Query 032412
Match_columns 141
No_of_seqs 135 out of 528
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 13:45:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032412.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032412hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00635 Motile_Sperm: MSP (Ma 99.8 3.9E-19 8.5E-24 125.3 7.9 64 77-140 2-65 (109)
2 KOG0439 VAMP-associated protei 99.8 8.3E-19 1.8E-23 138.6 8.9 70 71-140 3-72 (218)
3 COG5066 SCS2 VAMP-associated p 99.6 5E-15 1.1E-19 121.8 7.3 63 76-140 2-64 (242)
4 PF14874 PapD-like: Flagellar- 98.6 6.1E-07 1.3E-11 62.9 8.7 64 76-140 3-69 (102)
5 PF00345 PapD_N: Pili and flag 96.0 0.037 8.1E-07 40.0 6.8 60 77-140 2-70 (122)
6 PF14646 MYCBPAP: MYCBP-associ 92.7 0.6 1.3E-05 41.1 7.9 63 78-140 232-307 (426)
7 PF07610 DUF1573: Protein of u 92.2 0.6 1.3E-05 29.0 5.3 41 99-140 2-43 (45)
8 PF11614 FixG_C: IG-like fold 91.4 0.85 1.8E-05 32.8 6.2 45 96-140 34-80 (118)
9 PRK09918 putative fimbrial cha 90.4 1.8 3.9E-05 35.4 7.9 61 76-140 25-90 (230)
10 PRK09926 putative chaperone pr 84.8 5.9 0.00013 32.7 7.8 63 74-140 24-96 (246)
11 PRK15249 fimbrial chaperone pr 83.0 7.3 0.00016 32.4 7.6 62 75-140 28-100 (253)
12 TIGR03079 CH4_NH3mon_ox_B meth 80.9 4 8.6E-05 36.8 5.6 50 91-140 280-350 (399)
13 PRK15295 fimbrial assembly cha 80.5 11 0.00024 30.8 7.7 59 76-140 20-87 (226)
14 PF06280 DUF1034: Fn3-like dom 80.3 4.3 9.2E-05 29.0 4.7 25 92-116 7-31 (112)
15 PRK11385 putativi pili assembl 79.9 11 0.00024 31.2 7.6 62 75-140 26-99 (236)
16 smart00809 Alpha_adaptinC2 Ada 79.1 15 0.00032 25.3 7.0 51 87-138 13-67 (104)
17 PRK15211 fimbrial chaperone pr 78.2 14 0.0003 30.5 7.7 61 76-140 23-89 (229)
18 PRK15246 fimbrial assembly cha 78.0 15 0.00032 30.3 7.8 61 76-140 11-81 (233)
19 PRK15299 fimbrial chaperone pr 77.6 16 0.00034 29.8 7.8 62 75-140 22-91 (227)
20 PF02883 Alpha_adaptinC2: Adap 76.9 6.7 0.00015 27.7 4.9 50 91-140 22-75 (115)
21 PF10633 NPCBM_assoc: NPCBM-as 76.3 3.6 7.8E-05 27.5 3.2 50 91-140 3-56 (78)
22 PF05506 DUF756: Domain of unk 75.4 11 0.00024 26.0 5.5 37 96-139 21-62 (89)
23 PF11611 DUF4352: Domain of un 74.6 16 0.00036 25.4 6.3 51 89-139 32-96 (123)
24 PRK15192 fimbrial chaperone Bc 74.3 19 0.00041 29.9 7.5 59 76-140 23-95 (234)
25 PRK15208 long polar fimbrial c 74.0 24 0.00052 28.8 8.0 61 76-140 22-88 (228)
26 PF00927 Transglut_C: Transglu 73.3 12 0.00026 26.3 5.3 50 91-140 13-72 (107)
27 PF03173 CHB_HEX: Putative car 68.3 5.4 0.00012 31.5 2.9 30 111-140 69-100 (164)
28 PRK15290 lfpB fimbrial chapero 66.0 40 0.00087 28.1 7.8 62 75-140 37-106 (243)
29 PRK15195 fimbrial chaperone pr 65.4 39 0.00084 27.7 7.5 62 75-140 25-92 (229)
30 PRK15218 fimbrial chaperone pr 65.0 48 0.001 27.3 7.9 59 76-140 19-89 (226)
31 PRK15224 pili assembly chapero 64.9 41 0.00088 28.0 7.6 59 76-140 29-94 (237)
32 PRK15254 fimbrial chaperone pr 64.8 45 0.00098 27.7 7.8 61 76-140 17-83 (239)
33 PRK15188 fimbrial chaperone pr 64.8 46 0.00099 27.5 7.8 62 75-140 27-94 (228)
34 PF06030 DUF916: Bacterial pro 62.6 21 0.00045 26.6 5.0 31 84-114 18-48 (121)
35 PF02753 PapD_C: Pili assembly 59.0 18 0.00039 23.5 3.7 42 99-140 1-43 (68)
36 COG3121 FimC P pilus assembly 56.6 67 0.0015 26.3 7.4 62 75-140 27-95 (235)
37 PRK15233 putative fimbrial cha 55.4 73 0.0016 26.7 7.6 59 76-140 41-106 (246)
38 PF13473 Cupredoxin_1: Cupredo 55.2 36 0.00077 23.7 4.9 51 77-140 30-80 (104)
39 PRK15253 putative fimbrial ass 54.7 87 0.0019 26.1 7.9 60 75-140 33-104 (242)
40 PF04744 Monooxygenase_B: Mono 54.3 63 0.0014 29.2 7.3 64 74-140 246-331 (381)
41 COG3354 FlaG Putative archaeal 53.9 44 0.00095 26.7 5.6 67 73-141 50-129 (154)
42 PF00553 CBM_2: Cellulose bind 53.6 31 0.00066 24.4 4.4 45 95-139 15-79 (101)
43 PF14796 AP3B1_C: Clathrin-ada 50.5 1.2E+02 0.0026 23.7 8.0 57 84-140 72-136 (145)
44 smart00637 CBD_II CBD_II domai 49.3 70 0.0015 21.8 5.6 21 119-139 50-72 (92)
45 PF08277 PAN_3: PAN-like domai 48.5 27 0.00057 22.5 3.2 22 91-113 50-71 (71)
46 PRK15274 putative periplasmic 46.0 1.4E+02 0.0031 25.1 7.9 63 74-140 25-94 (257)
47 PF07233 DUF1425: Protein of u 45.2 1.1E+02 0.0023 21.6 6.1 48 92-139 23-77 (94)
48 PRK15308 putative fimbrial pro 43.2 1.8E+02 0.0039 24.3 8.0 64 74-140 15-96 (234)
49 COG3565 Predicted dioxygenase 43.2 45 0.00097 26.0 4.1 45 65-113 84-128 (138)
50 PF07705 CARDB: CARDB; InterP 41.1 89 0.0019 20.5 5.0 50 91-140 17-67 (101)
51 PF08402 TOBE_2: TOBE domain; 40.7 89 0.0019 19.4 6.8 63 77-140 1-67 (75)
52 TIGR02745 ccoG_rdxA_fixG cytoc 40.6 1.5E+02 0.0033 26.8 7.7 64 77-140 328-395 (434)
53 PRK06655 flgD flagellar basal 39.2 1.5E+02 0.0032 24.4 6.9 79 62-140 92-176 (225)
54 PRK15285 putative fimbrial cha 37.8 2.3E+02 0.0049 23.7 7.9 61 76-140 26-93 (250)
55 smart00605 CW CW domain. 36.8 72 0.0016 22.0 4.1 22 98-119 58-80 (94)
56 PF05753 TRAP_beta: Translocon 35.0 1.9E+02 0.0041 23.0 6.7 48 91-139 36-92 (181)
57 PF12690 BsuPI: Intracellular 32.6 1.1E+02 0.0024 21.2 4.4 30 95-124 2-31 (82)
58 PF13205 Big_5: Bacterial Ig-l 31.7 1.6E+02 0.0035 19.7 7.3 54 84-140 26-82 (107)
59 PF04425 Bul1_N: Bul1 N termin 31.6 41 0.0009 30.7 2.7 27 86-112 157-183 (438)
60 cd01260 PH_CNK Connector enhan 27.7 1.1E+02 0.0024 20.6 3.8 51 73-123 21-78 (96)
61 PRK15249 fimbrial chaperone pr 25.8 1.7E+02 0.0037 24.3 5.2 42 98-140 177-219 (253)
62 PF07703 A2M_N_2: Alpha-2-macr 25.2 93 0.002 22.1 3.1 33 108-140 84-116 (136)
63 PF05502 Dynactin_p62: Dynacti 24.8 1.4E+02 0.003 27.4 4.8 63 59-121 318-394 (483)
64 PRK09918 putative fimbrial cha 24.2 2.1E+02 0.0045 23.3 5.3 41 98-140 156-199 (230)
65 PF06586 TraK: TraK protein; 23.8 3.3E+02 0.0071 21.7 6.4 47 94-140 187-234 (234)
66 COG3121 FimC P pilus assembly 23.2 2.4E+02 0.0051 23.1 5.5 50 84-140 157-208 (235)
67 KOG1769 Ubiquitin-like protein 22.7 1.1E+02 0.0024 22.7 3.1 26 95-120 19-44 (99)
68 PRK15295 fimbrial assembly cha 22.4 2.4E+02 0.0051 23.0 5.3 49 83-140 148-197 (226)
69 PF06483 ChiC: Chitinase C; I 22.0 79 0.0017 25.8 2.4 23 107-140 116-138 (180)
70 PF03944 Endotoxin_C: delta en 21.0 94 0.002 23.3 2.5 9 74-82 27-35 (143)
71 PRK15246 fimbrial assembly cha 20.1 2.8E+02 0.006 22.8 5.3 49 83-140 144-192 (233)
No 1
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=99.79 E-value=3.9e-19 Score=125.29 Aligned_cols=64 Identities=33% Similarity=0.559 Sum_probs=58.2
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 77 L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
|.|+|.+.|.|.++.++...+.|+|+|.++.+||||||||+|.+|+|+|+.|+|+||+++.|.|
T Consensus 2 l~v~P~~~i~F~~~~~~~~~~~l~l~N~s~~~i~fKiktt~~~~y~v~P~~G~i~p~~~~~i~I 65 (109)
T PF00635_consen 2 LSVEPSELIFFNAPFNKQQSCELTLTNPSDKPIAFKIKTTNPNRYRVKPSYGIIEPGESVEITI 65 (109)
T ss_dssp CEEESSSEEEEESSTSS-EEEEEEEEE-SSSEEEEEEEES-TTTEEEESSEEEE-TTEEEEEEE
T ss_pred eEEeCCcceEEcCCCCceEEEEEEEECCCCCcEEEEEEcCCCceEEecCCCEEECCCCEEEEEE
Confidence 7899999999999999999999999999999999999999999999999999999999999986
No 2
>KOG0439 consensus VAMP-associated protein involved in inositol metabolism [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.78 E-value=8.3e-19 Score=138.64 Aligned_cols=70 Identities=40% Similarity=0.669 Sum_probs=66.6
Q ss_pred CCCCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 71 LPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 71 ~p~~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
+..+..|.|+|.++|+|.+++.+++.+.|+|+|+++.+||||||||+|++|+|||+.|+|.||+++.|.|
T Consensus 3 ~~~~~~l~i~P~~~l~F~~~~~~~~~~~l~l~N~t~~~vaFKvktT~p~~y~VrP~~G~i~p~~t~~i~v 72 (218)
T KOG0439|consen 3 LETESLLEIEPSDELVFPLPLNEQVKCSLTLKNPTKLRVAFKVKTTAPKLYCVRPNGGVIDPGSTVEIEV 72 (218)
T ss_pred ccccCccccCCCceEEeccCCCceEEEEEEEecCCCCceEEEEEcCCCCeEEEcCCcceECCCCcEEEEE
Confidence 4567889999988999999999999999999999999999999999999999999999999999999986
No 3
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=99.57 E-value=5e-15 Score=121.81 Aligned_cols=63 Identities=25% Similarity=0.426 Sum_probs=58.7
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|+|+| ++.|..++..+.++.+.|.|.+..+|+||||||+|+.||||||.|+|+|++++.|.|
T Consensus 2 aveisp--~~~fy~Plt~~ske~~sv~NnspepvgfKVKTTaPK~YcVRPN~g~Iep~stv~VeV 64 (242)
T COG5066 2 AVEISP--QTTFYVPLTNKSKEMFSVQNNSPEPVGFKVKTTAPKDYCVRPNMGLIEPMSTVEVEV 64 (242)
T ss_pred ceEecC--ceEEecccccccceeeEeecCCCCceeEEeeccCCcceeEcCCCceeccCCeeEEEE
Confidence 378888 677777888999999999999999999999999999999999999999999999987
No 4
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=98.56 E-value=6.1e-07 Score=62.88 Aligned_cols=64 Identities=30% Similarity=0.446 Sum_probs=56.3
Q ss_pred cEEecCCCceEeeC-CCCCeeEEEEEEECCCCCeEEEEEeeCC--CceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPY-EPGKQTRSAVRLKNTSKSHVAFKFQTTA--PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~-e~~k~v~s~L~LtN~S~~~VAFKVKTTa--Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|.++|. +|.|-. ..|......|+|+|.+..+..|+|+.-. ...|.|.|..|+|+||+++.+.|
T Consensus 3 ~l~v~P~-~ldFG~v~~g~~~~~~v~l~N~s~~p~~f~v~~~~~~~~~~~v~~~~g~l~PG~~~~~~V 69 (102)
T PF14874_consen 3 TLEVSPK-ELDFGNVFVGQTYSRTVTLTNTSSIPARFRVRQPESLSSFFSVEPPSGFLAPGESVELEV 69 (102)
T ss_pred EEEEeCC-EEEeeEEccCCEEEEEEEEEECCCCCEEEEEEeCCcCCCCEEEECCCCEECCCCEEEEEE
Confidence 5899996 999974 5678889999999999999999997543 57899999999999999999887
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=95.96 E-value=0.037 Score=39.95 Aligned_cols=60 Identities=18% Similarity=0.299 Sum_probs=49.2
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC---C------ceeEecCCcceeCCCCEEEEEc
Q 032412 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA---P------KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 77 L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTa---P------k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
|.|+|. .+.|.. .+....++|+|.++.++.+.+.... . +-|.|-|+.-.|+||+...|.|
T Consensus 2 i~i~~t-rii~~~---~~~~~~i~v~N~~~~~~~vq~~v~~~~~~~~~~~~~~~~vsPp~~~L~pg~~q~vRv 70 (122)
T PF00345_consen 2 IQISPT-RIIFNE---SQRSASITVTNNSDQPYLVQVWVYDQDDEDEDEPTDPFIVSPPIFRLEPGESQTVRV 70 (122)
T ss_dssp EEESSS-EEEEET---TSSEEEEEEEESSSSEEEEEEEEEETTSTTSSSSSSSEEEESSEEEEETTEEEEEEE
T ss_pred EEEccE-EEEEeC---CCCEEEEEEEcCCCCcEEEEEEEEcCCCcccccccccEEEeCCceEeCCCCcEEEEE
Confidence 678896 788874 2347899999999999999987654 1 2699999999999999988875
No 6
>PF14646 MYCBPAP: MYCBP-associated protein family
Probab=92.71 E-value=0.6 Score=41.12 Aligned_cols=63 Identities=21% Similarity=0.402 Sum_probs=51.6
Q ss_pred EecCCCceEeeCCCCCeeEEEEE-EECCCCCeEEEEEeeCC------------CceeEecCCcceeCCCCEEEEEc
Q 032412 78 RLDPSNNLYFPYEPGKQTRSAVR-LKNTSKSHVAFKFQTTA------------PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 78 ~IdP~~eL~F~~e~~k~v~s~L~-LtN~S~~~VAFKVKTTa------------Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.+.+.-.|.|.-.++..+...|. |.|.+..-|-|..+--. ...|......|+|.||++..+.|
T Consensus 232 ~~~~~~~l~Fe~~p~e~~~~~v~~l~N~Gt~~I~y~W~~~~~~~~~~~~~~~~~~~F~Fd~~~gvilPGe~~~~~~ 307 (426)
T PF14646_consen 232 EVSISIRLTFECHPGERVSKEVVRLENNGTTAIYYSWRRVPFFKNFGSLFRAQDQRFYFDTSSGVILPGETRNFPF 307 (426)
T ss_pred ccCcceEEEEEcccCceeeEEEEEEecCCceEEEEEEEecccccccchhccccCCeEEEeCCCCEECCCceEEEEE
Confidence 34444589999988887777777 99999999999876433 45799999999999999999876
No 7
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=92.18 E-value=0.6 Score=29.01 Aligned_cols=41 Identities=22% Similarity=0.139 Sum_probs=33.6
Q ss_pred EEEECCCCCeE-EEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 99 VRLKNTSKSHV-AFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 99 L~LtN~S~~~V-AFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
++|+|.++.++ ..+|+| +=+...+......|+||++..|.|
T Consensus 2 F~~~N~g~~~L~I~~v~t-sCgCt~~~~~~~~i~PGes~~i~v 43 (45)
T PF07610_consen 2 FEFTNTGDSPLVITDVQT-SCGCTTAEYSKKPIAPGESGKIKV 43 (45)
T ss_pred EEEEECCCCcEEEEEeeE-ccCCEEeeCCcceECCCCEEEEEE
Confidence 57999999955 456666 557888888889999999999987
No 8
>PF11614 FixG_C: IG-like fold at C-terminal of FixG, putative oxidoreductase; PDB: 2R39_A.
Probab=91.38 E-value=0.85 Score=32.84 Aligned_cols=45 Identities=11% Similarity=0.286 Sum_probs=31.2
Q ss_pred EEEEEEECCCCCeEEEEEeeCCCceeEe-cCCcce-eCCCCEEEEEc
Q 032412 96 RSAVRLKNTSKSHVAFKFQTTAPKSCYM-RPPGGV-LAPGDSIIATG 140 (141)
Q Consensus 96 ~s~L~LtN~S~~~VAFKVKTTaPk~Y~V-RP~~Gi-I~Pgesv~ItV 140 (141)
...|+|.|.+.++..|.|+...+..+.+ .|...+ |+||++..+.|
T Consensus 34 ~Y~lkl~Nkt~~~~~~~i~~~g~~~~~l~~~~~~i~v~~g~~~~~~v 80 (118)
T PF11614_consen 34 QYTLKLTNKTNQPRTYTISVEGLPGAELQGPENTITVPPGETREVPV 80 (118)
T ss_dssp EEEEEEEE-SSS-EEEEEEEES-SS-EE-ES--EEEE-TT-EEEEEE
T ss_pred EEEEEEEECCCCCEEEEEEEecCCCeEEECCCcceEECCCCEEEEEE
Confidence 4899999999999999999988888888 665555 88999887654
No 9
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=90.39 E-value=1.8 Score=35.37 Aligned_cols=61 Identities=16% Similarity=0.178 Sum_probs=46.3
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCC-----ceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAP-----KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaP-----k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.++|. .+.|.. ++....++|+|.++.++......... .-|.|-|+.-.|+||+...|.|
T Consensus 25 ~v~l~~t-Rvi~~~---~~~~~si~v~N~~~~p~lvQ~wv~~~~~~~~~~fivtPPl~rl~pg~~q~vRi 90 (230)
T PRK09918 25 GMVPETS-VVIVEE---SDGEGSINVKNTDSNPILLYTTLVDLPEDKSKLLLVTPPVARVEPGQSQQVRF 90 (230)
T ss_pred eEEEccE-EEEEEC---CCCeEEEEEEcCCCCcEEEEEEEecCCCCCCCCEEEcCCeEEECCCCceEEEE
Confidence 5888885 777764 33457999999999876665543221 2599999999999999988875
No 10
>PRK09926 putative chaperone protein EcpD; Provisional
Probab=84.77 E-value=5.9 Score=32.71 Aligned_cols=63 Identities=13% Similarity=0.156 Sum_probs=47.0
Q ss_pred CCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCc----------eeEecCCcceeCCCCEEEEEc
Q 032412 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPK----------SCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 74 ~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk----------~Y~VRP~~GiI~Pgesv~ItV 140 (141)
---|.|+|. .+.|+. ++-...|.|.|.++.++.--.-..+.+ -|.|-|+.--|+||+...|.|
T Consensus 24 ~A~i~l~~T-RvI~~~---~~~~~sv~l~N~~~~p~LvQ~Wvd~~~~~~~p~~~~~pfivtPPl~rl~p~~~q~lRI 96 (246)
T PRK09926 24 IADIVISGT-RIIYKS---DQKDVNVRLENKGNNPLLVQSWLDTGDDNAEPGSIKVPFTATPPVSRIDPKRGQTIKL 96 (246)
T ss_pred eeeEEeCce-EEEEeC---CCceEEEEEEeCCCCcEEEEEEecCCCCccCccccCCCEEEcCCeEEECCCCccEEEE
Confidence 345899996 888874 334579999999998766555432211 299999999999999888775
No 11
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=83.01 E-value=7.3 Score=32.41 Aligned_cols=62 Identities=16% Similarity=0.189 Sum_probs=44.8
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------C-----ceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P-----KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTa------P-----k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.|+|. .+.|+.. .....|+|.|.++.++....-+.+ | .-|.|-|+.--|+||+...|.|
T Consensus 28 A~l~l~~T-Rviy~~~---~~~~sl~l~N~~~~p~LvQsWv~~~~~~~~p~~~~~~pFivtPPlfrl~p~~~q~lRI 100 (253)
T PRK15249 28 ASVTILGS-RIIYPST---ASSVDVQLKNNDAIPYIVQTWFDDGDMNTSPENSSAMPFIATPPVFRIQPKAGQVVRV 100 (253)
T ss_pred eEEEeCce-EEEEeCC---CcceeEEEEcCCCCcEEEEEEEeCCCCCCCccccccCcEEEcCCeEEecCCCceEEEE
Confidence 35889995 7888632 245789999999886554442211 1 1399999999999999988875
No 12
>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=80.87 E-value=4 Score=36.80 Aligned_cols=50 Identities=22% Similarity=0.337 Sum_probs=37.1
Q ss_pred CCCeeEEEEEEECCCCCeEEEEEeeCC------C-ceeEecCCcce--------------eCCCCEEEEEc
Q 032412 91 PGKQTRSAVRLKNTSKSHVAFKFQTTA------P-KSCYMRPPGGV--------------LAPGDSIIATG 140 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~VAFKVKTTa------P-k~Y~VRP~~Gi--------------I~Pgesv~ItV 140 (141)
+|+..+-.++++|.++++|-.+==+|+ | +.|...|...- |+||||..|.|
T Consensus 280 PGR~l~~~~~VTN~g~~~vrlgEF~TA~vRFlN~~~v~~~~~~yP~~lla~GL~v~d~~pI~PGETr~v~v 350 (399)
T TIGR03079 280 PGRALRVTMEITNNGDQVISIGEFTTAGIRFMNANGVRVLDPDYPRELLAEGLEVDDQSAIAPGETVEVKM 350 (399)
T ss_pred CCcEEEEEEEEEcCCCCceEEEeEeecceEeeCcccccccCCCChHHHhhccceeCCCCCcCCCcceEEEE
Confidence 689999999999999999988744444 4 44444444422 88999988876
No 13
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=80.51 E-value=11 Score=30.82 Aligned_cols=59 Identities=15% Similarity=0.200 Sum_probs=43.5
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CC-------CceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TA-------PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKT--Ta-------Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.|++. .+.|+.. .-...|.|.|.++.++. |++ .+ ..-|.|-|+.--|+||+...|.|
T Consensus 20 ~i~l~~T-RvI~~~~---~~~~si~i~N~~~~p~L--vQsWv~~~~~~~~~~~pFivtPPl~rl~p~~~q~lRI 87 (226)
T PRK15295 20 SIVVGGT-RLVFDGN---NDESSINVENKDSKANL--VQSWLSVVDPQVTNKQAFIITPPLFRLDAGQKNSIRV 87 (226)
T ss_pred cEEeCce-EEEEeCC---CceeEEEEEeCCCCcEE--EEEEEeCCCCCCCCCCCEEEcCCeEEECCCCceEEEE
Confidence 4888885 7777642 34579999999988543 442 11 12499999999999999988875
No 14
>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=80.31 E-value=4.3 Score=28.97 Aligned_cols=25 Identities=16% Similarity=0.331 Sum_probs=18.4
Q ss_pred CCeeEEEEEEECCCCCeEEEEEeeC
Q 032412 92 GKQTRSAVRLKNTSKSHVAFKFQTT 116 (141)
Q Consensus 92 ~k~v~s~L~LtN~S~~~VAFKVKTT 116 (141)
+...+..|+|+|.+++.+.|+|.-.
T Consensus 7 ~~~~~~~itl~N~~~~~~ty~~~~~ 31 (112)
T PF06280_consen 7 GNKFSFTITLHNYGDKPVTYTLSHV 31 (112)
T ss_dssp -SEEEEEEEEEE-SSS-EEEEEEEE
T ss_pred CCceEEEEEEEECCCCCEEEEEeeE
Confidence 3446789999999999999998654
No 15
>PRK11385 putativi pili assembly chaperone; Provisional
Probab=79.93 E-value=11 Score=31.23 Aligned_cols=62 Identities=19% Similarity=0.260 Sum_probs=44.4
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeC------------CCceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT------------APKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTT------------aPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.+++. .+.|+. +.....++|.|.++.++.-....- ...-|.|-|+.--|+||+...+.|
T Consensus 26 A~v~l~~T-RvIy~~---~~~~~sv~l~N~~~~p~LvQswv~~~~~~~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI 99 (236)
T PRK11385 26 AGVVVGGT-RFIFPA---DRESISILLTNTSQESWLINSKINRPTRWAGGEASTVPAPLLAAPPLILLKPGTTGTLRL 99 (236)
T ss_pred eeEEeCce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEcccCccccCcccccccCCEEEcCCeEEECCCCceEEEE
Confidence 45788885 777863 334679999999998644333211 112499999999999999988775
No 16
>smart00809 Alpha_adaptinC2 Adaptin C-terminal domain. Adaptins are components of the adaptor complexes which link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. Gamma-adaptin is a subunit of the golgi adaptor. Alpha adaptin is a heterotetramer that regulates clathrin-bud formation. The carboxyl-terminal appendage of the alpha subunit regulates translocation of endocytic accessory proteins to the bud site. This Ig-fold domain is found in alpha, beta and gamma adaptins and consists of a beta-sandwich containing 7 strands in 2 beta-sheets in a greek-key topology PUBMED:10430869, PUBMED:12176391. The adaptor appendage contains an additional N-terminal strand.
Probab=79.14 E-value=15 Score=25.34 Aligned_cols=51 Identities=33% Similarity=0.559 Sum_probs=37.4
Q ss_pred eeCCCCCeeEEEEEEECCCCCeEE-EEEeeCCCceeEec--CCc-ceeCCCCEEEE
Q 032412 87 FPYEPGKQTRSAVRLKNTSKSHVA-FKFQTTAPKSCYMR--PPG-GVLAPGDSIIA 138 (141)
Q Consensus 87 F~~e~~k~v~s~L~LtN~S~~~VA-FKVKTTaPk~Y~VR--P~~-GiI~Pgesv~I 138 (141)
+.+. +..+.-.+...|.+..++. |.++-..|+.+.++ |.. ..|+||+.+..
T Consensus 13 ~~~~-~~~~~i~~~~~N~s~~~it~f~~~~avpk~~~l~l~~~s~~~l~p~~~i~q 67 (104)
T smart00809 13 FERR-PGLIRITLTFTNKSPSPITNFSFQAAVPKSLKLQLQPPSSPTLPPGGQITQ 67 (104)
T ss_pred EEcC-CCeEEEEEEEEeCCCCeeeeEEEEEEcccceEEEEcCCCCCccCCCCCEEE
Confidence 3344 3467788999999988776 88888788877766 554 47999987653
No 17
>PRK15211 fimbrial chaperone protein PefD; Provisional
Probab=78.22 E-value=14 Score=30.47 Aligned_cols=61 Identities=10% Similarity=0.060 Sum_probs=44.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------CceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTa------Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.+++. .+.|+. +.-...++|+|.++.++.-...... ..-|.|-|+.--|+||+...|.|
T Consensus 23 ~v~l~~T-RvIy~~---~~~~~si~i~N~~~~p~LvQswv~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI 89 (229)
T PRK15211 23 AFVLNGT-RFIYDE---GRKNISFEVTNQADQTYGGQVWIDNTTQGSSTVYMVPAPPFFKVRPKEKQIIRI 89 (229)
T ss_pred EEEECce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEE
Confidence 4888885 777763 2346799999999886443332211 12499999999999999988875
No 18
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=78.01 E-value=15 Score=30.34 Aligned_cols=61 Identities=18% Similarity=0.290 Sum_probs=43.6
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC------C----ceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA------P----KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTa------P----k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.|++. .+.|+. +.....|+|.|.++.++.-..-..+ | .-|.|-|+.--|+||+...|.|
T Consensus 11 ~v~l~~T-RvI~~~---~~~~~sv~l~N~~~~p~LvQsWvd~~~~~~~p~~~~~pFivtPPlfrl~~~~~~~lRI 81 (233)
T PRK15246 11 AVNIDRT-RIIFAS---DDVAQSLTLSNDNTTPMLLQVWTDAGNIDASPDNSKTPLVALPPVFKMQPGELRTLRL 81 (233)
T ss_pred EEEECce-EEEEcC---CCceEEEEEEeCCCCcEEEEEEEeCCCCccCcccccCcEEECCcceEECCCCceEEEE
Confidence 4788885 788864 3346799999999886443331111 1 1499999999999999888765
No 19
>PRK15299 fimbrial chaperone protein StiB; Provisional
Probab=77.57 E-value=16 Score=29.79 Aligned_cols=62 Identities=10% Similarity=0.152 Sum_probs=44.5
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCC--------CceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTA--------PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTa--------Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.|+|. .+.|... +-...|+|+|.++.++.-..-... ..-|.|-|+.--|+||+...|.|
T Consensus 22 a~i~l~~T-Rvi~~~~---~~~~sl~l~N~~~~p~lvQsWv~~~~~~~~~~~~pfivtPPl~rl~p~~~q~lRI 91 (227)
T PRK15299 22 AGINIGTT-RVIFHGD---AKDASISISNSDNVPYLIQSWAQSISETGASGDAPFMVTPPLFRLNGGQKNVLRI 91 (227)
T ss_pred eeEEECce-EEEEeCC---CcEEEEEEEeCCCCcEEEEEEeecCCCCCCcCCCCEEEcCCeEEECCCCccEEEE
Confidence 35889996 7777633 345799999998876544432211 12399999999999999988775
No 20
>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=76.92 E-value=6.7 Score=27.71 Aligned_cols=50 Identities=30% Similarity=0.533 Sum_probs=33.5
Q ss_pred CCCeeEEEEEEECCCCCeEE-EEEeeCCCcee--EecCC-cceeCCCCEEEEEc
Q 032412 91 PGKQTRSAVRLKNTSKSHVA-FKFQTTAPKSC--YMRPP-GGVLAPGDSIIATG 140 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~VA-FKVKTTaPk~Y--~VRP~-~GiI~Pgesv~ItV 140 (141)
.+...+-.+...|.+..++. |+++-..|+.| .+.|. ...|+|+..+...+
T Consensus 22 ~~~~~~i~~~f~N~s~~~it~f~~q~avpk~~~l~l~~~s~~~i~p~~~i~Q~~ 75 (115)
T PF02883_consen 22 NPNQGRIKLTFGNKSSQPITNFSFQAAVPKSFKLQLQPPSSSTIPPGQQITQVI 75 (115)
T ss_dssp ETTEEEEEEEEEE-SSS-BEEEEEEEEEBTTSEEEEEESS-SSB-TTTEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCcceEEEEEEeccccEEEEeCCCCCeeCCCCeEEEEE
Confidence 35678889999999999776 77776666655 45566 56899988776443
No 21
>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=76.30 E-value=3.6 Score=27.54 Aligned_cols=50 Identities=22% Similarity=0.417 Sum_probs=28.9
Q ss_pred CCCeeEEEEEEECCCCCeE-EEEEeeCCCceeE--ecCCc-ceeCCCCEEEEEc
Q 032412 91 PGKQTRSAVRLKNTSKSHV-AFKFQTTAPKSCY--MRPPG-GVLAPGDSIIATG 140 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~V-AFKVKTTaPk~Y~--VRP~~-GiI~Pgesv~ItV 140 (141)
+|+.....++++|.....+ ..++.-..|.-+. +.|.. +-|+||+++.+++
T Consensus 3 ~G~~~~~~~tv~N~g~~~~~~v~~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~ 56 (78)
T PF10633_consen 3 PGETVTVTLTVTNTGTAPLTNVSLSLSLPEGWTVSASPASVPSLPPGESVTVTF 56 (78)
T ss_dssp TTEEEEEEEEEE--SSS-BSS-EEEEE--TTSE---EEEEE--B-TTSEEEEEE
T ss_pred CCCEEEEEEEEEECCCCceeeEEEEEeCCCCccccCCccccccCCCCCEEEEEE
Confidence 5778888999999987653 3555555688777 44433 3699999888764
No 22
>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=75.41 E-value=11 Score=25.98 Aligned_cols=37 Identities=22% Similarity=0.326 Sum_probs=27.1
Q ss_pred EEEEEEECCCCCeEEEEEee-----CCCceeEecCCcceeCCCCEEEEE
Q 032412 96 RSAVRLKNTSKSHVAFKFQT-----TAPKSCYMRPPGGVLAPGDSIIAT 139 (141)
Q Consensus 96 ~s~L~LtN~S~~~VAFKVKT-----TaPk~Y~VRP~~GiI~Pgesv~It 139 (141)
.-.|+|.|.....+.|.|.. ..|..|.| .||+++.+.
T Consensus 21 ~l~l~l~N~g~~~~~~~v~~~~y~~~~~~~~~v-------~ag~~~~~~ 62 (89)
T PF05506_consen 21 NLRLTLSNPGSAAVTFTVYDNAYGGGGPWTYTV-------AAGQTVSLT 62 (89)
T ss_pred EEEEEEEeCCCCcEEEEEEeCCcCCCCCEEEEE-------CCCCEEEEE
Confidence 55899999999999999987 34455554 456666554
No 23
>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=74.58 E-value=16 Score=25.43 Aligned_cols=51 Identities=20% Similarity=0.219 Sum_probs=29.3
Q ss_pred CCCCCeeEEEEEEECCCCCeEE-----EEEeeCCCceeEecC---------CcceeCCCCEEEEE
Q 032412 89 YEPGKQTRSAVRLKNTSKSHVA-----FKFQTTAPKSCYMRP---------PGGVLAPGDSIIAT 139 (141)
Q Consensus 89 ~e~~k~v~s~L~LtN~S~~~VA-----FKVKTTaPk~Y~VRP---------~~GiI~Pgesv~It 139 (141)
.+.++-+.-.++|+|.+++.+. |++.+.+...|.... ..+-|.||+++...
T Consensus 32 ~~g~~fv~v~v~v~N~~~~~~~~~~~~f~l~d~~g~~~~~~~~~~~~~~~~~~~~i~pG~~~~g~ 96 (123)
T PF11611_consen 32 KEGNKFVVVDVTVKNNGDEPLDFSPSDFKLYDSDGNKYDPDFSASSNDNDLFSETIKPGESVTGK 96 (123)
T ss_dssp ---SEEEEEEEEEEE-SSS-EEEEGGGEEEE-TT--B--EEE-CCCTTTB--EEEE-TT-EEEEE
T ss_pred CCCCEEEEEEEEEEECCCCcEEecccceEEEeCCCCEEcccccchhccccccccEECCCCEEEEE
Confidence 3455667789999999999776 788877767766443 45789999988754
No 24
>PRK15192 fimbrial chaperone BcfG; Provisional
Probab=74.28 E-value=19 Score=29.85 Aligned_cols=59 Identities=12% Similarity=0.120 Sum_probs=43.3
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeC----------C----CceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT----------A----PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTT----------a----Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.|+.. .+.|+. +.....++|.|.++.+ |=|++- . ..-|.|-|+.--|+||+...+.|
T Consensus 23 gi~l~~T-RvIy~~---~~k~~sv~l~N~~~~p--~LvQswv~~~~~w~~~~~~~~~~PFivtPPlfrl~p~~~~~lRI 95 (234)
T PRK15192 23 GVVIGGT-RFIYHA---GAPALSVPVSNHSEAS--WLIDTHILPGGRWPGTKNEGNITPFVVTPPLFMLSARQENSMRV 95 (234)
T ss_pred eEEeCce-EEEEcC---CCceEEEEEEeCCCCc--EEEEEEeccCccccccCCccccCCEEEcCCeEEECCCCceEEEE
Confidence 4778885 777764 3345799999999885 555541 1 11399999999999999988875
No 25
>PRK15208 long polar fimbrial chaperone LpfB; Provisional
Probab=74.01 E-value=24 Score=28.79 Aligned_cols=61 Identities=13% Similarity=0.209 Sum_probs=42.7
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC--eEEEEEeeC-CCc---eeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS--HVAFKFQTT-APK---SCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~--~VAFKVKTT-aPk---~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.++|. .+.|... +....+.|+|.+++ .+.+..-.. ..+ -|.|-|+.--|+||+...|.|
T Consensus 22 gv~l~~T-RvI~~~~---~~~~si~i~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPl~rl~p~~~q~lRI 88 (228)
T PRK15208 22 GVALSST-RVIYDGS---KKEASLTVNNKSKTEEFLIQSWIDDANGNKKTPFIITPPLFKLDPTKNNVLRI 88 (228)
T ss_pred cEEeCce-EEEEeCC---CceEEEEEEeCCCCCcEEEEEEEECCCCCccCCEEECCCeEEECCCCccEEEE
Confidence 5889995 7778643 34679999999864 333332211 111 299999999999999888765
No 26
>PF00927 Transglut_C: Transglutaminase family, C-terminal ig like domain; InterPro: IPR008958 Synonym(s): Protein-glutamine gamma-glutamyltransferase, Fibrinoligase, TGase Transglutaminases catalyse the post-translational modification of proteins at glutamine residues, with formation of isopeptide bonds. Members of the transglutaminase family usually have three domains: N-terminal (IPR001102 from INTERPRO), middle (IPR013808 from INTERPRO) and C-terminal. The middle domain is usually well conserved, but family members can display major differences in their N- and C-terminal domains, although their overall structure is conserved []. This entry represents the C-terminal domain found in transglutaminases, which consists of an immunoglobulin-like beta-sandwich consisting of seven strands in two sheets with a Greek key topology. The best known transglutaminase is blood coagulation factor XIII, a plasma tetrameric protein composed of two catalytic A subunits and two non-catalytic B subunits. Factor XIII is responsible for cross-linking fibrin chains, thus stabilising the fibrin clot. Protein-glutamine gamma-glutamyltransferases (2.3.2.13 from EC) are calcium-dependent enzymes that catalyse the cross-linking of proteins by promoting the formation of isopeptide bonds between the gamma-carboxyl group of a glutamine in one polypeptide chain and the epsilon-amino group of a lysine in a second polypeptide chain. TGases also catalyse the conjugation of polyamines to proteins [, ].; GO: 0003810 protein-glutamine gamma-glutamyltransferase activity, 0018149 peptide cross-linking; PDB: 2XZZ_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B 1L9N_B ....
Probab=73.31 E-value=12 Score=26.30 Aligned_cols=50 Identities=20% Similarity=0.191 Sum_probs=36.1
Q ss_pred CCCeeEEEEEEECCCCCe--------EEEEEeeCCCc--eeEecCCcceeCCCCEEEEEc
Q 032412 91 PGKQTRSAVRLKNTSKSH--------VAFKFQTTAPK--SCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~--------VAFKVKTTaPk--~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|+.....++++|+++.. .++-|-=|.-. .+..+-..+-|.||++..+++
T Consensus 13 vG~d~~v~v~~~N~~~~~l~~v~~~l~~~~v~ytG~~~~~~~~~~~~~~l~p~~~~~~~~ 72 (107)
T PF00927_consen 13 VGQDFTVSVSFTNPSSEPLRNVSLNLCAFTVEYTGLTRDQFKKEKFEVTLKPGETKSVEV 72 (107)
T ss_dssp TTSEEEEEEEEEE-SSS-EECEEEEEEEEEEECTTTEEEEEEEEEEEEEE-TTEEEEEEE
T ss_pred CCCCEEEEEEEEeCCcCccccceeEEEEEEEEECCcccccEeEEEcceeeCCCCEEEEEE
Confidence 588899999999999997 55666544443 256778888899999988765
No 27
>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=68.28 E-value=5.4 Score=31.51 Aligned_cols=30 Identities=30% Similarity=0.452 Sum_probs=24.3
Q ss_pred EEEeeCCCceeEecCCcce--eCCCCEEEEEc
Q 032412 111 FKFQTTAPKSCYMRPPGGV--LAPGDSIIATG 140 (141)
Q Consensus 111 FKVKTTaPk~Y~VRP~~Gi--I~Pgesv~ItV 140 (141)
|||.-=+-+.|++.|.-++ |.||+++.|.+
T Consensus 69 f~i~hinGDl~kl~Pt~~F~gl~~Ges~~I~~ 100 (164)
T PF03173_consen 69 FKITHINGDLHKLTPTAGFKGLAPGESLEIPF 100 (164)
T ss_dssp EEEEE-STTEEEEEE-TT---B-TTEEEEEEE
T ss_pred eEEEEEcCeEEEEeECCCCCccCCCCEEEEEE
Confidence 9999999999999999998 89999999875
No 28
>PRK15290 lfpB fimbrial chaperone protein; Provisional
Probab=66.03 E-value=40 Score=28.05 Aligned_cols=62 Identities=8% Similarity=0.115 Sum_probs=44.3
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEeeC--C--Cc---eeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQTT--A--PK---SCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~-~VAFKVKTT--a--Pk---~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.+++. .+.|+. +.-...++|+|.+++ ++.-..-.. + .+ -|-|-|+.--|+||+...|.|
T Consensus 37 Agv~l~~T-RvIy~~---~~~~~sl~v~N~~~~~p~LvQsWvd~~~~~~~~~~pFivtPPlfrl~p~~~q~lRI 106 (243)
T PRK15290 37 AGVVIGGT-RVVYLS---NNPDKSISVFSKEEKIPYLIQAWVDPFNKEDKSKAPFTVIPPVSRLEPSQEKVLRI 106 (243)
T ss_pred EeEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcccCCEEEcCCeEEECCCCceEEEE
Confidence 35888885 888863 334569999999864 555444332 1 11 399999999999999988775
No 29
>PRK15195 fimbrial chaperone protein FimC; Provisional
Probab=65.42 E-value=39 Score=27.72 Aligned_cols=62 Identities=15% Similarity=0.268 Sum_probs=42.6
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCC--eEEEE-EeeCC---CceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS--HVAFK-FQTTA---PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~--~VAFK-VKTTa---Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.|++. .+.|... .....++|+|.+++ .+... |.... ..-|.|-|+.--|+||+...|.|
T Consensus 25 Agi~i~~T-RvIy~~~---~~~~si~l~N~~~~~~~LvQsWv~~~~~~~~~pfivtPPlfrl~p~~~q~lRI 92 (229)
T PRK15195 25 GGIALGAT-RVIYPAD---AKQTSLAIRNSHTNERYLVNSWIENSSGVKEKSFIVTPPLFVSEPKSENTLRI 92 (229)
T ss_pred eeEEECCe-EEEEeCC---CceEEEEEEeCCCCccEEEEEEecCCCCCccCCEEEcCCeEEECCCCceEEEE
Confidence 35888986 7777633 23479999999865 33332 11111 12499999999999999988875
No 30
>PRK15218 fimbrial chaperone protein PegB; Provisional
Probab=65.02 E-value=48 Score=27.29 Aligned_cols=59 Identities=17% Similarity=0.169 Sum_probs=41.5
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CCC----------ceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TAP----------KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKT--TaP----------k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.++-. .+.|+. +.-...++|.|.++.+ |-|++ .+. .-|-|.|+.-.|+||+...+.|
T Consensus 19 gi~l~~T-RvIy~~---~~~~~si~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI 89 (226)
T PRK15218 19 GIYIYGT-RIIYPA---QKKDITVQLMNDGKRS--SLIQAWIDNGDTSLPPEKLQVPFIMTPPVIRVAANSGQQLKI 89 (226)
T ss_pred eEEeCce-EEEEcC---CCcEEEEEEEcCCCCc--EEEEEEEeCCCCCCCcccccCCEEECCCeEEECCCCceEEEE
Confidence 4667764 677763 2345689999999885 44443 111 1499999999999999888765
No 31
>PRK15224 pili assembly chaperone protein SafB; Provisional
Probab=64.93 E-value=41 Score=28.00 Aligned_cols=59 Identities=10% Similarity=0.120 Sum_probs=42.1
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee----CCC---ceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT----TAP---KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKT----TaP---k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.|+-. .+.|+. +.-...|+|.|.++.+ |-|++ .+. .-|.|.|+.--|+|++...|.|
T Consensus 29 gv~l~~T-RvIy~~---~~k~~sl~v~N~~~~p--yLvQsWvd~~~~~~~~pFivtPPlfRlep~~~~~lRI 94 (237)
T PRK15224 29 SVKLGAT-RVIYHA---GTAGATLSVSNPQNYP--ILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRI 94 (237)
T ss_pred EEEeCce-EEEEeC---CCcEEEEEEEcCCCCc--EEEEEEEeCCCCCccCCEEECCCeEEECCCCceEEEE
Confidence 4666664 677763 2345689999998875 55554 111 1399999999999999888765
No 32
>PRK15254 fimbrial chaperone protein StdC; Provisional
Probab=64.83 E-value=45 Score=27.69 Aligned_cols=61 Identities=15% Similarity=0.149 Sum_probs=42.7
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEee--CCC---ceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT--TAP---KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~-~VAFKVKT--TaP---k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.|++. .+.|+. +.....++|.|.+++ ++.-..-. ... .-|.|-|+.--|+||+...|.|
T Consensus 17 ~v~l~~T-RvIy~~---~~~~~sv~v~N~~~~~p~LvQsWv~d~~~~~~~pFivtPPlfrl~p~~~~~lRI 83 (239)
T PRK15254 17 AVNVDRT-RIIMDA---PQKTVAITLNNDDKTTPFLAQSWVTDADGVRTDALMALPPLQRIDAGQKSQVRI 83 (239)
T ss_pred eEEECce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEEecCCCCCcCCEEEcCCeEEECCCCceEEEE
Confidence 4788885 778863 334679999999864 44333211 111 2499999999999999988876
No 33
>PRK15188 fimbrial chaperone protein BcfB; Provisional
Probab=64.81 E-value=46 Score=27.51 Aligned_cols=62 Identities=16% Similarity=0.226 Sum_probs=43.1
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCC-eEE-EE-EeeCCC---ceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVA-FK-FQTTAP---KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~-~VA-FK-VKTTaP---k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--|.|++. .+.|+. +.-...++|+|.+++ +.. .. |...+. .-|.|-|+.--|+||+...+.|
T Consensus 27 Agi~l~~T-RvIy~~---~~~~~sv~i~N~~~~~p~LvQsWv~~~~~~~~~pFivtPPlfrl~~~~~~~lRI 94 (228)
T PRK15188 27 GGIALGAT-RVIYPQ---GSKQTSLPIINSSASNVFLIQSWVANADGSRSTDFIITPPLFVIQPKKENILRI 94 (228)
T ss_pred ceEEECcE-EEEEcC---CCceEEEEEEeCCCCccEEEEEEEecCCCCccCCEEEcCCeEEECCCCceEEEE
Confidence 45888885 777764 234679999999865 333 22 211111 2399999999999999988775
No 34
>PF06030 DUF916: Bacterial protein of unknown function (DUF916); InterPro: IPR010317 This family consists of putative cell surface proteins, from Firmicutes, of unknown function.
Probab=62.58 E-value=21 Score=26.59 Aligned_cols=31 Identities=23% Similarity=0.431 Sum_probs=26.0
Q ss_pred ceEeeCCCCCeeEEEEEEECCCCCeEEEEEe
Q 032412 84 NLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQ 114 (141)
Q Consensus 84 eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVK 114 (141)
...+..++|....-.|+|+|.+++.+.|+|.
T Consensus 18 YFdL~~~P~q~~~l~v~i~N~s~~~~tv~v~ 48 (121)
T PF06030_consen 18 YFDLKVKPGQKQTLEVRITNNSDKEITVKVS 48 (121)
T ss_pred eEEEEeCCCCEEEEEEEEEeCCCCCEEEEEE
Confidence 4445567888888999999999999999985
No 35
>PF02753 PapD_C: Pili assembly chaperone PapD, C-terminal domain; InterPro: IPR016148 Most Gram-negative bacteria possess a supramolecular structure - the pili - on their surface, which mediates attachment to specific receptors. Many interactive subunits are required to assemble pili, but their assembly only takes place after translocation across the cytoplasmic membrane. Periplasmic chaperones assist pili assembly by binding to the subunits, thereby preventing premature aggregation [, ]. Pili chaperones are structurally, and possibly evolutionarily, related to the immunoglobulin superfamily [, ]: they contain two globular domains, with a topology identical to an immunoglobulin fold. This entry represents the C-terminal domain of pili assembly chaperone, and has a beta-sandwich fold consisting of eight strands in two sheets with a Greek key topology.; GO: 0007047 cellular cell wall organization, 0030288 outer membrane-bounded periplasmic space; PDB: 2UY7_C 2UY6_A 2W07_A 3GFU_A 3F65_F 3F6L_A 3F6I_A 3GEW_B 1PDK_A 2XG4_A ....
Probab=58.98 E-value=18 Score=23.46 Aligned_cols=42 Identities=17% Similarity=0.098 Sum_probs=26.2
Q ss_pred EEEECCCCCeEEEE-EeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 99 VRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 99 L~LtN~S~~~VAFK-VKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
|+++|++.-+|.|- ++....++=.--...+.|+|.++..+.+
T Consensus 1 L~v~NpTPy~vtl~~~~~~~~~~~~~~~~~~mi~P~s~~~~~~ 43 (68)
T PF02753_consen 1 LTVKNPTPYYVTLSSLKLNGGGKKKKIDNSGMIAPFSSKSFPL 43 (68)
T ss_dssp EEEEE-SSS-EEEEEEEETHHHCCEECCCETEE-TTEEEEEET
T ss_pred CEEECCCCcEEEEEeeeecccccccccCCceEECCCCceEEec
Confidence 68999999999986 4444333322334444999999988765
No 36
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=56.65 E-value=67 Score=26.35 Aligned_cols=62 Identities=15% Similarity=0.201 Sum_probs=46.7
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeC---C----CceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTT---A----PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTT---a----Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
--+.|++. .+.|+.+ .....++|.|..+.++.-.+..- . ..-|-|-|+.-.|+||+.-.|.|
T Consensus 27 A~v~i~~T-RiI~~~~---~k~~sl~l~N~~~~p~LvQ~wvd~~~~~~~~~~pfvvtPPv~rl~p~~~q~vRi 95 (235)
T COG3121 27 AGVVLGGT-RIIYPAG---DKETSLTLRNDGNQPYLVQSWVDDGLEPEKSTVPFVVTPPVFRLEPGQEQQLRI 95 (235)
T ss_pred eeEEecce-EEEEeCC---CceeEEEEEcCCCCCEEEEEEEcCCCCCccccCCEEecCCeEEECCCCccEEEE
Confidence 35778885 7777643 34579999998888888886543 2 33499999999999999887765
No 37
>PRK15233 putative fimbrial chaperone protein SefB; Provisional
Probab=55.42 E-value=73 Score=26.74 Aligned_cols=59 Identities=14% Similarity=0.149 Sum_probs=40.9
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee----CC---CceeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT----TA---PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKT----Ta---Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.++-. .+.|+.. .....|+|.|.++.+ |-|++ .+ ..-|.|.|+.--|+||+...+.|
T Consensus 41 gi~l~~T-RvIy~~~---~~~~sl~i~N~~~~p--~LvQsWvd~~~~~~~~pFiVtPPLfRLep~~~~~lRI 106 (246)
T PRK15233 41 GLRLGTT-RVIYKED---APSTSFWIMNEKEYP--ILVQTQVYNDDKSSKAPFIVTPPILKVESNARTRLKV 106 (246)
T ss_pred eEEeCce-EEEEeCC---CcEEEEEEEcCCCCc--EEEEEEEecCCCCccCCEEECCCeEEECCCCceEEEE
Confidence 3666664 6666532 245789999987765 44443 11 12399999999999999888765
No 38
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=55.23 E-value=36 Score=23.75 Aligned_cols=51 Identities=20% Similarity=0.342 Sum_probs=31.6
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 77 L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
..++|. ++..+ .|+.+ .|.++|.....-.|-+.. +.+. ..|.||++..+++
T Consensus 30 ~~f~P~-~i~v~--~G~~v--~l~~~N~~~~~h~~~i~~-----~~~~---~~l~~g~~~~~~f 80 (104)
T PF13473_consen 30 FGFSPS-TITVK--AGQPV--TLTFTNNDSRPHEFVIPD-----LGIS---KVLPPGETATVTF 80 (104)
T ss_dssp EEEES--EEEEE--TTCEE--EEEEEE-SSS-EEEEEGG-----GTEE---EEE-TT-EEEEEE
T ss_pred CeEecC-EEEEc--CCCeE--EEEEEECCCCcEEEEECC-----CceE---EEECCCCEEEEEE
Confidence 378896 66654 66655 488999998888887766 1111 4588899887765
No 39
>PRK15253 putative fimbrial assembly chaperone protein StcB; Provisional
Probab=54.70 E-value=87 Score=26.06 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=42.9
Q ss_pred CcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEee--CC------C----ceeEecCCcceeCCCCEEEEEc
Q 032412 75 RRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQT--TA------P----KSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 75 ~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKT--Ta------P----k~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.-|.++-. .+.|+.. .....++|.|.++.+ |=|++ .+ | .-|.|-|+.--|+|++...|.|
T Consensus 33 Agv~l~~T-RvIy~~~---~k~~sv~i~N~~~~p--yLvQsWvd~~~~~~~~~~~~~pFivtPPlfRl~p~~~~~lRI 104 (242)
T PRK15253 33 AGIVIYGT-RVIYPAE---KKEVVVQLVNQGEQA--SLVQSWIDDGNTSLPPEKIQVPFMLTPPVARVAAESGQQIKI 104 (242)
T ss_pred eeEEeCce-EEEEeCC---CceEEEEEEcCCCCc--EEEEEEEECCCCCCCcccccCCEEECCCeEEECCCCceEEEE
Confidence 45777774 7777632 345689999999875 44443 11 1 1499999999999999888765
No 40
>PF04744 Monooxygenase_B: Monooxygenase subunit B protein; InterPro: IPR006833 Ammonia monooxygenase and the particulate methane monooxygenase are both integral membrane proteins, occurring in ammonia oxidisers and methanotrophs respectively, which are thought to be evolutionarily related []. These enzymes have a relatively wide substrate specificity and can catalyse the oxidation of a range of substrates including ammonia, methane, halogenated hydrocarbons and aromatic molecules []. These enzymes are composed of 3 subunits - A (IPR003393 from INTERPRO), B (IPR006833 from INTERPRO) and C (IPR006980 from INTERPRO) - and contain various metal centres, including copper. Particulate methane monooxygenase from Methylococcus capsulatus str. Bath is an ABC homotrimer, which contains mononuclear and dinuclear copper metal centres, and a third metal centre containing a metal ion whose identity in vivo is not certain[]. The soluble regions of these enzymes derive primarily from the B subunit. This subunit forms two antiparallel beta-barrel-like structures and contains the mono- and di- nuclear copper metal centres [].; PDB: 3CHX_E 3RFR_A 3RGB_A 1YEW_A.
Probab=54.33 E-value=63 Score=29.19 Aligned_cols=64 Identities=17% Similarity=0.253 Sum_probs=40.7
Q ss_pred CCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeE----------------------ecCCcceeC
Q 032412 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCY----------------------MRPPGGVLA 131 (141)
Q Consensus 74 ~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~----------------------VRP~~GiI~ 131 (141)
...+.++-. .-.|.. +|+..+..++++|.++++|-.+==+|+.-+|. |.|+ +=|+
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 334777774 666764 57899999999999999988774444544443 3333 3489
Q ss_pred CCCEEEEEc
Q 032412 132 PGDSIIATG 140 (141)
Q Consensus 132 Pgesv~ItV 140 (141)
|||+..++|
T Consensus 323 PGETrtl~V 331 (381)
T PF04744_consen 323 PGETRTLTV 331 (381)
T ss_dssp TT-EEEEEE
T ss_pred CCceEEEEE
Confidence 999999887
No 41
>COG3354 FlaG Putative archaeal flagellar protein G [Cell motility and secretion]
Probab=53.92 E-value=44 Score=26.68 Aligned_cols=67 Identities=21% Similarity=0.183 Sum_probs=48.6
Q ss_pred CCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEE-----------EeeCCCceeEecCCcce-eCCCCEE-EEE
Q 032412 73 PRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFK-----------FQTTAPKSCYMRPPGGV-LAPGDSI-IAT 139 (141)
Q Consensus 73 ~~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFK-----------VKTTaPk~Y~VRP~~Gi-I~Pgesv-~It 139 (141)
..-.+.=||. .+...+.. ...+-++-++|+.++.++|- +.+-+.-.|..-+..++ |.||+-. .|+
T Consensus 50 ~dFaIIndPg-~i~~~~~~-g~~t~t~yiKNtG~~~~~fd~~sitVliDG~iv~~a~~~~~~~~gs~i~l~PG~Vg~ev~ 127 (154)
T COG3354 50 TDFAIINDPG-QIPYVGTD-GPYTYTFYIKNTGSDSIAFDNTSITVLIDGNIVTPAYVTFTSVNGSSIRLSPGQVGREVT 127 (154)
T ss_pred ccEEEecCCC-CCccccCC-CceEEEEEEecCCCcccccCCCeEEEEEcCcEeccceEEEEecCCCeeEecCCceeeEEE
Confidence 3334556775 55554432 34577899999999999995 56667777888899999 9999977 666
Q ss_pred cC
Q 032412 140 GN 141 (141)
Q Consensus 140 V~ 141 (141)
||
T Consensus 128 vn 129 (154)
T COG3354 128 VN 129 (154)
T ss_pred ec
Confidence 65
No 42
>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=53.61 E-value=31 Score=24.38 Aligned_cols=45 Identities=22% Similarity=0.372 Sum_probs=29.6
Q ss_pred eEEEEEEECCCCCeEE-EEEeeCC-----------------CceeEecCCc--ceeCCCCEEEEE
Q 032412 95 TRSAVRLKNTSKSHVA-FKFQTTA-----------------PKSCYMRPPG--GVLAPGDSIIAT 139 (141)
Q Consensus 95 v~s~L~LtN~S~~~VA-FKVKTTa-----------------Pk~Y~VRP~~--GiI~Pgesv~It 139 (141)
....|+|+|.++..|. ++|+=+- -..|.|+|.. +.|+||+++.+-
T Consensus 15 f~~~v~v~N~~~~~i~~W~v~~~~~~~~~i~~~Wna~~s~~g~~~~v~~~~wn~~i~~G~s~~~G 79 (101)
T PF00553_consen 15 FQGEVTVTNNGSSPINGWTVTFTFPSGQTITSSWNATVSQSGNTVTVTNPSWNGTIAPGGSVTFG 79 (101)
T ss_dssp EEEEEEEEESSSSTEESEEEEEEESTTEEEEEEESCEEEEETTEEEEEESSTCSEEEESEEEEEE
T ss_pred eEEEEEEEECCCCccCCEEEEEEeCCCCEEeeeeccEEEecCCEEEEEcCCcCcccCCCCeEEEE
Confidence 4567888888877542 3332222 2458888764 799999998764
No 43
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=50.51 E-value=1.2e+02 Score=23.68 Aligned_cols=57 Identities=18% Similarity=0.303 Sum_probs=37.1
Q ss_pred ceEeeCCC----CCeeEEEEEEECCCCCeEE-EEEeeCC-CceeEec--CCcceeCCCCEEEEEc
Q 032412 84 NLYFPYEP----GKQTRSAVRLKNTSKSHVA-FKFQTTA-PKSCYMR--PPGGVLAPGDSIIATG 140 (141)
Q Consensus 84 eL~F~~e~----~k~v~s~L~LtN~S~~~VA-FKVKTTa-Pk~Y~VR--P~~GiI~Pgesv~ItV 140 (141)
+..|.+.+ ...+.-.|+++|.++..+. -+|.... +.--+|+ |..+.|+||+++.+.+
T Consensus 72 ~Y~F~RqP~~~s~~mvsIql~ftN~s~~~i~~I~i~~k~l~~g~~i~~F~~I~~L~pg~s~t~~l 136 (145)
T PF14796_consen 72 EYRFSRQPSLYSPSMVSIQLTFTNNSDEPIKNIHIGEKKLPAGMRIHEFPEIESLEPGASVTVSL 136 (145)
T ss_pred EEEEccCCcCCCCCcEEEEEEEEecCCCeecceEECCCCCCCCcEeeccCcccccCCCCeEEEEE
Confidence 34566643 3567788999999998543 2232222 2233444 8889999999988764
No 44
>smart00637 CBD_II CBD_II domain.
Probab=49.33 E-value=70 Score=21.84 Aligned_cols=21 Identities=24% Similarity=0.349 Sum_probs=16.3
Q ss_pred ceeEecCCc--ceeCCCCEEEEE
Q 032412 119 KSCYMRPPG--GVLAPGDSIIAT 139 (141)
Q Consensus 119 k~Y~VRP~~--GiI~Pgesv~It 139 (141)
..|.++|.. +.|+||+++.+-
T Consensus 50 ~~~~~~~~~wn~~i~~G~s~~~g 72 (92)
T smart00637 50 GHVTATNASWNGTIAPGGSVSFG 72 (92)
T ss_pred CEEEEecCccccccCCCCEEEEE
Confidence 368888644 899999988764
No 45
>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=48.53 E-value=27 Score=22.51 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=15.2
Q ss_pred CCCeeEEEEEEECCCCCeEEEEE
Q 032412 91 PGKQTRSAVRLKNTSKSHVAFKF 113 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~VAFKV 113 (141)
.+. +...-++...+...||||+
T Consensus 50 ~~~-i~~v~~~~~~~~~~VA~K~ 71 (71)
T PF08277_consen 50 YGS-ISTVQKTDSSSGNKVAFKI 71 (71)
T ss_pred cCC-EEEEEEeecCCCeEEEEEC
Confidence 343 5556666677777999996
No 46
>PRK15274 putative periplasmic fimbrial chaperone protein SteC; Provisional
Probab=46.02 E-value=1.4e+02 Score=25.10 Aligned_cols=63 Identities=14% Similarity=0.091 Sum_probs=42.6
Q ss_pred CCcEEecCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEEEee--CC----CceeEecCCcceeCCCCEEEEEc
Q 032412 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFKFQT--TA----PKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 74 ~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~-~VAFKVKT--Ta----Pk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
---|.++-. .+.|+. +.....|+|+|.++. ++.-..-. .+ ..-|.|.|+.--|+||+...|.|
T Consensus 25 ~Agi~l~~T-RvIy~e---~~~~~sv~v~N~~~~~p~LVQsWvdd~~~~~~~~pFivtPPLfRlep~~~q~lRI 94 (257)
T PRK15274 25 HSAIVPDRT-RVIFNG---NENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKV 94 (257)
T ss_pred eeeEEeCce-EEEEeC---CCceEEEEEEeCCCCCcEEEEEEccCCCCCcccCCEEEcCCeEEECCCCceEEEE
Confidence 345777764 777763 234579999999876 44333211 11 01399999999999999888765
No 47
>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=45.16 E-value=1.1e+02 Score=21.57 Aligned_cols=48 Identities=17% Similarity=0.259 Sum_probs=32.1
Q ss_pred CCeeEEEEEEECCCCC--eEEEEEeeCCCceeEecCC-----cceeCCCCEEEEE
Q 032412 92 GKQTRSAVRLKNTSKS--HVAFKFQTTAPKSCYMRPP-----GGVLAPGDSIIAT 139 (141)
Q Consensus 92 ~k~v~s~L~LtN~S~~--~VAFKVKTTaPk~Y~VRP~-----~GiI~Pgesv~It 139 (141)
+...+..+.|+|.++. .+.||+-==+.+-+-|.|. .=.|.+++++.|.
T Consensus 23 ~g~~~~~~~l~N~~~~~~~l~Yrf~WyD~~G~~v~~~~~~w~~~~l~~~~~~~l~ 77 (94)
T PF07233_consen 23 NGLLRAQATLSNKSSKPLTLQYRFYWYDKQGLEVDPEQSPWQSLTLPGGQTVTLS 77 (94)
T ss_dssp CCEEEEEEEEEE-SSS-EEEEEEEEEE-TTS-EE--TT---EEEEE-TT-EEEEE
T ss_pred CCeEEEEEEEEECCCCcEEEEEEEEEECCCCCCcCCCCCCCEEEEEcCCCEEEEE
Confidence 6677899999999988 4899988777788888877 4457778777664
No 48
>PRK15308 putative fimbrial protein TcfA; Provisional
Probab=43.18 E-value=1.8e+02 Score=24.28 Aligned_cols=64 Identities=13% Similarity=0.164 Sum_probs=45.8
Q ss_pred CCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEe---eCCC---------------ceeEecCCcceeCCCCE
Q 032412 74 RRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQ---TTAP---------------KSCYMRPPGGVLAPGDS 135 (141)
Q Consensus 74 ~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVK---TTaP---------------k~Y~VRP~~GiI~Pges 135 (141)
.--|.|.|- .+.+. .+.+....++|.|.++++..++|+ =++| ..-.+-|+.-+|.||++
T Consensus 15 aa~l~V~Pi-~~~i~--a~~~~~~~v~V~N~g~~~~~vqV~v~r~~~PG~~~e~~~~~~~~~~~eLiaSP~~l~L~pg~~ 91 (234)
T PRK15308 15 RANMLVYPM-AAEIG--AGREEATSLFVYSKSDHTQYVRTRIKRIEHPATPQEKEVPAGNDIETGLVVSPEKFALPAGTT 91 (234)
T ss_pred hceEEEEEe-EEEec--CCCcceEEEEEEeCCCCcEEEEEEEEEEcCCCCCCCcccccccCCCCcEEEcCceeEECCCCe
Confidence 335788885 66664 233456799999999998877764 2232 13677899999999999
Q ss_pred EEEEc
Q 032412 136 IIATG 140 (141)
Q Consensus 136 v~ItV 140 (141)
-.|.+
T Consensus 92 q~IRl 96 (234)
T PRK15308 92 RTVRV 96 (234)
T ss_pred EEEEE
Confidence 88764
No 49
>COG3565 Predicted dioxygenase of extradiol dioxygenase family [General function prediction only]
Probab=43.16 E-value=45 Score=26.02 Aligned_cols=45 Identities=27% Similarity=0.349 Sum_probs=33.1
Q ss_pred hhhhhcCCCCCcEEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEE
Q 032412 65 YVARSLLPPRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKF 113 (141)
Q Consensus 65 ~vaksl~p~~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKV 113 (141)
.+|..|--.+-...|.| .+.|.+++|.+ .++-|.-++...+-||-
T Consensus 84 alaerlea~gi~~~i~P--~vRF~Ge~gEq--~TlFl~DP~gN~lEfK~ 128 (138)
T COG3565 84 ALAERLEAAGIPFHIPP--KVRFKGEPGEQ--RTLFLFDPSGNALEFKG 128 (138)
T ss_pred HHHHHHHHcCCCcccCc--eEEecCCccce--EEEEEECCCCCeeeeec
Confidence 34555543443444555 89999999976 57899999999999983
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=41.14 E-value=89 Score=20.49 Aligned_cols=50 Identities=22% Similarity=0.199 Sum_probs=30.8
Q ss_pred CCCeeEEEEEEECCCCC-eEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 91 PGKQTRSAVRLKNTSKS-HVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~-~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|+..+-.++|+|.... .=.|+|+-...+...-.-..+-|+||++..+++
T Consensus 17 ~g~~~~i~~~V~N~G~~~~~~~~v~~~~~~~~~~~~~i~~L~~g~~~~v~~ 67 (101)
T PF07705_consen 17 PGEPVTITVTVKNNGTADAENVTVRLYLDGNSVSTVTIPSLAPGESETVTF 67 (101)
T ss_dssp TTSEEEEEEEEEE-SSS-BEEEEEEEEETTEEEEEEEESEB-TTEEEEEEE
T ss_pred CCCEEEEEEEEEECCCCCCCCEEEEEEECCceeccEEECCcCCCcEEEEEE
Confidence 47788899999999776 345666533333322222237789999887765
No 51
>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=40.68 E-value=89 Score=19.36 Aligned_cols=63 Identities=17% Similarity=0.250 Sum_probs=38.7
Q ss_pred EEecCCCceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEec-CCcc---eeCCCCEEEEEc
Q 032412 77 LRLDPSNNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMR-PPGG---VLAPGDSIIATG 140 (141)
Q Consensus 77 L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VR-P~~G---iI~Pgesv~ItV 140 (141)
|-|-|+ .|.+....+....+.+.-.=-....+-+.+++-......+. +... .+++|+.+.|.+
T Consensus 1 l~iRPE-~i~l~~~~~~~~~g~V~~~~~~G~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~G~~v~l~~ 67 (75)
T PF08402_consen 1 LGIRPE-DIRLSPEGENRLPGTVVSVEFLGSETRYTVRLEGGEELVVRVPNSQRDSPLEPGDEVRLSW 67 (75)
T ss_dssp EEE-GG-GEEEESSTTTEEEEEEEEEEEESSEEEEEEEETTSSEEEEEEESSG-TTT--TTSEEEEEE
T ss_pred CEECcc-eeEEECCCCCeEEEEEEEEEECCCEEEEEEEECCCCEEEEEecCccccCCCCCCCEEEEEE
Confidence 346674 66664222336666666665666677777888777774444 4444 689999999875
No 52
>TIGR02745 ccoG_rdxA_fixG cytochrome c oxidase accessory protein FixG. Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.
Probab=40.62 E-value=1.5e+02 Score=26.79 Aligned_cols=64 Identities=9% Similarity=0.119 Sum_probs=40.9
Q ss_pred EEecCCC-ceEeeCCCCC-eeEEEEEEECCCCCeEEEEEeeCCCceeEecC--CcceeCCCCEEEEEc
Q 032412 77 LRLDPSN-NLYFPYEPGK-QTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRP--PGGVLAPGDSIIATG 140 (141)
Q Consensus 77 L~IdP~~-eL~F~~e~~k-~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP--~~GiI~Pgesv~ItV 140 (141)
|.|.... .|+...+.|. +-...++|.|++.++..|.++........+.- ..=.|+||+...+.|
T Consensus 328 ~~v~r~r~~l~~~~~~g~i~N~Y~~~i~Nk~~~~~~~~l~v~g~~~~~~~~~~~~i~v~~g~~~~~~v 395 (434)
T TIGR02745 328 LNVLRDRNLLYVRNSDGVVENTYTLKILNKTEQPHEYYLSVLGLPGIKIEGPGAPIHVKAGEKVKLPV 395 (434)
T ss_pred EEEEecCCcceEECCCCcEEEEEEEEEEECCCCCEEEEEEEecCCCcEEEcCCceEEECCCCEEEEEE
Confidence 4444433 3555545443 44589999999999888888866554444432 234688999876554
No 53
>PRK06655 flgD flagellar basal body rod modification protein; Reviewed
Probab=39.23 E-value=1.5e+02 Score=24.40 Aligned_cols=79 Identities=14% Similarity=0.193 Sum_probs=47.1
Q ss_pred chhhhhhhcCCCCCcEEecCCCceEeeCCCCCee-EEEEEEECCCCCeEE-EEEeeCCCceeEe----cCCcceeCCCCE
Q 032412 62 TVSYVARSLLPPRRRLRLDPSNNLYFPYEPGKQT-RSAVRLKNTSKSHVA-FKFQTTAPKSCYM----RPPGGVLAPGDS 135 (141)
Q Consensus 62 ~~~~vaksl~p~~~~L~IdP~~eL~F~~e~~k~v-~s~L~LtN~S~~~VA-FKVKTTaPk~Y~V----RP~~GiI~Pges 135 (141)
.++.|.|..+-.+..+.++......|.+.+.... ...|+|+|...+.|. +.+....++.+.+ +...|-..|...
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 3444556655566777777644666766655433 578999998877764 6665555666554 344454444443
Q ss_pred EEEEc
Q 032412 136 IIATG 140 (141)
Q Consensus 136 v~ItV 140 (141)
..+.|
T Consensus 172 Yt~~V 176 (225)
T PRK06655 172 YTIKA 176 (225)
T ss_pred EEEEE
Confidence 44443
No 54
>PRK15285 putative fimbrial chaperone protein StfD; Provisional
Probab=37.83 E-value=2.3e+02 Score=23.74 Aligned_cols=61 Identities=16% Similarity=0.141 Sum_probs=40.3
Q ss_pred cEEecCCCceEeeCCCCCeeEEEEEEECCCCC-eEEEE--EeeCCCc----eeEecCCcceeCCCCEEEEEc
Q 032412 76 RLRLDPSNNLYFPYEPGKQTRSAVRLKNTSKS-HVAFK--FQTTAPK----SCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 76 ~L~IdP~~eL~F~~e~~k~v~s~L~LtN~S~~-~VAFK--VKTTaPk----~Y~VRP~~GiI~Pgesv~ItV 140 (141)
-|.++-. .+.|+. ......++|+|.++. ++.-. |...+.+ -|.|-|+.--|+||+...|.|
T Consensus 26 gv~l~~T-RVIy~~---~~~~~sv~i~N~~~~~p~LvQsWvd~~~~~~~~~pFiVtPPlfRl~p~~~~~lRI 93 (250)
T PRK15285 26 AIAPDRT-RLVFRG---EDKSISVDLKNANSKLPYLAQSWVEDEKGVKITSPLIVVPPVQRIEPSAIGQVKI 93 (250)
T ss_pred eEEeCcc-EEEEcC---CCceEEEEEEeCCCCCcEEEEEEeeCCCCCcccCCEEEcCCeEEECCCCceEEEE
Confidence 4666664 777763 234568999999865 43322 2212211 399999999999999877765
No 55
>smart00605 CW CW domain.
Probab=36.78 E-value=72 Score=21.99 Aligned_cols=22 Identities=36% Similarity=0.501 Sum_probs=13.4
Q ss_pred EEEEECC-CCCeEEEEEeeCCCc
Q 032412 98 AVRLKNT-SKSHVAFKFQTTAPK 119 (141)
Q Consensus 98 ~L~LtN~-S~~~VAFKVKTTaPk 119 (141)
.++-.+. +...||||+.++.+.
T Consensus 58 ~v~~~~~~~~~~VAfK~~~~~~~ 80 (94)
T smart00605 58 TVKKLSSSSGKKVAFKVSTDQPS 80 (94)
T ss_pred EEEEccCCCCcEEEEEEeCCCCC
Confidence 3333443 456899999865443
No 56
>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=34.98 E-value=1.9e+02 Score=23.01 Aligned_cols=48 Identities=17% Similarity=0.318 Sum_probs=35.3
Q ss_pred CCCeeEEEEEEECCCCCeEEEEEeeCC----CceeEecCC-----cceeCCCCEEEEE
Q 032412 91 PGKQTRSAVRLKNTSKSHVAFKFQTTA----PKSCYMRPP-----GGVLAPGDSIIAT 139 (141)
Q Consensus 91 ~~k~v~s~L~LtN~S~~~VAFKVKTTa----Pk~Y~VRP~-----~GiI~Pgesv~It 139 (141)
.|+++...++|.|..+. -||.|+=++ ++.|-+.-- ...|+||+.+.-.
T Consensus 36 ~g~~v~V~~~iyN~G~~-~A~dV~l~D~~fp~~~F~lvsG~~s~~~~~i~pg~~vsh~ 92 (181)
T PF05753_consen 36 EGEDVTVTYTIYNVGSS-AAYDVKLTDDSFPPEDFELVSGSLSASWERIPPGENVSHS 92 (181)
T ss_pred CCcEEEEEEEEEECCCC-eEEEEEEECCCCCccccEeccCceEEEEEEECCCCeEEEE
Confidence 57889999999999988 789999888 244554321 3568888877643
No 57
>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=32.61 E-value=1.1e+02 Score=21.20 Aligned_cols=30 Identities=13% Similarity=0.248 Sum_probs=16.9
Q ss_pred eEEEEEEECCCCCeEEEEEeeCCCceeEec
Q 032412 95 TRSAVRLKNTSKSHVAFKFQTTAPKSCYMR 124 (141)
Q Consensus 95 v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VR 124 (141)
+...|+|+|.++..|-+.+.+-.-=-|.|+
T Consensus 2 v~~~l~v~N~s~~~v~l~f~sgq~~D~~v~ 31 (82)
T PF12690_consen 2 VEFTLTVTNNSDEPVTLQFPSGQRYDFVVK 31 (82)
T ss_dssp EEEEEEEEE-SSS-EEEEESSS--EEEEEE
T ss_pred EEEEEEEEeCCCCeEEEEeCCCCEEEEEEE
Confidence 456778888888877776655444444454
No 58
>PF13205 Big_5: Bacterial Ig-like domain
Probab=31.71 E-value=1.6e+02 Score=19.74 Aligned_cols=54 Identities=20% Similarity=0.258 Sum_probs=32.8
Q ss_pred ceEeeCCCC-CeeEEEEEEEC--CCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 84 NLYFPYEPG-KQTRSAVRLKN--TSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 84 eL~F~~e~~-k~v~s~L~LtN--~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|.|..+.. ..+...+.+.. ....+|.+. ....+.+.++|. +-|.+|.+..|+|
T Consensus 26 ~i~Fs~~v~~~s~~~~~~~~~~~~~~~~v~~~--~~~~~~~~i~p~-~~L~~~t~Y~v~i 82 (107)
T PF13205_consen 26 VITFSEPVDPASVSSAITITDSNGSGVPVSFS--SWDGNTLTITPS-QPLKPGTTYTVTI 82 (107)
T ss_pred EEEECCceecCccceEEEEEecCCCcEEEEEE--EccCCEEEEEEC-CcCCCCCEEEEEE
Confidence 556665432 23344555543 333355554 445588888888 5578888888877
No 59
>PF04425 Bul1_N: Bul1 N terminus; InterPro: IPR007519 This domain is the N terminus of Saccharomyces cerevisiae (Baker's yeast) Bul1. Bul1 binds the ubiquitin ligase Rsp5, via an N-terminal PPSY motif (157-160 in P48524 from SWISSPROT) []. The complex containing Bul1 and Rsp5 is involved in intracellular trafficking of the general amino acid permease Gap1 [], degradation of Rog1 in cooperation with Bul2 and GSK-3 [], and mitochondrial inheritance []. Bul1 may contain HEAT repeats. The C terminus is IPR007520 from INTERPRO.
Probab=31.55 E-value=41 Score=30.71 Aligned_cols=27 Identities=26% Similarity=0.406 Sum_probs=22.9
Q ss_pred EeeCCCCCeeEEEEEEECCCCCeEEEE
Q 032412 86 YFPYEPGKQTRSAVRLKNTSKSHVAFK 112 (141)
Q Consensus 86 ~F~~e~~k~v~s~L~LtN~S~~~VAFK 112 (141)
...|.-|+.+...++|+|+++.+|-|-
T Consensus 157 l~Ey~qGD~I~GyvtI~N~S~~pIpFd 183 (438)
T PF04425_consen 157 LKEYTQGDIIHGYVTIENTSSKPIPFD 183 (438)
T ss_pred cccccCCCEEEEEEEEEECCCCCcccc
Confidence 445667899999999999999999774
No 60
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=27.67 E-value=1.1e+02 Score=20.62 Aligned_cols=51 Identities=22% Similarity=0.299 Sum_probs=26.7
Q ss_pred CCCcEEecCCCceEeeCCCCCeeEEEEEEECC-------CCCeEEEEEeeCCCceeEe
Q 032412 73 PRRRLRLDPSNNLYFPYEPGKQTRSAVRLKNT-------SKSHVAFKFQTTAPKSCYM 123 (141)
Q Consensus 73 ~~~~L~IdP~~eL~F~~e~~k~v~s~L~LtN~-------S~~~VAFKVKTTaPk~Y~V 123 (141)
.++...|....-++|..+........|.|.+. .+.+-+|+|.+...+.|..
T Consensus 21 kkrwfvL~~~~L~yyk~~~~~~~~~~I~L~~~~v~~~~~~~k~~~F~I~~~~~~~~~f 78 (96)
T cd01260 21 ARRWFVLKGTTLYWYRSKQDEKAEGLIFLSGFTIESAKEVKKKYAFKVCHPVYKSFYF 78 (96)
T ss_pred eeEEEEEECCEEEEECCCCCCccceEEEccCCEEEEchhcCCceEEEECCCCCcEEEE
Confidence 45667777653444444443444455555432 2345577777655444543
No 61
>PRK15249 fimbrial chaperone protein StbB; Provisional
Probab=25.76 E-value=1.7e+02 Score=24.28 Aligned_cols=42 Identities=10% Similarity=0.017 Sum_probs=27.3
Q ss_pred EEEEECCCCCeEEEE-EeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 98 AVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 98 ~L~LtN~S~~~VAFK-VKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|+++|++.-++.|- ++....++ .+....|.|.|+++..+.+
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 43212221 2222457899998877653
No 62
>PF07703 A2M_N_2: Alpha-2-macroglobulin family N-terminal region; InterPro: IPR011625 This is a domain of the alpha-2-macroglobulin family. The alpha-macroglobulin (aM) family of proteins includes protease inhibitors [], typified by the human tetrameric a2-macroglobulin (a2M); they belong to the MEROPS proteinase inhibitor family I39, clan IL. These protease inhibitors share several defining properties, which include (i) the ability to inhibit proteases from all catalytic classes, (ii) the presence of a 'bait region' and a thiol ester, (iii) a similar protease inhibitory mechanism and (iv) the inactivation of the inhibitory capacity by reaction of the thiol ester with small primary amines. aM protease inhibitors inhibit by steric hindrance []. The mechanism involves protease cleavage of the bait region, a segment of the aM that is particularly susceptible to proteolytic cleavage, which initiates a conformational change such that the aM collapses about the protease. In the resulting aM-protease complex, the active site of the protease is sterically shielded, thus substantially decreasing access to protein substrates. Two additional events occur as a consequence of bait region cleavage, namely (i) the h-cysteinyl-g-glutamyl thiol ester becomes highly reactive and (ii) a major conformational change exposes a conserved COOH-terminal receptor binding domain [] (RBD). RBD exposure allows the aM protease complex to bind to clearance receptors and be removed from circulation []. Tetrameric, dimeric, and, more recently, monomeric aM protease inhibitors have been identified [, ].; PDB: 2QKI_D 3L3O_D 3NMS_A 2ICF_A 2A73_A 2ICE_D 2HR0_A 2A74_A 2XWJ_G 3OHX_A ....
Probab=25.21 E-value=93 Score=22.07 Aligned_cols=33 Identities=9% Similarity=0.092 Sum_probs=26.0
Q ss_pred eEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 108 HVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 108 ~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.+.|+|.-.....-.+.+......||+.+.++|
T Consensus 84 s~~i~V~~~~~~~v~l~~~~~~~~Pg~~~~~~i 116 (136)
T PF07703_consen 84 SVWIEVEPCFELKVELTASPDEYKPGEEVTLRI 116 (136)
T ss_dssp EEEEEBGCSGSSSEEEEESSSSBTTTSEEEEEE
T ss_pred EEEEEecccccceEEEEEecceeCCCCEEEEEE
Confidence 455777666677788888778899999999876
No 63
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=24.82 E-value=1.4e+02 Score=27.37 Aligned_cols=63 Identities=17% Similarity=0.209 Sum_probs=41.8
Q ss_pred CccchhhhhhhcCCCCCcEEecCCCc------------eEeeCCCCCeeEEEEEEECCCCCeEEEEEe--eCCCcee
Q 032412 59 ATKTVSYVARSLLPPRRRLRLDPSNN------------LYFPYEPGKQTRSAVRLKNTSKSHVAFKFQ--TTAPKSC 121 (141)
Q Consensus 59 ~~~~~~~vaksl~p~~~~L~IdP~~e------------L~F~~e~~k~v~s~L~LtN~S~~~VAFKVK--TTaPk~Y 121 (141)
.-+-+..+|..++|.=++..|.|... ..=...+++.....|+|+|+..++|-.-+- ...|+.+
T Consensus 318 ~kFkI~l~A~~yiP~i~i~~l~~~~~~~~~~~~~~~~~~~~~L~p~~~~~~~Lt~~NPl~~~i~vtLa~p~~tp~~~ 394 (483)
T PF05502_consen 318 TKFKIKLFAINYIPRIRIRPLPPSPSSSPSTSPSPPAVPVDNLRPGKPYQFLLTFTNPLFDPIRVTLATPSVTPGRF 394 (483)
T ss_pred hhhhHHhHHHHhCCeEEEEeccCccccCcccccccccccccccCCCCceEEEEEecCCCCCceeEEEecCCcCCccc
Confidence 34689999999998655554444321 112234678889999999999997776663 2235554
No 64
>PRK09918 putative fimbrial chaperone protein; Provisional
Probab=24.19 E-value=2.1e+02 Score=23.32 Aligned_cols=41 Identities=20% Similarity=0.203 Sum_probs=27.9
Q ss_pred EEEEECCCCCeEEEE-E-eeC-CCceeEecCCcceeCCCCEEEEEc
Q 032412 98 AVRLKNTSKSHVAFK-F-QTT-APKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 98 ~L~LtN~S~~~VAFK-V-KTT-aPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|+++|++..++-|. + +.. +.+.+.+ ..|.|.|+++..+.+
T Consensus 156 ~l~v~N~~p~~i~l~~l~~~~~~g~~~~~--~~~~v~P~s~~~~~l 199 (230)
T PRK09918 156 NLVVSNPSPYVVRLGQQVILLPSGKVVAL--PKPYILPGESLTVAI 199 (230)
T ss_pred EEEEECCCCEEEEEeccEEEccCCceecc--CCceECCCceEEEEc
Confidence 499999999988765 2 221 3343333 348999999987754
No 65
>PF06586 TraK: TraK protein; InterPro: IPR010563 This family consists of several TraK proteins from Escherichia coli, Salmonella typhi and Salmonella typhimurium. TraK is known to be essential for pilus assembly but its exact role in this process is unknown [].
Probab=23.78 E-value=3.3e+02 Score=21.66 Aligned_cols=47 Identities=23% Similarity=0.146 Sum_probs=31.2
Q ss_pred eeEEEEEEECCCCCeEEEEEe-eCCCceeEecCCcceeCCCCEEEEEc
Q 032412 94 QTRSAVRLKNTSKSHVAFKFQ-TTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 94 ~v~s~L~LtN~S~~~VAFKVK-TTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
..-...+|+|.++.++.+.=+ +-.++..-|-=..-.|.||++..+=|
T Consensus 187 l~~~~y~v~N~~~~~v~l~E~~f~~~~v~AVa~~~~~L~PGe~t~vyV 234 (234)
T PF06586_consen 187 LRGEVYRVTNTSDQPVELDERDFYSPGVRAVALWPPTLAPGESTEVYV 234 (234)
T ss_pred eEEEEEEEEeCCCCCEEecHHHhCCCCcEEEEecccccCCCCEEEEEC
Confidence 344678899999999988743 33344444432222899999988754
No 66
>COG3121 FimC P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.19 E-value=2.4e+02 Score=23.14 Aligned_cols=50 Identities=14% Similarity=0.084 Sum_probs=34.6
Q ss_pred ceEeeCCCCCeeEEEEEEECCCCCeEEEE--EeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 84 NLYFPYEPGKQTRSAVRLKNTSKSHVAFK--FQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 84 eL~F~~e~~k~v~s~L~LtN~S~~~VAFK--VKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.|.|.... ..|+++|++..+|.|- .-..+-++.- -..+.|.|+++..+.+
T Consensus 157 ~L~~~~~~-----~~l~v~Nptpy~vtl~~~~l~~~~~~~~--~~~~mv~P~s~~~~~l 208 (235)
T COG3121 157 KLTWSRSG-----NLLTVKNPTPYYVTLANLTLNVGGRKLG--LNSGMVAPFSTRQFPL 208 (235)
T ss_pred eEEEEEcC-----CEEEEECCCCcEEEEEEEEEeeCceecC--CCcceECCCccceeec
Confidence 55665433 4899999999999998 3333333333 6788899998877653
No 67
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=22.69 E-value=1.1e+02 Score=22.73 Aligned_cols=26 Identities=23% Similarity=0.383 Sum_probs=19.9
Q ss_pred eEEEEEEECCCCCeEEEEEeeCCCce
Q 032412 95 TRSAVRLKNTSKSHVAFKFQTTAPKS 120 (141)
Q Consensus 95 v~s~L~LtN~S~~~VAFKVKTTaPk~ 120 (141)
..-.|++.+-...-+-||||.++|-+
T Consensus 19 ~hi~LKV~gqd~~~~~Fkikr~t~Lk 44 (99)
T KOG1769|consen 19 EHINLKVKGQDGSVVVFKIKRHTPLK 44 (99)
T ss_pred ceEEEEEecCCCCEEEEEeecCChHH
Confidence 34578888866668899999888754
No 68
>PRK15295 fimbrial assembly chaperone SthB; Provisional
Probab=22.38 E-value=2.4e+02 Score=23.05 Aligned_cols=49 Identities=10% Similarity=0.162 Sum_probs=33.0
Q ss_pred CceEeeCCCCCeeEEEEEEECCCCCeEEEE-EeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 83 NNLYFPYEPGKQTRSAVRLKNTSKSHVAFK-FQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 83 ~eL~F~~e~~k~v~s~L~LtN~S~~~VAFK-VKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
..|.|....+ .|+++|++.-+|.|- ++. +.+. +. ..|.|+|+++..+.+
T Consensus 148 ~~L~~~~~~~-----~l~v~NptPyyitl~~l~~-~~~~--~~-~~~mI~P~s~~~~~~ 197 (226)
T PRK15295 148 QQLKWQTAGD-----VITVNNPTPYYMNFASVTL-NSHE--VK-SATFVPPKSSASFKL 197 (226)
T ss_pred hccEEEEcCC-----EEEEECCCceEEEEEEEEE-CCcc--cC-CCceECCCCccEEEc
Confidence 4666664332 499999999999875 554 2232 22 258899999887654
No 69
>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=21.97 E-value=79 Score=25.81 Aligned_cols=23 Identities=35% Similarity=0.495 Sum_probs=18.5
Q ss_pred CeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 107 SHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 107 ~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
.+|+||+ |...-|+||+++++.+
T Consensus 116 Hrvs~tl-----------p~wqslapG~s~~~~~ 138 (180)
T PF06483_consen 116 HRVSFTL-----------PAWQSLAPGASVELDM 138 (180)
T ss_pred EEEEEEC-----------CCccccCCCCEEEEeE
Confidence 3788887 6667799999999875
No 70
>PF03944 Endotoxin_C: delta endotoxin; InterPro: IPR005638 This family contains insecticidal toxins produced by Bacillus species of bacteria. During spore formation the bacteria produce crystals of this protein. When an insect ingests these proteins, they are activated by proteolytic cleavage. The N terminus is cleaved in all of the proteins and a C-terminal extension is cleaved in some members. Once activated, the endotoxin binds to the gut epithelium and causes cell lysis by the formation of cation-selective channels, which leads to death. The activated region of the delta toxin is composed of three distinct structural domains: an N-terminal helical bundle domain (IPR005639 from INTERPRO) involved in membrane insertion and pore formation; a beta-sheet central domain (IPR001178 from INTERPRO) involved in receptor binding; and a C-terminal beta-sandwich domain that interacts with the N-terminal domain to form a channel [, ]. This entry represents the conserved C-terminal domain.; PDB: 1DLC_A 1JI6_A 1W99_A 1CIY_A 1I5P_A 2C9K_A 3EB7_A.
Probab=20.98 E-value=94 Score=23.25 Aligned_cols=9 Identities=22% Similarity=0.253 Sum_probs=3.6
Q ss_pred CCcEEecCC
Q 032412 74 RRRLRLDPS 82 (141)
Q Consensus 74 ~~~L~IdP~ 82 (141)
+++|++.+.
T Consensus 27 Gdlv~l~~~ 35 (143)
T PF03944_consen 27 GDLVKLSNS 35 (143)
T ss_dssp S-EEEESSS
T ss_pred CcEEEEcCC
Confidence 334444444
No 71
>PRK15246 fimbrial assembly chaperone StbE; Provisional
Probab=20.13 E-value=2.8e+02 Score=22.85 Aligned_cols=49 Identities=16% Similarity=0.219 Sum_probs=31.2
Q ss_pred CceEeeCCCCCeeEEEEEEECCCCCeEEEEEeeCCCceeEecCCcceeCCCCEEEEEc
Q 032412 83 NNLYFPYEPGKQTRSAVRLKNTSKSHVAFKFQTTAPKSCYMRPPGGVLAPGDSIIATG 140 (141)
Q Consensus 83 ~eL~F~~e~~k~v~s~L~LtN~S~~~VAFKVKTTaPk~Y~VRP~~GiI~Pgesv~ItV 140 (141)
..|.|....+ .|++.|++.-+|.|---.-..+. + ....|.|.++..+.+
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 4667764332 49999999999988632223222 2 245788888777653
Done!