOG0439 consensus VAMP-associated protein involved in inositol metabolism [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.96 E-value=2.8e-28 Score=213.22 Aligned_cols=172 Identities=34% Similarity=0.516 Sum_probs=149.6
Q ss_pred CCCCCcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEecccCCCCC
Q 025361 69 LPKRRRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENN 148 (254)
Q Consensus 69 ~~~~~lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~~~ 148 (254)
+....+|.++|..+|+|.++..+++.+.|+|+|+++.+||||||||+|++|+|||+.|+|.||+++.|.|.+ || ..
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 456789999998899999999999999999999999999999999999999999999999999999999988 56 44
Q ss_pred CCCCCCCCCCeEEEEEEEeCCC-CCchhhhhhccC--CCcceeEEEEEEEeCCCCCCchhHHH---HHhhhhHHHHHHHh
Q 025361 149 EKPMYQKSRDKFKIISMKVKAD-VDYVPELFDEQK--DQTAAEQILRVVFLNPERPEPALEKL---KRQLADADAAVAAR 222 (254)
Q Consensus 149 e~p~~~~~kDKFLIqSv~v~~~-~d~~~elFk~~~--~~~i~e~KLrV~fv~p~~ps~~~e~l---~~~L~ea~~~~~~~ 222 (254)
..|.+.+|+|||+||++.++.+ .....++|+..+ +..+.+.+++|.|+.|..+....+.. .++....++...+.
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 677899999988 78899999999999987765555544 66777777888888
Q ss_pred cCCCCCC---CCceeeeeeeeeehh
Q 025361 223 KKPPEDT---GPRIIGEGLVIDEWV 244 (254)
Q Consensus 223 ~~~~~~~---~~~~~~~~~~~~~~~ 244 (254)
+...... .+...++.++++||.
T Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~~ 183 (218)
T KOG0439|consen 159 KEASDGEVCVKSKEFGEKLELKEEL 183 (218)
T ss_pred cccCcccccchhhhhhccccchhhh
Confidence 7777755 466789999999995
No 2
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=99.93 E-value=1.3e-25 Score=198.03 Aligned_cols=119 Identities=22% Similarity=0.320 Sum_probs=109.0
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEecccCCCCCCCCCCC
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENNEKPMYQ 154 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~~~e~p~~~ 154 (254)
|.++| .+.|..++..+.++.+-|.|++..+|+||||||+|+.||||||.|+|+|++++.|.|+| |+..+|+-++.
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 67778 57788788889999999999999999999999999999999999999999999999999 78889998999
Q ss_pred CCCCeEEEEEEEeCCCC--CchhhhhhccCCCcceeEEEEEEEeCC
Q 025361 155 KSRDKFKIISMKVKADV--DYVPELFDEQKDQTAAEQILRVVFLNP 198 (254)
Q Consensus 155 ~~kDKFLIqSv~v~~~~--d~~~elFk~~~~~~i~e~KLrV~fv~p 198 (254)
+|+||||||++..+.+. .+..++|....+.-+.++||||+|..-
T Consensus 78 KCrdKFLiqs~~~~~~l~g~d~ad~wt~~sk~~i~~rkIrcvyse~ 123 (242)
T COG5066 78 KCRDKFLIQSYRFDWRLSGSDFADHWTSSSKKPIWTRKIRCVYSEE 123 (242)
T ss_pred cccceeEEEEeccChhhccchHHHHHHhhccccchhhheeEEeecc
Confidence 99999999999997654 446999999988889999999999953
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=3.8e-22 Score=155.49 Aligned_cols=102 Identities=28% Similarity=0.457 Sum_probs=81.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEecccCCCCCCCCCCC
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKFVELPENNEKPMYQ 154 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~~~e~p~~~ 154 (254)
|.|+|.+.|.|.++.++...+.|+|+|.++.+||||||||+|.+|+|+|+.|+|.||+++.|.|++ ++..... ..
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 025361 155 KSRDKFKIISMKVKADVD----YVPELFDEQ 181 (254)
Q Consensus 155 ~~kDKFLIqSv~v~~~~d----~~~elFk~~ 181 (254)
..+|||+|+++.++++.. ....+|++.
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 355666654
No 4
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=98.29 E-value=7.9e-06 Score=63.15 Aligned_cols=66 Identities=27% Similarity=0.427 Sum_probs=58.1
Q ss_pred cEEecCCCceEeecC-CCCeEEEEEEEEcCCCCeEEEEEcccC--CCceeecCCceeeCCCCEEEEEEEe
Q 025361 74 RLKLDPANKLYFPYE-AGKQVRSAIKIKNTSKSHVAFKFQTTA--PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 74 lL~IdP~~eL~F~~e-~~k~~~s~LtL~N~S~~~VAFKVKTTa--Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
.|.++|. +|.|-.= .|......|+|+|.+..+..|+|+.-. ...|.|.|..|+|+||+++.+.|++
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 9999654 477888999999999999999997543 5789999999999999999999998
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=96.31 E-value=0.088 Score=41.96 Aligned_cols=62 Identities=21% Similarity=0.391 Sum_probs=50.8
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccC----C-----CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA----P-----KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa----P-----k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.|+|. .+.|.... ....++|+|.++.++.+.+.-.. + .-|.|-|+.-.|+||++..|.|..
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 578886 78887532 37899999999999999986553 1 268999999999999999999954
No 6
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=93.45 E-value=1.6 Score=42.49 Aligned_cols=121 Identities=14% Similarity=0.293 Sum_probs=77.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEE-EEcCCCCeEEEEEccc------------CCCceeecCCceeeCCCCEEEEEEEec
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIK-IKNTSKSHVAFKFQTT------------APKSCFMRPPGAILAPGESLIATVFKF 141 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~Lt-L~N~S~~~VAFKVKTT------------aPk~Y~VRP~~GiL~PgeS~~I~Vtl~ 141 (254)
..+.+.-.|.|.-.++......|. |.|.+...|-|.-+-- ....|+.....|+|.||++..+.|++
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 444555589999999987777777 9999999999884322 24679999999999999999999998
Q ss_pred ccCCCCCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCCCCCchhHHHHHhhhhHH
Q 025361 142 VELPENNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPERPEPALEKLKRQLADAD 216 (254)
Q Consensus 142 v~qp~~~e~p~~~~~kDKFLIqSv~v~~~~d~~~elFk~~~~~~i~e~KLrV~fv~p~~ps~~~e~l~~~L~ea~ 216 (254)
+|... ...++...+..- +.+|. .....-+|..+-+++..-....+.+++.|+.-.
T Consensus 310 --~s~~~-----Gif~E~W~L~t~---------P~l~~----~~~l~v~L~G~~~~~~~~~~~~~~~~~~l~~k~ 364 (426)
T PF14646_consen 310 --KSRKV-----GIFKERWELRTF---------PPLFG----GASLTVRLHGVCTPPDEYLDKRKMLEEELARKE 364 (426)
T ss_pred --eCCCc-----eEEEEEEEEEEe---------ccccC----CCceEEEEEEEEcCchHhHHHHHHHHHHHHHHH
Confidence 44321 223444444442 22222 112345666666555333334455555554433
No 7
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=93.11 E-value=3.2 Score=37.33 Aligned_cols=108 Identities=16% Similarity=0.147 Sum_probs=66.3
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCC-----CceeecCCceeeCCCCEEEEEEEecccCCCCC
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAP-----KSCFMRPPGAILAPGESLIATVFKFVELPENN 148 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaP-----k~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~~~ 148 (254)
-|.+.|. .+.|... +...+++|+|.++.++......... .-|.|.|+.-.|+||+...|.|.+. .
T Consensus 25 ~v~l~~t-Rvi~~~~---~~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~fivtPPl~rl~pg~~q~vRii~~--~---- 94 (230)
T PRK09918 25 GMVPETS-VVIVEES---DGEGSINVKNTDSNPILLYTTLVDLPEDKSKLLLVTPPVARVEPGQSQQVRFILK--S---- 94 (230)
T ss_pred eEEEccE-EEEEECC---CCeEEEEEEcCCCCcEEEEEEEecCCCCCCCCEEEcCCeEEECCCCceEEEEEEC--C----
Confidence 3677775 7777643 3368999999998876655533211 3599999999999999999999872 1
Q ss_pred CCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCC
Q 025361 149 EKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPE 199 (254)
Q Consensus 149 e~p~~~~~kDKFLIqSv~v~~~~d~~~elFk~~~~~~i~e~KLrV~fv~p~ 199 (254)
..|.|. ---|.+....+++..+. +..=+.....++++-|-+..
T Consensus 95 ~lp~dr--Es~f~l~v~~IP~~~~~------~~~l~ia~r~~iklfyRP~~ 137 (230)
T PRK09918 95 GSPLNT--EHLLRVSFEGVPPKPGG------KNKVVMPIRQDLPVLIQPAA 137 (230)
T ss_pred CCCCCe--eEEEEEEEEEcCCCCCC------CCEEEEEEEeEEEEEEeCCC
Confidence 112222 12355555556543221 11112334556777776544
No 8
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=91.09 E-value=4.6 Score=36.74 Aligned_cols=63 Identities=6% Similarity=0.185 Sum_probs=48.1
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCC----------ceeecCCceeeCCCCEEEEEEEe
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPK----------SCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk----------~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
-|.|+|. .+.|+... -..+|+|.|.++.++.--.-....+ -|.|.|+.-.|+||+...|.|.+
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 4788886 77787532 3689999999988766554332111 39999999999999999999997
No 9
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=89.74 E-value=12 Score=34.05 Aligned_cols=61 Identities=20% Similarity=0.421 Sum_probs=45.6
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc--c------------CCCceeecCCceeeCCCCEEEEEEE
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT--T------------APKSCFMRPPGAILAPGESLIATVF 139 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT--T------------aPk~Y~VRP~~GiL~PgeS~~I~Vt 139 (254)
-|.+++. .+.|+.. ....+|+|.|.++.+ |=|++ . ...-|.|.|+.-.|+||+...+.|.
T Consensus 27 ~v~l~~T-RvIy~~~---~~~~sv~l~N~~~~p--~LvQswv~~~~~~~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi 100 (236)
T PRK11385 27 GVVVGGT-RFIFPAD---RESISILLTNTSQES--WLINSKINRPTRWAGGEASTVPAPLLAAPPLILLKPGTTGTLRLL 100 (236)
T ss_pred eEEeCce-EEEEcCC---CceEEEEEEeCCCCc--EEEEEEcccCccccCcccccccCCEEEcCCeEEECCCCceEEEEE
Confidence 3667775 7777643 236899999999876 44444 1 1124999999999999999999999
Q ss_pred e
Q 025361 140 K 140 (254)
Q Consensus 140 l 140 (254)
+
T Consensus 101 ~ 101 (236)
T PRK11385 101 R 101 (236)
T ss_pred E
Confidence 7
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=89.41 E-value=1.4 Score=29.87 Aligned_cols=43 Identities=28% Similarity=0.176 Sum_probs=34.1
Q ss_pred EEEEcCCCCe-EEEEEcccCCCceeecCCceeeCCCCEEEEEEEe
Q 025361 97 IKIKNTSKSH-VAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 97 LtL~N~S~~~-VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
++|+|+++.+ +..+|+|+ =+-..+......|+||++..|.|++
T Consensus 2 F~~~N~g~~~L~I~~v~ts-CgCt~~~~~~~~i~PGes~~i~v~y 45 (45)
T PF07610_consen 2 FEFTNTGDSPLVITDVQTS-CGCTTAEYSKKPIAPGESGKIKVTY 45 (45)
T ss_pred EEEEECCCCcEEEEEeeEc-cCCEEeeCCcceECCCCEEEEEEEC
Confidence 5799999865 45667665 4667777888999999999999873
No 11
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=89.39 E-value=7.3 Score=34.95 Aligned_cols=111 Identities=10% Similarity=0.152 Sum_probs=65.0
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccC--------CCceeecCCceeeCCCCEEEEEEEecccCC
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA--------PKSCFMRPPGAILAPGESLIATVFKFVELP 145 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa--------Pk~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp 145 (254)
-|.++|. .+.|.... -..+|+|.|.++.++.-..-... ..-|.|.|+.-.|+||+...|.|... .
T Consensus 23 ~i~l~~T-Rvi~~~~~---~~~sl~l~N~~~~p~lvQsWv~~~~~~~~~~~~pfivtPPl~rl~p~~~q~lRI~~~---~ 95 (227)
T PRK15299 23 GINIGTT-RVIFHGDA---KDASISISNSDNVPYLIQSWAQSISETGASGDAPFMVTPPLFRLNGGQKNVLRIIRT---G 95 (227)
T ss_pred eEEECce-EEEEeCCC---cEEEEEEEeCCCCcEEEEEEeecCCCCCCcCCCCEEEcCCeEEECCCCccEEEEEEC---C
Confidence 3777776 77776542 36899999998875444332111 12499999999999999999999872 1
Q ss_pred CCCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCC
Q 025361 146 ENNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPE 199 (254)
Q Consensus 146 ~~~e~p~~~~~kDKFLIqSv~v~~~~d~~~elFk~~~~~~i~e~KLrV~fv~p~ 199 (254)
. ..|.|. -.-|.+....+++..+. .. +..-+.....+|++.|-++.
T Consensus 96 ~--~lP~Dr--Eslf~lnv~eIP~~~~~-~~---~n~l~iavr~riKLfyRP~~ 141 (227)
T PRK15299 96 G--NLPEDR--ESLYWLDIKSIPSSNPD-NK---HNTLMLAVKAEFKLIYRPKA 141 (227)
T ss_pred C--CCCCcc--eEEEEEEeEecCCCCcc-cc---cceEEEEEeeeeeEEEcccc
Confidence 1 112222 12355555555543211 00 00112345667777776543
No 12
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=89.16 E-value=8.9 Score=34.52 Aligned_cols=60 Identities=18% Similarity=0.264 Sum_probs=45.5
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc----cC-----CCceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT----TA-----PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT----Ta-----Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.+++. .+.|.... ....|+|.|.++.+ |-|++ .. ..-|.|.|+.-.|+||+...|.|.+
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 677775 77776533 36899999998875 44553 11 1249999999999999999999987
No 13
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=89.12 E-value=10 Score=34.78 Aligned_cols=62 Identities=15% Similarity=0.251 Sum_probs=46.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccC------C-----CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTA------P-----KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTa------P-----k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.|+|. .+.|.... -...|+|.|.++.++....-+.+ | .-|.|.|+.--|+||+...|.|.+
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 778886 77776433 36799999998876554432211 1 139999999999999999999997
No 14
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=88.71 E-value=9.2 Score=34.65 Aligned_cols=62 Identities=15% Similarity=0.182 Sum_probs=45.3
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc---c---CCCceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---T---APKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---T---aPk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.+++. .+.|+... -..+|+|.|.++.++.-.... . ...-|.|.|+.-.|+||+...|.|.+
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 77776432 368999999998764433221 1 11249999999999999999999997
No 15
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=88.21 E-value=14 Score=33.63 Aligned_cols=60 Identities=12% Similarity=0.189 Sum_probs=44.4
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEccc----------C----CCceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTT----------A----PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTT----------a----Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++.. .+.|+.. .-..+|+|.|.++.+ |=|++. . ..-|.|.|+.-.|+||+...+.|..
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 555654 6666542 236799999999875 555551 1 1139999999999999999999997
No 16
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=87.58 E-value=2.4 Score=33.65 Aligned_cols=67 Identities=15% Similarity=0.274 Sum_probs=39.0
Q ss_pred EEecCCCceEee-cCCCC-eEEEEEEEEcCCCCeEEEEEcccCCCceee-cCCce-eeCCCCEEEEEEEec
Q 025361 75 LKLDPANKLYFP-YEAGK-QVRSAIKIKNTSKSHVAFKFQTTAPKSCFM-RPPGA-ILAPGESLIATVFKF 141 (254)
Q Consensus 75 L~IdP~~eL~F~-~e~~k-~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~V-RP~~G-iL~PgeS~~I~Vtl~ 141 (254)
+.+-+..-..|. ...|. +-...|+|.|.+..+..|.|+...+..+.+ .|... -|+||++..+.|++.
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 33343 456899999999999999999888778888 66555 489999999988873
No 17
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=87.08 E-value=21 Score=32.35 Aligned_cols=111 Identities=13% Similarity=0.222 Sum_probs=65.1
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc---c-----CC----CceeecCCceeeCCCCEEEEEEEecc
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---T-----AP----KSCFMRPPGAILAPGESLIATVFKFV 142 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---T-----aP----k~Y~VRP~~GiL~PgeS~~I~Vtl~v 142 (254)
|.|++. .+.|+.. ....+|+|.|.++.+ |-|++ . .| .-|.|.|+.-.|+||+...|.|.+.
T Consensus 12 v~l~~T-RvI~~~~---~~~~sv~l~N~~~~p--~LvQsWvd~~~~~~~p~~~~~pFivtPPlfrl~~~~~~~lRI~~~- 84 (233)
T PRK15246 12 VNIDRT-RIIFASD---DVAQSLTLSNDNTTP--MLLQVWTDAGNIDASPDNSKTPLVALPPVFKMQPGELRTLRLLLS- 84 (233)
T ss_pred EEECce-EEEEcCC---CceEEEEEEeCCCCc--EEEEEEEeCCCCccCcccccCcEEECCcceEECCCCceEEEEEEC-
Confidence 667775 7777653 336899999999875 44443 1 11 1499999999999999999999972
Q ss_pred cCCCCCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCC
Q 025361 143 ELPENNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPE 199 (254)
Q Consensus 143 ~qp~~~e~p~~~~~kDKFLIqSv~v~~~~d~~~elFk~~~~~~i~e~KLrV~fv~p~ 199 (254)
. . ...|.|. ---|-+....+++..+.... .+..-+.....+|++-|-+..
T Consensus 85 ~--~-~~LP~DR--ESlf~lnv~~IP~~~~~~~~--~~~~l~iair~rIKlFyRP~~ 134 (233)
T PRK15246 85 S--R-QQLATDR--ESLFWLNIYQIPPVTQDIKN--HPRKLVLPLRLRLKILIRPTG 134 (233)
T ss_pred C--C-CCCCCCc--eEEEEEEEEEcCCCCccccc--ccceEEEEeeeEEEEEECCcc
Confidence 1 0 1112221 12355555666543221000 000112345667777776554
No 18
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=85.23 E-value=22 Score=32.31 Aligned_cols=63 Identities=16% Similarity=0.305 Sum_probs=44.8
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEE-EE-EcccCC---CceeecCCceeeCCCCEEEEEEEe
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVA-FK-FQTTAP---KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VA-FK-VKTTaP---k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
-|.+++. .+.|+.. .-..+++|+|.++. +.. .. |..... .-|.|.|+.-.|+||+...|.|..
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 4777776 7777653 23689999999864 333 21 111111 249999999999999999999997
No 19
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=84.41 E-value=20 Score=32.22 Aligned_cols=63 Identities=13% Similarity=0.267 Sum_probs=44.6
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEE-EE-EcccCC---CceeecCCceeeCCCCEEEEEEEe
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVA-FK-FQTTAP---KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VA-FK-VKTTaP---k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
-|.++|. .+.|.... -...|+|.|.+++ ++. +. |..... .-|.|.|+.-.|+||+...|.|..
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 3777886 77776532 3689999999864 333 22 111111 139999999999999999999987
No 20
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.46 E-value=34 Score=30.90 Aligned_cols=112 Identities=12% Similarity=0.185 Sum_probs=71.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEccc-------CCCceeecCCceeeCCCCEEEEEEEecccCCCC
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTT-------APKSCFMRPPGAILAPGESLIATVFKFVELPEN 147 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTT-------aPk~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~~ 147 (254)
+.+++. .+.|+... -...|+|.|.++.++.-.+--- ...-|-|.|+.=.|+||+...|.|.+. ..
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-RIIYPAGD---KETSLTLRNDGNQPYLVQSWVDDGLEPEKSTVPFVVTPPVFRLEPGQEQQLRILYT---GN- 100 (235)
T ss_pred EEecce-EEEEeCCC---ceeEEEEEcCCCCCEEEEEEEcCCCCCccccCCEEecCCeEEECCCCccEEEEEec---CC-
Confidence 566665 66666443 3689999998888888885433 234599999999999999999999982 21
Q ss_pred CCCCCCCCCCCeEEEEEEEeCCCC-CchhhhhhccCCCcceeEEEEEEEeCCCCC
Q 025361 148 NEKPMYQKSRDKFKIISMKVKADV-DYVPELFDEQKDQTAAEQILRVVFLNPERP 201 (254)
Q Consensus 148 ~e~p~~~~~kDKFLIqSv~v~~~~-d~~~elFk~~~~~~i~e~KLrV~fv~p~~p 201 (254)
. .|.|. -.-|.+....+++.. +.... + .-+.....+|++-|-++.-+
T Consensus 101 ~-lP~dr--Eslf~lnv~eIPp~~~~~~~~---n-~lq~a~r~riKlf~RP~~l~ 148 (235)
T COG3121 101 K-LPADR--ESLFRLNVDEIPPKSKDDKGP---N-VLQLALRSRIKLFYRPAGLA 148 (235)
T ss_pred C-CCCCc--eeEEEEEeeecCCCCcccCCc---c-eEEEEeeeeeeEEECcccCC
Confidence 1 12222 345666666665433 11010 0 01345677888888876543
No 21
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=81.95 E-value=30 Score=31.21 Aligned_cols=61 Identities=16% Similarity=0.368 Sum_probs=44.3
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEcc----cC---CCceeecCCceeeCCCCEEEEEEEe
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT----TA---PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT----Ta---Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
-|.+++. .+.|..... ...++|.|.++. +.. |++ .. ..-|.|.|+.--|+||+...|.|..
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 3677775 777764333 489999999864 333 442 11 1259999999999999999999997
No 22
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=79.64 E-value=39 Score=30.86 Aligned_cols=62 Identities=15% Similarity=0.203 Sum_probs=43.8
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEcc--cCC---CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT--TAP---KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT--TaP---k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.+++. .+.|... .-...|+|.|.++. ++.=..-. ... .-|.|.|+.-.|+||+...|.|.+
T Consensus 18 v~l~~T-RvIy~~~---~~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pFivtPPlfrl~p~~~~~lRI~~ 85 (239)
T PRK15254 18 VNVDRT-RIIMDAP---QKTVAITLNNDDKTTPFLAQSWVTDADGVRTDALMALPPLQRIDAGQKSQVRITQ 85 (239)
T ss_pred EEECce-EEEEeCC---CceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCEEEcCCeEEECCCCceEEEEEE
Confidence 667775 7777643 23689999998753 44322211 111 249999999999999999999987
No 23
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=79.01 E-value=50 Score=29.88 Aligned_cols=60 Identities=15% Similarity=0.242 Sum_probs=42.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc---cCC---------CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---TAP---------KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---TaP---------k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++-. .+.|+.. .-..+|+|.|.++.+ |=||+ +.. .-|.|.|+.=.|+||+...+.|.+
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 444443 5556532 235789999999875 55554 111 149999999999999999999997
No 24
>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=78.42 E-value=5 Score=31.55 Aligned_cols=51 Identities=18% Similarity=0.277 Sum_probs=32.3
Q ss_pred CCeEEEEEEEEcCCCCeEEEEEccc-----C---CCceee-c------------CCceeeCCCCEEEEEEEe
Q 025361 90 GKQVRSAIKIKNTSKSHVAFKFQTT-----A---PKSCFM-R------------PPGAILAPGESLIATVFK 140 (254)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VAFKVKTT-----a---Pk~Y~V-R------------P~~GiL~PgeS~~I~Vtl 140 (254)
+...+..|+|+|.++..+.|+|.-. . .+.|.. . |..=.|+||++..|.|++
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 4457889999999999999997644 1 122221 1 222258899999999998
No 25
>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=70.15 E-value=7.8 Score=28.49 Aligned_cols=52 Identities=23% Similarity=0.404 Sum_probs=31.4
Q ss_pred CCCeEEEEEEEEcCCCCeE-EEEEcccCCCcee--ecCCc-eeeCCCCEEEEEEEe
Q 025361 89 AGKQVRSAIKIKNTSKSHV-AFKFQTTAPKSCF--MRPPG-AILAPGESLIATVFK 140 (254)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~V-AFKVKTTaPk~Y~--VRP~~-GiL~PgeS~~I~Vtl 140 (254)
+|....-.++|+|.+...+ ..++.-..|.-.. ..|.. +-|+||++..+.+.+
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 5778889999999987542 2444445587776 45544 379999999999887
No 26
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=68.22 E-value=97 Score=28.34 Aligned_cols=111 Identities=7% Similarity=0.108 Sum_probs=65.1
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCC-CeEEEEEccc--C-C----CceeecCCceeeCCCCEEEEEEEecccCCC
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSK-SHVAFKFQTT--A-P----KSCFMRPPGAILAPGESLIATVFKFVELPE 146 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~-~~VAFKVKTT--a-P----k~Y~VRP~~GiL~PgeS~~I~Vtl~v~qp~ 146 (254)
|.+++. .+.|+.. .-..+|+|.|.++ .++.--.-.. + . .-|.|.|+.-.|+||+...|.|.+. ..
T Consensus 39 v~l~~T-RvIy~~~---~~~~sl~v~N~~~~~p~LvQsWvd~~~~~~~~~~pFivtPPlfrl~p~~~q~lRIi~~---~~ 111 (243)
T PRK15290 39 VVIGGT-RVVYLSN---NPDKSISVFSKEEKIPYLIQAWVDPFNKEDKSKAPFTVIPPVSRLEPSQEKVLRIIHT---KG 111 (243)
T ss_pred EEECce-EEEEeCC---CceEEEEEEeCCCCCcEEEEEEEecCCCCCcccCCEEEcCCeEEECCCCceEEEEEEc---CC
Confidence 677775 7777653 2357999999986 4554444222 1 1 1399999999999999999999972 11
Q ss_pred CCCCCCCCCCCCeEEEEEEEeCCCCCchhhhhhccCCCcceeEEEEEEEeCCC
Q 025361 147 NNEKPMYQKSRDKFKIISMKVKADVDYVPELFDEQKDQTAAEQILRVVFLNPE 199 (254)
Q Consensus 147 ~~e~p~~~~~kDKFLIqSv~v~~~~d~~~elFk~~~~~~i~e~KLrV~fv~p~ 199 (254)
. ..|.|. ---|-+....+++..+. .+ +..-+.....+|++-|-+..
T Consensus 112 ~-~LP~DR--ESlf~lnv~eIPp~~~~-~~---~n~L~iair~rIKlFyRP~~ 157 (243)
T PRK15290 112 V-SLPDDR--ESVFWLNIKNIPPSASN-KA---TNSLEIAVKTRIKLFWRPAS 157 (243)
T ss_pred C-CCCCCe--eEEEEEEEEEcCCCCcc-cc---cceEEEEEEEeeeEEEeccc
Confidence 0 112222 23455555555543211 00 00112345667777776544
No 27
>PRK15233 putative fimbrial chaperone protein SefB; Provisional
Probab=67.95 E-value=56 Score=30.08 Aligned_cols=46 Identities=15% Similarity=0.121 Sum_probs=36.2
Q ss_pred EEEEEEEEcCCCCeEEEEEcc----cC---CCceeecCCceeeCCCCEEEEEEEe
Q 025361 93 VRSAIKIKNTSKSHVAFKFQT----TA---PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 93 ~~s~LtL~N~S~~~VAFKVKT----Ta---Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
...+|+|.|.++.+ |-||+ .. ..-|.|.|+.-.|+|++...|.|.+
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 36789999987665 55554 11 1249999999999999999999998
No 28
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=67.83 E-value=53 Score=30.01 Aligned_cols=60 Identities=13% Similarity=0.274 Sum_probs=42.8
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc----cC---CCceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT----TA---PKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT----Ta---Pk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++-. .+.|+.. .-..+|+|.|.++.+ |=||+ .. ..-|.|.|+.=.|+|++...|.|.+
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 334432 5555532 235789999998765 66665 11 1239999999999999999999997
No 29
>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=66.94 E-value=19 Score=27.92 Aligned_cols=52 Identities=21% Similarity=0.235 Sum_probs=40.2
Q ss_pred CCCeEEEEEEEEcCCCCe--------EEEEEcccCCC--ceeecCCceeeCCCCEEEEEEEe
Q 025361 89 AGKQVRSAIKIKNTSKSH--------VAFKFQTTAPK--SCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~--------VAFKVKTTaPk--~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
-|+.....++++|+++.. .++-|--|.-. .+..+-..+-|.||++..+.+.+
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 488999999999999876 66777666443 25677888999999999999998
No 30
>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=65.22 E-value=38 Score=25.68 Aligned_cols=51 Identities=29% Similarity=0.524 Sum_probs=38.5
Q ss_pred CCeEEEEEEEEcCCCCeEE-EEEcccCCCceeec--CCce-eeCCCCEEEEEEEe
Q 025361 90 GKQVRSAIKIKNTSKSHVA-FKFQTTAPKSCFMR--PPGA-ILAPGESLIATVFK 140 (254)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VA-FKVKTTaPk~Y~VR--P~~G-iL~PgeS~~I~Vtl 140 (254)
+....-.+...|.+..++. |.++-..|+.+.++ |..| .|+||+.+.-.+.+
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 3467889999999987665 88887778877665 6654 89999876666665
No 31
>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=65.05 E-value=18 Score=35.58 Aligned_cols=52 Identities=23% Similarity=0.334 Sum_probs=38.0
Q ss_pred CCCeEEEEEEEEcCCCCeEEEEEcccCCCc-------eeecCCc-------e-------eeCCCCEEEEEEEe
Q 025361 89 AGKQVRSAIKIKNTSKSHVAFKFQTTAPKS-------CFMRPPG-------A-------ILAPGESLIATVFK 140 (254)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~-------Y~VRP~~-------G-------iL~PgeS~~I~Vtl 140 (254)
+|+..+-+++++|.++.+|-.+==+|+.-+ |...|.. | =|+|||+.+|.|..
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 578889999999999999988744444433 3333333 2 27899999999986
No 32
>PRK15308 putative fimbrial protein TcfA; Provisional
Probab=63.67 E-value=81 Score=28.83 Aligned_cols=85 Identities=11% Similarity=0.164 Sum_probs=58.5
Q ss_pred cEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc---cCC---------------CceeecCCceeeCCCCEEE
Q 025361 74 RLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---TAP---------------KSCFMRPPGAILAPGESLI 135 (254)
Q Consensus 74 lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---TaP---------------k~Y~VRP~~GiL~PgeS~~ 135 (254)
-|.|.|- .+.+.. +.+....++|+|.++.+..++|+. ++| .--.+-|+.-+|.||++..
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 4778886 565542 334568999999999888777642 232 1367889999999999999
Q ss_pred EEEEecccCCCCCCCCCCCCCCCeEEEEEEEeCCCC
Q 025361 136 ATVFKFVELPENNEKPMYQKSRDKFKIISMKVKADV 171 (254)
Q Consensus 136 I~Vtl~v~qp~~~e~p~~~~~kDKFLIqSv~v~~~~ 171 (254)
|.+... .+... -..|.|.-.+++...
T Consensus 94 IRli~l--g~~~k--------E~~YRl~~~pvp~~~ 119 (234)
T PRK15308 94 VRVISL--QAPER--------EEAWRVYFEPVAELE 119 (234)
T ss_pred EEEEEc--CCCCc--------EEEEEEEEEecCCcc
Confidence 998862 22121 256777777776543
No 33
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=61.34 E-value=1.3e+02 Score=27.56 Aligned_cols=60 Identities=17% Similarity=0.226 Sum_probs=40.7
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEcc----cCCC----ceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT----TAPK----SCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT----TaPk----~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++-. .+.|+.. .-..+++|+|.++. + |=||+ ...+ -|.|.|+.-.|+||+...|.|..
T Consensus 27 v~l~~T-RVIy~~~---~~~~sv~i~N~~~~~p--~LvQsWvd~~~~~~~~~pFiVtPPlfRl~p~~~~~lRI~~ 95 (250)
T PRK15285 27 IAPDRT-RLVFRGE---DKSISVDLKNANSKLP--YLAQSWVEDEKGVKITSPLIVVPPVQRIEPSAIGQVKIQG 95 (250)
T ss_pred EEeCcc-EEEEcCC---CceEEEEEEeCCCCCc--EEEEEEeeCCCCCcccCCEEEcCCeEEECCCCceEEEEEE
Confidence 344443 5566532 23578999998864 4 33332 1111 39999999999999999999997
No 34
>PRK15253 putative fimbrial assembly chaperone protein StcB; Provisional
Probab=60.98 E-value=1.3e+02 Score=27.42 Aligned_cols=60 Identities=17% Similarity=0.293 Sum_probs=43.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcc---cC-----C----CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQT---TA-----P----KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKT---Ta-----P----k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++-. .+.|+.. .-..+|+|.|.++.+ |=||+ .. | .-|.|.|+.=.|+|++...|.|..
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 455543 5666542 236789999999875 55554 11 1 249999999999999999999987
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=58.72 E-value=53 Score=25.29 Aligned_cols=54 Identities=20% Similarity=0.217 Sum_probs=33.0
Q ss_pred CCCCeEEEEEEEEcCCCCeEE-----EEEcccCCCceeecC---------CceeeCCCCEEEEEEEec
Q 025361 88 EAGKQVRSAIKIKNTSKSHVA-----FKFQTTAPKSCFMRP---------PGAILAPGESLIATVFKF 141 (254)
Q Consensus 88 e~~k~~~s~LtL~N~S~~~VA-----FKVKTTaPk~Y~VRP---------~~GiL~PgeS~~I~Vtl~ 141 (254)
+.++-+.-.++|+|.++..+. |++.+..-..|.... ..+-|.||+++...|...
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 678776666665333 458999999999999873
No 36
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=58.50 E-value=62 Score=26.37 Aligned_cols=59 Identities=20% Similarity=0.253 Sum_probs=40.6
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEEEc-----ccCCCc--ee-----------------e-cCCceeeCCCCEEEE
Q 025361 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQ-----TTAPKS--CF-----------------M-RPPGAILAPGESLIA 136 (254)
Q Consensus 82 eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVK-----TTaPk~--Y~-----------------V-RP~~GiL~PgeS~~I 136 (254)
...+...+++...-.|+|+|.++..+.|+|. |+..+. |. | .|..-.|+|+++..|
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 3344456678888899999999999999975 333332 21 1 133356888998888
Q ss_pred EEEe
Q 025361 137 TVFK 140 (254)
Q Consensus 137 ~Vtl 140 (254)
.+++
T Consensus 98 ~~~i 101 (121)
T PF06030_consen 98 TFTI 101 (121)
T ss_pred EEEE
Confidence 8887
No 37
>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=57.90 E-value=33 Score=25.90 Aligned_cols=44 Identities=18% Similarity=0.124 Sum_probs=32.0
Q ss_pred EEEEEEEcCCCCeEEEEEcccCCCcee-ecCCceeeCCCCEEEEEEEe
Q 025361 94 RSAIKIKNTSKSHVAFKFQTTAPKSCF-MRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 94 ~s~LtL~N~S~~~VAFKVKTTaPk~Y~-VRP~~GiL~PgeS~~I~Vtl 140 (254)
.-.|+|.|.+...+.|.|...+ |. -.|-.=.|.||++..+.+-+
T Consensus 21 ~l~l~l~N~g~~~~~~~v~~~~---y~~~~~~~~~v~ag~~~~~~w~l 65 (89)
T PF05506_consen 21 NLRLTLSNPGSAAVTFTVYDNA---YGGGGPWTYTVAAGQTVSLTWPL 65 (89)
T ss_pred EEEEEEEeCCCCcEEEEEEeCC---cCCCCCEEEEECCCCEEEEEEee
Confidence 5689999999999999998732 22 33444466678888777765
No 38
>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=57.70 E-value=34 Score=26.60 Aligned_cols=51 Identities=27% Similarity=0.526 Sum_probs=35.5
Q ss_pred CCeEEEEEEEEcCCCCeEE-EEEcccCCCce--eecCCc-eeeCCCCEEEEEEEe
Q 025361 90 GKQVRSAIKIKNTSKSHVA-FKFQTTAPKSC--FMRPPG-AILAPGESLIATVFK 140 (254)
Q Consensus 90 ~k~~~s~LtL~N~S~~~VA-FKVKTTaPk~Y--~VRP~~-GiL~PgeS~~I~Vtl 140 (254)
+....-.++..|.+..++. |.++-..|+.| .+.|.. ..|+|+..+.-.+.+
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 5678889999999987766 77776556655 455664 599999887776665
No 39
>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=54.55 E-value=55 Score=24.92 Aligned_cols=48 Identities=23% Similarity=0.300 Sum_probs=24.0
Q ss_pred EEEEEEEEcCCCCeEEEEEcccCCCceeec-------------------CCceeeCCCCEEEEEEEe
Q 025361 93 VRSAIKIKNTSKSHVAFKFQTTAPKSCFMR-------------------PPGAILAPGESLIATVFK 140 (254)
Q Consensus 93 ~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VR-------------------P~~GiL~PgeS~~I~Vtl 140 (254)
+.-.|+|+|.++..|-+.+.+-.-=-|.|+ -..=.|+||++....+++
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 455677777777777766644322223333 222356777777777766
No 40
>PF02753 PapD_C: Pili assembly chaperone PapD, C-terminal domain; InterPro: IPR016148 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the C-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of eight strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2UY7_C 2UY6_A 2W07_A 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 1PDK_A 2XG4_A ....
Probab=53.96 E-value=12 Score=26.83 Aligned_cols=43 Identities=14% Similarity=0.091 Sum_probs=27.2
Q ss_pred EEEEcCCCCeEEEEE-cccCCC-ceeecCCceeeCCCCEEEEEEEe
Q 025361 97 IKIKNTSKSHVAFKF-QTTAPK-SCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 97 LtL~N~S~~~VAFKV-KTTaPk-~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|+++|+|..+|.|-= +....+ ...+ ...++|+|+++..+.+.-
T Consensus 1 L~v~NpTPy~vtl~~~~~~~~~~~~~~-~~~~mi~P~s~~~~~~~~ 45 (68)
T PF02753_consen 1 LTVKNPTPYYVTLSSLKLNGGGKKKKI-DNSGMIAPFSSKSFPLPA 45 (68)
T ss_dssp EEEEE-SSS-EEEEEEEETHHHCCEEC-CCETEE-TTEEEEEETST
T ss_pred CEEECCCCcEEEEEeeeeccccccccc-CCceEECCCCceEEeccC
Confidence 789999999999864 333333 3344 444499999998877663
No 41
>PRK15274 putative periplasmic fimbrial chaperone protein SteC; Provisional
Probab=52.53 E-value=1.7e+02 Score=27.09 Aligned_cols=60 Identities=15% Similarity=0.145 Sum_probs=41.6
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCC-eEEEEEcc----cC-C---CceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKS-HVAFKFQT----TA-P---KSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~-~VAFKVKT----Ta-P---k~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
|.++-. .+.|+.. ....+|+|.|.++. ++ =||+ .. . .-|.|.|+.-.|+||+...|.|.+
T Consensus 28 i~l~~T-RvIy~e~---~~~~sv~v~N~~~~~p~--LVQsWvdd~~~~~~~~pFivtPPLfRlep~~~q~lRI~~ 96 (257)
T PRK15274 28 IVPDRT-RVIFNGN---ENSITVTLKNGNATLPY--LAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQP 96 (257)
T ss_pred EEeCce-EEEEeCC---CceEEEEEEeCCCCCcE--EEEEEccCCCCCcccCCEEEcCCeEEECCCCceEEEEEE
Confidence 445543 5666532 23679999999865 43 3333 11 1 149999999999999999999997
No 42
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=48.04 E-value=1e+02 Score=23.57 Aligned_cols=53 Identities=19% Similarity=0.345 Sum_probs=34.2
Q ss_pred EEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEe
Q 025361 75 LKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
..++|+ .+..+. |+.+ .|+++|.......|-+.. +.+ ...|.||++..+.++-
T Consensus 30 ~~f~P~-~i~v~~--G~~v--~l~~~N~~~~~h~~~i~~-----~~~---~~~l~~g~~~~~~f~~ 82 (104)
T PF13473_consen 30 FGFSPS-TITVKA--GQPV--TLTFTNNDSRPHEFVIPD-----LGI---SKVLPPGETATVTFTP 82 (104)
T ss_dssp EEEES--EEEEET--TCEE--EEEEEE-SSS-EEEEEGG-----GTE---EEEE-TT-EEEEEEEE
T ss_pred CeEecC-EEEEcC--CCeE--EEEEEECCCCcEEEEECC-----Cce---EEEECCCCEEEEEEcC
Confidence 378886 666653 5544 488999998888888866 111 1689999999999853
No 43
>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=47.22 E-value=17 Score=31.49 Aligned_cols=32 Identities=31% Similarity=0.424 Sum_probs=25.8
Q ss_pred EEEcccCCCceeecCCcee--eCCCCEEEEEEEe
Q 025361 109 FKFQTTAPKSCFMRPPGAI--LAPGESLIATVFK 140 (254)
Q Consensus 109 FKVKTTaPk~Y~VRP~~Gi--L~PgeS~~I~Vtl 140 (254)
|+|.-=+-+.|++.|.-|+ |+||+++.|.+.-
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 8898888899999999997 8999999999984
No 44
>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=38.61 E-value=1.3e+02 Score=29.68 Aligned_cols=67 Identities=19% Similarity=0.214 Sum_probs=42.7
Q ss_pred CCcEEecCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCce----------------------eecCCceeeC
Q 025361 72 RRRLKLDPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSC----------------------FMRPPGAILA 129 (254)
Q Consensus 72 ~~lL~IdP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y----------------------~VRP~~GiL~ 129 (254)
...+.++-. .-.|.- +++...-+|+++|.++++|-..==+|+.-+| .|.|+ +=|+
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 666764 5889999999999999998877433333332 23333 3589
Q ss_pred CCCEEEEEEEec
Q 025361 130 PGESLIATVFKF 141 (254)
Q Consensus 130 PgeS~~I~Vtl~ 141 (254)
|||+.++.|..+
T Consensus 323 PGETrtl~V~a~ 334 (381)
T PF04744_consen 323 PGETRTLTVEAQ 334 (381)
T ss_dssp TT-EEEEEEEEE
T ss_pred CCceEEEEEEee
Confidence 999999999873
No 45
>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=34.95 E-value=1.1e+02 Score=22.26 Aligned_cols=52 Identities=21% Similarity=0.192 Sum_probs=33.5
Q ss_pred CCCeEEEEEEEEcCCCC-eEEEEEcccCCCceeecCCceeeCCCCEEEEEEEe
Q 025361 89 AGKQVRSAIKIKNTSKS-HVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 89 ~~k~~~s~LtL~N~S~~-~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
.|+...-.++|+|.+.. .=.|+|+-...+...-.-..+-|+||++..+.+++
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 47888999999999764 34466553322222222223788999999999998
No 46
>smart00637 CBD_II CBD_II domain.
Probab=34.42 E-value=1.5e+02 Score=22.20 Aligned_cols=24 Identities=17% Similarity=0.129 Sum_probs=18.2
Q ss_pred CceeecCCc--eeeCCCCEEEEEEEe
Q 025361 117 KSCFMRPPG--AILAPGESLIATVFK 140 (254)
Q Consensus 117 k~Y~VRP~~--GiL~PgeS~~I~Vtl 140 (254)
..|.++|.. +.|+||+++.+-+..
T Consensus 50 ~~~~~~~~~wn~~i~~G~s~~~gf~~ 75 (92)
T smart00637 50 GHVTATNASWNGTIAPGGSVSFGFQG 75 (92)
T ss_pred CEEEEecCccccccCCCCEEEEEEEe
Confidence 368888654 799999998776553
No 47
>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=33.98 E-value=90 Score=24.16 Aligned_cols=49 Identities=18% Similarity=0.383 Sum_probs=32.2
Q ss_pred eEEEEEEEEcCCCCeE-----EEEEc-------------ccCCCceeecCCc--eeeCCCCEEEEEEEe
Q 025361 92 QVRSAIKIKNTSKSHV-----AFKFQ-------------TTAPKSCFMRPPG--AILAPGESLIATVFK 140 (254)
Q Consensus 92 ~~~s~LtL~N~S~~~V-----AFKVK-------------TTaPk~Y~VRP~~--GiL~PgeS~~I~Vtl 140 (254)
.....|+|+|.++..+ .|.+. +..-..|.|+|.. +.|+||+++.+-+..
T Consensus 14 Gf~~~v~v~N~~~~~i~~W~v~~~~~~~~~i~~~Wna~~s~~g~~~~v~~~~wn~~i~~G~s~~~Gf~~ 82 (101)
T PF00553_consen 14 GFQGEVTVTNNGSSPINGWTVTFTFPSGQTITSSWNATVSQSGNTVTVTNPSWNGTIAPGGSVTFGFQA 82 (101)
T ss_dssp EEEEEEEEEESSSSTEESEEEEEEESTTEEEEEEESCEEEEETTEEEEEESSTCSEEEESEEEEEEEEE
T ss_pred CeEEEEEEEECCCCccCCEEEEEEeCCCCEEeeeeccEEEecCCEEEEEcCCcCcccCCCCeEEEEEEE
Confidence 3456788888776543 33332 1112468888765 799999998887765
No 48
>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=32.79 E-value=66 Score=22.75 Aligned_cols=31 Identities=29% Similarity=0.538 Sum_probs=19.1
Q ss_pred cCCCceEeecCCCCeEEEEEEEEcCCCCeEEEEE
Q 025361 78 DPANKLYFPYEAGKQVRSAIKIKNTSKSHVAFKF 111 (254)
Q Consensus 78 dP~~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKV 111 (254)
++.....|.+ +. +...-++...+...||||+
T Consensus 41 ~~~~C~~y~~--~~-i~~v~~~~~~~~~~VA~K~ 71 (71)
T PF08277_consen 41 DSGKCYLYNY--GS-ISTVQKTDSSSGNKVAFKI 71 (71)
T ss_pred CCCCEEEEEc--CC-EEEEEEeecCCCeEEEEEC
Confidence 3334555554 43 4455556666678999996
No 49
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=30.19 E-value=1.2e+02 Score=27.37 Aligned_cols=49 Identities=12% Similarity=0.224 Sum_probs=34.0
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEE-EcccCCCceeecCCceeeCCCCEEEEEEE
Q 025361 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFK-FQTTAPKSCFMRPPGAILAPGESLIATVF 139 (254)
Q Consensus 82 eL~F~~e~~k~~~s~LtL~N~S~~~VAFK-VKTTaPk~Y~VRP~~GiL~PgeS~~I~Vt 139 (254)
.|.|....+ .|+|.|+|..+|.|- ++... +. +. ..|+|+|+++..+.+-
T Consensus 149 ~L~~~~~~~-----~l~v~NptPyyitl~~l~~~~-~~--~~-~~~mI~P~s~~~~~~~ 198 (226)
T PRK15295 149 QLKWQTAGD-----VITVNNPTPYYMNFASVTLNS-HE--VK-SATFVPPKSSASFKLG 198 (226)
T ss_pred ccEEEEcCC-----EEEEECCCceEEEEEEEEECC-cc--cC-CCceECCCCccEEEcc
Confidence 666765433 499999999999875 55432 22 22 3589999999888753
No 50
>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=29.94 E-value=2.4e+02 Score=24.60 Aligned_cols=51 Identities=20% Similarity=0.271 Sum_probs=36.8
Q ss_pred CCCeEEEEEEEEcCCCCeEEEEEcccCC----CceeecC-----CceeeCCCCEEEEEEEe
Q 025361 89 AGKQVRSAIKIKNTSKSHVAFKFQTTAP----KSCFMRP-----PGAILAPGESLIATVFK 140 (254)
Q Consensus 89 ~~k~~~s~LtL~N~S~~~VAFKVKTTaP----k~Y~VRP-----~~GiL~PgeS~~I~Vtl 140 (254)
.|+.+...++|.|.++. -||.|+=++. ..|-+-- ....|+||+++.-.+++
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 47889999999999776 7999988872 3344321 13577888887777776
No 51
>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=29.78 E-value=3.7e+02 Score=26.76 Aligned_cols=71 Identities=17% Similarity=0.209 Sum_probs=46.9
Q ss_pred CCCcEEecCCCc-eEeecCCCC-eEEEEEEEEcCCCCeEEEEEcccCCCceeec-C-CceeeCCCCEEEEEEEec
Q 025361 71 KRRRLKLDPANK-LYFPYEAGK-QVRSAIKIKNTSKSHVAFKFQTTAPKSCFMR-P-PGAILAPGESLIATVFKF 141 (254)
Q Consensus 71 ~~~lL~IdP~~e-L~F~~e~~k-~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VR-P-~~GiL~PgeS~~I~Vtl~ 141 (254)
.+-.|.|..+.. |+...+.|. +-...++|.|.+..+..|.++........+. + +.=.|+||+...+.|++.
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 444566666544 444444443 5678999999999877777776544333332 2 234899999999888873
No 52
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=29.61 E-value=1e+02 Score=28.19 Aligned_cols=42 Identities=14% Similarity=0.082 Sum_probs=28.3
Q ss_pred EEEEEcCCCCeEEEE-EcccCCCceeecCCceeeCCCCEEEEEE
Q 025361 96 AIKIKNTSKSHVAFK-FQTTAPKSCFMRPPGAILAPGESLIATV 138 (254)
Q Consensus 96 ~LtL~N~S~~~VAFK-VKTTaPk~Y~VRP~~GiL~PgeS~~I~V 138 (254)
.|+++|+|..++.|- ++....++ .+....|+|.|+++..+.+
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 499999999998876 33211221 1222458899999988864
No 53
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=28.67 E-value=3.7e+02 Score=22.91 Aligned_cols=59 Identities=17% Similarity=0.255 Sum_probs=37.0
Q ss_pred ceEeecCC----CCeEEEEEEEEcCCCCeEE-EEEcccC-CCceeec--CCceeeCCCCEEEEEEEe
Q 025361 82 KLYFPYEA----GKQVRSAIKIKNTSKSHVA-FKFQTTA-PKSCFMR--PPGAILAPGESLIATVFK 140 (254)
Q Consensus 82 eL~F~~e~----~k~~~s~LtL~N~S~~~VA-FKVKTTa-Pk~Y~VR--P~~GiL~PgeS~~I~Vtl 140 (254)
+..|...+ ...+.-.|+++|.++..+. -+|.... +.--+|+ |..+.|+||+++.+.+-.
T Consensus 72 ~Y~F~RqP~~~s~~mvsIql~ftN~s~~~i~~I~i~~k~l~~g~~i~~F~~I~~L~pg~s~t~~lgI 138 (145)
T PF14796_consen 72 EYRFSRQPSLYSPSMVSIQLTFTNNSDEPIKNIHIGEKKLPAGMRIHEFPEIESLEPGASVTVSLGI 138 (145)
T ss_pred EEEEccCCcCCCCCcEEEEEEEEecCCCeecceEECCCCCCCCcEeeccCcccccCCCCeEEEEEEE
Confidence 34455533 3456778999999986442 2333222 2233444 788999999998877764
No 54
>PRK03879 ribonuclease P protein component 1; Validated
Probab=28.37 E-value=34 Score=27.11 Aligned_cols=17 Identities=41% Similarity=0.749 Sum_probs=13.5
Q ss_pred CCCCceee-eeeeeeehh
Q 025361 228 DTGPRIIG-EGLVIDEWV 244 (254)
Q Consensus 228 ~~~~~~~~-~~~~~~~~~ 244 (254)
-.+|..|| +|+||||=|
T Consensus 23 S~npslvGi~GiVv~ETk 40 (96)
T PRK03879 23 STNPSLVGIKGRVVDETR 40 (96)
T ss_pred cCCCCcccceEEEEEece
Confidence 46788887 999999854
No 55
>PF13205 Big_5: Bacterial Ig-like domain
Probab=28.12 E-value=2.3e+02 Score=21.01 Aligned_cols=56 Identities=25% Similarity=0.317 Sum_probs=35.0
Q ss_pred ceEeecCCCC-eEEEEEEEEc--CCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEe
Q 025361 82 KLYFPYEAGK-QVRSAIKIKN--TSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFK 140 (254)
Q Consensus 82 eL~F~~e~~k-~~~s~LtL~N--~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl 140 (254)
.|.|..+-+. .....+.+.+ ....+|.+. ....+.+.++|. +-|.+|....|.|.-
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 5556555432 3445556643 333455555 333488999998 558889999999853
No 56
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=27.96 E-value=2.7e+02 Score=25.19 Aligned_cols=81 Identities=11% Similarity=0.095 Sum_probs=55.5
Q ss_pred ccchhccccCCCCCcEEecCCCceEeecCCCCe-EEEEEEEEcCCCCeEE-EEEcccCCCceee----cCCceeeCCCCE
Q 025361 60 SVSSVARSLLPKRRRLKLDPANKLYFPYEAGKQ-VRSAIKIKNTSKSHVA-FKFQTTAPKSCFM----RPPGAILAPGES 133 (254)
Q Consensus 60 ~~~~i~~sl~~~~~lL~IdP~~eL~F~~e~~k~-~~s~LtL~N~S~~~VA-FKVKTTaPk~Y~V----RP~~GiL~PgeS 133 (254)
.++.|.|..+-....+.++......|.+.+... ....|+|+|.....|. +.+....++.+.+ +...|-..|...
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 455667776666777877774467777776554 3689999999877775 7776666777766 355676566666
Q ss_pred EEEEEEe
Q 025361 134 LIATVFK 140 (254)
Q Consensus 134 ~~I~Vtl 140 (254)
..+.|.-
T Consensus 172 Yt~~V~A 178 (225)
T PRK06655 172 YTIKASA 178 (225)
T ss_pred EEEEEEE
Confidence 7777753
No 57
>smart00538 POP4 A domain found in a protein subunit of human RNase MRP and RNase P ribonucleoprotein complexes and archaeal proteins.
Probab=27.81 E-value=36 Score=26.69 Aligned_cols=17 Identities=41% Similarity=0.847 Sum_probs=13.4
Q ss_pred CCCCceee-eeeeeeehh
Q 025361 228 DTGPRIIG-EGLVIDEWV 244 (254)
Q Consensus 228 ~~~~~~~~-~~~~~~~~~ 244 (254)
-.+|..+| +|+||||=+
T Consensus 21 s~~ps~vGi~GiVv~ET~ 38 (92)
T smart00538 21 SKNPSLVGIEGIVVDETR 38 (92)
T ss_pred cCCCCccCcEEEEEEeee
Confidence 35788887 999999854
No 58
>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=26.43 E-value=2.7e+02 Score=21.42 Aligned_cols=51 Identities=14% Similarity=0.251 Sum_probs=32.2
Q ss_pred CCeEEEEEEEEcCCCCe--EEEEEcccCCCceeecCC-----ceeeCCCCEEEEEEEe
Q 025361 90 GKQVRSAIKIKNTSKSH--VAFKFQTTAPKSCFMRPP-----GAILAPGESLIATVFK 140 (254)
Q Consensus 90 ~k~~~s~LtL~N~S~~~--VAFKVKTTaPk~Y~VRP~-----~GiL~PgeS~~I~Vtl 140 (254)
+......+.|+|.++.+ +.||+-==..+-+-|.|. .=+|.++++..|.-.-
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 888887666777777777 3467777777776663
No 59
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=24.75 E-value=1.9e+02 Score=26.06 Aligned_cols=51 Identities=14% Similarity=0.088 Sum_probs=35.8
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEE--EcccCCCceeecCCceeeCCCCEEEEEEE
Q 025361 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFK--FQTTAPKSCFMRPPGAILAPGESLIATVF 139 (254)
Q Consensus 82 eL~F~~e~~k~~~s~LtL~N~S~~~VAFK--VKTTaPk~Y~VRP~~GiL~PgeS~~I~Vt 139 (254)
.|.|.... ..|+++|+|..+|.|- .-+. .++-.. -..+.|.|+++..+.+.
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 56665443 5899999999999998 3333 333222 67899999999885443
No 60
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=23.89 E-value=1.6e+02 Score=26.62 Aligned_cols=49 Identities=22% Similarity=0.320 Sum_probs=32.8
Q ss_pred CceEeecCCCCeEEEEEEEEcCCCCeEEEEEcccCCCceeecCCceeeCCCCEEEEEE
Q 025361 81 NKLYFPYEAGKQVRSAIKIKNTSKSHVAFKFQTTAPKSCFMRPPGAILAPGESLIATV 138 (254)
Q Consensus 81 ~eL~F~~e~~k~~~s~LtL~N~S~~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~V 138 (254)
..|.|....+ .|++.|+|..+|.|---.-..+. + ...+|+|+++..+.+
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 3677765433 49999999999988632222222 2 246899999888764
No 61
>PF11616 EZH2_WD-Binding: WD repeat binding protein EZH2; InterPro: IPR021654 This family of proteins represents Enhancer of zest homologue 2, (EZH2) a 30 residue peptide which binds to a WD-repeat domain of EED by residues 39-68. EED is a component of PRC2 complex which is involved in gene expression []. This interaction is required for the HMTase activity of PCR2 []. ; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 2QXV_B.
Probab=23.89 E-value=21 Score=22.90 Aligned_cols=9 Identities=22% Similarity=0.331 Sum_probs=4.5
Q ss_pred eeehhhhcc
Q 025361 240 IDEWVCYLK 248 (254)
Q Consensus 240 ~~~~~~~~~ 248 (254)
=+|||.||-
T Consensus 19 N~eWk~lRi 27 (30)
T PF11616_consen 19 NEEWKKLRI 27 (30)
T ss_dssp HHHHHH---
T ss_pred HHHHHHhcc
Confidence 368998884
No 62
>smart00605 CW CW domain.
Probab=23.68 E-value=1.7e+02 Score=22.11 Aligned_cols=33 Identities=33% Similarity=0.493 Sum_probs=18.5
Q ss_pred CceEeecCCCCeEEEEEEEEcC-CCCeEEEEEcccCCC
Q 025361 81 NKLYFPYEAGKQVRSAIKIKNT-SKSHVAFKFQTTAPK 117 (254)
Q Consensus 81 ~eL~F~~e~~k~~~s~LtL~N~-S~~~VAFKVKTTaPk 117 (254)
....|.+ +. ...|+-.+. +...||||+.++.+.
T Consensus 47 ~C~~f~~--~~--~~~v~~~~~~~~~~VAfK~~~~~~~ 80 (94)
T smart00605 47 TCYLFSY--GT--VLTVKKLSSSSGKKVAFKVSTDQPS 80 (94)
T ss_pred ceEEEEc--CC--eEEEEEccCCCCcEEEEEEeCCCCC
Confidence 3555655 32 233444443 447899999865443
No 63
>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=23.19 E-value=5.1e+02 Score=23.70 Aligned_cols=65 Identities=20% Similarity=0.382 Sum_probs=47.4
Q ss_pred EEecCCCceEeecCCC-CeEEEEEEEEcC-CCCeEEEEEcc------------cCCCceeecCCce--------eeCCCC
Q 025361 75 LKLDPANKLYFPYEAG-KQVRSAIKIKNT-SKSHVAFKFQT------------TAPKSCFMRPPGA--------ILAPGE 132 (254)
Q Consensus 75 L~IdP~~eL~F~~e~~-k~~~s~LtL~N~-S~~~VAFKVKT------------TaPk~Y~VRP~~G--------iL~Pge 132 (254)
..++|- .++|.+..+ +.......+.|+ -.++..|=+.. +.+|.|.|-|-.. +-.|++
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 458998 888988754 456677889999 77777776665 4567788888653 456777
Q ss_pred EEEEEEEe
Q 025361 133 SLIATVFK 140 (254)
Q Consensus 133 S~~I~Vtl 140 (254)
.+.|.|.+
T Consensus 180 ~l~v~I~~ 187 (254)
T PF07103_consen 180 RLSVRIDL 187 (254)
T ss_pred ceEEEEEe
Confidence 77777776
No 64
>PF01868 UPF0086: Domain of unknown function UPF0086; InterPro: IPR002730 The p29 subunit (also known as Rpp29 or Pop4) of the related ribonucleoproteins ribonuclease (RNase) P and RNase MRP can be found in both eukaryotes and arachea []. The structure of the RNase P subunit, Rpp29, from Methanobacterium thermoautotrophicum has been determined. Mth Rpp29 is a member of the oligonucleotide/oligosaccharide binding fold family. It contains a structured beta-barrel core and unstructured N- and C-terminal extensions bearing several highly conserved amino acid residues that could be involved in RNA contacts in the protein-RNA complex []. Rpp29 (3.1.26.5 from EC) catalyses the endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor. It interacts with the Rpp25 and Pop5 subunits. RNase P is a ubiquitous ribonucleoprotein enzyme primarily responsible for cleaving the 5' leader sequence during maturation of tRNAs in all three domains of life. In eubacteria, this enzyme is made up of two subunits: a large RNA (approximately 120 kDa) responsible for mediating catalysis, and a small protein cofactor (approximately 15 kDa) that modulates substrate recognition and is required for efficient in vivo catalysis. In contrast, multiple proteins are associated with eukaryotic and archaeal RNase P, and these proteins exhibit no recognizable homology to the conserved bacterial protein subunit. In reconstitution experiments with recombinantly expressed and purified protein subunits Mth Rpp29, a homologue of the Rpp29 protein subunit from eukaryotic RNase P, is an essential protein component of the archaeal holoenzyme []. In Saccharomyces cerevisiae (Baker's yeast), RNase P consists of 9 protein subunits (Pop1, Pop3-8, Rpr2 and Rpp1), while in humans there are 10 subunits (Rpp14, 20, 21, 25, 29, 30, 38, 40, hPop1, 5). RNase MRP (mitochondrial RNA processing) is an rRNA processing enzyme that cleaves a specific site within precursor rRNA to generate the mature 5'-end of 5.8S rRNA []. RNase MRP also cleaves primers for mitochondrial DNA replication and CLB2 mRNA. In yeast, RNase MRP possesses one putatively catalytic RNA and at least 9 protein subunits and is highly related to RNase P (Pop1, Pop3-Pop8, Rpp1, Snm1 and Rmp1).; GO: 0003723 RNA binding, 0004540 ribonuclease activity, 0006364 rRNA processing, 0006379 mRNA cleavage, 0008033 tRNA processing, 0000172 ribonuclease MRP complex, 0030677 ribonuclease P complex; PDB: 1V76_B 2ZAE_C 1OQK_A 2KI7_A 1TSF_A 1TS9_A 1PC0_A.
Probab=23.19 E-value=44 Score=25.87 Aligned_cols=16 Identities=44% Similarity=0.895 Sum_probs=12.1
Q ss_pred CCCceee-eeeeeeehh
Q 025361 229 TGPRIIG-EGLVIDEWV 244 (254)
Q Consensus 229 ~~~~~~~-~~~~~~~~~ 244 (254)
..|..+| +|+||||=+
T Consensus 23 ~~pslvG~~GiVV~ETk 39 (89)
T PF01868_consen 23 KNPSLVGIEGIVVDETK 39 (89)
T ss_dssp SSCCCTTEEEEEEEEET
T ss_pred CCCCccCCEEEEEEccc
Confidence 3577776 999999854
No 65
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=22.11 E-value=1.9e+02 Score=26.28 Aligned_cols=48 Identities=10% Similarity=0.200 Sum_probs=31.2
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEEE-cccCCCceeecCCceeeCCCCEEEEEE
Q 025361 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFKF-QTTAPKSCFMRPPGAILAPGESLIATV 138 (254)
Q Consensus 82 eL~F~~e~~k~~~s~LtL~N~S~~~VAFKV-KTTaPk~Y~VRP~~GiL~PgeS~~I~V 138 (254)
.|.|....+ .|++.|+|..+|.|-= +-. .+. + ...++|+|.++..+.+
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 455554332 3999999999998852 322 222 2 2346899999887765
No 66
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=21.32 E-value=2.4e+02 Score=25.62 Aligned_cols=55 Identities=15% Similarity=0.214 Sum_probs=34.3
Q ss_pred ceEeecCCCCeEEEEEEEEcCCCCeEEEE-Eccc-CCCceeecCCceeeCCCCEEEEEEE
Q 025361 82 KLYFPYEAGKQVRSAIKIKNTSKSHVAFK-FQTT-APKSCFMRPPGAILAPGESLIATVF 139 (254)
Q Consensus 82 eL~F~~e~~k~~~s~LtL~N~S~~~VAFK-VKTT-aPk~Y~VRP~~GiL~PgeS~~I~Vt 139 (254)
.|.|....+.. ...|+++|+|..++.|- ++-. ..+.+.+ ..++|.|+++..+.+-
T Consensus 161 ~L~~~~~~~~~-~~~L~v~Nptpy~itl~~l~~~~~g~~~~~--~~~mi~P~s~~~~~l~ 217 (246)
T PRK09926 161 ALKWSWAGSEG-KASLRVTNPTPYYVSFSSGDLEAGGKRYPV--DSKMIAPFSDESMKVK 217 (246)
T ss_pred ccEEEEecCCC-eEEEEEECCCceEEEEEeeeeecCCeeccc--CcceECCCCcceEecC
Confidence 56676433221 25599999999988775 3322 2233333 3478999998887653
No 67
>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=21.08 E-value=1.1e+02 Score=27.19 Aligned_cols=26 Identities=31% Similarity=0.530 Sum_probs=23.1
Q ss_pred CeEEEEEcccCCCceeecCCceeeCCCCEEEEEEEec
Q 025361 105 SHVAFKFQTTAPKSCFMRPPGAILAPGESLIATVFKF 141 (254)
Q Consensus 105 ~~VAFKVKTTaPk~Y~VRP~~GiL~PgeS~~I~Vtl~ 141 (254)
++|+||+ |...-|+||+++++.+.+.
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 6899988 8888999999999999874
Done!