Query 003269
Match_columns 835
No_of_seqs 251 out of 763
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 20:17:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1984 Vesicle coat complex C 100.0 4E-148 8E-153 1263.9 69.9 548 277-830 236-821 (1007)
2 KOG1985 Vesicle coat complex C 100.0 1E-130 3E-135 1119.5 58.4 524 304-830 160-697 (887)
3 COG5028 Vesicle coat complex C 100.0 8E-117 2E-121 999.4 48.9 520 299-830 132-672 (861)
4 PTZ00395 Sec24-related protein 100.0 5E-115 1E-119 1028.5 48.6 536 278-830 599-1368(1560)
5 PLN00162 transport protein sec 100.0 3E-101 6E-106 922.6 52.4 495 312-830 7-583 (761)
6 KOG1986 Vesicle coat complex C 100.0 2E-73 4.4E-78 642.7 42.2 498 312-829 7-565 (745)
7 COG5047 SEC23 Vesicle coat com 100.0 4.6E-67 1E-71 577.4 32.6 496 311-829 6-576 (755)
8 cd01479 Sec24-like Sec24-like: 100.0 3.3E-55 7.2E-60 463.2 25.9 241 425-666 1-244 (244)
9 cd01468 trunk_domain trunk dom 100.0 2.5E-51 5.4E-56 432.4 25.9 235 425-660 1-239 (239)
10 PF04811 Sec23_trunk: Sec23/Se 100.0 4.4E-51 9.4E-56 431.2 22.0 237 425-662 1-243 (243)
11 cd01478 Sec23-like Sec23-like: 100.0 5.4E-46 1.2E-50 397.3 20.3 225 425-654 1-265 (267)
12 PF08033 Sec23_BS: Sec23/Sec24 99.8 3E-21 6.5E-26 176.3 10.0 85 667-751 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.5 2.5E-14 5.5E-19 132.4 7.3 67 763-830 1-67 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.2 3.6E-12 7.9E-17 98.2 1.7 35 354-388 6-40 (40)
15 PRK13685 hypothetical protein; 98.9 8.2E-08 1.8E-12 106.4 18.4 174 427-661 88-289 (326)
16 cd01453 vWA_transcription_fact 98.8 1.7E-07 3.6E-12 95.7 17.1 163 429-660 5-177 (183)
17 cd01467 vWA_BatA_type VWA BatA 98.7 7.8E-07 1.7E-11 89.2 16.7 155 429-644 4-176 (180)
18 cd01465 vWA_subgroup VWA subgr 98.6 1.3E-06 2.7E-11 86.5 17.4 156 429-644 2-162 (170)
19 cd01451 vWA_Magnesium_chelatas 98.6 1.1E-06 2.5E-11 88.7 16.2 160 429-647 2-169 (178)
20 cd01466 vWA_C3HC4_type VWA C3H 98.6 1.2E-06 2.5E-11 86.7 15.2 147 430-642 3-154 (155)
21 cd01456 vWA_ywmD_type VWA ywmD 98.6 1.1E-06 2.3E-11 90.9 15.4 174 423-639 16-196 (206)
22 cd01463 vWA_VGCC_like VWA Volt 98.6 1.3E-06 2.9E-11 89.0 15.7 163 426-644 12-188 (190)
23 TIGR00868 hCaCC calcium-activa 98.5 1.5E-05 3.3E-10 97.5 24.2 168 427-662 304-477 (863)
24 cd01474 vWA_ATR ATR (Anthrax T 98.5 6.9E-06 1.5E-10 83.4 17.4 169 428-663 5-182 (185)
25 PF13519 VWA_2: von Willebrand 98.5 2.9E-06 6.2E-11 83.0 13.7 151 430-643 2-159 (172)
26 TIGR03788 marine_srt_targ mari 98.4 0.00014 3E-09 87.2 28.5 284 424-803 268-556 (596)
27 TIGR03436 acidobact_VWFA VWFA- 98.4 2.2E-05 4.9E-10 85.6 19.9 158 426-642 52-238 (296)
28 cd01470 vWA_complement_factors 98.4 9.4E-06 2E-10 83.3 15.6 167 430-645 3-190 (198)
29 cd01472 vWA_collagen von Wille 98.4 1.3E-05 2.7E-10 79.6 15.7 151 430-644 3-163 (164)
30 cd01461 vWA_interalpha_trypsin 98.4 1.7E-05 3.8E-10 78.3 16.6 157 427-644 2-161 (171)
31 cd01452 VWA_26S_proteasome_sub 98.2 3E-05 6.6E-10 79.6 15.6 142 429-634 5-160 (187)
32 PF13768 VWA_3: von Willebrand 98.1 3.4E-05 7.4E-10 75.7 13.4 150 430-641 3-155 (155)
33 cd01480 vWA_collagen_alpha_1-V 98.1 5.2E-05 1.1E-09 77.2 14.7 156 429-645 4-172 (186)
34 cd01450 vWFA_subfamily_ECM Von 98.1 6.8E-05 1.5E-09 72.7 14.3 145 430-635 3-155 (161)
35 cd01475 vWA_Matrilin VWA_Matri 98.1 9.8E-05 2.1E-09 77.5 16.3 168 429-663 4-184 (224)
36 cd01471 vWA_micronemal_protein 98.1 0.00012 2.7E-09 74.0 15.7 149 430-634 3-160 (186)
37 PTZ00441 sporozoite surface pr 98.1 0.00022 4.9E-09 83.5 19.7 197 428-683 43-260 (576)
38 TIGR02442 Cob-chelat-sub cobal 98.0 8.1E-05 1.7E-09 89.8 14.6 159 427-642 465-632 (633)
39 COG1240 ChlD Mg-chelatase subu 98.0 0.00011 2.3E-09 78.1 13.6 165 427-647 78-249 (261)
40 cd01469 vWA_integrins_alpha_su 98.0 0.00031 6.8E-09 71.0 16.5 156 430-646 3-172 (177)
41 cd01477 vWA_F09G8-8_type VWA F 98.0 0.00026 5.6E-09 73.1 16.1 150 429-637 21-187 (193)
42 cd01482 vWA_collagen_alphaI-XI 97.9 0.0004 8.6E-09 69.1 15.9 150 430-643 3-162 (164)
43 cd00198 vWFA Von Willebrand fa 97.9 0.00035 7.7E-09 66.5 15.0 148 429-635 2-155 (161)
44 TIGR02031 BchD-ChlD magnesium 97.9 0.00019 4.2E-09 85.8 16.0 175 426-647 406-585 (589)
45 PF00092 VWA: von Willebrand f 97.9 0.00029 6.2E-09 69.6 14.4 155 430-646 2-169 (178)
46 smart00327 VWA von Willebrand 97.9 0.00054 1.2E-08 67.2 16.1 153 429-641 3-164 (177)
47 PRK13406 bchD magnesium chelat 97.8 0.00051 1.1E-08 81.9 17.7 167 426-647 400-572 (584)
48 cd01481 vWA_collagen_alpha3-VI 97.8 0.001 2.2E-08 66.9 16.0 151 430-645 3-165 (165)
49 cd01473 vWA_CTRP CTRP for CS 97.7 0.0017 3.7E-08 66.9 18.0 150 430-634 3-161 (192)
50 cd01476 VWA_integrin_invertebr 97.6 0.0029 6.3E-08 62.4 16.6 102 430-566 3-115 (163)
51 cd01464 vWA_subfamily VWA subf 97.5 0.0006 1.3E-08 68.6 10.7 139 430-634 6-160 (176)
52 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0031 6.7E-08 65.2 13.1 164 433-662 1-173 (193)
53 cd01458 vWA_ku Ku70/Ku80 N-ter 97.3 0.0073 1.6E-07 63.2 15.7 154 429-621 3-173 (218)
54 cd01454 vWA_norD_type norD typ 97.3 0.0088 1.9E-07 60.0 15.5 147 429-622 2-154 (174)
55 PHA03247 large tegument protei 97.0 0.58 1.3E-05 62.8 31.1 13 446-458 3114-3126(3151)
56 COG4245 TerY Uncharacterized p 96.7 0.022 4.9E-07 58.0 12.0 86 428-553 5-94 (207)
57 cd01462 VWA_YIEM_type VWA YIEM 96.6 0.037 8.1E-07 54.0 13.2 130 430-621 3-135 (152)
58 KOG2884 26S proteasome regulat 96.5 0.063 1.4E-06 55.8 14.4 155 429-644 5-175 (259)
59 TIGR00578 ku70 ATP-dependent D 96.4 0.19 4.1E-06 60.6 19.6 164 428-627 11-191 (584)
60 KOG1924 RhoA GTPase effector D 95.9 0.058 1.3E-06 64.5 11.6 7 652-658 976-982 (1102)
61 KOG1984 Vesicle coat complex C 95.8 0.92 2E-05 55.6 21.4 14 470-483 550-563 (1007)
62 cd01457 vWA_ORF176_type VWA OR 95.6 0.15 3.3E-06 52.5 12.5 143 429-634 4-165 (199)
63 cd01460 vWA_midasin VWA_Midasi 95.3 0.21 4.5E-06 54.3 12.6 132 426-620 59-204 (266)
64 PF03731 Ku_N: Ku70/Ku80 N-ter 95.1 0.17 3.7E-06 52.9 11.2 154 429-618 1-172 (224)
65 COG5148 RPN10 26S proteasome r 95.1 0.41 8.8E-06 48.9 13.0 133 428-620 4-146 (243)
66 cd01455 vWA_F11C1-5a_type Von 94.7 1.4 3E-05 45.8 15.9 98 514-644 72-174 (191)
67 TIGR00627 tfb4 transcription f 94.6 2.4 5.2E-05 46.5 18.3 95 536-662 117-221 (279)
68 PF03850 Tfb4: Transcription f 94.4 2.7 5.8E-05 46.1 18.2 81 538-644 116-207 (276)
69 KOG2807 RNA polymerase II tran 93.4 1.3 2.9E-05 48.8 13.2 148 427-637 60-217 (378)
70 COG2425 Uncharacterized protei 92.2 1 2.3E-05 52.1 11.2 148 427-643 273-424 (437)
71 smart00187 INB Integrin beta s 91.9 29 0.00064 40.3 25.3 271 427-715 99-389 (423)
72 PF06707 DUF1194: Protein of u 89.3 12 0.00025 39.4 14.8 97 538-666 95-202 (205)
73 PRK10997 yieM hypothetical pro 89.0 0.97 2.1E-05 53.2 7.4 150 427-644 323-475 (487)
74 PF00362 Integrin_beta: Integr 88.9 29 0.00063 40.5 19.3 266 427-715 102-392 (426)
75 KOG2353 L-type voltage-depende 86.0 17 0.00036 47.0 16.1 106 419-553 217-322 (1104)
76 KOG2487 RNA polymerase II tran 80.7 28 0.00061 38.0 12.8 55 599-662 185-239 (314)
77 KOG3768 DEAD box RNA helicase 76.8 24 0.00052 42.1 11.7 32 428-459 2-38 (888)
78 PF11265 Med25_VWA: Mediator c 76.5 53 0.0011 35.2 13.4 102 517-641 90-204 (226)
79 KOG4849 mRNA cleavage factor I 75.6 95 0.0021 35.1 15.2 12 449-460 392-403 (498)
80 COG4867 Uncharacterized protei 68.8 56 0.0012 37.8 11.9 161 427-643 463-634 (652)
81 PF09967 DUF2201: VWA-like dom 68.4 8.7 0.00019 37.1 5.0 44 431-479 2-45 (126)
82 COG5242 TFB4 RNA polymerase II 56.9 1.4E+02 0.0031 31.9 11.5 182 426-644 19-214 (296)
83 PF12257 DUF3608: Protein of u 56.4 99 0.0021 34.2 10.9 63 537-623 202-273 (281)
84 KOG1226 Integrin beta subunit 53.7 5.2E+02 0.011 32.4 17.1 297 430-747 135-454 (783)
85 PF05762 VWA_CoxE: VWA domain 48.5 25 0.00055 37.1 4.8 30 535-564 127-159 (222)
86 PF02905 EBV-NA1: Epstein Barr 43.9 37 0.0008 32.9 4.5 33 446-478 112-145 (146)
87 PF10221 DUF2151: Cell cycle a 32.6 3E+02 0.0066 34.3 10.9 25 456-482 59-84 (695)
88 COG1435 Tdk Thymidine kinase [ 32.5 3.6E+02 0.0079 28.5 10.0 120 552-679 29-163 (201)
89 COG5151 SSL1 RNA polymerase II 28.8 4.5E+02 0.0099 29.5 10.3 31 603-636 213-243 (421)
90 KOG3572 Uncharacterized conser 27.3 2.6E+02 0.0057 36.9 9.2 38 603-651 479-516 (1701)
91 PF10138 vWA-TerF-like: vWA fo 27.0 7.7E+02 0.017 26.0 14.9 144 430-634 4-155 (200)
92 COG5415 Predicted integral mem 25.1 30 0.00065 36.3 0.7 34 354-387 188-229 (251)
93 COG1592 Rubrerythrin [Energy p 24.5 38 0.00082 34.6 1.3 16 368-383 130-145 (166)
94 PF08766 DEK_C: DEK C terminal 23.6 1.8E+02 0.0038 23.8 4.9 45 754-798 9-53 (54)
95 COG1438 ArgR Arginine represso 22.9 70 0.0015 32.2 2.8 112 600-716 24-137 (150)
96 KOG3189 Phosphomannomutase [Li 22.9 78 0.0017 33.4 3.2 65 544-611 105-175 (252)
97 PF00641 zf-RanBP: Zn-finger i 22.8 33 0.00071 24.6 0.3 14 371-384 3-16 (30)
98 TIGR00111 pelota probable tran 21.6 1.2E+02 0.0025 34.6 4.6 69 596-675 265-350 (351)
99 PF10058 DUF2296: Predicted in 21.5 52 0.0011 27.3 1.3 13 370-382 42-54 (54)
100 PF13894 zf-C2H2_4: C2H2-type 21.4 47 0.001 21.3 0.9 13 373-385 1-13 (24)
101 COG4548 NorD Nitric oxide redu 20.7 3.4E+02 0.0074 32.7 8.0 164 426-641 445-616 (637)
102 KOG4385 Predicted forkhead tra 20.5 1E+02 0.0022 36.3 3.7 61 747-810 348-413 (581)
103 cd00729 rubredoxin_SM Rubredox 20.4 50 0.0011 24.7 0.9 11 372-382 2-12 (34)
No 1
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.6e-148 Score=1263.92 Aligned_cols=548 Identities=40% Similarity=0.754 Sum_probs=532.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC--------------CCCCCCCccccc----cCCCCcEeeecCccCCCHHHHhhcCCCe
Q 003269 277 SIPGSIEPGIDLKSLPRPLDGD--------------VEPSSLAETYPL----NCHSRYLRLTTSAIPNSQSLVSRWHLPL 338 (835)
Q Consensus 277 ~~~~~~dp~~~~~~ip~p~~~~--------------~~pp~~~~~~~~----N~sP~yiR~T~~~iP~t~~l~~~~~LPl 338 (835)
..+.|+|| ++||++.... ..||++||+|.+ ||||||||||+|+||+|.|+++.++|||
T Consensus 236 ~~~~rldp----~~iPs~~qv~~~d~~~~r~~~~~~~~PPl~TTd~~~~DqGN~sPr~mr~T~Y~iP~T~Dl~~as~iPL 311 (1007)
T KOG1984|consen 236 PPPQRLDP----NAIPSPPQVSIEDDSSFRSTDTRAQPPPLVTTDFFIQDQGNCSPRFMRCTMYTIPCTNDLLKASQIPL 311 (1007)
T ss_pred CccccCCh----hhCCCchhcccchhhhhhcCCccCCCCCCcccceEEeccCCCCcchheeecccCCccHhHHHhcCCcc
Confidence 46789999 9999998651 579999999987 9999999999999999999999999999
Q ss_pred EEEEccCCCCCCCCC---------------CCcceeecccceEeeCCceEEEcCCCCCCCCCcccccccCcccccCCCCC
Q 003269 339 GAVVCPLAEPPEGNL---------------FICRTYVNPYVTFTDAGRKWRCNICALLNDVPGDYFAHLDATGRRIDIDQ 403 (835)
Q Consensus 339 givv~Pfa~~~~~e~---------------~rCrAYiNPf~~f~~~G~~W~Cn~C~~~N~vP~~Y~~~ld~~g~R~D~~~ 403 (835)
|+||+|||.+.+.|. +|||||||||++|+++||+|+||||+.+|+++++||+||+++|+|.|+++
T Consensus 312 alvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~~n~vp~~yf~~L~~~grr~D~~e 391 (1007)
T KOG1984|consen 312 ALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGSKNQVPDDYFNHLGPTGRRVDVEE 391 (1007)
T ss_pred eeEecccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEecCCCccccCChhhcccCCCccccccccc
Confidence 999999998776553 99999999999999999999999999999999999999999999999999
Q ss_pred CCCccccceEEeccccccCC--CCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCC-CCCCceEEEEEEcCeEEEE
Q 003269 404 RPELTKGSVEFVAPTEYMVR--PPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELP-GFPRTQIGFITFDSTIHFY 480 (835)
Q Consensus 404 rPEL~~gtVEfvap~eY~~r--~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp-~~~rt~VGiITFds~V~fy 480 (835)
||||++|+|||+|+++||++ ++++++|||+||||++++++|++.++|++|+++|+.|+ ++++++|||||||++||||
T Consensus 392 rpEL~~Gt~dfvatk~Y~~~~k~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFf 471 (1007)
T KOG1984|consen 392 RPELCLGTVDFVATKDYCRKTKPPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFF 471 (1007)
T ss_pred CchhcccccceeeehhhhhcCCCCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEee
Confidence 99999999999999999998 79999999999999999999999999999999999998 6889999999999999999
Q ss_pred ecCCCCCCCceeeecccccccCCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-CCEEE
Q 003269 481 NMKSSLTQPQMMVISDLDDIFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-GGKLL 559 (835)
Q Consensus 481 nl~~~~~~pqmlVvsDldd~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-GGkIi 559 (835)
|+++++++++|+||+|+||+|+|+.++|||+..|++..|+.|||+|+.||.+.+.+++|+|+||+||+.+||.+ ||||+
T Consensus 472 nl~s~L~qp~mliVsdv~dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~~gGKl~ 551 (1007)
T KOG1984|consen 472 NLSSNLAQPQMLIVSDVDDVFVPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAADGGKLF 551 (1007)
T ss_pred ccCccccCceEEEeecccccccccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhccCCceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998 99999
Q ss_pred EEecCCCCCCcc-cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccE
Q 003269 560 IFQNSLPSLGVG-CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQ 638 (835)
Q Consensus 560 vF~sg~Pt~GpG-~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~ 638 (835)
||++.+||+|.| +|+.|+ +.|+++++||++|+.+++++|++||++|++.|||||||++...|+|+|+|+.+++.|||+
T Consensus 552 vF~s~Lpt~g~g~kl~~r~-D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~ 630 (1007)
T KOG1984|consen 552 VFHSVLPTAGAGGKLSNRD-DRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQ 630 (1007)
T ss_pred EEecccccccCcccccccc-hhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCce
Confidence 999999999977 777775 489999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCCCcchhHHHHHHHHHhhcccccccceEEEEEeCCCceEeeeecCcccCCCCceEeccCCCCCcEEEEEeecccc
Q 003269 639 VYYYPSFQSTTHGERLRHELSRDLTRETAWEAVMRIRCGKGVRFTNYHGNFMLRSTDLLALPAVDCDKAYAMQLSLEETL 718 (835)
Q Consensus 639 v~~y~~F~~~~d~~~L~~dL~r~l~r~~g~~a~mrVR~S~Gl~V~~~~Gnf~~rs~~~~~l~~id~d~Sia~~f~~d~~l 718 (835)
+|+|..|...+|+.+|.+||+|++++++||+|+||||||+||++.+|||||++++++|++|+.+|+||+++++|+|||+|
T Consensus 631 vy~Y~~F~a~~D~~rl~nDL~~~vtk~~gf~a~mrvRtStGirv~~f~Gnf~~~~~tDiela~lD~dkt~~v~fkhDdkL 710 (1007)
T KOG1984|consen 631 VYKYYPFQALTDGPRLLNDLVRNVTKKQGFDAVMRVRTSTGIRVQDFYGNFLMRNPTDIELAALDCDKTLTVEFKHDDKL 710 (1007)
T ss_pred eEEecchhhcccHHHHHHHHHHhcccceeeeeEEEEeecCceeeeeeechhhhcCCCCccccccccCceeEEEEeccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeEEEEEEEEEecCCcEEEEEEcCcccccCCHHHHHHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 003269 719 LTTQTVYFQVALLYTASCGERRIRVHTLAAPVVSNLSDMYQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKAL 798 (835)
Q Consensus 719 ~~~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts~l~~vf~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL 798 (835)
+++..++||+|+|||+.+|||||||+|++++||++++|+||++|.|+++++|+|.|+..+.++.++++|+.|+++|++||
T Consensus 711 q~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~ts~l~~lyr~~~~d~l~a~maK~a~~~i~~~~lk~vre~l~~~~~~iL 790 (1007)
T KOG1984|consen 711 QDGSDVHFQTALLYTTIDGQRRLRVLNLSLAVTSQLSELYRSADTDPLIAIMAKQAAKAILDKPLKEVREQLVSQCAQIL 790 (1007)
T ss_pred cCCcceeEEEEEEEeccCCceeEEEEecchhhhhhHHHHHHhcCccHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 799 KEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 799 ~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
++||| +|++.+++|||||||+|||||||+|+
T Consensus 791 ~~YRk-~cas~~ssgQLILPeslKLlPly~la 821 (1007)
T KOG1984|consen 791 ASYRK-NCASPASSGQLILPESLKLLPLYMLA 821 (1007)
T ss_pred HHHHH-hhcCCCCcccEechhhhHHHHHHHHH
Confidence 99999 99999999999999999999999984
No 2
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-130 Score=1119.45 Aligned_cols=524 Identities=52% Similarity=0.868 Sum_probs=500.5
Q ss_pred CCccccccCCCCcEeeecCccCCCHHHHhhcCCCeEEEEccCCCCCCCCC------------CCcceeecccceEeeCCc
Q 003269 304 LAETYPLNCHSRYLRLTTSAIPNSQSLVSRWHLPLGAVVCPLAEPPEGNL------------FICRTYVNPYVTFTDAGR 371 (835)
Q Consensus 304 ~~~~~~~N~sP~yiR~T~~~iP~t~~l~~~~~LPlgivv~Pfa~~~~~e~------------~rCrAYiNPf~~f~~~G~ 371 (835)
.+.....||+|+|+|+|+++||.++++++|++||||++|+||+++++.++ ++||+||||||.|++.|+
T Consensus 160 ~~~~~~~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr 239 (887)
T KOG1985|consen 160 VTPSESSNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDIDPLPVITSTLIVRCRRCRTYINPFVEFIDQGR 239 (887)
T ss_pred cCCccccCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccCCCCcccCCceeeehhhhhhcCCeEEecCCCc
Confidence 33334569999999999999999999999999999999999997764332 999999999999999999
Q ss_pred eEEEcCCCCCCCCCcccccccCcccccCCCCCCCCccccceEEeccccccCCCCCCCEEEEEEecchhHHhhchHHHHHH
Q 003269 372 KWRCNICALLNDVPGDYFAHLDATGRRIDIDQRPELTKGSVEFVAPTEYMVRPPMPPLYFFLIDVSISAIRSGMLEVVAQ 451 (835)
Q Consensus 372 ~W~Cn~C~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEfvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~~~~ 451 (835)
+|+||+|+..|+||.+|+++. -++.+.|.++||||++++|||+||.|||+|+|+|++||||||||.+++|+|+|+++|+
T Consensus 240 ~WrCNlC~~~NdvP~~f~~~~-~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR~P~Pavy~FliDVS~~a~ksG~L~~~~~ 318 (887)
T KOG1985|consen 240 RWRCNLCGRVNDVPDDFDWDP-LTGAYGDPYSRPELTSSVVEFIAPSEYMLRPPQPAVYVFLIDVSISAIKSGYLETVAR 318 (887)
T ss_pred eeeechhhhhcCCcHHhhcCc-cccccCCcccCccccceeEEEecCcccccCCCCCceEEEEEEeehHhhhhhHHHHHHH
Confidence 999999999999999999874 3467789999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCcccchhhhHHHHHHHHhhCCcccc
Q 003269 452 TIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQ 531 (835)
Q Consensus 452 sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~ 531 (835)
+|++.||.|+.++|++|||||||++||||+++.++.+++|++|+|+||.|+|.+++|||+++|||+.|+.+|+.|+.||.
T Consensus 319 slL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~ 398 (887)
T KOG1985|consen 319 SLLENLDALPGDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQ 398 (887)
T ss_pred HHHHhhhcCCCCCcceEEEEEeeceeeEEecCCCcCCCceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccchHHHHHHHHHHHHhcCCEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCe
Q 003269 532 DNMNVESAFGPALKAAFMVMSRLGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQI 611 (835)
Q Consensus 532 ~~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gI 611 (835)
+++..++|+|+||++|+++|+.+||||++|++++||+|.|+|+.||+ .+..+++++..|+.+++.|||+||.+|++.||
T Consensus 399 ~~~~t~~alGpALkaaf~li~~~GGri~vf~s~lPnlG~G~L~~rEd-p~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI 477 (887)
T KOG1985|consen 399 DTRSTGSALGPALKAAFNLIGSTGGRISVFQSTLPNLGAGKLKPRED-PNVRSSDEDSQLLSPATDFYKDLALECSKSQI 477 (887)
T ss_pred hccCcccccCHHHHHHHHHHhhcCCeEEEEeccCCCCCccccccccc-cccccchhhhhccCCCchHHHHHHHHhccCce
Confidence 99999999999999999999999999999999999999999999954 77888999999999999999999999999999
Q ss_pred EEEEEEecCCccChhhhhhhccccccEEEEeCCCCcc--hhHHHHHHHHHhhcccccccceEEEEEeCCCceEeeeecCc
Q 003269 612 AVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQST--THGERLRHELSRDLTRETAWEAVMRIRCGKGVRFTNYHGNF 689 (835)
Q Consensus 612 sVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~--~d~~~L~~dL~r~l~r~~g~~a~mrVR~S~Gl~V~~~~Gnf 689 (835)
|||+|+++.+|+|||+|+.|+++|||++|||++|+.. .|..||.+||.|.|+|++||||+||||||+||++++|||||
T Consensus 478 ~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~feaVmRiR~S~gl~~~~f~GnF 557 (887)
T KOG1985|consen 478 CVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGFEAVMRIRCSTGLRMSSFFGNF 557 (887)
T ss_pred EEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhhheeEEeeccccccccceeccc
Confidence 9999999999999999999999999999999999987 67899999999999999999999999999999999999999
Q ss_pred ccCCCCceEeccCCCCCcEEEEEeeccccCCCceeEEEEEEEEEecCCcEEEEEEcCcccccCCHHHHHHhcChhHHHHH
Q 003269 690 MLRSTDLLALPAVDCDKAYAMQLSLEETLLTTQTVYFQVALLYTASCGERRIRVHTLAAPVVSNLSDMYQQADTGAIVSV 769 (835)
Q Consensus 690 ~~rs~~~~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts~l~~vf~s~D~eai~~l 769 (835)
+.|++|++.++++++|++++|++++|+.+.+ ..++||+|+|||..+|||||||||+++++++++.|||+++|++||+.+
T Consensus 558 F~RStDLla~~~v~~D~sy~~qisiEesl~~-~~~~fQvAlLyT~~~GERRIRV~T~~lpt~~sl~evY~saD~~AI~~l 636 (887)
T KOG1985|consen 558 FVRSTDLLALPNVNPDQSYAFQISIEESLTT-GFCVFQVALLYTLSKGERRIRVHTLCLPTVSSLNEVYASADQEAIASL 636 (887)
T ss_pred ccCcHHHhcccCCCCCccceEEEEeehhcCC-ceeEEEeeeeecccCCceeEEEEEeeccccccHHHHHhhcCHHHHHHH
Confidence 9999999999999999999999999999854 567899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 770 FSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 770 laK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
|+|+|+++.++..+.|+|+.|+++++++|.+|||++..++.....|.+|++||+||+|+++
T Consensus 637 la~~Av~ksl~ssL~dardal~~~~~D~l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlA 697 (887)
T KOG1985|consen 637 LAKKAVEKSLSSSLSDARDALTNAVVDILNAYKKLVSNQNGQGITLSLPASLRLLPLLVLA 697 (887)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhcccccCCcceecCcchhhhHHHHHH
Confidence 9999999999999999999999999999999999666655666789999999999999985
No 3
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=8e-117 Score=999.36 Aligned_cols=520 Identities=41% Similarity=0.756 Sum_probs=499.3
Q ss_pred CCCCCCCccccc----cCCCCcEeeecCccCCCHHHHhhcCCCeEEEEccCCCCCCCCC-------------CCcceeec
Q 003269 299 VEPSSLAETYPL----NCHSRYLRLTTSAIPNSQSLVSRWHLPLGAVVCPLAEPPEGNL-------------FICRTYVN 361 (835)
Q Consensus 299 ~~pp~~~~~~~~----N~sP~yiR~T~~~iP~t~~l~~~~~LPlgivv~Pfa~~~~~e~-------------~rCrAYiN 361 (835)
..||+ ++.++. ||+|+|+|+|+|+||.+.+++++++||||+||+||.++.+.+. +|||+|||
T Consensus 132 ~~ppl-tt~~~~~e~~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d~~ivRCrrCrsYiN 210 (861)
T COG5028 132 IVPPL-TTNFVGSEQSNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVEDGSIVRCRRCRSYIN 210 (861)
T ss_pred CCCCc-ccceeeeccCCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCCCcchhhhhhHhhcC
Confidence 34555 777654 9999999999999999999999999999999999999876432 99999999
Q ss_pred ccceEeeCCceEEEcCCCCCCCCCcccccccCcccccCCCCCCCCccccceEEeccccccCCCCCCCEEEEEEecchhHH
Q 003269 362 PYVTFTDAGRKWRCNICALLNDVPGDYFAHLDATGRRIDIDQRPELTKGSVEFVAPTEYMVRPPMPPLYFFLIDVSISAI 441 (835)
Q Consensus 362 Pf~~f~~~G~~W~Cn~C~~~N~vP~~Y~~~ld~~g~R~D~~~rPEL~~gtVEfvap~eY~~r~p~pp~yvFvIDvS~~av 441 (835)
||++|+++|++|+||+|+.+|++|.++++....++.|.|+++|+||.+++|||++|+||++|.+.|++|||+||||.+++
T Consensus 211 Pfv~fi~~g~kw~CNiC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~p~P~~yvFlIDVS~~a~ 290 (861)
T COG5028 211 PFVQFIEQGRKWRCNICRSKNDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQPPPPVYVFLIDVSFEAI 290 (861)
T ss_pred ceEEEecCCcEEEEeeccccccCcccccCcCCCCCccccccccchhhceeeEEecccceeeccCCCCEEEEEEEeehHhh
Confidence 99999999999999999999999999998888999999999999999999999999999999999999999999999999
Q ss_pred hhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCC-CCcccchhhhHHHH
Q 003269 442 RSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLP-DDLLVNLSESRSVV 519 (835)
Q Consensus 442 ~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~-~~lLv~l~esr~~I 519 (835)
++|++.++.++|++.|+.+++ ++|+||+||.||++|||++++.+++ .+|++++|+||+|+|.+ .+|++++.+++..+
T Consensus 291 ~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~-~~~~~vsdld~pFlPf~s~~fv~pl~~~k~~~ 369 (861)
T COG5028 291 KNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLD-EQMLIVSDLDEPFLPFPSGLFVLPLKSCKQII 369 (861)
T ss_pred hcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCc-cceeeecccccccccCCcchhcccHHHHHHHH
Confidence 999999999999999999976 6899999999999999999998874 38999999999999997 67899999999999
Q ss_pred HHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcCCEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHH
Q 003269 520 DTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFY 599 (835)
Q Consensus 520 ~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FY 599 (835)
+.||+.++.+|.+++.++.|+|.||++|..+++.+||||++|.+++||.|.|+|..|+| +|+.++...+.||
T Consensus 370 etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~GGkii~~~stlPn~G~Gkl~~r~d--------~e~~ll~c~d~fY 441 (861)
T COG5028 370 ETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGTGGKIIVFLSTLPNMGIGKLQLRED--------KESSLLSCKDSFY 441 (861)
T ss_pred HHHHHHhhhhhcccCCCccccCHHHHHHHHHhhccCceEEEEeecCCCccccccccccc--------chhhhccccchHH
Confidence 99999999999999999999999999999999999999999999999999999999865 6777999999999
Q ss_pred HHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcch--hHHHHHHHHHhhcccccccceEEEEEeC
Q 003269 600 KQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTT--HGERLRHELSRDLTRETAWEAVMRIRCG 677 (835)
Q Consensus 600 k~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~--d~~~L~~dL~r~l~r~~g~~a~mrVR~S 677 (835)
|+++.+|++.||+||+|+++.+|+|++|++.|+++|||++|||++|+..+ |..||.+||.+++.+++||+++||||||
T Consensus 442 k~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~ls~~~gy~~~~rvR~S 521 (861)
T COG5028 442 KEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHLSMEIGYEAVMRVRCS 521 (861)
T ss_pred HHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhhhhhhhhheeeEeecc
Confidence 99999999999999999999999999999999999999999999999998 9999999999999999999999999999
Q ss_pred CCceEeeeecCcccCCCCceEeccCCCCCcEEEEEeeccccCCCceeEEEEEEEEEecCCcEEEEEEcCcccccCCHHHH
Q 003269 678 KGVRFTNYHGNFMLRSTDLLALPAVDCDKAYAMQLSLEETLLTTQTVYFQVALLYTASCGERRIRVHTLAAPVVSNLSDM 757 (835)
Q Consensus 678 ~Gl~V~~~~Gnf~~rs~~~~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts~l~~v 757 (835)
+||++++|||||+.|+.++++|+.++.|+|+.|+|++|+++.. ..+|||+|+|||+.+|||||||+|+++++++++.|+
T Consensus 522 ~glr~s~fyGnf~~rs~dl~~F~tm~rd~Sl~~~~sid~~l~~-~~v~fQvAlL~T~~~GeRRiRVvn~s~~~ss~~~ev 600 (861)
T COG5028 522 TGLRVSSFYGNFFNRSSDLCAFSTMPRDTSLLVEFSIDEKLMT-SDVYFQVALLYTLNDGERRIRVVNLSLPTSSSIREV 600 (861)
T ss_pred CceehhhhhccccccCcccccccccCCCceEEEEEEecccccC-CceEEEEEEEeeccCCceEEEEEEeccccchhHHHH
Confidence 9999999999999999999999999999999999999999976 889999999999999999999999999999999999
Q ss_pred HHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 758 YQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 758 f~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
|+++|+++|+.+|+|+|+.++....++++|+.|++++++||+.||| .|+..+.++||+||++||+||+|+|+
T Consensus 601 yasadq~aIa~~lak~a~~~~~~~s~~~~r~~i~~s~~~IL~~Ykk-~~~~snt~tql~Lp~nL~lLPll~la 672 (861)
T COG5028 601 YASADQLAIACILAKKASTKALNSSLKEARVLINKSMVDILKAYKK-ELVKSNTSTQLPLPANLKLLPLLMLA 672 (861)
T ss_pred HHhccHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH-HHhhccCCccccchhhhHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999 88888999999999999999999985
No 4
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=4.8e-115 Score=1028.50 Aligned_cols=536 Identities=25% Similarity=0.452 Sum_probs=485.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCC-----------------CCCCCCCccccc----cCCCCcEeeecCccCCCHHHHhhcCC
Q 003269 278 IPGSIEPGIDLKSLPRPLDGD-----------------VEPSSLAETYPL----NCHSRYLRLTTSAIPNSQSLVSRWHL 336 (835)
Q Consensus 278 ~~~~~dp~~~~~~ip~p~~~~-----------------~~pp~~~~~~~~----N~sP~yiR~T~~~iP~t~~l~~~~~L 336 (835)
+..|||+ ++||||+... ..||+.+++|++ ||+|+|||+|||+||.+.++++.++|
T Consensus 599 ~~~ri~~----~~ip~p~~~~~~~~~~~~~~~~~t~k~~~pp~~~~~~~~~dtgn~dP~~~r~tmY~iP~~~~~~~~~~i 674 (1560)
T PTZ00395 599 TINRIDM----NKIPRPIINTQEKKKKKNLKVFETCKYISPPSYYQPYISIDTGKADPRFLKSTLYQIPLFSETLKLSQI 674 (1560)
T ss_pred cccccCc----ccCCCcccccccccccccchhhhhccCCCCCCCCCceEEeecCCCChhhhhhhhhcCcchHHHHHhcCC
Confidence 5689999 9999998643 368999999986 99999999999999999999999999
Q ss_pred CeEEEEccCCCCCCCCC----------------------CCcceeecccceEeeCCceEEEcCCCCCCCCCcc----cc-
Q 003269 337 PLGAVVCPLAEPPEGNL----------------------FICRTYVNPYVTFTDAGRKWRCNICALLNDVPGD----YF- 389 (835)
Q Consensus 337 Plgivv~Pfa~~~~~e~----------------------~rCrAYiNPf~~f~~~G~~W~Cn~C~~~N~vP~~----Y~- 389 (835)
||||||+|||.+.+.|. .+|++|+|+++.|+.. ++++||||+..+.+-++ ++
T Consensus 675 P~gi~v~Pfa~~~~~e~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~~~-~~~~c~~c~~~~~i~e~~~~~~~~ 753 (1560)
T PTZ00395 675 PFGIIVNPFACLNEGEGIDKIDMKDIINDKEENIEILRCPKCLGYLHATILEDIS-SSVQCVFCDTDFLINENVLFDIFQ 753 (1560)
T ss_pred CceeecchhhhcCCCCCCcccchhhcccchhhccceeecchhHhhhcchheeccc-ceEEEEecCCcchhhHHHHHHHHH
Confidence 99999999999765432 7999999999999875 89999999999988542 21
Q ss_pred --cccCcccccCCCCCC----CCccccceEEecccccc------------------------------------------
Q 003269 390 --AHLDATGRRIDIDQR----PELTKGSVEFVAPTEYM------------------------------------------ 421 (835)
Q Consensus 390 --~~ld~~g~R~D~~~r----PEL~~gtVEfvap~eY~------------------------------------------ 421 (835)
..+.+ +..|.+++ --|.+|+||+++|.-|+
T Consensus 754 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 831 (1560)
T PTZ00395 754 YNEKIGH--KESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMITNKIMSFTKHISNSLVAN 831 (1560)
T ss_pred Hhhhhcc--ccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhhhhhhhhhhhhhcchheec
Confidence 11211 11233322 24678999998875432
Q ss_pred --------------------------------------------------------------------------------
Q 003269 422 -------------------------------------------------------------------------------- 421 (835)
Q Consensus 422 -------------------------------------------------------------------------------- 421 (835)
T Consensus 832 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 911 (1560)
T PTZ00395 832 DSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGNHLYGKDHDVQNFDNVMDN 911 (1560)
T ss_pred ccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCcccccCcccccchhhhccC
Confidence
Q ss_pred -----------------------------------CCCCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCc
Q 003269 422 -----------------------------------VRPPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRT 466 (835)
Q Consensus 422 -----------------------------------~r~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt 466 (835)
++.++||+||||||||+.||++|+++++|++|+++|+.|+ ++|+
T Consensus 912 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL~-dpRT 990 (1560)
T PTZ00395 912 ANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYTILEGIRYAVQNVK-CPQT 990 (1560)
T ss_pred CceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHHHHHHHHHHHhcCC-CCCc
Confidence 0236789999999999999999999999999999999998 4789
Q ss_pred eEEEEEEcCeEEEEecCCC-------------CCCCceeeecccccccCCCC-CCcccchhhhHHHHHHHHhhCCccccC
Q 003269 467 QIGFITFDSTIHFYNMKSS-------------LTQPQMMVISDLDDIFVPLP-DDLLVNLSESRSVVDTLLDSLPSMFQD 532 (835)
Q Consensus 467 ~VGiITFds~V~fynl~~~-------------~~~pqmlVvsDldd~f~Pl~-~~lLv~l~esr~~I~~lLd~L~~~~~~ 532 (835)
||||||||++||||+|+.. ++++||+||+||||+|+|++ ++|||++.|+|+.|+.|||+|++||..
T Consensus 991 RVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qPQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~ 1070 (1560)
T PTZ00395 991 KIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNHQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTT 1070 (1560)
T ss_pred EEEEEEecCcEEEEecCcccccccccccccccCCCceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999875 47899999999999999998 899999999999999999999999999
Q ss_pred CCCcccchHHHHHHHHHHHHhcC--CEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcC
Q 003269 533 NMNVESAFGPALKAAFMVMSRLG--GKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQ 610 (835)
Q Consensus 533 ~~~~~~alG~AL~aA~~lL~~~G--GkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~g 610 (835)
....++|+|+||++|+++|+.+| |||++|++++|++|+|+|+.|++ +.+|+.|+.++++|||+||.+|++++
T Consensus 1071 t~~~esCLGSALqAA~~aLk~~GGGGKIiVF~SSLPniGpGaLK~Re~------~~KEk~Ll~pqd~FYK~LA~ECsk~q 1144 (1560)
T PTZ00395 1071 MQSYGSCGNSALKIAMDMLKERNGLGSICMFYTTTPNCGIGAIKELKK------DLQENFLEVKQKIFYDSLLLDLYAFN 1144 (1560)
T ss_pred cCCCcccHHHHHHHHHHHHHhcCCCceEEEEEcCCCCCCCCccccccc------ccccccccccchHHHHHHHHHHHhcC
Confidence 98899999999999999999986 99999999999999999997753 34777889999999999999999999
Q ss_pred eEEEEEEecCCccC--hhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhhccc-ccccceEEEEEeCCCceEeeee-
Q 003269 611 IAVNVYAFSDKYTD--IASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRDLTR-ETAWEAVMRIRCGKGVRFTNYH- 686 (835)
Q Consensus 611 IsVDlF~~s~~~vd--iatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l~r-~~g~~a~mrVR~S~Gl~V~~~~- 686 (835)
|+||||+++..|+| |++|+.|+++|||+||||+.|+..+|..+|.+||.+.|++ ++||+|+||||||+||+|++||
T Consensus 1145 ISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fyG 1224 (1560)
T PTZ00395 1145 ISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLFC 1224 (1560)
T ss_pred CceEEEEccCcccccccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEec
Confidence 99999999999876 7999999999999999999999999999999999999997 6999999999999999999999
Q ss_pred -cCcc--cCCCCceEeccCCCCCcEEEEEeeccccCCCceeEEEEEEEEEecCCcEEEEEEcCcccccCCHHHHHHhcCh
Q 003269 687 -GNFM--LRSTDLLALPAVDCDKAYAMQLSLEETLLTTQTVYFQVALLYTASCGERRIRVHTLAAPVVSNLSDMYQQADT 763 (835)
Q Consensus 687 -Gnf~--~rs~~~~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts~l~~vf~s~D~ 763 (835)
|+++ .+++++++|++|++|++|+|+|+||++|.+...+|||+|||||+.+|||||||||++|+||+++.+||+++|+
T Consensus 1225 ~GnnF~s~rStDLLaLP~Id~DqSfaVeLk~DEkL~~~~~AYFQaALLYTSssGERRIRVHTLALPVTSsLseVFrsADq 1304 (1560)
T PTZ00395 1225 CNNNFNSIISVDTIKIPKIRHDQTFAFLLNYSDISESKKQIYFQCACIYTNLWGDRFVRLHTTHMNLTSSLSTVFRYTDA 1304 (1560)
T ss_pred cCCccccccccccccccccCCCceEEEEEEeccccCCCCcEEEEEEEeeccCCCcEEEEEEeeeecccCCHHHHHHhhcH
Confidence 4555 4688999999999999999999999999878899999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 764 GAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 764 eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
+|++++|+|+|+++++++ .++|+.|.++|+++|.+||| +|++.++++||||||+||+||||+|+
T Consensus 1305 dAIvslLAK~AV~~aLss--sdARe~L~dklVdILtaYRK-~CAsssssgQLILPESLKLLPLYILS 1368 (1560)
T PTZ00395 1305 EALMNILIKQLCTNILHN--DNYSKIIIDNLAAILFSYRI-NCASSAHSGQLILPDTLKLLPLFTSS 1368 (1560)
T ss_pred HHHHHHHHHHHHHHhccc--HHHHHHHHHHHHHHHHHHHH-HhhccCCCccccchhHHHHHHHHHHH
Confidence 999999999999999987 49999999999999999999 99999999999999999999999985
No 5
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=2.7e-101 Score=922.56 Aligned_cols=495 Identities=21% Similarity=0.326 Sum_probs=440.1
Q ss_pred CCCCcEeeecCccCCCHHHHhhcCCCeEEEEccCCCCCCC-----CC---CCcceeecccceEeeCCceEEEcCCCCCCC
Q 003269 312 CHSRYLRLTTSAIPNSQSLVSRWHLPLGAVVCPLAEPPEG-----NL---FICRTYVNPYVTFTDAGRKWRCNICALLND 383 (835)
Q Consensus 312 ~sP~yiR~T~~~iP~t~~l~~~~~LPlgivv~Pfa~~~~~-----e~---~rCrAYiNPf~~f~~~G~~W~Cn~C~~~N~ 383 (835)
.+-++||+|||+||+|++++++++|||||+|+||+...+. +. ++|||||||||+|+++|++|+||||+..|+
T Consensus 7 e~~~gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~~vp~v~~~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~N~ 86 (761)
T PLN00162 7 EAIDGVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLPELPVLPYDPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQRNH 86 (761)
T ss_pred cccCceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCCCCCcCCCCCCccCCCcCEECCceEEecCCCEEEccCCCCCCC
Confidence 4567999999999999999999999999999999875432 11 899999999999999999999999999999
Q ss_pred CCcccccccCcccccCCCCCCCCc--cccceEEeccccccCCCCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCC
Q 003269 384 VPGDYFAHLDATGRRIDIDQRPEL--TKGSVEFVAPTEYMVRPPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELP 461 (835)
Q Consensus 384 vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp 461 (835)
+|.+|+ +++.+ +.+||| .++||||++++ |+.+++.+|+||||||+|..+++ ++.++++|+.+|+.||
T Consensus 87 ~P~~Y~-~~~~~------~~p~EL~p~~~TvEY~~p~-~~~~~~~pp~fvFvID~s~~~~~---l~~lk~sl~~~L~~LP 155 (761)
T PLN00162 87 FPPHYS-SISET------NLPAELFPQYTTVEYTLPP-GSGGAPSPPVFVFVVDTCMIEEE---LGALKSALLQAIALLP 155 (761)
T ss_pred CchHhc-ccCcc------CCChhhcCCceeEEEECCC-CCCCCCCCcEEEEEEecchhHHH---HHHHHHHHHHHHHhCC
Confidence 999997 44433 478999 89999999998 99999999999999999999987 5567899999999999
Q ss_pred CCCCceEEEEEEcCeEEEEecCCCCCCCceeeec--------cccc----------------------ccCCCCCCcccc
Q 003269 462 GFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVIS--------DLDD----------------------IFVPLPDDLLVN 511 (835)
Q Consensus 462 ~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvs--------Dldd----------------------~f~Pl~~~lLv~ 511 (835)
++ ++|||||||++||||+|+... .++++|+. |++| .|+|..++||++
T Consensus 156 ~~--a~VGlITF~s~V~~~~L~~~~-~~~~~Vf~g~k~~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvp 232 (761)
T PLN00162 156 EN--ALVGLITFGTHVHVHELGFSE-CSKSYVFRGNKEVSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLP 232 (761)
T ss_pred CC--CEEEEEEECCEEEEEEcCCCC-CcceEEecCCccCCHHHHHHHhccccccccccccccccccccccCCCccceeEE
Confidence 75 899999999999999998654 57777775 2222 234567899999
Q ss_pred hhhhHHHHHHHHhhCCcc---ccCCCCcccchHHHHHHHHHHHH----hcCCEEEEEecCCCCCCcccccccC--Ccccc
Q 003269 512 LSESRSVVDTLLDSLPSM---FQDNMNVESAFGPALKAAFMVMS----RLGGKLLIFQNSLPSLGVGCLKLRG--DDLRV 582 (835)
Q Consensus 512 l~esr~~I~~lLd~L~~~---~~~~~~~~~alG~AL~aA~~lL~----~~GGkIivF~sg~Pt~GpG~L~~re--~~~r~ 582 (835)
++||+..|+++||+|+++ +.++++++||+|+||++|..+|+ .+||||++|++|+||+|||+|+.|+ +..|.
T Consensus 233 l~e~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~~~~~~~gGrI~~F~sgppT~GpG~v~~r~~~~~~rs 312 (761)
T PLN00162 233 ASECEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLGACVPGTGARIMAFVGGPCTEGPGAIVSKDLSEPIRS 312 (761)
T ss_pred HHHHHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHhhccCCCceEEEEEeCCCCCCCCceeecccccccccC
Confidence 999999999999999876 35678899999999999999998 6799999999999999999999885 34566
Q ss_pred cCC--ccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHh
Q 003269 583 YGT--DKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSR 660 (835)
Q Consensus 583 ~gt--~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r 660 (835)
|.+ +++.++++++.+||++||++|+++||+||||+++.+|+||++|+.|++.|||.+++|++|+. ++|.++|+|
T Consensus 313 h~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~----~~f~~~l~r 388 (761)
T PLN00162 313 HKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGH----SVFKDSLRR 388 (761)
T ss_pred ccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcCh----HHHHHHHHH
Confidence 654 55668999999999999999999999999999999999999999999999999999999976 467788888
Q ss_pred hcccc------cccceEEEEEeCCCceEeeeecCccc---------------CCCCceEeccCCCCCcEEEEEeecccc-
Q 003269 661 DLTRE------TAWEAVMRIRCGKGVRFTNYHGNFML---------------RSTDLLALPAVDCDKAYAMQLSLEETL- 718 (835)
Q Consensus 661 ~l~r~------~g~~a~mrVR~S~Gl~V~~~~Gnf~~---------------rs~~~~~l~~id~d~Sia~~f~~d~~l- 718 (835)
.++|+ +||+|+||||||+||+|+++||||.. +++++|+++++|+|++|+|+|+++++.
T Consensus 389 ~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~~~~~ 468 (761)
T PLN00162 389 VFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVANSGQ 468 (761)
T ss_pred HhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEEEEccccc
Confidence 88763 89999999999999999999999862 357889999999999999999998765
Q ss_pred ----CCCceeEEEEEEEEEecCCcEEEEEEcCcccccC--CHHHHHHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 003269 719 ----LTTQTVYFQVALLYTASCGERRIRVHTLAAPVVS--NLSDMYQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQL 792 (835)
Q Consensus 719 ----~~~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts--~l~~vf~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~ 792 (835)
.+...+|||||++||+.+|||||||||++++++. ++.++|+++|+||++++|||+|+++++++++.|+|+||++
T Consensus 469 ~~~~~~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~~~~~~v~~~fDqeA~a~llaR~av~k~~~~~~~d~~r~ld~ 548 (761)
T PLN00162 469 SNPQPPGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEGSSSEELVAGFDQEAAAVVMARLASHKMETEEEFDATRWLDR 548 (761)
T ss_pred cCCCCCCceEEEEEEEEEEcCCCCEEEEEEccccCccCCCCHHHHHHhcCHHHHHHHHHHHHHHHHhhCCHHHHHHHHHH
Confidence 3456799999999999999999999999999754 8899999999999999999999999999999999999999
Q ss_pred HHHHHH---HHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 793 RLVKAL---KEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 793 ~lv~iL---~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
+|++++ .+||| .+ +.+|+|||+||+||+||+.
T Consensus 549 ~li~~~~~f~~Yrk-~~-----~~s~~Lp~~~~~lP~f~~~ 583 (761)
T PLN00162 549 ALIRLCSKFGDYRK-DD-----PSSFRLSPNFSLYPQFMFN 583 (761)
T ss_pred HHHHHHHHHhhhcc-cC-----CccccCCHHHHHHHHHHHH
Confidence 999875 77888 54 2359999999999999873
No 6
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2e-73 Score=642.67 Aligned_cols=498 Identities=20% Similarity=0.335 Sum_probs=423.4
Q ss_pred CCCCcEeeecCccCCCHHHHhhcCCCeEEEEccCCCCCCC-----CC---CCcceeecccceEeeCCceEEEcCCCCCCC
Q 003269 312 CHSRYLRLTTSAIPNSQSLVSRWHLPLGAVVCPLAEPPEG-----NL---FICRTYVNPYVTFTDAGRKWRCNICALLND 383 (835)
Q Consensus 312 ~sP~yiR~T~~~iP~t~~l~~~~~LPlgivv~Pfa~~~~~-----e~---~rCrAYiNPf~~f~~~G~~W~Cn~C~~~N~ 383 (835)
-.-+.+|+|||+||.++....++.+|++++|+||.+.... +. ++|+||+||||.++.+.+.|.|+||+..|.
T Consensus 7 e~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~~~~~~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~qrN~ 86 (745)
T KOG1986|consen 7 EEIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPDLPPIQYDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQRNP 86 (745)
T ss_pred ccCCCcccccccCCCcccccccccccHHHhccccccCCCCCccCCCCchhccchhhcCcceeecccCceEeccccccCCC
Confidence 4456899999999999999999999999999999965541 11 889999999999999999999999999999
Q ss_pred CCcccccccCcccccCCCCCCCCc--cccceEEeccccccCCCCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCC
Q 003269 384 VPGDYFAHLDATGRRIDIDQRPEL--TKGSVEFVAPTEYMVRPPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELP 461 (835)
Q Consensus 384 vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp 461 (835)
+|.+|-. +..+ +..+|| .+.||||+.++.. ..+|+||||||++..+.+ |+.++++|+.+|+.||
T Consensus 87 ~p~~Y~~-is~~------n~P~el~Pq~stvEy~l~~~~----~~ppvf~fVvDtc~~eee---L~~LkssL~~~l~lLP 152 (745)
T KOG1986|consen 87 FPPHYSG-ISEN------NLPPELLPQYSTVEYTLSPGR----VSPPVFVFVVDTCMDEEE---LQALKSSLKQSLSLLP 152 (745)
T ss_pred CChhhcc-cCcc------CCChhhcCCcceeEEecCCCC----CCCceEEEEEeeccChHH---HHHHHHHHHHHHhhCC
Confidence 9999854 4333 456688 7999999988653 358999999999998854 8889999999999999
Q ss_pred CCCCceEEEEEEcCeEEEEecCCCCCCCceeeec---cc-----cccc------------CCCCCCcccchhhhHHHHHH
Q 003269 462 GFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVIS---DL-----DDIF------------VPLPDDLLVNLSESRSVVDT 521 (835)
Q Consensus 462 ~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvs---Dl-----dd~f------------~Pl~~~lLv~l~esr~~I~~ 521 (835)
++ ++||||||++.||+|+|+... ..+..|+. |+ .|.. ......||.++.||...|.+
T Consensus 153 ~~--alvGlItfg~~v~v~el~~~~-~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~ 229 (745)
T KOG1986|consen 153 EN--ALVGLITFGTMVQVHELGFEE-CSKSYVFSGNKEYSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTN 229 (745)
T ss_pred Cc--ceEEEEEecceEEEEEcCCCc-ccceeEEeccccccHHHHHHHhcCCcccccCCcccccchhhhccHHHHHHHHHH
Confidence 86 999999999999999998753 33344442 11 1110 00124799999999999999
Q ss_pred HHhhCC---ccccCCCCcccchHHHHHHHHHHHHh----cCCEEEEEecCCCCCCccccccc--CCcccccC--Cccccc
Q 003269 522 LLDSLP---SMFQDNMNVESAFGPALKAAFMVMSR----LGGKLLIFQNSLPSLGVGCLKLR--GDDLRVYG--TDKEHS 590 (835)
Q Consensus 522 lLd~L~---~~~~~~~~~~~alG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~r--e~~~r~~g--t~~e~~ 590 (835)
+|++|. +.+...+++.||+|.||++|+.||+. +|+||++|++|+||.|||++..+ ++.+|+|. +++...
T Consensus 230 lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshhdi~~d~a~ 309 (745)
T KOG1986|consen 230 LLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHHDIEKDNAP 309 (745)
T ss_pred HHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchhhcCCCcCcccccCcchH
Confidence 999994 45677889999999999999999986 69999999999999999999886 46788777 355567
Q ss_pred cCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhhcc--ccccc
Q 003269 591 LRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRDLT--RETAW 668 (835)
Q Consensus 591 l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l~--r~~g~ 668 (835)
+++++.+||++||++++.+|++||||+++.++++|++|..|++.|||.|...++|+.+.++..|.+-+.|.-. ...||
T Consensus 310 y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~d~~~~l~~~f 389 (745)
T KOG1986|consen 310 YYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTRDGEGDLKMGF 389 (745)
T ss_pred HHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhccccccchhhhc
Confidence 8899999999999999999999999999999999999999999999999999999987766655555443322 46899
Q ss_pred ceEEEEEeCCCceEeeeecCccc---------------CCCCceEeccCCCCCcEEEEEeeccc--cCCCceeEEEEEEE
Q 003269 669 EAVMRIRCGKGVRFTNYHGNFML---------------RSTDLLALPAVDCDKAYAMQLSLEET--LLTTQTVYFQVALL 731 (835)
Q Consensus 669 ~a~mrVR~S~Gl~V~~~~Gnf~~---------------rs~~~~~l~~id~d~Sia~~f~~d~~--l~~~~~~~IQ~All 731 (835)
+|.|+|+||++|+|.+.+|++.. +++..|++..++..+++++.|++... ++....+||||++.
T Consensus 390 n~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~~~~~~~iQFiT~ 469 (745)
T KOG1986|consen 390 NGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIPQSGQGYIQFITQ 469 (745)
T ss_pred CceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCCCCCeeEEEEEEE
Confidence 99999999999999999998652 35678999999999999999998643 33356899999999
Q ss_pred EEecCCcEEEEEEcCcccccCCH-HHHHHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q 003269 732 YTASCGERRIRVHTLAAPVVSNL-SDMYQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHR 810 (835)
Q Consensus 732 YT~~~GeRRIRV~Tl~lpvts~l-~~vf~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~ 810 (835)
|.+.+|++|+||+|+++++++.. .++-.++|+||++++|||+++.++.+++-.|+++|+++.|+++...|.. +-..+
T Consensus 470 Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~Lirlc~kFg~-y~k~d- 547 (745)
T KOG1986|consen 470 YQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRNLIRLCQKFGD-YRKDD- 547 (745)
T ss_pred EEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHHHHHhc-cCCCC-
Confidence 99999999999999999999887 5899999999999999999999999998899999999999998665544 33343
Q ss_pred CCCceecCcccchhhHHHh
Q 003269 811 LGSRMIYPESLKFLPFRLH 829 (835)
Q Consensus 811 ~~gqLiLPeslKlLPly~l 829 (835)
+..+-|+++|.++|-||.
T Consensus 548 -Pssf~l~~~fsl~PQfmf 565 (745)
T KOG1986|consen 548 -PSSFRLSPNFSLYPQFMF 565 (745)
T ss_pred -chhhcCChhhhhhHHHHH
Confidence 334889999999999974
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=4.6e-67 Score=577.42 Aligned_cols=496 Identities=19% Similarity=0.331 Sum_probs=417.2
Q ss_pred cCCCCcEeeecCccCCCHHHHhhcCCCeEEEEccCCCCCCCC-----C----CCcceeecccceEeeCCceEEEcCCCCC
Q 003269 311 NCHSRYLRLTTSAIPNSQSLVSRWHLPLGAVVCPLAEPPEGN-----L----FICRTYVNPYVTFTDAGRKWRCNICALL 381 (835)
Q Consensus 311 N~sP~yiR~T~~~iP~t~~l~~~~~LPlgivv~Pfa~~~~~e-----~----~rCrAYiNPf~~f~~~G~~W~Cn~C~~~ 381 (835)
+.+-+.||+|||+||.|+....++.+|++|+|+||++.+... . .-|+||+||||.++.+.+.|+|.||+..
T Consensus 6 iee~dgir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~~~v~~yepv~C~~pC~avlnpyC~id~r~~~W~CpfCnqr 85 (755)
T COG5047 6 IEENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDALTVNYYEPVKCTAPCKAVLNPYCHIDERNQSWICPFCNQR 85 (755)
T ss_pred hccccceEEEEecccCCccccccccccHHHhccccccccccCcccCCCceecccchhhcCcceeeccCCceEecceecCC
Confidence 456678999999999999999999999999999999874322 1 4499999999999999999999999999
Q ss_pred CCCCcccccccCcccccCCCCCCCCc--cccceEEeccccccCCCCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhc
Q 003269 382 NDVPGDYFAHLDATGRRIDIDQRPEL--TKGSVEFVAPTEYMVRPPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDE 459 (835)
Q Consensus 382 N~vP~~Y~~~ld~~g~R~D~~~rPEL--~~gtVEfvap~eY~~r~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~ 459 (835)
|.+|..|-. |.. .+...|| .+.||||+..++ ...+|+|+||||++++..+ |.+++++|+..|..
T Consensus 86 n~lp~qy~~-iS~------~~LplellpqssTiey~lskp----~~~ppvf~fvvD~~~D~e~---l~~Lkdslivslsl 151 (755)
T COG5047 86 NTLPPQYRD-ISN------ANLPLELLPQSSTIEYTLSKP----VILPPVFFFVVDACCDEEE---LTALKDSLIVSLSL 151 (755)
T ss_pred CCCChhhcC-CCc------ccCCccccCCCceEEEEccCC----ccCCceEEEEEEeecCHHH---HHHHHHHHHHHHhc
Confidence 999998842 332 2456698 799999998875 3468999999999997654 88999999999999
Q ss_pred CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecc--------ccccc------CC-------------CCCCcccch
Q 003269 460 LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISD--------LDDIF------VP-------------LPDDLLVNL 512 (835)
Q Consensus 460 Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsD--------ldd~f------~P-------------l~~~lLv~l 512 (835)
||.+ +.||||||++.||+|+++... ..+-.|.+- |+++. .+ ....||.++
T Consensus 152 lppe--aLvglItygt~i~v~el~ae~-~~r~~VF~g~~eyt~~~L~~ll~~~~~~~~~~~es~is~~~~~~~~rFl~p~ 228 (755)
T COG5047 152 LPPE--ALVGLITYGTSIQVHELNAEN-HRRSYVFSGNKEYTKENLQELLALSKPTKSGGFESKISGIGQFASSRFLLPT 228 (755)
T ss_pred CCcc--ceeeEEEecceeEEEeccccc-cCcceeecchHHHHHHHHHHHhcccCCCCcchhhhhcccccccchhhhhccH
Confidence 9976 899999999999999998653 223333321 12111 01 123589999
Q ss_pred hhhHHHHHHHHhhCC---ccccCCCCcccchHHHHHHHHHHHHh----cCCEEEEEecCCCCCCccccccc--CCccccc
Q 003269 513 SESRSVVDTLLDSLP---SMFQDNMNVESAFGPALKAAFMVMSR----LGGKLLIFQNSLPSLGVGCLKLR--GDDLRVY 583 (835)
Q Consensus 513 ~esr~~I~~lLd~L~---~~~~~~~~~~~alG~AL~aA~~lL~~----~GGkIivF~sg~Pt~GpG~L~~r--e~~~r~~ 583 (835)
.+|...+.++|++|. +.....+++.||+|+||.+|..+|+. .|+||++|.+|+||+|+|+|..+ +|.+|.|
T Consensus 229 q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~~p~~~~~i~lF~~GPcTvGpG~Vvs~elkEpmRsh 308 (755)
T COG5047 229 QQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQCFPNAGCHIVLFAGGPCTVGPGTVVSTELKEPMRSH 308 (755)
T ss_pred HHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhhccCcceeEEEEcCCCccccCceeeehhhccccccc
Confidence 999999999999994 35567889999999999999999986 69999999999999999999886 4678876
Q ss_pred CC--ccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhh
Q 003269 584 GT--DKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRD 661 (835)
Q Consensus 584 gt--~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~ 661 (835)
+. .+..++.+++.+||++||++.+.+|.++|+|+.+.++++|.+|..|...|||.+...++|+.+++...|.+.|.+.
T Consensus 309 H~ie~d~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSfqrif~~d 388 (755)
T COG5047 309 HDIESDSAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSFQRIFNRD 388 (755)
T ss_pred ccccccchhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHHHHHhCcC
Confidence 63 3446789999999999999999999999999999999999999999999999999999999988877777766554
Q ss_pred ccc--ccccceEEEEEeCCCceEeeeecCccc---------------CCCCceEeccCCCCCcEEEEEeeccccCC----
Q 003269 662 LTR--ETAWEAVMRIRCGKGVRFTNYHGNFML---------------RSTDLLALPAVDCDKAYAMQLSLEETLLT---- 720 (835)
Q Consensus 662 l~r--~~g~~a~mrVR~S~Gl~V~~~~Gnf~~---------------rs~~~~~l~~id~d~Sia~~f~~d~~l~~---- 720 (835)
-.. ..||+|.|+|.|||+|+|++++|+... ..++.|.++.+.+.+++++.|++...-..
T Consensus 389 ~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal~fei~~~~~~~~~~ 468 (755)
T COG5047 389 SEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYALYFEIALGAASGSAQ 468 (755)
T ss_pred cccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEEEEEeccccCCCccC
Confidence 322 479999999999999999999998541 24567999999999999999998643222
Q ss_pred -CceeEEEEEEEEEecCCcEEEEEEcCcccccCC-HHHHHHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 003269 721 -TQTVYFQVALLYTASCGERRIRVHTLAAPVVSN-LSDMYQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKAL 798 (835)
Q Consensus 721 -~~~~~IQ~AllYT~~~GeRRIRV~Tl~lpvts~-l~~vf~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL 798 (835)
...+|||+.++|.+.+|.-||||+|++...++. ...+++++|+||+++++||+|+.++..++..|+-+|+++.++++.
T Consensus 469 ~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~ed~~Dv~rw~dr~lirlc 548 (755)
T COG5047 469 RPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAETEDIIDVFRWIDRNLIRLC 548 (755)
T ss_pred CcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHH
Confidence 257999999999999999999999999887765 456888999999999999999999999999999999999887775
Q ss_pred ---HHHhhhhhccCCCCCceecCcccchhhHHHh
Q 003269 799 ---KEYRNLYAVQHRLGSRMIYPESLKFLPFRLH 829 (835)
Q Consensus 799 ---~~YRk~~~a~~~~~gqLiLPeslKlLPly~l 829 (835)
+.||| ...+ .+-|+.++.++|.|+.
T Consensus 549 q~fa~y~k----~dps--sfrl~~~f~lypqf~y 576 (755)
T COG5047 549 QKFADYRK----DDPS--SFRLDPNFTLYPQFMY 576 (755)
T ss_pred HHHHhcCC----CCch--hhcCCcchhhhhHHHh
Confidence 55666 3333 4889999999999874
No 8
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=100.00 E-value=3.3e-55 Score=463.23 Aligned_cols=241 Identities=56% Similarity=0.965 Sum_probs=230.8
Q ss_pred CCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC-CCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCC
Q 003269 425 PMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF-PRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVP 503 (835)
Q Consensus 425 p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~-~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~P 503 (835)
|+||+||||||||.+++++|+++++|++|+++|+.||++ +|++|||||||+.||||+++...++++|++++|+||+|+|
T Consensus 1 p~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv~dl~d~f~P 80 (244)
T cd01479 1 PQPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVVSDLDDPFLP 80 (244)
T ss_pred CCCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEeeCcccccCC
Confidence 579999999999999999999999999999999999987 8999999999999999999998889999999999999999
Q ss_pred CCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcCCEEEEEecCCCCCCcccccccCCccccc
Q 003269 504 LPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLGGKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 504 l~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
++++||++++|+++.|+++||+|++++.++++.++|+|+||++|..+|+..||||++|++|+||+|+|+|+.|++ .+..
T Consensus 81 ~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~GGkIi~f~s~~pt~GpG~l~~~~~-~~~~ 159 (244)
T cd01479 81 LPDGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKETGGKIIVFQSSLPTLGAGKLKSRED-PKLL 159 (244)
T ss_pred CCcceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhcCCEEEEEeCCCCCcCCcccccCcc-cccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999875 4466
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeC--CCCcchhHHHHHHHHHhh
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYP--SFQSTTHGERLRHELSRD 661 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~--~F~~~~d~~~L~~dL~r~ 661 (835)
++++|+++++++++||++||.+|+++||+||+|+++.+|+||++|+.|+++|||.+++|+ +|+..+|.++|++||+|+
T Consensus 160 ~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~~~~~~~~~d~~kl~~dl~~~ 239 (244)
T cd01479 160 STDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYPSFNFSAPNDVEKLVNELARY 239 (244)
T ss_pred CchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEECCccCCchhhHHHHHHHHHHH
Confidence 778888999999999999999999999999999999999999999999999999999999 778789999999999999
Q ss_pred ccccc
Q 003269 662 LTRET 666 (835)
Q Consensus 662 l~r~~ 666 (835)
++|++
T Consensus 240 ltr~~ 244 (244)
T cd01479 240 LTRKI 244 (244)
T ss_pred hcccC
Confidence 99864
No 9
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=100.00 E-value=2.5e-51 Score=432.38 Aligned_cols=235 Identities=46% Similarity=0.848 Sum_probs=223.7
Q ss_pred CCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCC
Q 003269 425 PMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPL 504 (835)
Q Consensus 425 p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl 504 (835)
|+||+||||||+|++++++|++++++++|+++|+.|+++++++|||||||++||||++++...+++|+|++|+||.|+|.
T Consensus 1 p~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d~f~p~ 80 (239)
T cd01468 1 PQPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKDVFLPL 80 (239)
T ss_pred CCCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCccCcCCC
Confidence 58999999999999999999999999999999999997678999999999999999999877778999999999999999
Q ss_pred CCCcccchhhhHHHHHHHHhhCCccccC--CCCcccchHHHHHHHHHHHHhc--CCEEEEEecCCCCCCcccccccCCcc
Q 003269 505 PDDLLVNLSESRSVVDTLLDSLPSMFQD--NMNVESAFGPALKAAFMVMSRL--GGKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 505 ~~~lLv~l~esr~~I~~lLd~L~~~~~~--~~~~~~alG~AL~aA~~lL~~~--GGkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
++++|++++|+++.|+++|++|+.++.. +++.++|+|+||++|..+|+.. ||||++|++|+||+|||+|+.|++ .
T Consensus 81 ~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~gGkI~~f~sg~pt~GpG~l~~~~~-~ 159 (239)
T cd01468 81 PDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTFAGGRIIVFQGGLPTVGPGKLKSRED-K 159 (239)
T ss_pred cCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcCCCceEEEEECCCCCCCCCccccCcc-c
Confidence 9999999999999999999999999887 8889999999999999999998 999999999999999999999854 4
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHh
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSR 660 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r 660 (835)
+..++++|+++++++++||++||++|++++|+||+|+++.+++||++|+.|++.|||++++|++|+..+|.++|.+||+|
T Consensus 160 ~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 160 EPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDSFQAPNDGSKFKQDLQR 239 (239)
T ss_pred ccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCCCCCcccHHHHHHHhcC
Confidence 46667789999999999999999999999999999999999999999999999999999999999999999999999975
No 10
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=100.00 E-value=4.4e-51 Score=431.17 Aligned_cols=237 Identities=51% Similarity=0.915 Sum_probs=205.3
Q ss_pred CCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCC
Q 003269 425 PMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPL 504 (835)
Q Consensus 425 p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl 504 (835)
|+||+||||||+|.+++++|++++++++|+++|+.|+.+++++|||||||++||||+++.+..+++++|++|+||+|+|.
T Consensus 1 P~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~~dl~~~~~p~ 80 (243)
T PF04811_consen 1 PQPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQMIVVSDLDDPFIPL 80 (243)
T ss_dssp -S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEEEEEHHTTSHHSST
T ss_pred CCCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCcccchHHHhhcccCC
Confidence 67999999999999999999999999999999999997778999999999999999999988889999999999999999
Q ss_pred CCCcccchhhhHHHHHHHHhhCCccccCC--CCcccchHHHHHHHHHHHH--hcCCEEEEEecCCCCCCc-ccccccCCc
Q 003269 505 PDDLLVNLSESRSVVDTLLDSLPSMFQDN--MNVESAFGPALKAAFMVMS--RLGGKLLIFQNSLPSLGV-GCLKLRGDD 579 (835)
Q Consensus 505 ~~~lLv~l~esr~~I~~lLd~L~~~~~~~--~~~~~alG~AL~aA~~lL~--~~GGkIivF~sg~Pt~Gp-G~L~~re~~ 579 (835)
+++||+++.|+++.|+++|++|++++... ++.++|+|+||++|..+|+ ..||||++|++|+||+|+ |+|+.|++
T Consensus 81 ~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~~gGkI~~F~s~~pt~G~Gg~l~~~~~- 159 (243)
T PF04811_consen 81 PDGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRNTGGKILVFTSGPPTYGPGGSLKKRED- 159 (243)
T ss_dssp SSSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHTS-EEEEEEESS---SSSTTSS-SBTT-
T ss_pred cccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhccccCCEEEEEeccCCCCCCCceeccccc-
Confidence 99999999999999999999999988876 7899999999999999999 899999999999999999 67777754
Q ss_pred ccccCCccc-cccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHH
Q 003269 580 LRVYGTDKE-HSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHEL 658 (835)
Q Consensus 580 ~r~~gt~~e-~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL 658 (835)
.+.+++++| +.++.++++||++||++|+++||+||+|+++.+++|+++|+.|++.|||.+++|++|+.++|.++|++||
T Consensus 160 ~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~f~~~~~~~~l~~dl 239 (243)
T PF04811_consen 160 SSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPNFNAERDGEKLRQDL 239 (243)
T ss_dssp SCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETTTTCHHHHHHHHHHH
T ss_pred ccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCCCCCchhHHHHHHHH
Confidence 456666666 6778889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhhc
Q 003269 659 SRDL 662 (835)
Q Consensus 659 ~r~l 662 (835)
.|.+
T Consensus 240 ~r~~ 243 (243)
T PF04811_consen 240 KRLV 243 (243)
T ss_dssp HHHH
T ss_pred HHhC
Confidence 9864
No 11
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=100.00 E-value=5.4e-46 Score=397.31 Aligned_cols=225 Identities=20% Similarity=0.327 Sum_probs=195.5
Q ss_pred CCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCC---------------CCC
Q 003269 425 PMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSL---------------TQP 489 (835)
Q Consensus 425 p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~---------------~~p 489 (835)
|.||+||||||+|.++++ ++.++++|+.+|+.||++ ++|||||||++||||||+... ++.
T Consensus 1 p~pp~~vFviDvs~~~~e---l~~l~~sl~~~L~~lP~~--a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~~~~~~~~~ 75 (267)
T cd01478 1 TSPPVFLFVVDTCMDEEE---LDALKESLIMSLSLLPPN--ALVGLITFGTMVQVHELGFEECSKSYVFRGNKDYTAKQI 75 (267)
T ss_pred CCCCEEEEEEECccCHHH---HHHHHHHHHHHHHhCCCC--CEEEEEEECCEEEEEEcCCCcCceeeeccCCccCCHHHH
Confidence 578999999999999987 778999999999999976 899999999999999998541 111
Q ss_pred -ceee------------ecccccccCCCC-CCcccchhhhHHHHHHHHhhCCcc---ccCCCCcccchHHHHHHHHHHHH
Q 003269 490 -QMMV------------ISDLDDIFVPLP-DDLLVNLSESRSVVDTLLDSLPSM---FQDNMNVESAFGPALKAAFMVMS 552 (835)
Q Consensus 490 -qmlV------------vsDldd~f~Pl~-~~lLv~l~esr~~I~~lLd~L~~~---~~~~~~~~~alG~AL~aA~~lL~ 552 (835)
+|++ .+|++|.|.|.+ ++||++++||++.|+++||+|+.+ +.++++++||+|+||++|..+|+
T Consensus 76 ~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~ 155 (267)
T cd01478 76 QDMLGLGGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLE 155 (267)
T ss_pred HHHhccccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHH
Confidence 1222 245788999876 699999999999999999999875 46678899999999999999998
Q ss_pred ----hcCCEEEEEecCCCCCCcccccccC--CcccccC-Cccc-cccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccC
Q 003269 553 ----RLGGKLLIFQNSLPSLGVGCLKLRG--DDLRVYG-TDKE-HSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTD 624 (835)
Q Consensus 553 ----~~GGkIivF~sg~Pt~GpG~L~~re--~~~r~~g-t~~e-~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vd 624 (835)
.+||||++|++|+||+|||+|+.|+ +..|.|+ .+++ .++++++++||++||.+|+++||+||+|+++.+|+|
T Consensus 156 ~~~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~s~d~vg 235 (267)
T cd01478 156 ACFPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAGCLDQVG 235 (267)
T ss_pred hhcCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEeccccccC
Confidence 5799999999999999999999885 4456655 3444 469999999999999999999999999999999999
Q ss_pred hhhhhhhccccccEEEEeCCCCcchhHHHH
Q 003269 625 IASLGTLAKYTGGQVYYYPSFQSTTHGERL 654 (835)
Q Consensus 625 iatL~~L~~~TGG~v~~y~~F~~~~d~~~L 654 (835)
|++|+.|++.|||.+|+|++|+.+.+.+.|
T Consensus 236 laem~~l~~~TGG~v~~~~~f~~~~f~~s~ 265 (267)
T cd01478 236 LLEMKVLVNSTGGHVVLSDSFTTSIFKQSF 265 (267)
T ss_pred HHHHHHHHHhcCcEEEEeCCcchHHHHHHh
Confidence 999999999999999999999887655444
No 12
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=99.85 E-value=3e-21 Score=176.31 Aligned_cols=85 Identities=44% Similarity=0.742 Sum_probs=77.0
Q ss_pred ccceEEEEEeCCCceEeeeecCcccCC---------CCc--eEeccCCCCCcEEEEEeeccccCCCceeEEEEEEEEEec
Q 003269 667 AWEAVMRIRCGKGVRFTNYHGNFMLRS---------TDL--LALPAVDCDKAYAMQLSLEETLLTTQTVYFQVALLYTAS 735 (835)
Q Consensus 667 g~~a~mrVR~S~Gl~V~~~~Gnf~~rs---------~~~--~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ~AllYT~~ 735 (835)
||||+||||||+||+|++++||+..++ .+. |++++++++++|+|+|++++++.+...+|||+|++||+.
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~~~~~~~~~~iQ~~~~Yt~~ 80 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNRSSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDEDLPNGSQAYIQFALLYTDS 80 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEESSTBESSECSBSSCSEEEEEEEETT--EEEEEEESSBTBTTSEEEEEEEEEEEET
T ss_pred CceEEEEEEECCCeEEEEEEcCccccccccceeeccCCccEEEecccCCCCEEEEEEEECCCCCCCCeEEEEEEEEEECC
Confidence 799999999999999999999998766 455 999999999999999999999877789999999999999
Q ss_pred CCcEEEEEEcCccccc
Q 003269 736 CGERRIRVHTLAAPVV 751 (835)
Q Consensus 736 ~GeRRIRV~Tl~lpvt 751 (835)
+|+|||||+|++++||
T Consensus 81 ~G~r~iRV~T~~l~vt 96 (96)
T PF08033_consen 81 NGERRIRVTTLSLPVT 96 (96)
T ss_dssp TSEEEEEEEEEEEEEE
T ss_pred CCCEEEEEEeeccccC
Confidence 9999999999999986
No 13
>PF04815 Sec23_helical: Sec23/Sec24 helical domain; InterPro: IPR006900 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region, and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_B 2NUP_B 2NUT_B 3EGX_B 3EH2_C 3EH1_A 3EFO_B 3EG9_B 2QTV_A 1M2O_C ....
Probab=99.51 E-value=2.5e-14 Score=132.40 Aligned_cols=67 Identities=39% Similarity=0.608 Sum_probs=64.1
Q ss_pred hhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCCCCCceecCcccchhhHHHhc
Q 003269 763 TGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHRLGSRMIYPESLKFLPFRLHD 830 (835)
Q Consensus 763 ~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~~~gqLiLPeslKlLPly~l~ 830 (835)
|||++++|+|++++++.+++++|+|++|+++|+++|++||+ +|++.+++|||||||+||+||+|+++
T Consensus 1 Qda~~~llak~ai~~~~~~~l~~~r~~l~~~~v~il~~Yr~-~~~~~~~~~qLilPe~lklLPly~l~ 67 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALSSSLKDARESLDNRLVDILAAYRK-NCASSSSSGQLILPESLKLLPLYILA 67 (103)
T ss_dssp HHHHHHHHHHHHHHHHCCS-HHHHHHHHHHHHHHHHHHHHH-HCTTECCCTEEEEEGGGTTHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHh-hccCCCCchhhhCCHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999 99999999999999999999999975
No 14
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=99.21 E-value=3.6e-12 Score=98.16 Aligned_cols=35 Identities=43% Similarity=1.091 Sum_probs=26.9
Q ss_pred CCcceeecccceEeeCCceEEEcCCCCCCCCCccc
Q 003269 354 FICRTYVNPYVTFTDAGRKWRCNICALLNDVPGDY 388 (835)
Q Consensus 354 ~rCrAYiNPf~~f~~~G~~W~Cn~C~~~N~vP~~Y 388 (835)
++|+||||||++|+++|++|+|+||++.|++|.+|
T Consensus 6 ~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp~~Y 40 (40)
T PF04810_consen 6 RRCRAYLNPFCQFDDGGKTWICNFCGTKNPLPPHY 40 (40)
T ss_dssp TTT--BS-TTSEEETTTTEEEETTT--EEE--GGG
T ss_pred CCCCCEECCcceEcCCCCEEECcCCCCcCCCCCCC
Confidence 68999999999999999999999999999999887
No 15
>PRK13685 hypothetical protein; Provisional
Probab=98.86 E-value=8.2e-08 Score=106.42 Aligned_cols=174 Identities=20% Similarity=0.289 Sum_probs=121.9
Q ss_pred CCEEEEEEecchhHHhh----chHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccC
Q 003269 427 PPLYFFLIDVSISAIRS----GMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 427 pp~yvFvIDvS~~av~s----G~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
.-.+|||||+|.++... ..++.+++.+++.|+.+.++ .+||+|+|++..++.
T Consensus 88 ~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~--d~vglv~Fa~~a~~~---------------------- 143 (326)
T PRK13685 88 RAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPG--INLGLIAFAGTATVL---------------------- 143 (326)
T ss_pred CceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCC--CeEEEEEEcCceeec----------------------
Confidence 34689999999998532 36889999999999998644 689999999765421
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----------CCEEEEEecCCCCCCcc
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----------GGKLLIFQNSLPSLGVG 571 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----------GGkIivF~sg~Pt~GpG 571 (835)
+++.+.++.+.+.|+.|.. ...+++|.||..|++.++.. .++|+++++|.-+.|..
T Consensus 144 -------~p~t~d~~~l~~~l~~l~~------~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~ 210 (326)
T PRK13685 144 -------VSPTTNREATKNAIDKLQL------ADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTN 210 (326)
T ss_pred -------CCCCCCHHHHHHHHHhCCC------CCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCC
Confidence 1112446778888888853 24577899999999888631 36799999987665421
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCC-------------ccChhhhhhhccccccE
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDK-------------YTDIASLGTLAKYTGGQ 638 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~-------------~vdiatL~~L~~~TGG~ 638 (835)
.. + +... .+.++.+.+.||.|+++.++.+ ..|-..|..+++.|||+
T Consensus 211 ~~----~---------------~~~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~ 269 (326)
T PRK13685 211 PD----N---------------PRGA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGE 269 (326)
T ss_pred CC----C---------------cccH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCE
Confidence 10 0 0000 2456677889999999998864 26788999999999998
Q ss_pred EEEeCCCCcchhHHHHHHHHHhh
Q 003269 639 VYYYPSFQSTTHGERLRHELSRD 661 (835)
Q Consensus 639 v~~y~~F~~~~d~~~L~~dL~r~ 661 (835)
.|+..+- .+-++.++++.+.
T Consensus 270 ~~~~~~~---~~L~~if~~I~~~ 289 (326)
T PRK13685 270 FYTAASL---EELRAVYATLQQQ 289 (326)
T ss_pred EEEcCCH---HHHHHHHHHHHHH
Confidence 8877542 2344455555443
No 16
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.81 E-value=1.7e-07 Score=95.70 Aligned_cols=163 Identities=20% Similarity=0.217 Sum_probs=108.8
Q ss_pred EEEEEEecchhHHhh----chHHHHHHHHHHHHhcCCC-CCCceEEEEEE-cCeEEEEecCCCCCCCceeeecccccccC
Q 003269 429 LYFFLIDVSISAIRS----GMLEVVAQTIKSCLDELPG-FPRTQIGFITF-DSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 429 ~yvFvIDvS~~av~s----G~l~~~~~sI~~~L~~Lp~-~~rt~VGiITF-ds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
..+|+||+|.++.++ ..++.+++.+...++.+.+ .+..+||||+| ++.-|+.
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~---------------------- 62 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKL---------------------- 62 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEE----------------------
Confidence 368999999998643 3688888888888876522 34468999999 5433321
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc----CCEEEEEecCCCCCCcccccccCC
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL----GGKLLIFQNSLPSLGVGCLKLRGD 578 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~----GGkIivF~sg~Pt~GpG~L~~re~ 578 (835)
+++....+.+...|+.+ + .....++++.||+.|...|+.. .++|+++.++.-+.++
T Consensus 63 -------~PlT~D~~~~~~~L~~~--~---~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~-------- 122 (183)
T cd01453 63 -------TDLTGNPRKHIQALKTA--R---ECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDP-------- 122 (183)
T ss_pred -------ECCCCCHHHHHHHhhcc--c---CCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCCh--------
Confidence 11122223344555555 1 1124589999999999999752 3568888764211100
Q ss_pred cccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHH
Q 003269 579 DLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHEL 658 (835)
Q Consensus 579 ~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL 658 (835)
.-+.++++++.+.+|-|+++.++. ++..|..+|+.|||+.|.-.+ .+.|...|
T Consensus 123 ------------------~~~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~tgG~~~~~~~------~~~l~~~~ 175 (183)
T cd01453 123 ------------------GNIYETIDKLKKENIRVSVIGLSA---EMHICKEICKATNGTYKVILD------ETHLKELL 175 (183)
T ss_pred ------------------hhHHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHhCCeeEeeCC------HHHHHHHH
Confidence 113567888999999999999964 567899999999999987643 45566555
Q ss_pred Hh
Q 003269 659 SR 660 (835)
Q Consensus 659 ~r 660 (835)
.+
T Consensus 176 ~~ 177 (183)
T cd01453 176 LE 177 (183)
T ss_pred Hh
Confidence 44
No 17
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.67 E-value=7.8e-07 Score=89.17 Aligned_cols=155 Identities=17% Similarity=0.225 Sum_probs=104.7
Q ss_pred EEEEEEecchhHHhh-----chHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCC
Q 003269 429 LYFFLIDVSISAIRS-----GMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVP 503 (835)
Q Consensus 429 ~yvFvIDvS~~av~s-----G~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~P 503 (835)
-++||||+|.++-.. ..++.+++.+...+...++ .+||||+|++.++.. .
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~~~---~~v~lv~f~~~~~~~---------------------~- 58 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRREN---DRIGLVVFAGAAFTQ---------------------A- 58 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhCCC---CeEEEEEEcCCeeec---------------------c-
Confidence 479999999987422 1356677777776665543 689999998765421 0
Q ss_pred CCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CCEEEEEecCCCCCCcccccccCCcc
Q 003269 504 LPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GGKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 504 l~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
++...+..+.++|+.|.... ....+.++.||..|...+... ...|+++++|..+.|. .
T Consensus 59 -------~~~~~~~~~~~~l~~l~~~~---~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~--~------- 119 (180)
T cd01467 59 -------PLTLDRESLKELLEDIKIGL---AGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGE--I------- 119 (180)
T ss_pred -------CCCccHHHHHHHHHHhhhcc---cCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCC--C-------
Confidence 11123445566677765221 234577899999999998653 2468888888765431 0
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCC----------ccChhhhhhhccccccEEEEeCC
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDK----------YTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~----------~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
...+.+..+.+.+|.|+.+.+... ..|...|..|++.|||.+|+..+
T Consensus 120 -----------------~~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~ 176 (180)
T cd01467 120 -----------------DPATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALD 176 (180)
T ss_pred -----------------CHHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecC
Confidence 012334556678999999998862 47888999999999999998753
No 18
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.65 E-value=1.3e-06 Score=86.46 Aligned_cols=156 Identities=17% Similarity=0.232 Sum_probs=110.9
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCc
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDL 508 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~l 508 (835)
.++||||+|.++-... ++.+++++...+..+... .+|++|+|++..+.+- +.. .
T Consensus 2 ~~~~vlD~S~SM~~~~-~~~~k~a~~~~~~~l~~~--~~v~li~f~~~~~~~~--------------~~~------~--- 55 (170)
T cd01465 2 NLVFVIDRSGSMDGPK-LPLVKSALKLLVDQLRPD--DRLAIVTYDGAAETVL--------------PAT------P--- 55 (170)
T ss_pred cEEEEEECCCCCCChh-HHHHHHHHHHHHHhCCCC--CEEEEEEecCCccEEe--------------cCc------c---
Confidence 3789999999885433 778888899999888754 6899999987644321 000 0
Q ss_pred ccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---C--CEEEEEecCCCCCCcccccccCCccccc
Q 003269 509 LVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---G--GKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 509 Lv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
...++.+...|+++.. ...+.++.||+.|+..++.. + .+|++|++|.++.|...
T Consensus 56 ----~~~~~~l~~~l~~~~~------~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~----------- 114 (170)
T cd01465 56 ----VRDKAAILAAIDRLTA------GGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETD----------- 114 (170)
T ss_pred ----cchHHHHHHHHHcCCC------CCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCC-----------
Confidence 0123445555666542 34567899999999988652 2 57999999988765321
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
.+-++++..++.+.+|.|++|.++ ...|...|..+++.++|..++.++
T Consensus 115 ------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~ 162 (170)
T cd01465 115 ------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDN 162 (170)
T ss_pred ------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCC
Confidence 122345555667889999999998 678999999999999999887654
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.61 E-value=1.1e-06 Score=88.66 Aligned_cols=160 Identities=19% Similarity=0.246 Sum_probs=109.4
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCe-EEEEecCCCCCCCceeeecccccccCCCCCC
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDST-IHFYNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~-V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.++||||+|.++-...-++.+++++...+..+.. .+.+||||+|+++ .++. +|
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~-~~d~v~lv~F~~~~~~~~---------------------~~---- 55 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQ-RRDKVALIAFRGTEAEVL---------------------LP---- 55 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceEE---------------------eC----
Confidence 3689999999885432577788888877765322 2379999999864 2211 01
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHH-h---cC--CEEEEEecCCCCCCcccccccCCccc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMS-R---LG--GKLLIFQNSLPSLGVGCLKLRGDDLR 581 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~-~---~G--GkIivF~sg~Pt~GpG~L~~re~~~r 581 (835)
....+..+...|+.|+. ...+.++.||..|...++ . .+ ..|+++++|.++.|...
T Consensus 56 ----~t~~~~~~~~~l~~l~~------~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~--------- 116 (178)
T cd01451 56 ----PTRSVELAKRRLARLPT------GGGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGPDP--------- 116 (178)
T ss_pred ----CCCCHHHHHHHHHhCCC------CCCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCCCc---------
Confidence 11123344556666642 356789999999999982 1 12 47888888887765310
Q ss_pred ccCCccccccCCCCcHHH-HHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCc
Q 003269 582 VYGTDKEHSLRIPEDPFY-KQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQS 647 (835)
Q Consensus 582 ~~gt~~e~~l~~pa~~FY-k~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~ 647 (835)
...- .++++++.+.+|.|.++.+...+.|-..|..|++.|||+.|+.++.+.
T Consensus 117 --------------~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~~ 169 (178)
T cd01451 117 --------------TADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLSA 169 (178)
T ss_pred --------------hhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCCH
Confidence 0111 567788889999887776666667888999999999999999887543
No 20
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.59 E-value=1.2e-06 Score=86.73 Aligned_cols=147 Identities=18% Similarity=0.295 Sum_probs=104.1
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCcc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDLL 509 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~lL 509 (835)
.+||||+|.++.. .-++.++++|+..++.|+++ .+||||+|++..+.+. + +.+.
T Consensus 3 v~~vlD~S~SM~~-~rl~~ak~a~~~l~~~l~~~--~~~~li~F~~~~~~~~-------~-----------~~~~----- 56 (155)
T cd01466 3 LVAVLDVSGSMAG-DKLQLVKHALRFVISSLGDA--DRLSIVTFSTSAKRLS-------P-----------LRRM----- 56 (155)
T ss_pred EEEEEECCCCCCc-HHHHHHHHHHHHHHHhCCCc--ceEEEEEecCCccccC-------C-----------Cccc-----
Confidence 5799999998743 24777888999889888864 6899999998754321 0 0000
Q ss_pred cchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCCCCcccccccCCcccccC
Q 003269 510 VNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPSLGVGCLKLRGDDLRVYG 584 (835)
Q Consensus 510 v~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~re~~~r~~g 584 (835)
. .+.++.+.++|+.|. ....++++.||+.|..+++.. ...||++++|.++.|...
T Consensus 57 -~-~~~~~~~~~~i~~~~------~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~~~~------------ 116 (155)
T cd01466 57 -T-AKGKRSAKRVVDGLQ------AGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGAVV------------ 116 (155)
T ss_pred -C-HHHHHHHHHHHHhcc------CCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCcchhh------------
Confidence 0 124566677777763 245689999999999999743 257889998887655000
Q ss_pred CccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEe
Q 003269 585 TDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYY 642 (835)
Q Consensus 585 t~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y 642 (835)
.++.+.+|.|..+.++. ..|..+|..|+..|||+.|+.
T Consensus 117 -------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 117 -------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred -------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 01224678888888764 468899999999999999874
No 21
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.59 E-value=1.1e-06 Score=90.88 Aligned_cols=174 Identities=22% Similarity=0.228 Sum_probs=111.1
Q ss_pred CCCCCCEEEEEEecchhHHh-----hchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeeccc
Q 003269 423 RPPMPPLYFFLIDVSISAIR-----SGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDL 497 (835)
Q Consensus 423 r~p~pp~yvFvIDvS~~av~-----sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDl 497 (835)
....+..++||||+|.++.. ...++.++++++..|+.++++ .+||||+|++.++-. .. .. .++.
T Consensus 16 ~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~--~~v~lv~F~~~~~~~---~~---~~-~~~p-- 84 (206)
T cd01456 16 EPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDG--TRLGLWTFSGDGDNP---LD---VR-VLVP-- 84 (206)
T ss_pred ccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCC--ceEEEEEecCCCCCC---cc---cc-cccc--
Confidence 34567789999999999862 135888999999999998754 789999999854310 00 00 0000
Q ss_pred ccccCCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC-CEEEEEecCCCCCCccccccc
Q 003269 498 DDIFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG-GKLLIFQNSLPSLGVGCLKLR 576 (835)
Q Consensus 498 dd~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G-GkIivF~sg~Pt~GpG~L~~r 576 (835)
..+.....--.....++.+.+.|+.|.. ....+.++.||+.|...++... ..||++++|..+.+...+
T Consensus 85 ---~~~~~~~~~~~~~~~~~~l~~~i~~i~~-----~~G~T~l~~aL~~a~~~l~~~~~~~iillTDG~~~~~~~~~--- 153 (206)
T cd01456 85 ---KGCLTAPVNGFPSAQRSALDAALNSLQT-----PTGWTPLAAALAEAAAYVDPGRVNVVVLITDGEDTCGPDPC--- 153 (206)
T ss_pred ---ccccccccCCCCcccHHHHHHHHHhhcC-----CCCcChHHHHHHHHHHHhCCCCcceEEEEcCCCccCCCCHH---
Confidence 0000000000001346677777888751 2356789999999999996222 579999998866542100
Q ss_pred CCcccccCCccccccCCCCcHHHHHHHHHH-hhcCeEEEEEEecCCccChhhhhhhccccccEE
Q 003269 577 GDDLRVYGTDKEHSLRIPEDPFYKQMAADL-TKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQV 639 (835)
Q Consensus 577 e~~~r~~gt~~e~~l~~pa~~FYk~La~~~-~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v 639 (835)
+..++++.+. .+.+|.|+++.++.+ .|...|..|++.|||..
T Consensus 154 --------------------~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~~iA~~tgG~~ 196 (206)
T cd01456 154 --------------------EVARELAKRRTPAPPIKVNVIDFGGD-ADRAELEAIAEATGGTY 196 (206)
T ss_pred --------------------HHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHHHHHHhcCCeE
Confidence 1112222211 225899999998765 77899999999999988
No 22
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=98.58 E-value=1.3e-06 Score=89.01 Aligned_cols=163 Identities=21% Similarity=0.250 Sum_probs=107.0
Q ss_pred CCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEe-cCCCCCCCceeeecccccccCCC
Q 003269 426 MPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYN-MKSSLTQPQMMVISDLDDIFVPL 504 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fyn-l~~~~~~pqmlVvsDldd~f~Pl 504 (835)
.+-..+||||+|.++-.. -++.++++++..|+.|.++ .+||||+|++.++.+- +..
T Consensus 12 ~p~~vv~llD~SgSM~~~-~l~~ak~~~~~ll~~l~~~--d~v~lv~F~~~~~~~~~~~~-------------------- 68 (190)
T cd01463 12 SPKDIVILLDVSGSMTGQ-RLHLAKQTVSSILDTLSDN--DFFNIITFSNEVNPVVPCFN-------------------- 68 (190)
T ss_pred CCceEEEEEECCCCCCcH-HHHHHHHHHHHHHHhCCCC--CEEEEEEeCCCeeEEeeecc--------------------
Confidence 466789999999988533 4788899999999999764 6899999999877541 110
Q ss_pred CCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh---c---------CCEEEEEecCCCCCCccc
Q 003269 505 PDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR---L---------GGKLLIFQNSLPSLGVGC 572 (835)
Q Consensus 505 ~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~---~---------GGkIivF~sg~Pt~GpG~ 572 (835)
..++....+.++.+...|+.|.. ...+.++.||+.|+..|+. . ...|+++++|.++.+.
T Consensus 69 -~~~~~~~~~~~~~~~~~l~~l~~------~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~-- 139 (190)
T cd01463 69 -DTLVQATTSNKKVLKEALDMLEA------KGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK-- 139 (190)
T ss_pred -cceEecCHHHHHHHHHHHhhCCC------CCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh--
Confidence 01111112345555566666652 2347799999999988875 1 1368889988765311
Q ss_pred ccccCCcccccCCccccccCCCCcHHHHHHHH-HHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 573 LKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAA-DLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 573 L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~-~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
+.++++.. +..+.+|.|..|.++.+..|...|..|+..+||..++.++
T Consensus 140 ------------------------~~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~ 188 (190)
T cd01463 140 ------------------------EIFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQS 188 (190)
T ss_pred ------------------------HHHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEccc
Confidence 01111110 1112245566666666656899999999999999998765
No 23
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.50 E-value=1.5e-05 Score=97.54 Aligned_cols=168 Identities=18% Similarity=0.267 Sum_probs=109.7
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhc-CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDE-LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~-Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
...+|||||+|.++.....++.++++++..|.. ++. +.+||||+||++.++.. + +.++.
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~--~DrVGLVtFsssA~vl~--------------p----Lt~It 363 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEK--GSWVGMVTFDSAAYIKN--------------E----LIQIT 363 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCC--CCEEEEEEECCceeEee--------------c----cccCC
Confidence 356899999999985433577777777776654 443 37999999998765421 0 01110
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCCCCcccccccCCcc
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
+ ...++.|...|... ....++++.||+.|+++|+.. +..||++++|..+.+
T Consensus 364 s------~~dr~aL~~~L~~~-------A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~~----------- 419 (863)
T TIGR00868 364 S------SAERDALTANLPTA-------ASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNTI----------- 419 (863)
T ss_pred c------HHHHHHHHHhhccc-------cCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCCH-----------
Confidence 0 12234343333311 235789999999999999753 567888877653210
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHh
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSR 660 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r 660 (835)
+++..++.+.+|.|+.+.++.+. | ..|..|++.|||..|+..+ ..+...|...|.+
T Consensus 420 -------------------~~~l~~lk~~gVtI~TIg~G~da-d-~~L~~IA~~TGG~~f~asd---~~dl~~L~dAF~~ 475 (863)
T TIGR00868 420 -------------------SSCFEEVKQSGAIIHTIALGPSA-A-KELEELSDMTGGLRFYASD---QADNNGLIDAFGA 475 (863)
T ss_pred -------------------HHHHHHHHHcCCEEEEEEeCCCh-H-HHHHHHHHhcCCEEEEeCC---HHHHHHHHHHHHH
Confidence 23445566789999999998654 2 4589999999999998864 2233456655555
Q ss_pred hc
Q 003269 661 DL 662 (835)
Q Consensus 661 ~l 662 (835)
+.
T Consensus 476 is 477 (863)
T TIGR00868 476 LS 477 (863)
T ss_pred Hh
Confidence 43
No 24
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.47 E-value=6.9e-06 Score=83.45 Aligned_cols=169 Identities=15% Similarity=0.141 Sum_probs=98.6
Q ss_pred CEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccccCCCCC
Q 003269 428 PLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 428 p~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
.-.+||||+|.+.-. . .....+.+++.++.+-. ++.+||||+|++..+.. .+.
T Consensus 5 ~Dvv~llD~SgSm~~-~-~~~~~~~~~~l~~~~~~-~~~rvglv~Fs~~~~~~~~l~----------------------- 58 (185)
T cd01474 5 FDLYFVLDKSGSVAA-N-WIEIYDFVEQLVDRFNS-PGLRFSFITFSTRATKILPLT----------------------- 58 (185)
T ss_pred eeEEEEEeCcCchhh-h-HHHHHHHHHHHHHHcCC-CCcEEEEEEecCCceEEEecc-----------------------
Confidence 347999999998743 2 23344666666666532 35899999998764321 111
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHH--hcCCE-----EEEEecCCCCCCcccccccCCc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMS--RLGGK-----LLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~--~~GGk-----IivF~sg~Pt~GpG~L~~re~~ 579 (835)
+..+.+.+.|+.|..+.. ...+++|.||+.|...|. ..||+ ||+++.|..+-..+.
T Consensus 59 -------~~~~~~~~~l~~l~~~~~---~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~~------- 121 (185)
T cd01474 59 -------DDSSAIIKGLEVLKKVTP---SGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGHK------- 121 (185)
T ss_pred -------ccHHHHHHHHHHHhccCC---CCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCCc-------
Confidence 011123344444443322 356899999999998773 34442 777777765310000
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEE-EeCCCCcchhHHHHHHHH
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVY-YYPSFQSTTHGERLRHEL 658 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~-~y~~F~~~~d~~~L~~dL 658 (835)
.-.+.++++.+.||.|..+.+ ...|..+|..++..++ .+| ...+|+ .-..+.++|
T Consensus 122 ------------------~~~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~~~~~~---~l~~~~~~~ 177 (185)
T cd01474 122 ------------------YPEHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPVTSGFQ---ALSGIIESV 177 (185)
T ss_pred ------------------chHHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEecCccHH---HHHHHHHHH
Confidence 012334566778886655555 5678899999998774 455 334453 224455555
Q ss_pred Hhhcc
Q 003269 659 SRDLT 663 (835)
Q Consensus 659 ~r~l~ 663 (835)
.+.++
T Consensus 178 ~~~~C 182 (185)
T cd01474 178 VKKAC 182 (185)
T ss_pred HHhhc
Confidence 54443
No 25
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.45 E-value=2.9e-06 Score=83.01 Aligned_cols=151 Identities=17% Similarity=0.239 Sum_probs=101.6
Q ss_pred EEEEEecchhHHhhc----hHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCC
Q 003269 430 YFFLIDVSISAIRSG----MLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 430 yvFvIDvS~~av~sG----~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
+|||||+|.++-..+ .++.+++++...++.+++ .+|+|++|++..+. +.
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~~---~~v~l~~f~~~~~~--------------~~---------- 54 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLPG---DRVGLVSFSDSSRT--------------LS---------- 54 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHTT---SEEEEEEESTSCEE--------------EE----------
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCCC---CEEEEEEecccccc--------------cc----------
Confidence 689999999986542 578889999999988874 49999999875311 10
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC---CEEEEEecCCCCCCcccccccCCcccc
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG---GKLLIFQNSLPSLGVGCLKLRGDDLRV 582 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G---GkIivF~sg~Pt~GpG~L~~re~~~r~ 582 (835)
++...++.+.+.|+++.... ......+++.||..|.++++... ..|++|++|.++
T Consensus 55 -----~~t~~~~~~~~~l~~~~~~~--~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~--------------- 112 (172)
T PF13519_consen 55 -----PLTSDKDELKNALNKLSPQG--MPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDN--------------- 112 (172)
T ss_dssp -----EEESSHHHHHHHHHTHHHHG----SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTH---------------
T ss_pred -----cccccHHHHHHHhhcccccc--cCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCC---------------
Confidence 11234555566666664321 12345789999999999998653 456666665322
Q ss_pred cCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeC
Q 003269 583 YGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYP 643 (835)
Q Consensus 583 ~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~ 643 (835)
.-..+.+..+.+.+|.|.++.+..+...-..|..|++.|||..+...
T Consensus 113 --------------~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~ 159 (172)
T PF13519_consen 113 --------------SSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVD 159 (172)
T ss_dssp --------------CHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-
T ss_pred --------------cchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEec
Confidence 00113667788999999999998887766789999999999988873
No 26
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=98.39 E-value=0.00014 Score=87.22 Aligned_cols=284 Identities=12% Similarity=0.147 Sum_probs=162.7
Q ss_pred CCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCC
Q 003269 424 PPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVP 503 (835)
Q Consensus 424 ~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~P 503 (835)
...+..++||||+|.++.. .-++.+++++..+|+.|.++ .+|+||+||+.++.+.-.. ..
T Consensus 268 ~~~p~~vvfvlD~SgSM~g-~~i~~ak~al~~~l~~L~~~--d~~~ii~F~~~~~~~~~~~-------~~---------- 327 (596)
T TIGR03788 268 QVLPRELVFVIDTSGSMAG-ESIEQAKSALLLALDQLRPG--DRFNIIQFDSDVTLLFPVP-------VP---------- 327 (596)
T ss_pred cCCCceEEEEEECCCCCCC-ccHHHHHHHHHHHHHhCCCC--CEEEEEEECCcceEecccc-------cc----------
Confidence 3456689999999998853 23677899999999999764 6899999999877552100 00
Q ss_pred CCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-C---CEEEEEecCCCCCCcccccccCCc
Q 003269 504 LPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-G---GKLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 504 l~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-G---GkIivF~sg~Pt~GpG~L~~re~~ 579 (835)
.-.+.++.+..+|+.|.. ...+.+..||+.|+...... . -+||++++|..+ +
T Consensus 328 -------~~~~~~~~a~~~i~~l~a------~GgT~l~~aL~~a~~~~~~~~~~~~~~iillTDG~~~----------~- 383 (596)
T TIGR03788 328 -------ATAHNLARARQFVAGLQA------DGGTEMAGALSAALRDDGPESSGALRQVVFLTDGAVG----------N- 383 (596)
T ss_pred -------CCHHHHHHHHHHHhhCCC------CCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCCCC----------C-
Confidence 001234444556666642 25678999999998775332 1 268888887521 0
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHH
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELS 659 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~ 659 (835)
....++.+.. ...++.|..|.++.+ .|-..|..|++.+||..++... .+...+++.+.|.
T Consensus 384 ---------------~~~~~~~~~~--~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i~~--~~~~~~~~~~~l~ 443 (596)
T TIGR03788 384 ---------------EDALFQLIRT--KLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFIGS--TDEVQRKMSQLFA 443 (596)
T ss_pred ---------------HHHHHHHHHH--hcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEECCC--HHHHHHHHHHHHH
Confidence 0112233321 234567777776644 6778899999999998776543 2223344444444
Q ss_pred hhcccccccceEEEEEeCCCceEeeeecCcccCCCCceEeccCCCCCcEEEEEeeccccCCCceeEEEEEEEEEecCCcE
Q 003269 660 RDLTRETAWEAVMRIRCGKGVRFTNYHGNFMLRSTDLLALPAVDCDKAYAMQLSLEETLLTTQTVYFQVALLYTASCGER 739 (835)
Q Consensus 660 r~l~r~~g~~a~mrVR~S~Gl~V~~~~Gnf~~rs~~~~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ~AllYT~~~GeR 739 (835)
+ +.....-+..+++... .+..++- -.++.+.....+.+..++... ...+ .+.....++..
T Consensus 444 ~-~~~p~l~~v~v~~~~~---~~~~v~P---------~~~p~L~~g~~l~v~g~~~~~---~~~i----~v~g~~~~~~~ 503 (596)
T TIGR03788 444 K-LEQPALTDIALTFDNG---NAADVYP---------SPIPDLYRGEPLQIAIKLQQA---AGEL----QLTGRTGSQPW 503 (596)
T ss_pred h-hcCeEEEEEEEEEcCC---ccceecc---------CCCccccCCCEEEEEEEecCC---CCeE----EEEEEcCCceE
Confidence 4 5556666666666432 2222222 234455566666666664321 1222 22333233332
Q ss_pred EEEEEcCcccccCCHHHHHHhcChhHHHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHHHHHHHhh
Q 003269 740 RIRVHTLAAPVVSNLSDMYQQADTGAIVSVFSRLAIEKTLSHKL-EDARNAVQLRLVKALKEYRN 803 (835)
Q Consensus 740 RIRV~Tl~lpvts~l~~vf~s~D~eai~~llaK~a~~~~~~~~l-~d~R~~l~~~lv~iL~~YRk 803 (835)
.+. +.+... .+-..+-.+.||+-+..++.... ..-++.+.++++++=.+|+-
T Consensus 504 ~~~-----~~~~~~-------~~~~~l~~lwA~~~I~~L~~~~~~~~~~~~~~~~Ii~Lsl~y~l 556 (596)
T TIGR03788 504 SQQ-----LDLDSA-------APGKGIDKLWARRKIDSLEDSLRYGANEEKVKDQVTALALNHHL 556 (596)
T ss_pred EEE-----EecCCC-------CCcchHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHhCC
Confidence 222 222221 23455777888888877753211 11124566778888778875
No 27
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=98.38 E-value=2.2e-05 Score=85.55 Aligned_cols=158 Identities=17% Similarity=0.231 Sum_probs=102.3
Q ss_pred CCCEEEEEEecchhHHhhchHHHHHHHHHHHHhc-CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCC
Q 003269 426 MPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDE-LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPL 504 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~-Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl 504 (835)
.|...+||||+|.++.. .+..++++++..|+. +.. +.+|+||+|++.+++.. ++
T Consensus 52 ~p~~vvlvlD~SgSM~~--~~~~a~~a~~~~l~~~l~~--~d~v~lv~f~~~~~~~~--------------~~------- 106 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRN--DLDRARAAAIRFLKTVLRP--NDRVFVVTFNTRLRLLQ--------------DF------- 106 (296)
T ss_pred CCceEEEEEECCCCchH--HHHHHHHHHHHHHHhhCCC--CCEEEEEEeCCceeEee--------------cC-------
Confidence 47789999999998753 467788888888877 543 47999999998765421 10
Q ss_pred CCCcccchhhhHHHHHHHHhhCCcccc---------CCCCcccchHHHHHHH-HHHHHhc-----CCE-EEEEecCCCCC
Q 003269 505 PDDLLVNLSESRSVVDTLLDSLPSMFQ---------DNMNVESAFGPALKAA-FMVMSRL-----GGK-LLIFQNSLPSL 568 (835)
Q Consensus 505 ~~~lLv~l~esr~~I~~lLd~L~~~~~---------~~~~~~~alG~AL~aA-~~lL~~~-----GGk-IivF~sg~Pt~ 568 (835)
...++.|...|+.|..... ......+++..||..| ..++... |-| ||+|++|.-+
T Consensus 107 --------t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~- 177 (296)
T TIGR03436 107 --------TSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDN- 177 (296)
T ss_pred --------CCCHHHHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCc-
Confidence 1224556667777753110 0113557788887544 4555432 333 5555554211
Q ss_pred CcccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCc------------cChhhhhhhccccc
Q 003269 569 GVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKY------------TDIASLGTLAKYTG 636 (835)
Q Consensus 569 GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~------------vdiatL~~L~~~TG 636 (835)
....-++++.+.|.+.+|.|..+.+.... .+-..|..|++.||
T Consensus 178 -------------------------~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TG 232 (296)
T TIGR03436 178 -------------------------RSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETG 232 (296)
T ss_pred -------------------------chHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhC
Confidence 01234577888888999998888775321 24568999999999
Q ss_pred cEEEEe
Q 003269 637 GQVYYY 642 (835)
Q Consensus 637 G~v~~y 642 (835)
|+.|+.
T Consensus 233 G~~~~~ 238 (296)
T TIGR03436 233 GRAFYV 238 (296)
T ss_pred CeEecc
Confidence 997664
No 28
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=98.37 E-value=9.4e-06 Score=83.26 Aligned_cols=167 Identities=14% Similarity=0.180 Sum_probs=101.9
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC-CCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF-PRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~-~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
++||||+|.++-.+ -++.+++.|+..++.|... .+.+||||+|++..+.. .+...
T Consensus 3 i~~vlD~SgSM~~~-~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~~---------------------- 59 (198)
T cd01470 3 IYIALDASDSIGEE-DFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRDF---------------------- 59 (198)
T ss_pred EEEEEECCCCccHH-HHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecccC----------------------
Confidence 78999999987544 4678889999999888642 35799999999875532 22110
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---------C--CEEEEEecCCCCCCccccccc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---------G--GKLLIFQNSLPSLGVGCLKLR 576 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---------G--GkIivF~sg~Pt~GpG~L~~r 576 (835)
. ...++.+...|+.+...... ....+.++.||+.+.+.|... + -.||+|+.|.+|.|.....
T Consensus 60 -~---~~~~~~~~~~l~~~~~~~~~-~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~-- 132 (198)
T cd01470 60 -N---SNDADDVIKRLEDFNYDDHG-DKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLP-- 132 (198)
T ss_pred -C---CCCHHHHHHHHHhCCccccc-CccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhH--
Confidence 0 11233444566666432111 124578999999888766311 1 2378999999886521100
Q ss_pred CCcccccCCccccccCCCCcHHHHHHHH------HHhhcCeEEEEEEecCCccChhhhhhhcccccc--EEEEeCCC
Q 003269 577 GDDLRVYGTDKEHSLRIPEDPFYKQMAA------DLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG--QVYYYPSF 645 (835)
Q Consensus 577 e~~~r~~gt~~e~~l~~pa~~FYk~La~------~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG--~v~~y~~F 645 (835)
..+.++++.. .+.+.+|+|..|.++. .+|..+|..|+..||| ++|+..+|
T Consensus 133 ------------------~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~~~~L~~iA~~~~g~~~~f~~~~~ 190 (198)
T cd01470 133 ------------------TVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVNKEELNDLASKKDNERHFFKLKDY 190 (198)
T ss_pred ------------------HHHHHHHHHhcccccccchhcceeEEEEecCc-ccCHHHHHHHhcCCCCCceEEEeCCH
Confidence 0112222211 1234456666555543 4789999999999999 46666554
No 29
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.35 E-value=1.3e-05 Score=79.60 Aligned_cols=151 Identities=18% Similarity=0.138 Sum_probs=96.0
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC-CCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF-PRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDL 508 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~-~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~l 508 (835)
.|||||+|.+.-.. -++.++++++..+..|... .+.+||||+|++..+..- .+..
T Consensus 3 vv~vlD~SgSm~~~-~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~--------------~~~~--------- 58 (164)
T cd01472 3 IVFLVDGSESIGLS-NFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF--------------YLNT--------- 58 (164)
T ss_pred EEEEEeCCCCCCHH-HHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE--------------ecCC---------
Confidence 58999999987543 4677888888888877532 347999999998765421 0000
Q ss_pred ccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc--------CCEEEEEecCCCCCCcccccccCCcc
Q 003269 509 LVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL--------GGKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 509 Lv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~--------GGkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
...++.+.+.|+.|... ...+.+|.||..|.+.|... ...|++++.|.++.+
T Consensus 59 ----~~~~~~~~~~l~~l~~~-----~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~~~----------- 118 (164)
T cd01472 59 ----YRSKDDVLEAVKNLRYI-----GGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQDD----------- 118 (164)
T ss_pred ----CCCHHHHHHHHHhCcCC-----CCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCCch-----------
Confidence 02244455667777642 34578999999999988641 124566666632210
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccccc-EEEEeCC
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG-QVYYYPS 644 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG-~v~~y~~ 644 (835)
. ...+.++.+.||.|..+.+. ..|...|..++..++| .+|.+..
T Consensus 119 -----------------~-~~~~~~l~~~gv~i~~ig~g--~~~~~~L~~ia~~~~~~~~~~~~~ 163 (164)
T cd01472 119 -----------------V-EEPAVELKQAGIEVFAVGVK--NADEEELKQIASDPKELYVFNVAD 163 (164)
T ss_pred -----------------H-HHHHHHHHHCCCEEEEEECC--cCCHHHHHHHHCCCchheEEeccC
Confidence 0 12234455667655544444 3499999999999987 5555543
No 30
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=98.35 E-value=1.7e-05 Score=78.30 Aligned_cols=157 Identities=17% Similarity=0.196 Sum_probs=102.2
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
|..++||||+|.++.. .-++.++++|...|..++.+ .+|+||+|++.++.+- .. .+
T Consensus 2 ~~~v~~vlD~S~SM~~-~~~~~~~~al~~~l~~l~~~--~~~~l~~Fs~~~~~~~-~~-------~~------------- 57 (171)
T cd01461 2 PKEVVFVIDTSGSMSG-TKIEQTKEALLTALKDLPPG--DYFNIIGFSDTVEEFS-PS-------SV------------- 57 (171)
T ss_pred CceEEEEEECCCCCCC-hhHHHHHHHHHHHHHhCCCC--CEEEEEEeCCCceeec-Cc-------ce-------------
Confidence 4568999999999843 23778888998888888754 5899999998765431 00 00
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh---cCCEEEEEecCCCCCCcccccccCCccccc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR---LGGKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
..+ .+.++.+.+.|+.+.. ...+.+..||..|...++. ....|++|++|..+.
T Consensus 58 --~~~-~~~~~~~~~~l~~~~~------~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~~--------------- 113 (171)
T cd01461 58 --SAT-AENVAAAIEYVNRLQA------LGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVTN--------------- 113 (171)
T ss_pred --eCC-HHHHHHHHHHHHhcCC------CCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCCC---------------
Confidence 000 1122333345555532 3457799999999998874 235666666664110
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
..+++ +.++++.+.+|.|..+.++. ..|-..|..+++.|||..++..+
T Consensus 114 -----------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~~~ 161 (171)
T cd01461 114 -----------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRIYE 161 (171)
T ss_pred -----------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEecC
Confidence 01223 34445555577777777653 46678899999999999998874
No 31
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=98.24 E-value=3e-05 Score=79.57 Aligned_cols=142 Identities=15% Similarity=0.212 Sum_probs=95.3
Q ss_pred EEEEEEecchhHHhh----chHHHHHHHHHHHH----hcCCCCCCceEEEEEEcC-eEEEEecCCCCCCCceeeeccccc
Q 003269 429 LYFFLIDVSISAIRS----GMLEVVAQTIKSCL----DELPGFPRTQIGFITFDS-TIHFYNMKSSLTQPQMMVISDLDD 499 (835)
Q Consensus 429 ~yvFvIDvS~~av~s----G~l~~~~~sI~~~L----~~Lp~~~rt~VGiITFds-~V~fynl~~~~~~pqmlVvsDldd 499 (835)
+.+|+||+|..+.+. ..+++.++.+...+ +..++ .+||||+|.. .-++
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~---~~vGlv~fag~~a~v-------------------- 61 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPE---NNVGLMTMAGNSPEV-------------------- 61 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCC---ccEEEEEecCCceEE--------------------
Confidence 578999999988542 35777777777654 55554 6899999975 2211
Q ss_pred ccCCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCCCCccccc
Q 003269 500 IFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPSLGVGCLK 574 (835)
Q Consensus 500 ~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~ 574 (835)
++++......+...|+.+.. ..+..++.||+.|..+|++. ..||++|.++.-+.
T Consensus 62 ---------~~plT~D~~~~~~~L~~i~~------~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~------ 120 (187)
T cd01452 62 ---------LVTLTNDQGKILSKLHDVQP------KGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEE------ 120 (187)
T ss_pred ---------EECCCCCHHHHHHHHHhCCC------CCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcC------
Confidence 22333446666777777742 25567999999999999752 34889998865221
Q ss_pred ccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc
Q 003269 575 LRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 575 ~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
. .+-..++++++.+++|.||++.++...-+..-|..+.+.
T Consensus 121 ------------d--------~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~ 160 (187)
T cd01452 121 ------------D--------EKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDA 160 (187)
T ss_pred ------------C--------HHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHH
Confidence 1 111347889999999999999998664444444444433
No 32
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.15 E-value=3.4e-05 Score=75.71 Aligned_cols=150 Identities=22% Similarity=0.285 Sum_probs=99.9
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCcc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDLL 509 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~lL 509 (835)
.|||||+|.++.. ..+.++++|+.+|+.|..+ .++.||+||+.++.|.-. +
T Consensus 3 vvilvD~S~Sm~g--~~~~~k~al~~~l~~L~~~--d~fnii~f~~~~~~~~~~-------------------------~ 53 (155)
T PF13768_consen 3 VVILVDTSGSMSG--EKELVKDALRAILRSLPPG--DRFNIIAFGSSVRPLFPG-------------------------L 53 (155)
T ss_pred EEEEEeCCCCCCC--cHHHHHHHHHHHHHhCCCC--CEEEEEEeCCEeeEcchh-------------------------H
Confidence 6899999998853 3388999999999999865 799999999987755311 1
Q ss_pred cch-hhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh--cCCEEEEEecCCCCCCcccccccCCcccccCCc
Q 003269 510 VNL-SESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR--LGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTD 586 (835)
Q Consensus 510 v~l-~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~--~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~ 586 (835)
+.. .+.++.+...|++|.. ....+.+..||+.|+..+.. .--.|+++++|.++.+.
T Consensus 54 ~~~~~~~~~~a~~~I~~~~~-----~~G~t~l~~aL~~a~~~~~~~~~~~~IilltDG~~~~~~---------------- 112 (155)
T PF13768_consen 54 VPATEENRQEALQWIKSLEA-----NSGGTDLLAALRAALALLQRPGCVRAIILLTDGQPVSGE---------------- 112 (155)
T ss_pred HHHhHHHHHHHHHHHHHhcc-----cCCCccHHHHHHHHHHhcccCCCccEEEEEEeccCCCCH----------------
Confidence 111 1334444455555532 14567899999999988632 34578888887753221
Q ss_pred cccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEE
Q 003269 587 KEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYY 641 (835)
Q Consensus 587 ~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~ 641 (835)
....+.+ .++. ..+.|+.|.++. ..|-..|..|++.|||..++
T Consensus 113 ---------~~i~~~v-~~~~-~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~f 155 (155)
T PF13768_consen 113 ---------EEILDLV-RRAR-GHIRIFTFGIGS-DADADFLRELARATGGSFHF 155 (155)
T ss_pred ---------HHHHHHH-HhcC-CCceEEEEEECC-hhHHHHHHHHHHcCCCEEEC
Confidence 1122222 2222 457777777755 46678999999999998753
No 33
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.13 E-value=5.2e-05 Score=77.24 Aligned_cols=156 Identities=14% Similarity=0.132 Sum_probs=100.2
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-------CCCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccc
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-------FPRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDI 500 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-------~~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~ 500 (835)
-.+||||.|.+.-.+. ++.+++.++..++.|.. ..+.+||+|+|++..++. .+.
T Consensus 4 dvv~vlD~S~Sm~~~~-~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~~l~----------------- 65 (186)
T cd01480 4 DITFVLDSSESVGLQN-FDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEAGFL----------------- 65 (186)
T ss_pred eEEEEEeCCCccchhh-HHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeEecc-----------------
Confidence 3689999999875443 56667777777777621 124799999999764421 110
Q ss_pred cCCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh----c-CCEEEEEecCCCCCCcccccc
Q 003269 501 FVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR----L-GGKLLIFQNSLPSLGVGCLKL 575 (835)
Q Consensus 501 f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~----~-GGkIivF~sg~Pt~GpG~L~~ 575 (835)
+. ...++.+.+.|++|... ...+++|.||..|...+.. . ...||+++.|..+.+.
T Consensus 66 -----~~-----~~~~~~l~~~i~~l~~~-----gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~----- 125 (186)
T cd01480 66 -----RD-----IRNYTSLKEAVDNLEYI-----GGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSP----- 125 (186)
T ss_pred -----cc-----cCCHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCc-----
Confidence 00 12355666777777532 3457899999999999864 1 1355666666532100
Q ss_pred cCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCC
Q 003269 576 RGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSF 645 (835)
Q Consensus 576 re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F 645 (835)
..-.++.+.++.+.||.|-.+.++. .|...|..++...+|. |+-.+|
T Consensus 126 --------------------~~~~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~IA~~~~~~-~~~~~~ 172 (186)
T cd01480 126 --------------------DGGIEKAVNEADHLGIKIFFVAVGS--QNEEPLSRIACDGKSA-LYRENF 172 (186)
T ss_pred --------------------chhHHHHHHHHHHCCCEEEEEecCc--cchHHHHHHHcCCcch-hhhcch
Confidence 0123456677778888866666544 7888899999887776 555555
No 34
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=98.10 E-value=6.8e-05 Score=72.71 Aligned_cols=145 Identities=21% Similarity=0.200 Sum_probs=98.4
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDL 508 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~l 508 (835)
++||||+|.++-.. .++.+++.|...++.+.. ..+.+|+||+|++..+..- ++. +.
T Consensus 3 i~~llD~S~Sm~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~--------------~~~-------~~- 59 (161)
T cd01450 3 IVFLLDGSESVGPE-NFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEF--------------SLN-------DY- 59 (161)
T ss_pred EEEEEeCCCCcCHH-HHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEE--------------ECC-------CC-
Confidence 57999999987532 567788888888887753 2468999999998543211 110 00
Q ss_pred ccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC-------CEEEEEecCCCCCCcccccccCCccc
Q 003269 509 LVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG-------GKLLIFQNSLPSLGVGCLKLRGDDLR 581 (835)
Q Consensus 509 Lv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~re~~~r 581 (835)
..++.+.+.|+.+..... ..+.++.||+.|.+.+.... ..|++|++|.++.+.
T Consensus 60 -----~~~~~~~~~i~~~~~~~~----~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~----------- 119 (161)
T cd01450 60 -----KSKDDLLKAVKNLKYLGG----GGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGG----------- 119 (161)
T ss_pred -----CCHHHHHHHHHhcccCCC----CCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCc-----------
Confidence 024445556666643211 36889999999999986542 267888887654421
Q ss_pred ccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccc
Q 003269 582 VYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYT 635 (835)
Q Consensus 582 ~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~T 635 (835)
-.+++.+++.+.+|.|..+.++. .|...|..|+..|
T Consensus 120 ----------------~~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~ 155 (161)
T cd01450 120 ----------------DPKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCP 155 (161)
T ss_pred ----------------chHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCC
Confidence 13556677778888888887766 7888999999988
No 35
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.09 E-value=9.8e-05 Score=77.50 Aligned_cols=168 Identities=21% Similarity=0.265 Sum_probs=105.3
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC-CCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCC
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF-PRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~-~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
-.+||||.|.+.-.. -++.+++.|+..++.|.-. ..++||||+|++.+++.- ++.+
T Consensus 4 DlvfllD~S~Sm~~~-~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~--------------~l~~-------- 60 (224)
T cd01475 4 DLVFLIDSSRSVRPE-NFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF--------------PLGR-------- 60 (224)
T ss_pred cEEEEEeCCCCCCHH-HHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe--------------cccc--------
Confidence 479999999986433 3677888888888877432 358999999998765421 1110
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHH-Hh-cC--------CE-EEEEecCCCCCCccccccc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVM-SR-LG--------GK-LLIFQNSLPSLGVGCLKLR 576 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL-~~-~G--------Gk-IivF~sg~Pt~GpG~L~~r 576 (835)
..+++.|.+.|+.|..+ ...+.+|.||+.|...+ .. .| -| ||+|++|..+
T Consensus 61 -----~~~~~~l~~~i~~i~~~-----~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~--------- 121 (224)
T cd01475 61 -----FKSKADLKRAVRRMEYL-----ETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQ--------- 121 (224)
T ss_pred -----cCCHHHHHHHHHhCcCC-----CCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCc---------
Confidence 01244556667777543 23456899999888653 21 11 13 4666665421
Q ss_pred CCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccccc-EEEEeCCCCcchhHHHHH
Q 003269 577 GDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG-QVYYYPSFQSTTHGERLR 655 (835)
Q Consensus 577 e~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG-~v~~y~~F~~~~d~~~L~ 655 (835)
+-+++.+.++.+.||.| |+++-...|..+|..|+..+++ .+|+..+|+. -+++.
T Consensus 122 --------------------~~~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~---l~~~~ 176 (224)
T cd01475 122 --------------------DDVSEVAAKARALGIEM--FAVGVGRADEEELREIASEPLADHVFYVEDFST---IEELT 176 (224)
T ss_pred --------------------ccHHHHHHHHHHCCcEE--EEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHH---HHHHh
Confidence 01356778888888654 5555455788999999987754 6677666642 34555
Q ss_pred HHHHhhcc
Q 003269 656 HELSRDLT 663 (835)
Q Consensus 656 ~dL~r~l~ 663 (835)
++|...+.
T Consensus 177 ~~l~~~~C 184 (224)
T cd01475 177 KKFQGKIC 184 (224)
T ss_pred hhcccccC
Confidence 55555443
No 36
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=98.05 E-value=0.00012 Score=74.03 Aligned_cols=149 Identities=15% Similarity=0.153 Sum_probs=92.6
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEE-EecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHF-YNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~f-ynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
++||||+|.++-....++.+++.++..++.+.- ..+.+||+|+|++..+. +++....
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~~--------------------- 61 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSPN--------------------- 61 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCcc---------------------
Confidence 689999999886555477888888888887752 23589999999987653 2222110
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-C------CEEEEEecCCCCCCcccccccCCcc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-G------GKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-G------GkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
...++.+.++++.|.... .....+.++.||+.|.+.+... + ..|+++++|.++-+..
T Consensus 62 -----~~~~~~~~~~i~~l~~~~--~~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~~--------- 125 (186)
T cd01471 62 -----STNKDLALNAIRALLSLY--YPNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSKFR--------- 125 (186)
T ss_pred -----ccchHHHHHHHHHHHhCc--CCCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCCcc---------
Confidence 011222223333332211 1234578999999999999652 1 2577777776532100
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
. .+.++++.+.||.|-++.++ ...|...|..|+..
T Consensus 126 ----------------~--~~~a~~l~~~gv~v~~igiG-~~~d~~~l~~ia~~ 160 (186)
T cd01471 126 ----------------T--LKEARKLRERGVIIAVLGVG-QGVNHEENRSLVGC 160 (186)
T ss_pred ----------------h--hHHHHHHHHCCCEEEEEEee-hhhCHHHHHHhcCC
Confidence 0 13456677778766666654 35777788777664
No 37
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.05 E-value=0.00022 Score=83.52 Aligned_cols=197 Identities=13% Similarity=0.147 Sum_probs=113.5
Q ss_pred CEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEE-EEecCCCCCCCceeeecccccccCCCC
Q 003269 428 PLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIH-FYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 428 p~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~-fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
.-++||||+|.+.-...+++.++..++..++.+.. ..+++||+|+|++..+ ++.+.....
T Consensus 43 lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~s------------------ 104 (576)
T PTZ00441 43 VDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGAS------------------ 104 (576)
T ss_pred ceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCcc------------------
Confidence 45799999999886555667778888888877743 2358899999987654 333332110
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC------CEEEEEecCCCCCCcccccccCCc
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG------GKLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G------GkIivF~sg~Pt~GpG~L~~re~~ 579 (835)
.+.......|..++..+. ....+.++.||..|...|...+ +.||||+.|..+-+
T Consensus 105 ----~Dk~~aL~~I~sL~~~~~------pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~---------- 164 (576)
T PTZ00441 105 ----KDKEQALIIVKSLRKTYL------PYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSK---------- 164 (576)
T ss_pred ----ccHHHHHHHHHHHHhhcc------CCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCc----------
Confidence 011122233333333321 1245779999999988887543 56888888764311
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhc----cccccEEEEeCCCCcchhHHHHH
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLA----KYTGGQVYYYPSFQSTTHGERLR 655 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~----~~TGG~v~~y~~F~~~~d~~~L~ 655 (835)
.+. .+.+.++.+.||-|-+|.++. .+|...+..|+ ...+|.+|.+.+|+. ...+.
T Consensus 165 ----------------~dv-leaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~~g~c~~Y~vadf~e---L~~iv 223 (576)
T PTZ00441 165 ----------------YRA-LEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPREGKCKFYSDADWEE---AKNLI 223 (576)
T ss_pred ----------------ccH-HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCCCCCCceEEeCCHHH---HHHHH
Confidence 001 134566777788666666543 46666666555 335567888878843 23344
Q ss_pred HHHHhhcccccc-------cc--eEEEEEeCCCceEe
Q 003269 656 HELSRDLTRETA-------WE--AVMRIRCGKGVRFT 683 (835)
Q Consensus 656 ~dL~r~l~r~~g-------~~--a~mrVR~S~Gl~V~ 683 (835)
+.|.+.++.++- |. ..+.+.|..|++..
T Consensus 224 k~LikkVC~eve~~a~c~~Ws~Ws~Cs~tCg~G~~~R 260 (576)
T PTZ00441 224 KPFIAKVCTEVERTASCGPWDEWTPCSVTCGKGTHSR 260 (576)
T ss_pred HHHHHHhcccccccccCCCCCCCCCCccccCCCceee
Confidence 444333332211 11 23446677776554
No 38
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=97.97 E-value=8.1e-05 Score=89.81 Aligned_cols=159 Identities=20% Similarity=0.238 Sum_probs=108.9
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCe-EEEEecCCCCCCCceeeecccccccCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDST-IHFYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~-V~fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
.-.++||||+|.++...+-++.++.++...|..... .+.+||||+|+.. ..+
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~-~~D~v~lI~F~g~~a~~-------------------------- 517 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQ-KRDKVALITFRGEEAEV-------------------------- 517 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhc-CCCEEEEEEECCCCceE--------------------------
Confidence 457889999999985444577777777777754332 2478999999743 111
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh-------cCCEEEEEecCCCCCC-cccccccC
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR-------LGGKLLIFQNSLPSLG-VGCLKLRG 577 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~-------~GGkIivF~sg~Pt~G-pG~L~~re 577 (835)
++++..+++.+...|+.|+. ...+.++.||..|..+++. ..+.|+++++|..|.+ .|.
T Consensus 518 ---~~p~t~~~~~~~~~L~~l~~------gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~----- 583 (633)
T TIGR02442 518 ---LLPPTSSVELAARRLEELPT------GGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGE----- 583 (633)
T ss_pred ---EcCCCCCHHHHHHHHHhCCC------CCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCC-----
Confidence 11222334555567777753 3557899999999999883 2367999999998875 120
Q ss_pred CcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEe
Q 003269 578 DDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYY 642 (835)
Q Consensus 578 ~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y 642 (835)
+ ..+--..++.++.+.+|-+.++-+...+++..-+..|++.+||+.|+.
T Consensus 584 ~----------------~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 584 P----------------PTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred C----------------hHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 0 001124567777777877766666667778888999999999998864
No 39
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.96 E-value=0.00011 Score=78.05 Aligned_cols=165 Identities=18% Similarity=0.237 Sum_probs=117.4
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
.--+|||||.|.++-...-+++++-++...|.+--. -|-||++|+|..+ + .
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq-~RdkvavI~F~G~-----------~-----------------A 128 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQ-RRDKVAVIAFRGE-----------K-----------------A 128 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHH-ccceEEEEEecCC-----------c-----------------c
Confidence 456899999999986655678888888887765433 3579999998632 1 1
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC-------CEEEEEecCCCCCCcccccccCCc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG-------GKLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G-------GkIivF~sg~Pt~GpG~L~~re~~ 579 (835)
.++++...+-+.++..|+.|+. -..+=+..||+.|.+++.... -.+++.++|.+|.+.+.=..+
T Consensus 129 ~lll~pT~sv~~~~~~L~~l~~------GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~~~~~~--- 199 (261)
T COG1240 129 ELLLPPTSSVELAERALERLPT------GGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIPLGPKA--- 199 (261)
T ss_pred eEEeCCcccHHHHHHHHHhCCC------CCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCCCchHH---
Confidence 2345555666778888888873 233458999999999997532 478899999988765321000
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCc
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQS 647 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~ 647 (835)
--...+.++...|+-+=+.=+...++.+.-...||+..||++|+.+..+.
T Consensus 200 ------------------e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 200 ------------------ETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred ------------------HHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 01345556666776666666677778888889999999999999987654
No 40
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=97.96 E-value=0.00031 Score=71.02 Aligned_cols=156 Identities=12% Similarity=0.177 Sum_probs=99.7
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC-CCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF-PRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~-~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
++||||.|.+.-.. -++.+++.++..++.+..+ ..+|||+|+|++..++. ++. |.
T Consensus 3 i~fvlD~S~S~~~~-~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~------------~~---------- 59 (177)
T cd01469 3 IVFVLDGSGSIYPD-DFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLN------------EY---------- 59 (177)
T ss_pred EEEEEeCCCCCCHH-HHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecC------------cc----------
Confidence 68999999886432 3677888888888887643 35899999999876532 121 10
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHH--hcCC------EEEEEecCCCCCCcccccccCCc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMS--RLGG------KLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~--~~GG------kIivF~sg~Pt~GpG~L~~re~~ 579 (835)
.+++.+..+++.+... ...+.+|.||+.|...+- ..|. .+++++.|..+-+.
T Consensus 60 ------~~~~~~~~~i~~~~~~-----~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~--------- 119 (177)
T cd01469 60 ------RTKEEPLSLVKHISQL-----LGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDP--------- 119 (177)
T ss_pred ------CCHHHHHHHHHhCccC-----CCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCcc---------
Confidence 1122334556666532 223789999999988762 2232 36667666543211
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCc---cChhhhhhhcccccc-EEEEeCCCC
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKY---TDIASLGTLAKYTGG-QVYYYPSFQ 646 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~---vdiatL~~L~~~TGG-~v~~y~~F~ 646 (835)
..++.+.++.+.||.|-.+.+...+ .+..+|..++..+++ ++|...+|+
T Consensus 120 ------------------~~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 120 ------------------LLKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFA 172 (177)
T ss_pred ------------------ccHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHH
Confidence 0144566677788877777666543 347899999998864 666666663
No 41
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=97.96 E-value=0.00026 Score=73.13 Aligned_cols=150 Identities=22% Similarity=0.246 Sum_probs=89.1
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-------CCCceEEEEEEcCeEEE-EecCCCCCCCceeeecccccc
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-------FPRTQIGFITFDSTIHF-YNMKSSLTQPQMMVISDLDDI 500 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-------~~rt~VGiITFds~V~f-ynl~~~~~~pqmlVvsDldd~ 500 (835)
-.|||||.|.+.-.. -++.+++.|+..+..+.. ...+|||||+|++..++ ++|+ |.
T Consensus 21 DivfvlD~S~Sm~~~-~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~~L~------------d~--- 84 (193)
T cd01477 21 DIVFVVDNSKGMTQG-GLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVADLN------------DL--- 84 (193)
T ss_pred eEEEEEeCCCCcchh-hHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEEecc------------cc---
Confidence 379999999987543 367788888777766543 12489999999987654 2221 10
Q ss_pred cCCCCCCcccchhhhHHHHHHHHhh-CCccccCCCCcccchHHHHHHHHHHHHhc--C-----CE-EEEEecCCCCCCcc
Q 003269 501 FVPLPDDLLVNLSESRSVVDTLLDS-LPSMFQDNMNVESAFGPALKAAFMVMSRL--G-----GK-LLIFQNSLPSLGVG 571 (835)
Q Consensus 501 f~Pl~~~lLv~l~esr~~I~~lLd~-L~~~~~~~~~~~~alG~AL~aA~~lL~~~--G-----Gk-IivF~sg~Pt~GpG 571 (835)
..++.+.+.|+. +..+. ....+.+|.||+.|.+++... + -| ||++++|--+.+
T Consensus 85 -------------~~~~~~~~ai~~~~~~~~---~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~-- 146 (193)
T cd01477 85 -------------QSFDDLYSQIQGSLTDVS---STNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEG-- 146 (193)
T ss_pred -------------cCHHHHHHHHHHHhhccc---cCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCC--
Confidence 011222233332 11111 123578999999999999752 3 36 555554421100
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccccc
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG 637 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG 637 (835)
+ . -..+.|+++.+.||.|..+.+.. +.|...|..|++..++
T Consensus 147 ----------------~-------~-~~~~~a~~l~~~GI~i~tVGiG~-~~d~~~~~~L~~ias~ 187 (193)
T cd01477 147 ----------------S-------N-DPRPIAARLKSTGIAIITVAFTQ-DESSNLLDKLGKIASP 187 (193)
T ss_pred ----------------C-------C-CHHHHHHHHHHCCCEEEEEEeCC-CCCHHHHHHHHHhcCC
Confidence 0 0 02467888999999998888865 4554445555555443
No 42
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.90 E-value=0.0004 Score=69.13 Aligned_cols=150 Identities=20% Similarity=0.209 Sum_probs=93.4
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDL 508 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~l 508 (835)
.+||||.|.+.-+.+ ++.+++.|+..+..+.- ..+.+||||+|++..+..- ++++ +
T Consensus 3 v~~vlD~S~Sm~~~~-~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~--------------~l~~--------~ 59 (164)
T cd01482 3 IVFLVDGSWSIGRSN-FNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEF--------------DLNA--------Y 59 (164)
T ss_pred EEEEEeCCCCcChhh-HHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEE--------------ecCC--------C
Confidence 689999999886544 57788888888877642 2358999999998654320 1110 0
Q ss_pred ccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHH-Hhc-C------CEEEEEecCCCCCCcccccccCCcc
Q 003269 509 LVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVM-SRL-G------GKLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 509 Lv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL-~~~-G------GkIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
.+++.+.+.|++|... ...+.+|.||..+...+ +.. | ..|++|+.|.++-
T Consensus 60 -----~~~~~l~~~l~~~~~~-----~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~------------ 117 (164)
T cd01482 60 -----TSKEDVLAAIKNLPYK-----GGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQD------------ 117 (164)
T ss_pred -----CCHHHHHHHHHhCcCC-----CCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCc------------
Confidence 1233445556666431 34567999999877544 321 1 2377777765321
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccccc-EEEEeC
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG-QVYYYP 643 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG-~v~~y~ 643 (835)
-.++.++++.+.||- +|+++....+...|..|+..+.. ++|...
T Consensus 118 -----------------~~~~~a~~lk~~gi~--i~~ig~g~~~~~~L~~ia~~~~~~~~~~~~ 162 (164)
T cd01482 118 -----------------DVELPARVLRNLGVN--VFAVGVKDADESELKMIASKPSETHVFNVA 162 (164)
T ss_pred -----------------hHHHHHHHHHHCCCE--EEEEecCcCCHHHHHHHhCCCchheEEEcC
Confidence 124567788787765 45444444668889999888654 455443
No 43
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=97.90 E-value=0.00035 Score=66.46 Aligned_cols=148 Identities=22% Similarity=0.320 Sum_probs=98.0
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCC
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.++|+||+|.++ ....++.+++.+...++.+.. ....+|+++.|+...+.+- ++.+.
T Consensus 2 ~v~~viD~S~Sm-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~--------------~~~~~------- 59 (161)
T cd00198 2 DIVFLLDVSGSM-GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVL--------------PLTTD------- 59 (161)
T ss_pred cEEEEEeCCCCc-CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceee--------------ccccc-------
Confidence 378999999987 335678888888888888875 2357999999997433221 00000
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCCCCcccccccCCcccc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPSLGVGCLKLRGDDLRV 582 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG~L~~re~~~r~ 582 (835)
...+.+...++.+.. .......+..||..+...+... ...|++|++|..+.+.
T Consensus 60 ------~~~~~~~~~~~~~~~----~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~------------ 117 (161)
T cd00198 60 ------TDKADLLEAIDALKK----GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGP------------ 117 (161)
T ss_pred ------CCHHHHHHHHHhccc----CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCc------------
Confidence 123445556666643 2345567889999999999653 4567777776543322
Q ss_pred cCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccc
Q 003269 583 YGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYT 635 (835)
Q Consensus 583 ~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~T 635 (835)
.-.++..+++.+.+|.|.++.+.. ..+-..+..|+..|
T Consensus 118 --------------~~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 118 --------------ELLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred --------------chhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 011345566777799998888776 45667788888887
No 44
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.90 E-value=0.00019 Score=85.80 Aligned_cols=175 Identities=19% Similarity=0.227 Sum_probs=117.0
Q ss_pred CCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCC
Q 003269 426 MPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
..-.++||||+|.++-. .-++.+++++...|..+-. .+-+||||+|++...-+ ++ |
T Consensus 406 ~~~~v~fvvD~SGSM~~-~rl~~aK~av~~Ll~~~~~-~~D~v~Li~F~~~~a~~------------~l--------p-- 461 (589)
T TIGR02031 406 SGRLLIFVVDASGSAAV-ARMSEAKGAVELLLGEAYV-HRDQVSLIAFRGTAAEV------------LL--------P-- 461 (589)
T ss_pred cCceEEEEEECCCCCCh-HHHHHHHHHHHHHHHhhcc-CCCEEEEEEECCCCceE------------EC--------C--
Confidence 44568899999998842 3578888888888875422 23589999997542111 00 1
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CC--EEEEEecCCCCCCcccccccCCcc
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GG--KLLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GG--kIivF~sg~Pt~GpG~L~~re~~~ 580 (835)
...+.+.+...|+.|+. ...+.++.||..|...++.. ++ .|+++++|.+|+|.+....
T Consensus 462 ------~t~~~~~~~~~L~~l~~------gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~----- 524 (589)
T TIGR02031 462 ------PSRSVEQAKRRLDVLPG------GGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPE----- 524 (589)
T ss_pred ------CCCCHHHHHHHHhcCCC------CCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccc-----
Confidence 11123344456777752 34578999999999998642 33 6999999999987532100
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCc
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQS 647 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~ 647 (835)
+.+. -.....+-...++.++.+.||.+-++-+...+.+..-+..|++..||..|+.++-+.
T Consensus 525 ---~~~~---~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~~a 585 (589)
T TIGR02031 525 ---SIKA---DREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNATA 585 (589)
T ss_pred ---cccc---cchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCCCh
Confidence 0000 011223344667888999998877777777777777789999999999999987543
No 45
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.88 E-value=0.00029 Score=69.61 Aligned_cols=155 Identities=25% Similarity=0.322 Sum_probs=95.3
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCC-CCCCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELP-GFPRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp-~~~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.+||||.|.+.-.. .++.+++.|...++.+. ...+.+||||+|++..+.+ ++..
T Consensus 2 ivflvD~S~sm~~~-~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~----------------------- 57 (178)
T PF00092_consen 2 IVFLVDTSGSMSGD-NFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTD----------------------- 57 (178)
T ss_dssp EEEEEE-STTSCHH-HHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTS-----------------------
T ss_pred EEEEEeCCCCCchH-HHHHHHHHHHHHHHhhhccccccccceeeeeccccccccccc-----------------------
Confidence 58999999987543 36678888888888773 3456999999999887622 2211
Q ss_pred cccchhhhHHHHHHHH-hhCCccccCCCCcccchHHHHHHHHHHHHhc--C------CEEEEEecCCCCCCcccccccCC
Q 003269 508 LLVNLSESRSVVDTLL-DSLPSMFQDNMNVESAFGPALKAAFMVMSRL--G------GKLLIFQNSLPSLGVGCLKLRGD 578 (835)
Q Consensus 508 lLv~l~esr~~I~~lL-d~L~~~~~~~~~~~~alG~AL~aA~~lL~~~--G------GkIivF~sg~Pt~GpG~L~~re~ 578 (835)
.++++.+.+.+ +.+. .....+.+|.||+.|...+... | .-||++++|.++.+.
T Consensus 58 -----~~~~~~~~~~i~~~~~-----~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~-------- 119 (178)
T PF00092_consen 58 -----YQSKNDLLNAINDSIP-----SSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSD-------- 119 (178)
T ss_dssp -----HSSHHHHHHHHHTTGG-----CCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHS--------
T ss_pred -----cccccccccccccccc-----ccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCCc--------
Confidence 01122222333 3332 2335567999999999998643 2 246666666543221
Q ss_pred cccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc--cccEEEEeCCCC
Q 003269 579 DLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY--TGGQVYYYPSFQ 646 (835)
Q Consensus 579 ~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~--TGG~v~~y~~F~ 646 (835)
.....+..+.+. ..|.+|+++.+..|...|..|+.. ..+++++..+|.
T Consensus 120 -------------------~~~~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~ 169 (178)
T PF00092_consen 120 -------------------SPSEEAANLKKS-NGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFS 169 (178)
T ss_dssp -------------------GHHHHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHH
T ss_pred -------------------chHHHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHH
Confidence 011122222222 567777777777889999999965 447888887764
No 46
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=97.87 E-value=0.00054 Score=67.25 Aligned_cols=153 Identities=21% Similarity=0.195 Sum_probs=104.6
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCC
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.++||||+|.++-. ..++.+++.+...+..+.. .+..+||||+|++..+.+.- ..
T Consensus 3 ~v~l~vD~S~SM~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~~---------------------~~-- 58 (177)
T smart00327 3 DVVFLLDGSGSMGP-NRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLFP---------------------LN-- 58 (177)
T ss_pred cEEEEEeCCCccch-HHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEEc---------------------cc--
Confidence 47899999998842 3578888888888888764 23589999999984433210 00
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh---c-----CCEEEEEecCCCCCCcccccccCCc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR---L-----GGKLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~---~-----GGkIivF~sg~Pt~GpG~L~~re~~ 579 (835)
....++.+...|+.+... .....-++.||+.+...++. . .-.|++|++|.++.+
T Consensus 59 ----~~~~~~~~~~~i~~~~~~----~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~---------- 120 (177)
T smart00327 59 ----DSRSKDALLEALASLSYK----LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDG---------- 120 (177)
T ss_pred ----ccCCHHHHHHHHHhcCCC----CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCC----------
Confidence 112345566677776532 23456789999999988852 1 125677766654422
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEE
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYY 641 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~ 641 (835)
..+++...++.+.+|.+..+.+.... +...+..++..++|...+
T Consensus 121 -----------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 121 -----------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVYVF 164 (177)
T ss_pred -----------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceEEe
Confidence 23467778888888888888877543 788899999999987655
No 47
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.82 E-value=0.00051 Score=81.94 Aligned_cols=167 Identities=17% Similarity=0.182 Sum_probs=110.9
Q ss_pred CCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCe-EEEEecCCCCCCCceeeecccccccCCC
Q 003269 426 MPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDST-IHFYNMKSSLTQPQMMVISDLDDIFVPL 504 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~-V~fynl~~~~~~pqmlVvsDldd~f~Pl 504 (835)
..-.+|||||+|.++.. .-+..++.+++..|+..-. .+-+|+||+|++. ..+ +
T Consensus 400 ~~~~vvfvvD~SGSM~~-~rl~~aK~a~~~ll~~ay~-~rD~v~lI~F~g~~a~~-------------~----------- 453 (584)
T PRK13406 400 SETTTIFVVDASGSAAL-HRLAEAKGAVELLLAEAYV-RRDQVALVAFRGRGAEL-------------L----------- 453 (584)
T ss_pred CCccEEEEEECCCCCcH-hHHHHHHHHHHHHHHhhcC-CCCEEEEEEECCCceeE-------------E-----------
Confidence 34678999999999843 3678888888888866432 3468999999754 211 1
Q ss_pred CCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---C--CEEEEEecCCCCCCcccccccCCc
Q 003269 505 PDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---G--GKLLIFQNSLPSLGVGCLKLRGDD 579 (835)
Q Consensus 505 ~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re~~ 579 (835)
++...+.+.+...|+.|+. ...+.++.||..|..+++.. | -.|+++++|..|.|.+.-..++.
T Consensus 454 -----lppT~~~~~~~~~L~~l~~------gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~- 521 (584)
T PRK13406 454 -----LPPTRSLVRAKRSLAGLPG------GGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQ- 521 (584)
T ss_pred -----cCCCcCHHHHHHHHhcCCC------CCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccc-
Confidence 1111233344556666652 36688999999999988642 2 47889999999887532111110
Q ss_pred ccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCc
Q 003269 580 LRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQS 647 (835)
Q Consensus 580 ~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~ 647 (835)
...+ =..++..+.+.+|.+-++-+.... ...+..|++.+||..|..+.-+.
T Consensus 522 --------------~~~~-~~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~~l~~~~a 572 (584)
T PRK13406 522 --------------AEED-ALAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYLPLPRADA 572 (584)
T ss_pred --------------hhhH-HHHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEEECCCCCH
Confidence 0000 145677788888776666655444 34579999999999999997644
No 48
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.75 E-value=0.001 Score=66.86 Aligned_cols=151 Identities=19% Similarity=0.241 Sum_probs=93.7
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEE-EecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHF-YNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~f-ynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.+|+||.|.+--+ .-++.+++-|+..++.+.- ...++||+|+|++..+. ++|+ +
T Consensus 3 ivfllD~S~Si~~-~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~~~l~---------------~-------- 58 (165)
T cd01481 3 IVFLIDGSDNVGS-GNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPEFYLN---------------T-------- 58 (165)
T ss_pred EEEEEeCCCCcCH-HHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEEEecc---------------c--------
Confidence 5899999886533 3467888888888888753 23589999999876543 1121 1
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHH-Hh-cCC-------E-EEEEecCCCCCCcccccccC
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVM-SR-LGG-------K-LLIFQNSLPSLGVGCLKLRG 577 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL-~~-~GG-------k-IivF~sg~Pt~GpG~L~~re 577 (835)
+ .+++.|.+.|++|+.+ . ...+.+|.||+.+.+.+ .. .|+ | ++++++|..+
T Consensus 59 ~-----~~~~~l~~~i~~i~~~--~--g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~---------- 119 (165)
T cd01481 59 H-----STKADVLGAVRRLRLR--G--GSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQ---------- 119 (165)
T ss_pred c-----CCHHHHHHHHHhcccC--C--CCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCc----------
Confidence 0 1233455566666432 1 12356899999887654 22 232 3 4455554311
Q ss_pred CcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCC
Q 003269 578 DDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSF 645 (835)
Q Consensus 578 ~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F 645 (835)
+ -+++-|+++.+.|| .+|..+....|..+|..++..- -.+|...+|
T Consensus 120 ------------------d-~~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~vf~v~~f 165 (165)
T cd01481 120 ------------------D-DVERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SFVFQVSDF 165 (165)
T ss_pred ------------------c-hHHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-ccEEEecCC
Confidence 1 13566778888875 5677776668888998888665 355555443
No 49
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=97.74 E-value=0.0017 Score=66.86 Aligned_cols=150 Identities=13% Similarity=0.127 Sum_probs=91.4
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEEEE-ecCCCCCCCceeeecccccccCCCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIHFY-NMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~fy-nl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
.+|+||.|.+.-+..+-..+++.++..++.+.- ..++|||+|+|++..+++ .+...
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~---------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDE---------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcc----------------------
Confidence 589999999875444433567777777777653 236899999999866532 22110
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcCC------E-EEEEecCCCCCCcccccccCCcc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLGG------K-LLIFQNSLPSLGVGCLKLRGDDL 580 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~GG------k-IivF~sg~Pt~GpG~L~~re~~~ 580 (835)
....++.+.+.|++|...+. ....+.+|.||+.|.+.+...+| | +|+++.|-.+-+
T Consensus 61 ----~~~~~~~l~~~i~~l~~~~~--~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~----------- 123 (192)
T cd01473 61 ----ERYDKNELLKKINDLKNSYR--SGGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSA----------- 123 (192)
T ss_pred ----cccCHHHHHHHHHHHHhccC--CCCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCc-----------
Confidence 01123444555666653222 12457799999999888754322 3 555665542110
Q ss_pred cccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc
Q 003269 581 RVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 581 r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
.+ .--.+.++++.+.||.|-.+.++. .+..+|..|+..
T Consensus 124 ------~~--------~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~ 161 (192)
T cd01473 124 ------SK--------KELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGC 161 (192)
T ss_pred ------ch--------hhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCC
Confidence 00 112456778888998877777664 466788888764
No 50
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=97.60 E-value=0.0029 Score=62.39 Aligned_cols=102 Identities=18% Similarity=0.265 Sum_probs=66.7
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCC-CCCceEEEEEEcC--eEEE-EecCCCCCCCceeeecccccccCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPG-FPRTQIGFITFDS--TIHF-YNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds--~V~f-ynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
++|+||+|.+.-. .++..++.+++.++.|.. ..+.+||||+|++ ..++ +.++.
T Consensus 3 v~~llD~S~Sm~~--~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~--------------------- 59 (163)
T cd01476 3 LLFVLDSSGSVRG--KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPK--------------------- 59 (163)
T ss_pred EEEEEeCCcchhh--hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCC---------------------
Confidence 6899999998743 366778888888888753 2358999999987 3332 11110
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-C------CEEEEEecCCC
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-G------GKLLIFQNSLP 566 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-G------GkIivF~sg~P 566 (835)
...++.+...|+.|.. ....+.+|.||+.|..+|... + ..|+++++|..
T Consensus 60 -------~~~~~~l~~~i~~l~~-----~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~ 115 (163)
T cd01476 60 -------HNDGEELLEKVDNLRF-----IGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRS 115 (163)
T ss_pred -------CCCHHHHHHHHHhCcc-----CCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCC
Confidence 1123455566776642 123578999999999999521 1 34777777654
No 51
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.52 E-value=0.0006 Score=68.64 Aligned_cols=139 Identities=18% Similarity=0.215 Sum_probs=84.8
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC----CCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCC
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF----PRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~----~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~ 505 (835)
++||||+|.++-.. -++.++++++..++.|..+ ++.+|+||+|++..+..- . +.++++
T Consensus 6 v~~llD~SgSM~~~-~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~~---~--------l~~~~~------ 67 (176)
T cd01464 6 IYLLLDTSGSMAGE-PIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVIV---P--------LTPLES------ 67 (176)
T ss_pred EEEEEECCCCCCCh-HHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEec---C--------CccHHh------
Confidence 68999999987432 3567778888888777543 367999999998765421 0 001000
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC------------CEEEEEecCCCCCCcccc
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG------------GKLLIFQNSLPSLGVGCL 573 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G------------GkIivF~sg~Pt~GpG~L 573 (835)
..++.| .....++++.||+.|.+.|+..- ..|+++++|.++-+...
T Consensus 68 ---------------~~~~~l------~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~- 125 (176)
T cd01464 68 ---------------FQPPRL------TASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTA- 125 (176)
T ss_pred ---------------cCCCcc------cCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHH-
Confidence 001111 12356899999999999985420 15888888876422110
Q ss_pred cccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc
Q 003269 574 KLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 574 ~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
. .+...++.+.++.|..|.++. .+|...|..|+..
T Consensus 126 ---------------------~----~~~~~~~~~~~~~i~~igiG~-~~~~~~L~~ia~~ 160 (176)
T cd01464 126 ---------------------A----IERIKEARDSKGRIVACAVGP-KADLDTLKQITEG 160 (176)
T ss_pred ---------------------H----HHHHHhhcccCCcEEEEEecc-ccCHHHHHHHHCC
Confidence 0 122233334467777777665 5788888877753
No 52
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.33 E-value=0.0031 Score=65.16 Aligned_cols=164 Identities=20% Similarity=0.254 Sum_probs=102.6
Q ss_pred EEecchhHHhhc----hHHHHHHHHHHHHhcC-CCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCC
Q 003269 433 LIDVSISAIRSG----MLEVVAQTIKSCLDEL-PGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDD 507 (835)
Q Consensus 433 vIDvS~~av~sG----~l~~~~~sI~~~L~~L-p~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~ 507 (835)
|||.|..+.+.- .+.++++.+..-+++. ..+|-.+||||+.-+.+- -+++++.
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a-------------~~ls~ls--------- 58 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRA-------------ERLSELS--------- 58 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeeccee-------------EEeeecC---------
Confidence 689998875432 4566666666666554 346678999998743211 1122211
Q ss_pred cccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CC-EEEEEecCCCCCCcccccccCCccccc
Q 003269 508 LLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GG-KLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 508 lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GG-kIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
.+-....+.|+++.+ ..-..+..+-.||+.|..+|++. |. .|+++.+++-|..||.+
T Consensus 59 ------gn~~~h~~~L~~~~~---~~~~G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~di---------- 119 (193)
T PF04056_consen 59 ------GNPQEHIEALKKLRK---LEPSGEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPGDI---------- 119 (193)
T ss_pred ------CCHHHHHHHHHHhcc---CCCCCChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCchhH----------
Confidence 111112233444432 23346678999999999999864 33 56666666655555422
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhhc
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRDL 662 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l 662 (835)
.+..+.+.+.+|-||++.++.+ +..+..||+.|||..... .|.+.|...|....
T Consensus 120 ----------------~~ti~~l~~~~IrvsvI~laaE---v~I~k~i~~~T~G~y~V~------lde~H~~~lL~~~~ 173 (193)
T PF04056_consen 120 ----------------HETIESLKKENIRVSVISLAAE---VYICKKICKETGGTYGVI------LDEDHFKELLMEHV 173 (193)
T ss_pred ----------------HHHHHHHHHcCCEEEEEEEhHH---HHHHHHHHHhhCCEEEEe------cCHHHHHHHHHhhC
Confidence 3567889999999999999864 778899999999954433 23445555555444
No 53
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=97.28 E-value=0.0073 Score=63.15 Aligned_cols=154 Identities=21% Similarity=0.275 Sum_probs=90.7
Q ss_pred EEEEEEecchhHHhh------chHHHHHHHHHHHHhcC-CCCCCceEEEEEEcCeEEEEecCCCCCCCceeeeccccccc
Q 003269 429 LYFFLIDVSISAIRS------GMLEVVAQTIKSCLDEL-PGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIF 501 (835)
Q Consensus 429 ~yvFvIDvS~~av~s------G~l~~~~~sI~~~L~~L-p~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f 501 (835)
..+|+||+|.++.+. ..|+.+++.|...+... -..+..+||||.|++.-+-.. ..-..+.++.+++..
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~----~~~~~i~v~~~l~~~- 77 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP----VGYENIYVLLDLDTP- 77 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc----CCCCceEEeecCCCC-
Confidence 479999999988522 35778888888888752 112236899999986532100 011233444443211
Q ss_pred CCCCCCcccchhhhHHHHHHHHhhCCcc-c----cCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCCCCcc
Q 003269 502 VPLPDDLLVNLSESRSVVDTLLDSLPSM-F----QDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPSLGVG 571 (835)
Q Consensus 502 ~Pl~~~lLv~l~esr~~I~~lLd~L~~~-~----~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt~GpG 571 (835)
..+.|+.+++.+..- . ......+..++.||.+|..++... .-+|++|+++--..| |
T Consensus 78 -------------~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~-~ 143 (218)
T cd01458 78 -------------GAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHG-G 143 (218)
T ss_pred -------------CHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCC-C
Confidence 123334444433211 0 001235678999999999999752 346888888653322 0
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCC
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDK 621 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~ 621 (835)
+ . -...-+.++++++.+.||.|.+|.+...
T Consensus 144 ------~-------~-------~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 144 ------D-------S-------IKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred ------C-------H-------HHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 0 0 0123356788899899999999886543
No 54
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=97.27 E-value=0.0088 Score=60.01 Aligned_cols=147 Identities=15% Similarity=0.101 Sum_probs=87.0
Q ss_pred EEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCc
Q 003269 429 LYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDL 508 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~l 508 (835)
.++|+||+|.++....-++.+++++...++.|.. .+.+++|++|++.. . .......+...+.++ .+
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~-~~d~~~l~~F~~~~-----~-~~~~~~~~~~~~~~~-------~~ 67 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEA-CGVPHAILGFTTDA-----G-GRERVRWIKIKDFDE-------SL 67 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHH-cCCcEEEEEecCCC-----C-CccceEEEEecCccc-------cc
Confidence 4789999999985433677788877776666654 23689999998752 0 000001111111111 00
Q ss_pred ccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh---cCCEEEEEecCCCCCCcccccccCCcccccCC
Q 003269 509 LVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR---LGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGT 585 (835)
Q Consensus 509 Lv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt 585 (835)
...+...|+.+.. ...+.+|.||..|...|.. ....||++++|.++.+...-
T Consensus 68 -------~~~~~~~l~~~~~------~g~T~~~~al~~a~~~l~~~~~~~~~iiliTDG~~~~~~~~~------------ 122 (174)
T cd01454 68 -------HERARKRLAALSP------GGNTRDGAAIRHAAERLLARPEKRKILLVISDGEPNDLDYYE------------ 122 (174)
T ss_pred -------chhHHHHHHccCC------CCCCcHHHHHHHHHHHHhcCCCcCcEEEEEeCCCcCcccccC------------
Confidence 1122334444432 2357899999999999874 34568888999887553100
Q ss_pred ccccccCCCCcHHHHHH---HHHHhhcCeEEEEEEecCCc
Q 003269 586 DKEHSLRIPEDPFYKQM---AADLTKFQIAVNVYAFSDKY 622 (835)
Q Consensus 586 ~~e~~l~~pa~~FYk~L---a~~~~~~gIsVDlF~~s~~~ 622 (835)
. .....++. ++++.+.||.|..+.+..+-
T Consensus 123 ~--------~~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 123 G--------NVFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred c--------chhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 0 00012233 77888889988877776543
No 55
>PHA03247 large tegument protein UL36; Provisional
Probab=97.01 E-value=0.58 Score=62.85 Aligned_cols=13 Identities=23% Similarity=0.235 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHh
Q 003269 446 LEVVAQTIKSCLD 458 (835)
Q Consensus 446 l~~~~~sI~~~L~ 458 (835)
|-.+|+.|...|.
T Consensus 3114 Li~ACr~i~r~lr 3126 (3151)
T PHA03247 3114 LIEACRRIRRQLR 3126 (3151)
T ss_pred HHHHHHHHHHHHH
Confidence 4455666665554
No 56
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=96.66 E-value=0.022 Score=58.05 Aligned_cols=86 Identities=21% Similarity=0.342 Sum_probs=57.9
Q ss_pred CEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCC----CCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCC
Q 003269 428 PLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGF----PRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVP 503 (835)
Q Consensus 428 p~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~----~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~P 503 (835)
|+ +|++|+|.+++-. -++++...|+..++.|..+ .+.+++|||||+.++.|.- +.|++..+.|
T Consensus 5 P~-~lllDtSgSM~Ge-~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~p-----------f~~~~nF~~p 71 (207)
T COG4245 5 PC-YLLLDTSGSMIGE-PIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQP-----------FTDAANFNPP 71 (207)
T ss_pred CE-EEEEecCcccccc-cHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEec-----------hhhHhhcCCC
Confidence 44 4699999988643 3677777788888777654 4679999999987776631 1222221111
Q ss_pred CCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh
Q 003269 504 LPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR 553 (835)
Q Consensus 504 l~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~ 553 (835)
.++ ....+.+|+||+.|..+++.
T Consensus 72 ------------------------~L~---a~GgT~lGaAl~~a~d~Ie~ 94 (207)
T COG4245 72 ------------------------ILT---AQGGTPLGAALTLALDMIEE 94 (207)
T ss_pred ------------------------cee---cCCCCchHHHHHHHHHHHHH
Confidence 111 22568899999999999974
No 57
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=96.62 E-value=0.037 Score=54.01 Aligned_cols=130 Identities=15% Similarity=0.142 Sum_probs=74.8
Q ss_pred EEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCCCcc
Q 003269 430 YFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPDDLL 509 (835)
Q Consensus 430 yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~~lL 509 (835)
++|+||+|.++... -+..+++.+...++.+.. .+.+|+||+|++..+.+.+..
T Consensus 3 v~illD~SgSM~~~-k~~~a~~~~~~l~~~~~~-~~~~v~li~F~~~~~~~~~~~------------------------- 55 (152)
T cd01462 3 VILLVDQSGSMYGA-PEEVAKAVALALLRIALA-ENRDTYLILFDSEFQTKIVDK------------------------- 55 (152)
T ss_pred EEEEEECCCCCCCC-HHHHHHHHHHHHHHHHHH-cCCcEEEEEeCCCceEEecCC-------------------------
Confidence 68999999988532 244455555555555432 125899999988733221110
Q ss_pred cchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CCEEEEEecCCCCCCcccccccCCcccccCCc
Q 003269 510 VNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTD 586 (835)
Q Consensus 510 v~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~ 586 (835)
.+. +..+++.|..+. ....+.++.||..+.+.++.. .+.|+++++|..+.
T Consensus 56 ---~~~---~~~~~~~l~~~~---~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~~~~------------------ 108 (152)
T cd01462 56 ---TDD---LEEPVEFLSGVQ---LGGGTDINKALRYALELIERRDPRKADIVLITDGYEGG------------------ 108 (152)
T ss_pred ---ccc---HHHHHHHHhcCC---CCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCCCCC------------------
Confidence 001 112233332221 235678999999999998763 46788888875210
Q ss_pred cccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCC
Q 003269 587 KEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDK 621 (835)
Q Consensus 587 ~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~ 621 (835)
...+.. +.+....+.++.|..|.++.+
T Consensus 109 -------~~~~~~-~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 109 -------VSDELL-REVELKRSRVARFVALALGDH 135 (152)
T ss_pred -------CCHHHH-HHHHHHHhcCcEEEEEEecCC
Confidence 011222 334444556788999988763
No 58
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.063 Score=55.83 Aligned_cols=155 Identities=15% Similarity=0.269 Sum_probs=96.9
Q ss_pred EEEEEEecchhHHhhc----hHHHHHHHHHHHHh-cCCCCCCceEEEEEEcC-eEEEEecCCCCCCCceeeecccccccC
Q 003269 429 LYFFLIDVSISAIRSG----MLEVVAQTIKSCLD-ELPGFPRTQIGFITFDS-TIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 429 ~yvFvIDvS~~av~sG----~l~~~~~sI~~~L~-~Lp~~~rt~VGiITFds-~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
+.+.|||-|.-+.+-- .|++=+++|..... .+.+++...|||||... .+.+..
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLs--------------------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLS--------------------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeee---------------------
Confidence 5688999887764322 34444454444332 24445556899998754 333221
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC-----CEEEEEecCCCCCCcccccccC
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG-----GKLLIFQNSLPSLGVGCLKLRG 577 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G-----GkIivF~sg~Pt~GpG~L~~re 577 (835)
.+...+-.|...|..|.. ..+.-+..+|+.|..+|++.- -||++|.+++-.
T Consensus 64 --------T~T~d~gkils~lh~i~~------~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~---------- 119 (259)
T KOG2884|consen 64 --------TLTSDRGKILSKLHGIQP------HGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIE---------- 119 (259)
T ss_pred --------eccccchHHHHHhcCCCc------CCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcch----------
Confidence 111223344455555542 345668999999999999743 589999987621
Q ss_pred CcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccE-----EEEeCC
Q 003269 578 DDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQ-----VYYYPS 644 (835)
Q Consensus 578 ~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~-----v~~y~~ 644 (835)
+.| +-.-++|+++.+++|.|||+-|+....+-.-+......++|. +...+.
T Consensus 120 --------e~e--------keLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~~~gshlv~Vpp 175 (259)
T KOG2884|consen 120 --------ESE--------KELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGKGDGSHLVSVPP 175 (259)
T ss_pred --------hhH--------HHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCCCCCceEEEeCC
Confidence 111 233578999999999999999987766655555555555553 665554
No 59
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=96.38 E-value=0.19 Score=60.57 Aligned_cols=164 Identities=17% Similarity=0.247 Sum_probs=90.7
Q ss_pred CEEEEEEecchhHHh-------hchHHHHHHHHHHHHhc-CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeeccccc
Q 003269 428 PLYFFLIDVSISAIR-------SGMLEVVAQTIKSCLDE-LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDD 499 (835)
Q Consensus 428 p~yvFvIDvS~~av~-------sG~l~~~~~sI~~~L~~-Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd 499 (835)
-..|||||+|.++.+ ..-+..++++|...+.+ +-..++..|||+.|++.=+ ++.+.-..++|+.||+.
T Consensus 11 eailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t----~n~~~~~~i~v~~~L~~ 86 (584)
T TIGR00578 11 DSLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKD----KNSVNFKNIYVLQELDN 86 (584)
T ss_pred eEEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCC----CCccCCCceEEEeeCCC
Confidence 468999999999864 12355666666666654 2334568999999976422 22222335667777663
Q ss_pred ccCCCCCCcccchhhhHHHHHHHHhh-CCccccC--CCCcccchHHHHHHHHHHHHhc----C-CEEEEEecCCCCCCcc
Q 003269 500 IFVPLPDDLLVNLSESRSVVDTLLDS-LPSMFQD--NMNVESAFGPALKAAFMVMSRL----G-GKLLIFQNSLPSLGVG 571 (835)
Q Consensus 500 ~f~Pl~~~lLv~l~esr~~I~~lLd~-L~~~~~~--~~~~~~alG~AL~aA~~lL~~~----G-GkIivF~sg~Pt~GpG 571 (835)
+-. +....|++|++. -...|.. .......+..||.+|..++... + =||++||+.---
T Consensus 87 p~a-----------~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P---- 151 (584)
T TIGR00578 87 PGA-----------KRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNP---- 151 (584)
T ss_pred CCH-----------HHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCC----
Confidence 211 111222333332 1111111 1122347899999999999652 3 369999863211
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecC-CccChhh
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSD-KYTDIAS 627 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~-~~vdiat 627 (835)
|+.++. ...-=...|.++.+.||.|++|.++. +.+|+..
T Consensus 152 -----------~~~~~~------~~~~a~~~a~dl~~~gi~ielf~l~~~~~Fd~s~ 191 (584)
T TIGR00578 152 -----------HGNDSA------KASRARTKAGDLRDTGIFLDLMHLKKPGGFDISL 191 (584)
T ss_pred -----------CCCchh------HHHHHHHHHHHHHhcCeEEEEEecCCCCCCChhh
Confidence 111100 00111345788999999999996542 2355543
No 60
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=95.88 E-value=0.058 Score=64.54 Aligned_cols=7 Identities=14% Similarity=0.358 Sum_probs=3.0
Q ss_pred HHHHHHH
Q 003269 652 ERLRHEL 658 (835)
Q Consensus 652 ~~L~~dL 658 (835)
+.|+.||
T Consensus 976 EEFFaDi 982 (1102)
T KOG1924|consen 976 EEFFADI 982 (1102)
T ss_pred HHHHHHH
Confidence 3344444
No 61
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.84 E-value=0.92 Score=55.56 Aligned_cols=14 Identities=14% Similarity=0.204 Sum_probs=6.5
Q ss_pred EEEEcCeEEEEecC
Q 003269 470 FITFDSTIHFYNMK 483 (835)
Q Consensus 470 iITFds~V~fynl~ 483 (835)
++.|-+.+-.++..
T Consensus 550 l~vF~s~Lpt~g~g 563 (1007)
T KOG1984|consen 550 LFVFHSVLPTAGAG 563 (1007)
T ss_pred EEEEecccccccCc
Confidence 34455554444443
No 62
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=95.63 E-value=0.15 Score=52.48 Aligned_cols=143 Identities=17% Similarity=0.227 Sum_probs=80.5
Q ss_pred EEEEEEecchhHHhh----c--hHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccC
Q 003269 429 LYFFLIDVSISAIRS----G--MLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 429 ~yvFvIDvS~~av~s----G--~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
-++|+||+|.++-.. + -++.+++.+...++.+......+|++++|++..+-+ .
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~~---------------------~ 62 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGDFRRY---------------------D 62 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCcccc---------------------C
Confidence 479999999998532 1 356666666666655443223568888886542111 0
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHH-HHHhc--------CCEEEEEecCCCCCCcccc
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFM-VMSRL--------GGKLLIFQNSLPSLGVGCL 573 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~-lL~~~--------GGkIivF~sg~Pt~GpG~L 573 (835)
+ +. ++.+.++++++.. ...+.++.+|+.++. +++.. +..||+++.|.++- ..
T Consensus 63 ~--------~~--~~~v~~~~~~~~p------~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d-~~-- 123 (199)
T cd01457 63 N--------VN--SSKVDQLFAENSP------DGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPDD-KD-- 123 (199)
T ss_pred C--------cC--HHHHHHHHhcCCC------CCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCCc-HH--
Confidence 1 11 4555666665532 245789999998874 33321 35577777776541 11
Q ss_pred cccCCcccccCCccccccCCCCcHHHHHH---HHHHhh-cCeEEEEEEecCCccChhhhhhhccc
Q 003269 574 KLRGDDLRVYGTDKEHSLRIPEDPFYKQM---AADLTK-FQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 574 ~~re~~~r~~gt~~e~~l~~pa~~FYk~L---a~~~~~-~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
...+.| +.++.+ .+|++.++.++.+.-+...|..|...
T Consensus 124 -----------------------~~~~~i~~a~~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~ 165 (199)
T cd01457 124 -----------------------AVERVIIKASDELDADNELAISFLQIGRDPAATAFLKALDDQ 165 (199)
T ss_pred -----------------------HHHHHHHHHHHhhccccCceEEEEEeCCcHHHHHHHHHHhHH
Confidence 111111 111111 47889888887776665556555543
No 63
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=95.31 E-value=0.21 Score=54.35 Aligned_cols=132 Identities=18% Similarity=0.200 Sum_probs=77.3
Q ss_pred CCCEEEEEEecchhHHhhch----HHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeeccccccc
Q 003269 426 MPPLYFFLIDVSISAIRSGM----LEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIF 501 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG~----l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f 501 (835)
...-++|+||+|.++.++.. ++ .+..|.++|+.|..+ +|||+.|+.++. ++.++++.|
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~g---~vgVv~Fg~~~~--------------~v~Plt~d~ 120 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEVG---QLGVCSFGEDVQ--------------ILHPFDEQF 120 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcCC---cEEEEEeCCCce--------------EeCCCCCCc
Confidence 45678999999999865432 33 455677777778764 799999997542 222222111
Q ss_pred CCCCCCcccchhhhHHHHHHHHhhCCc-cccCCCCcccchHHHHHHHHHHHHhc-----CC---EEEEE-ecCCCCCCcc
Q 003269 502 VPLPDDLLVNLSESRSVVDTLLDSLPS-MFQDNMNVESAFGPALKAAFMVMSRL-----GG---KLLIF-QNSLPSLGVG 571 (835)
Q Consensus 502 ~Pl~~~lLv~l~esr~~I~~lLd~L~~-~~~~~~~~~~alG~AL~aA~~lL~~~-----GG---kIivF-~sg~Pt~GpG 571 (835)
.. +..++.+.. .|. ..++.++.||..|..+++.. +| ++++. ++|-+..
T Consensus 121 ---------------~~-~a~~~~l~~~~f~---~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~--- 178 (266)
T cd01460 121 ---------------SS-QSGPRILNQFTFQ---QDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEF--- 178 (266)
T ss_pred ---------------hh-hHHHHHhCcccCC---CCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCccc---
Confidence 11 223333322 222 23456899999999988754 32 44444 4433210
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecC
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSD 620 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~ 620 (835)
. .. --+.++.++.+.+|.|-++++-.
T Consensus 179 --~----------e~-----------~~~~~~r~a~e~~i~l~~I~ld~ 204 (266)
T cd01460 179 --S----------EG-----------AQKVRLREAREQNVFVVFIIIDN 204 (266)
T ss_pred --C----------cc-----------HHHHHHHHHHHcCCeEEEEEEcC
Confidence 0 00 01344778889998887777643
No 64
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.
Probab=95.15 E-value=0.17 Score=52.91 Aligned_cols=154 Identities=20% Similarity=0.240 Sum_probs=74.2
Q ss_pred EEEEEEecchhHHhh-----chHHHHHHHHHHHHhcC-CCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccC
Q 003269 429 LYFFLIDVSISAIRS-----GMLEVVAQTIKSCLDEL-PGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 429 ~yvFvIDvS~~av~s-----G~l~~~~~sI~~~L~~L-p~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
+.|||||+|.++.+. .-|+.++++|...+.+. -..+...||||.|++.-.=-. .....-..+.++.+|+-+
T Consensus 1 ~~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~-~~~~~~~~i~~l~~l~~~-- 77 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNP-DEDSGYENIFVLQPLDPP-- 77 (224)
T ss_dssp EEEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST--TTT-STTEEEEEECC----
T ss_pred CEEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCc-ccccCCCceEEeecCCcc--
Confidence 469999999988532 23666677777666542 122336899999975421000 001112234444443311
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCc----cccCCCCcccchHHHHHHHHHHHHhc-------CCEEEEEecCCCCCCcc
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPS----MFQDNMNVESAFGPALKAAFMVMSRL-------GGKLLIFQNSLPSLGVG 571 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~----~~~~~~~~~~alG~AL~aA~~lL~~~-------GGkIivF~sg~Pt~GpG 571 (835)
+-+.|..|.+.+.. ........+..+..||.+|..+++.. .-||++||..- +|
T Consensus 78 ------------~~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d---~p- 141 (224)
T PF03731_consen 78 ------------SAERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDND---GP- 141 (224)
T ss_dssp ------------BHHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-S---ST-
T ss_pred ------------CHHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCC---CC-
Confidence 12233333333321 00012234567999999999999751 23677777632 11
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHH-HHHHHhhcCeEEEEEEe
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQ-MAADLTKFQIAVNVYAF 618 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~-La~~~~~~gIsVDlF~~ 618 (835)
+..+.+ -..-.++ .++++...+|.+++|.+
T Consensus 142 -----------~~~~~~------~~~~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 142 -----------HEDDDE------LERIIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp -----------TT-CCC------HHHHHHHHHHHHHHHHTEEEEEEEC
T ss_pred -----------CCCHHH------HHHHHHhhccccchhcCcceeEeec
Confidence 000000 0011111 26778999999999987
No 65
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=95.12 E-value=0.41 Score=48.94 Aligned_cols=133 Identities=19% Similarity=0.314 Sum_probs=87.5
Q ss_pred CEEEEEEecchhHHhhc----hHHHHHHHHHHHHhc-CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccC
Q 003269 428 PLYFFLIDVSISAIRSG----MLEVVAQTIKSCLDE-LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 428 p~yvFvIDvS~~av~sG----~l~~~~~sI~~~L~~-Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
-+.|.+||-|..+.+-- .+++-++++...+.. ..+++...||||+... .+++.+
T Consensus 4 EatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~-----------a~p~vl---------- 62 (243)
T COG5148 4 EATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQ-----------AQPNVL---------- 62 (243)
T ss_pred ceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeeccc-----------CCcchh----------
Confidence 45789999988775432 355666666666654 3345667899987532 123222
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---C--CEEEEEecCCCCCCcccccccC
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---G--GKLLIFQNSLPSLGVGCLKLRG 577 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---G--GkIivF~sg~Pt~GpG~L~~re 577 (835)
..+...+-.|...|..|+- +.+.-++.+|+.|..+|++. | .+|++|.+++-.
T Consensus 63 -------sT~T~~~gkilt~lhd~~~------~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi~---------- 119 (243)
T COG5148 63 -------STPTKQRGKILTFLHDIRL------HGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPIQ---------- 119 (243)
T ss_pred -------ccchhhhhHHHHHhccccc------cCcchHHHHHHHHHHHHhcccCCccceEEEEEecCccc----------
Confidence 2223445666677777652 23445889999999999874 3 689999987621
Q ss_pred CcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecC
Q 003269 578 DDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSD 620 (835)
Q Consensus 578 ~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~ 620 (835)
+. .+-.-.+|+.+.+++|+||++-|+.
T Consensus 120 --------es--------edeLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 120 --------ES--------EDELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred --------cc--------HHHHHHHHHHHHhcCeeEEEEehhh
Confidence 11 1223468899999999999998764
No 66
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=94.67 E-value=1.4 Score=45.79 Aligned_cols=98 Identities=10% Similarity=0.086 Sum_probs=60.4
Q ss_pred hhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHH-hc--CCEEEE-EecCCCCCCcccccccCCcccccCCcccc
Q 003269 514 ESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMS-RL--GGKLLI-FQNSLPSLGVGCLKLRGDDLRVYGTDKEH 589 (835)
Q Consensus 514 esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~-~~--GGkIiv-F~sg~Pt~GpG~L~~re~~~r~~gt~~e~ 589 (835)
+..+.+..+|+.+.--+... .++ .||..|++-|+ .. ..|+++ ++.|-=|.| +
T Consensus 72 ~~~~~l~~~l~~~q~g~ag~---~Ta--dAi~~av~rl~~~~~a~~kvvILLTDG~n~~~--------------~----- 127 (191)
T cd01455 72 ERLETLKMMHAHSQFCWSGD---HTV--EATEFAIKELAAKEDFDEAIVIVLSDANLERY--------------G----- 127 (191)
T ss_pred hHHHHHHHHHHhcccCccCc---cHH--HHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCC--------------C-----
Confidence 33467788888875433221 223 88888888886 42 345544 444331110 0
Q ss_pred ccCCCCcHHHHHH-HHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 590 SLRIPEDPFYKQM-AADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 590 ~l~~pa~~FYk~L-a~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
..| .++ |+.+.+.||-|..+.++. .|-.++..+++.|||+.|.-.+
T Consensus 128 --i~P-----~~aAa~lA~~~gV~iytIgiG~--~d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 128 --IQP-----KKLADALAREPNVNAFVIFIGS--LSDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred --CCh-----HHHHHHHHHhCCCEEEEEEecC--CCHHHHHHHHhCCCCcEEEeCC
Confidence 011 344 355667888877777765 3678899999999999998754
No 67
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.57 E-value=2.4 Score=46.52 Aligned_cols=95 Identities=18% Similarity=0.167 Sum_probs=62.0
Q ss_pred cccchHHHHHHHHHHHHh----------cCCEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHH
Q 003269 536 VESAFGPALKAAFMVMSR----------LGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAAD 605 (835)
Q Consensus 536 ~~~alG~AL~aA~~lL~~----------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~ 605 (835)
.++.+..||..|+-.+.. ..+||+++..+. |. ..+.-=+-+....
T Consensus 117 ~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~------------~~-------------~~qYi~~mn~Ifa 171 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITP------------DM-------------ALQYIPLMNCIFS 171 (279)
T ss_pred ccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC------------Cc-------------hHHHHHHHHHHHH
Confidence 456688888888877632 247888887631 10 0111223367788
Q ss_pred HhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhhc
Q 003269 606 LTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRDL 662 (835)
Q Consensus 606 ~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l 662 (835)
|.+.+|.||++..+.+ -|+.-+..+++.|||......+ .+.|...|...+
T Consensus 172 aqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~~------~~~L~q~L~~~~ 221 (279)
T TIGR00627 172 AQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVKK------PQGLLQYLMTNM 221 (279)
T ss_pred HHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccCC------HhHHHHHHHHhc
Confidence 9999999999988643 4688899999999995444432 334555554443
No 68
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=94.37 E-value=2.7 Score=46.13 Aligned_cols=81 Identities=20% Similarity=0.247 Sum_probs=55.4
Q ss_pred cchHHHHHHHHHHHHh-----------cCCEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHHH
Q 003269 538 SAFGPALKAAFMVMSR-----------LGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADL 606 (835)
Q Consensus 538 ~alG~AL~aA~~lL~~-----------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~ 606 (835)
+.+..||..|+-.+.. ..+||+++.++-+ |.. .+.-=+-+..-.+
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~-----------d~~-------------~QYi~~MN~iFaA 171 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP-----------DSS-------------SQYIPLMNCIFAA 171 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC-----------Ccc-------------HHHHHHHHHHHHH
Confidence 6788888888766643 2358888533211 100 1111233556678
Q ss_pred hhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 607 TKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 607 ~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
.+.+|.||++.... -|-.-|...+..|||.-+..+.
T Consensus 172 qk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~ 207 (276)
T PF03850_consen 172 QKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSK 207 (276)
T ss_pred hcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCc
Confidence 89999999999876 5667789999999998888765
No 69
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=93.35 E-value=1.3 Score=48.78 Aligned_cols=148 Identities=25% Similarity=0.365 Sum_probs=91.3
Q ss_pred CCEEEEEEecchhHHhhch----HHHHHHHHHHHHhcCC-CCCCceEEEEEEcCeEEEEecCCCCCCCceeeeccccccc
Q 003269 427 PPLYFFLIDVSISAIRSGM----LEVVAQTIKSCLDELP-GFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIF 501 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~----l~~~~~sI~~~L~~Lp-~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f 501 (835)
-...+.|||+|-.+.+.-+ ++.+++.+..-+.+.- .++-.+||||+.-+ +..
T Consensus 60 iRhl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~---------g~A-------------- 116 (378)
T KOG2807|consen 60 IRHLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKD---------GKA-------------- 116 (378)
T ss_pred heeEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEec---------chh--------------
Confidence 3566789999998876543 4445555555554443 35667899886432 110
Q ss_pred CCCCCCcccchhhh-HHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcCC----EEEEEecCCCCCCccccccc
Q 003269 502 VPLPDDLLVNLSES-RSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLGG----KLLIFQNSLPSLGVGCLKLR 576 (835)
Q Consensus 502 ~Pl~~~lLv~l~es-r~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~GG----kIivF~sg~Pt~GpG~L~~r 576 (835)
+.+.++..+ +..|+.| ..+. .-.....|-.||+.|...|++.-| .|++..+++.|.-||.+
T Consensus 117 -----~~lt~ltgnp~~hI~aL-~~~~-----~~~g~fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DPgdi--- 182 (378)
T KOG2807|consen 117 -----DRLTDLTGNPRIHIHAL-KGLT-----ECSGDFSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDPGDI--- 182 (378)
T ss_pred -----hHHHHhcCCHHHHHHHH-hccc-----ccCCChHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCcccH---
Confidence 112222222 2223322 2222 123446788899999999998633 45666677777766643
Q ss_pred CCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccccc
Q 003269 577 GDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGG 637 (835)
Q Consensus 577 e~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG 637 (835)
|+. -+.+.+..|-|.++-.+.+ ++.-..||+.|||
T Consensus 183 ----------------------~~t-I~~lk~~kIRvsvIgLsaE---v~icK~l~kaT~G 217 (378)
T KOG2807|consen 183 ----------------------YET-IDKLKAYKIRVSVIGLSAE---VFICKELCKATGG 217 (378)
T ss_pred ----------------------HHH-HHHHHhhCeEEEEEeechh---HHHHHHHHHhhCC
Confidence 333 3567888899999887754 6677899999999
No 70
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=92.20 E-value=1 Score=52.05 Aligned_cols=148 Identities=16% Similarity=0.218 Sum_probs=91.7
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
.| ++.|||.|.++ .|..+.+..++..+|-.+.--.+.++.++.||+.++=|.+....
T Consensus 273 Gp-villlD~SGSM--~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k~-------------------- 329 (437)
T COG2425 273 GP-VILLLDKSGSM--SGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEKK-------------------- 329 (437)
T ss_pred CC-EEEEEeCCCCc--CCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCCc--------------------
Confidence 45 45699999998 47666666677766655432234789999999954444433210
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh---cCCEEEEEecCCCCCCcccccccCCccccc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR---LGGKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~---~GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
-.++.+|+.|...|... +-+-.||..|++.++. .+++|++.|+|-.
T Consensus 330 ----------~~~~e~i~fL~~~f~GG----TD~~~~l~~al~~~k~~~~~~adiv~ITDg~~----------------- 378 (437)
T COG2425 330 ----------IDIEELIEFLSYVFGGG----TDITKALRSALEDLKSRELFKADIVVITDGED----------------- 378 (437)
T ss_pred ----------cCHHHHHHHHhhhcCCC----CChHHHHHHHHHHhhcccccCCCEEEEeccHh-----------------
Confidence 01234555555544433 5678889999999985 4688888877541
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCc-cChhhhhhhccccccEEEEeC
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKY-TDIASLGTLAKYTGGQVYYYP 643 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~-vdiatL~~L~~~TGG~v~~y~ 643 (835)
.. .+.|-.+..+...+...=|.-.+++... -++..++. .+ +|.++
T Consensus 379 ------~~---~~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~Isd---~~---i~~~~ 424 (437)
T COG2425 379 ------ER---LDDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRISD---HI---IYRVE 424 (437)
T ss_pred ------hh---hhHHHHHHHHHHHHhhceEEEEEecCCCCcccceeee---ee---EEeeC
Confidence 11 1456666666666677767766666544 55555444 33 56655
No 71
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=91.92 E-value=29 Score=40.26 Aligned_cols=271 Identities=15% Similarity=0.215 Sum_probs=138.7
Q ss_pred CCEEEEEEecchhHHhh-chHHHHHHHHHHHHhcCCCCCCceEEEEEE-cCeEEEEecC--CCCCCCceeeecccccccC
Q 003269 427 PPLYFFLIDVSISAIRS-GMLEVVAQTIKSCLDELPGFPRTQIGFITF-DSTIHFYNMK--SSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 427 pp~yvFvIDvS~~av~s-G~l~~~~~sI~~~L~~Lp~~~rt~VGiITF-ds~V~fynl~--~~~~~pqmlVvsDldd~f~ 502 (835)
|--..|+.|+|+++... .-|+.+...|.+.|..+-. +.|+||=+| |+.|.=|-.. ..+..|- .+..+.-.
T Consensus 99 PvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~--n~rlGfGsFVDK~v~P~~~t~p~~l~~PC----~~~~~~c~ 172 (423)
T smart00187 99 PVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTS--NFRLGFGSFVDKTVSPFVSTRPEKLENPC----PNYNLTCE 172 (423)
T ss_pred ccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhccc--CceeeEEEeecCccCCcccCCHHHhcCCC----cCCCCCcC
Confidence 33467899999988431 1244555556666666644 489999888 6655322211 0111110 00000011
Q ss_pred -CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC-----CEEEEEecCCCCC--Cccccc
Q 003269 503 -PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG-----GKLLIFQNSLPSL--GVGCLK 574 (835)
Q Consensus 503 -Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G-----GkIivF~sg~Pt~--GpG~L~ 574 (835)
|..-.-.++|.+..+.+.+.+++.. .-.+...+|-.|-+-+++|+ .-+.+| -||+||.+-..-. |-|+|-
T Consensus 173 p~f~f~~~L~LT~~~~~F~~~V~~~~-iSgN~D~PEgG~DAimQaaV-C~~~IGWR~~a~rllv~~TDa~fH~AGDGkLa 250 (423)
T smart00187 173 PPYGFKHVLSLTDDTDEFNEEVKKQR-ISGNLDAPEGGFDAIMQAAV-CTEQIGWREDARRLLVFSTDAGFHFAGDGKLA 250 (423)
T ss_pred CCcceeeeccCCCCHHHHHHHHhhce-eecCCcCCcccHHHHHHHHh-hccccccCCCceEEEEEEcCCCccccCCccee
Confidence 1111224566666666666666543 22233457777777777774 122333 4899999887763 888875
Q ss_pred cc--CCcccccCCcc-cccc-CCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEE-EeCCCCcch
Q 003269 575 LR--GDDLRVYGTDK-EHSL-RIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVY-YYPSFQSTT 649 (835)
Q Consensus 575 ~r--e~~~r~~gt~~-e~~l-~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~-~y~~F~~~~ 649 (835)
-. -++.+-|=.+. +..- ..-+..--.+|++++.+++|-+ ||+......++. ..|+++-.|... ... .++.
T Consensus 251 GIv~PNDg~CHL~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~~Ls~lipgs~vg~Ls--~DSs 325 (423)
T smart00187 251 GIVQPNDGQCHLDNNGEYTMSTTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--KELSALIPGSSVGVLS--EDSS 325 (423)
T ss_pred eEecCCCCcceeCCCCCcCccCcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHH--HHHHHhcCcceeeecc--cCcc
Confidence 32 22344222111 1110 1112344678889999999864 788777766654 334444344332 221 1233
Q ss_pred hHHHHHHHHHhhcccccccceEEEEE-eCCCceEeeeecCcccC--CCCceEeccCCCCCcEEEEEeec
Q 003269 650 HGERLRHELSRDLTRETAWEAVMRIR-CGKGVRFTNYHGNFMLR--STDLLALPAVDCDKAYAMQLSLE 715 (835)
Q Consensus 650 d~~~L~~dL~r~l~r~~g~~a~mrVR-~S~Gl~V~~~~Gnf~~r--s~~~~~l~~id~d~Sia~~f~~d 715 (835)
+.-.|.++-++.|. -+++|+.. ..++|+++-.- ++-.. ....-...++.-.+.+.|++++.
T Consensus 326 NIv~LI~~aY~~i~----S~V~l~~~~~p~~v~~~y~s-~C~~g~~~~~~~~C~~v~iG~~V~F~v~vt 389 (423)
T smart00187 326 NVVELIKDAYNKIS----SRVELEDNSLPEGVSVTYTS-SCPGGVVGPGTRKCEGVKIGDTVSFEVTVT 389 (423)
T ss_pred hHHHHHHHHHHhhc----eEEEEecCCCCCcEEEEEEe-eCCCCCcccCCcccCCcccCCEEEEEEEEE
Confidence 44556665555543 34455444 25677765322 21110 01111344566667777777665
No 72
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length. The function of this family is unknown.
Probab=89.28 E-value=12 Score=39.44 Aligned_cols=97 Identities=21% Similarity=0.158 Sum_probs=54.3
Q ss_pred cchHHHHHHHHHHHHhcC---CEEEEEec--CCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeE
Q 003269 538 SAFGPALKAAFMVMSRLG---GKLLIFQN--SLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIA 612 (835)
Q Consensus 538 ~alG~AL~aA~~lL~~~G---GkIivF~s--g~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIs 612 (835)
+++|.||..+..+|+..+ .|-++=.+ |.-|.|+. +. +..-..+...||.
T Consensus 95 Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~~----------------------p~----~~ard~~~~~Git 148 (205)
T PF06707_consen 95 TAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGPR----------------------PV----TSARDAAVAAGIT 148 (205)
T ss_pred chHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCCC----------------------cc----HHHHHHHHHCCeE
Confidence 899999999999998743 34443333 22222221 11 1222345568999
Q ss_pred EEEEEecCCcc----Chhhhhhhccccc--cEEEEeCCCCcchhHHHHHHHHHhhccccc
Q 003269 613 VNVYAFSDKYT----DIASLGTLAKYTG--GQVYYYPSFQSTTHGERLRHELSRDLTRET 666 (835)
Q Consensus 613 VDlF~~s~~~v----diatL~~L~~~TG--G~v~~y~~F~~~~d~~~L~~dL~r~l~r~~ 666 (835)
||=+.+....- +|...-.=+-..| ..|..-.. .+.|.+-++|.|.||+
T Consensus 149 INgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~------~~df~~AirrKL~rEi 202 (205)
T PF06707_consen 149 INGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARG------FEDFAEAIRRKLIREI 202 (205)
T ss_pred EeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCC------HHHHHHHHHHHHHHHh
Confidence 99998877655 6665543333333 23333333 3445555555555543
No 73
>PRK10997 yieM hypothetical protein; Provisional
Probab=89.03 E-value=0.97 Score=53.16 Aligned_cols=150 Identities=13% Similarity=0.171 Sum_probs=85.4
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
.--+|+|||+|.++. |.-+....++..+|-.+....+.++++|.|++.+..|.+... +
T Consensus 323 kGpiII~VDtSGSM~--G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l~~~--------------------~ 380 (487)
T PRK10997 323 RGPFIVCVDTSGSMG--GFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYELTGP--------------------D 380 (487)
T ss_pred CCcEEEEEECCCCCC--CCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeeccCCc--------------------c
Confidence 345789999999884 444445555555555443222367999999998776644321 0
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CCEEEEEecCCCCCCcccccccCCccccc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GGKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
.+..+..+|+.. + ..++.+..||+.++..++.. .+-|++++++....
T Consensus 381 --------gl~~ll~fL~~~---f----~GGTDl~~aL~~al~~l~~~~~r~adIVVISDF~~~~--------------- 430 (487)
T PRK10997 381 --------GLEQAIRFLSQS---F----RGGTDLAPCLRAIIEKMQGREWFDADAVVISDFIAQR--------------- 430 (487)
T ss_pred --------CHHHHHHHHHHh---c----CCCCcHHHHHHHHHHHHcccccCCceEEEECCCCCCC---------------
Confidence 112222333322 2 34577889999998888652 47777776654210
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
..+++.+.+...-.+.+.-+...+++.. +-..+..++. +++.|+.
T Consensus 431 ----------~~eel~~~L~~Lk~~~~~rf~~l~i~~~--~~p~l~~ifD----~~W~~d~ 475 (487)
T PRK10997 431 ----------LPDELVAKVKELQRQHQHRFHAVAMSAH--GKPGIMRIFD----HIWRFDT 475 (487)
T ss_pred ----------ChHHHHHHHHHHHHhcCcEEEEEEeCCC--CCchHHHhcC----eeeEecC
Confidence 0123444443333336777777777642 2233444444 4666664
No 74
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=88.93 E-value=29 Score=40.48 Aligned_cols=266 Identities=17% Similarity=0.227 Sum_probs=126.8
Q ss_pred CCEEEEEEecchhHHhh-chHHHHHHHHHHHHhcCCCCCCceEEEEEE-cCeEEEEecCCCCCCCceeeeccccccc---
Q 003269 427 PPLYFFLIDVSISAIRS-GMLEVVAQTIKSCLDELPGFPRTQIGFITF-DSTIHFYNMKSSLTQPQMMVISDLDDIF--- 501 (835)
Q Consensus 427 pp~yvFvIDvS~~av~s-G~l~~~~~sI~~~L~~Lp~~~rt~VGiITF-ds~V~fynl~~~~~~pqmlVvsDldd~f--- 501 (835)
|-=.-|++|+|+++... .-|+.+-..|.+.|.++-.+ .|+||=+| |+.|.=|--. .+ ..+.++.
T Consensus 102 PvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~--~~~GfGsfvdK~~~P~~~~----~p-----~~l~~pc~~~ 170 (426)
T PF00362_consen 102 PVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSN--FRLGFGSFVDKPVMPFVST----TP-----EKLKNPCPSK 170 (426)
T ss_dssp -EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SS--EEEEEEEESSSSSTTTST-----SS-----HCHHSTSCCT
T ss_pred ceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCcc--ceEechhhcccccCCcccC----Ch-----hhhcCccccc
Confidence 33467899999987432 11334445677777777654 89999998 5543211100 00 0111111
Q ss_pred -----CCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCC--CC
Q 003269 502 -----VPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPS--LG 569 (835)
Q Consensus 502 -----~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt--~G 569 (835)
-|..-.-.++|.+..+.++..+++.. +-.+...+|..|-+-|++|+= -+.+ .-||++|.+-..- -|
T Consensus 171 ~~~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~-is~n~D~PEgg~dal~Qa~vC-~~~igWr~~a~~llv~~TD~~fH~ag 248 (426)
T PF00362_consen 171 NPNCQPPFSFRHVLSLTDDITEFNEEVNKQK-ISGNLDAPEGGLDALMQAAVC-QEEIGWRNEARRLLVFSTDAGFHFAG 248 (426)
T ss_dssp TS--B---SEEEEEEEES-HHHHHHHHHTS---B--SSSSBSHHHHHHHHHH--HHHHT--STSEEEEEEEESS-B--TT
T ss_pred CCCCCCCeeeEEeecccchHHHHHHhhhhcc-ccCCCCCCccccchheeeeec-ccccCcccCceEEEEEEcCCcccccc
Confidence 01111234566777777777777653 333445677777777777641 2222 3589999887764 48
Q ss_pred ccccccc--CCcccccCCcc-cc-ccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhcccc-ccEEEEeCC
Q 003269 570 VGCLKLR--GDDLRVYGTDK-EH-SLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYT-GGQVYYYPS 644 (835)
Q Consensus 570 pG~L~~r--e~~~r~~gt~~-e~-~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~T-GG~v~~y~~ 644 (835)
-|+|--. .++.+-|=.+. +. .-..-+..-..+|.+.+.+++|.+ ||+......++. ..|+.+- |+.+-....
T Consensus 249 Dg~l~gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y--~~L~~~i~~s~vg~L~~ 325 (426)
T PF00362_consen 249 DGKLAGIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIY--EELSNLIPGSSVGELSS 325 (426)
T ss_dssp GGGGGT--S---SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHH--HHHHHHSTTEEEEEEST
T ss_pred ccccceeeecCCCceEECCCCcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHH--HHHhhcCCCceeccccc
Confidence 8887542 22333221111 11 011234566788888899988765 777776655543 3333332 444444442
Q ss_pred CCcchhHHHHHHHHHhhcccccccceEEEEE-eCCCceEeeeecCcccCC--CCceEeccCCCCCcEEEEEeec
Q 003269 645 FQSTTHGERLRHELSRDLTRETAWEAVMRIR-CGKGVRFTNYHGNFMLRS--TDLLALPAVDCDKAYAMQLSLE 715 (835)
Q Consensus 645 F~~~~d~~~L~~dL~r~l~r~~g~~a~mrVR-~S~Gl~V~~~~Gnf~~rs--~~~~~l~~id~d~Sia~~f~~d 715 (835)
++.+...|.++-++.+.. .+.|+.. ..++++|+ |..++..+. ...-+..++...+++.|++.++
T Consensus 326 --dSsNIv~LI~~aY~~i~s----~V~L~~~~~p~~v~v~-y~s~C~~~~~~~~~~~C~~V~iG~~V~F~VtVt 392 (426)
T PF00362_consen 326 --DSSNIVQLIKEAYNKISS----KVELKHDNAPDGVKVS-YTSNCPNGSTVPGTNECSNVKIGDTVTFNVTVT 392 (426)
T ss_dssp --TSHTHHHHHHHHHHHHCT----EEEEEECS--TTEEEE-EEEEESSSEEEECCEEECSE-TT-EEEEEEEEE
T ss_pred --CchhHHHHHHHHHHHHhh----eEEEEecCCCCcEEEE-EEEEccCCcccCcCccccCEecCCEEEEEEEEE
Confidence 233445555555555432 2333322 23455553 222222110 1123445566666666666654
No 75
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=86.02 E-value=17 Score=47.05 Aligned_cols=106 Identities=22% Similarity=0.302 Sum_probs=67.8
Q ss_pred cccCCCCCCCEEEEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccc
Q 003269 419 EYMVRPPMPPLYFFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLD 498 (835)
Q Consensus 419 eY~~r~p~pp~yvFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDld 498 (835)
-|+.....+--.+|++|+|.+.-. -.++.++.++.++|+.|.++ ..|-|+||++.++.-. ++..
T Consensus 217 Wyi~aAt~pKdiviLlD~SgSm~g-~~~~lak~tv~~iLdtLs~~--Dfvni~tf~~~~~~v~-------------pc~~ 280 (1104)
T KOG2353|consen 217 WYIQAATSPKDIVILLDVSGSMSG-LRLDLAKQTVNEILDTLSDN--DFVNILTFNSEVNPVS-------------PCFN 280 (1104)
T ss_pred ccccccCCccceEEEEeccccccc-hhhHHHHHHHHHHHHhcccC--CeEEEEeeccccCccc-------------cccc
Confidence 355556678889999999997632 23677888889999999875 6899999998765432 1111
Q ss_pred cccCCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHh
Q 003269 499 DIFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSR 553 (835)
Q Consensus 499 d~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~ 553 (835)
..|+----..++.|.++++.|. .+.. .-+-.|++.|+++|..
T Consensus 281 -------~~lvqAt~~nk~~~~~~i~~l~--~k~~----a~~~~~~e~aF~lL~~ 322 (1104)
T KOG2353|consen 281 -------GTLVQATMRNKKVFKEAIETLD--AKGI----ANYTAALEYAFSLLRD 322 (1104)
T ss_pred -------CceeecchHHHHHHHHHHhhhc--cccc----cchhhhHHHHHHHHHH
Confidence 1111111234555666666665 1211 2355678888888864
No 76
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=80.70 E-value=28 Score=37.97 Aligned_cols=55 Identities=20% Similarity=0.175 Sum_probs=39.9
Q ss_pred HHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhHHHHHHHHHhhc
Q 003269 599 YKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHELSRDL 662 (835)
Q Consensus 599 Yk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l 662 (835)
|-+.--.+.+.+|.||++.+..+ -..|...|..|||.....+.- +.|.+.|...+
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~------~gLLqyLlt~~ 239 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKP------DGLLQYLLTLL 239 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCc------chHHHHHHHHh
Confidence 34555667889999999998876 446888999999998887752 34555555443
No 77
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=76.77 E-value=24 Score=42.13 Aligned_cols=32 Identities=22% Similarity=0.507 Sum_probs=23.4
Q ss_pred CEEEEEEecchhHHh-----hchHHHHHHHHHHHHhc
Q 003269 428 PLYFFLIDVSISAIR-----SGMLEVVAQTIKSCLDE 459 (835)
Q Consensus 428 p~yvFvIDvS~~av~-----sG~l~~~~~sI~~~L~~ 459 (835)
|+|+|+||+|.++-+ ..+|+.++.+|..-|+.
T Consensus 2 pi~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~ 38 (888)
T KOG3768|consen 2 PIFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQ 38 (888)
T ss_pred ceEEEEEecccchhhhccCCchhhHHHHHHHHHHHHH
Confidence 689999999998743 34667777777666653
No 78
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=76.49 E-value=53 Score=35.18 Aligned_cols=102 Identities=15% Similarity=0.116 Sum_probs=61.8
Q ss_pred HHHHHHHhhCCccccCCCCcccc-hHHHHHHHHHHHHhc-------C-----CEEEEEecCCCCCCcccccccCCccccc
Q 003269 517 SVVDTLLDSLPSMFQDNMNVESA-FGPALKAAFMVMSRL-------G-----GKLLIFQNSLPSLGVGCLKLRGDDLRVY 583 (835)
Q Consensus 517 ~~I~~lLd~L~~~~~~~~~~~~a-lG~AL~aA~~lL~~~-------G-----GkIivF~sg~Pt~GpG~L~~re~~~r~~ 583 (835)
+.+.+.|++|+- ..+.-.+.| +.-+|.+|+.++... + -+.|+...+.|..=| .
T Consensus 90 ~~fl~~L~~I~f--~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p----~-------- 155 (226)
T PF11265_consen 90 QKFLQWLDAIQF--SGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLP----V-------- 155 (226)
T ss_pred HHHHHHHHccCc--CCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCcccc----c--------
Confidence 344566777763 333333344 777888888887631 1 244555555553211 1
Q ss_pred CCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEE
Q 003269 584 GTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYY 641 (835)
Q Consensus 584 gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~ 641 (835)
.+... -....+++++..+.+++|.+.++.- --+..|..|-+..+|....
T Consensus 156 --~~~~~---~~~~~~d~la~~~~~~~I~LSiisP----rklP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 156 --NECPQ---YSGKTCDQLAVLISERNISLSIISP----RKLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred --cCCCc---ccCCCHHHHHHHHHhcCceEEEEcC----ccCHHHHHHHHhcCCCccc
Confidence 11111 1335678999999999999999863 2356777777777777665
No 79
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=75.63 E-value=95 Score=35.07 Aligned_cols=12 Identities=8% Similarity=0.277 Sum_probs=5.3
Q ss_pred HHHHHHHHHhcC
Q 003269 449 VAQTIKSCLDEL 460 (835)
Q Consensus 449 ~~~sI~~~L~~L 460 (835)
++|+|+.+|.-+
T Consensus 392 AiETllTAI~lI 403 (498)
T KOG4849|consen 392 AIETLLTAIQLI 403 (498)
T ss_pred HHHHHHHHHHHH
Confidence 444444444433
No 80
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=68.77 E-value=56 Score=37.79 Aligned_cols=161 Identities=17% Similarity=0.237 Sum_probs=96.4
Q ss_pred CCEEEEEEecchhHHhhchHHHHHHH---HHHHHhc-CCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccC
Q 003269 427 PPLYFFLIDVSISAIRSGMLEVVAQT---IKSCLDE-LPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFV 502 (835)
Q Consensus 427 pp~yvFvIDvS~~av~sG~l~~~~~s---I~~~L~~-Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~ 502 (835)
-.+.+.++|+|++++-.|..--+++. |...+.. .++ --+.||+|...- +.+
T Consensus 463 ~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~TrfrG---D~l~~i~Fgr~A------------~~v---------- 517 (652)
T COG4867 463 QAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVCTRFRG---DALQIIAFGRYA------------RTV---------- 517 (652)
T ss_pred ccceeeeeeccHHHHHhccCCchHHHHHHHHHHHHhcCCC---cceEEEeccchh------------ccc----------
Confidence 35678899999999888854333333 3333322 233 358888886421 111
Q ss_pred CCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhcC---CEEEEEecCCCCC----Ccccccc
Q 003269 503 PLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRLG---GKLLIFQNSLPSL----GVGCLKL 575 (835)
Q Consensus 503 Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~G---GkIivF~sg~Pt~----GpG~L~~ 575 (835)
+++ -|..++...+ -.+.+--||..|-.+|+... -.|++.+.|-||- |-|.+..
T Consensus 518 --------~v~--------eLt~l~~v~e----qgTNlhhaL~LA~r~l~Rh~~~~~~il~vTDGePtAhle~~DG~~~~ 577 (652)
T COG4867 518 --------TAA--------ELTGLAGVYE----QGTNLHHALALAGRHLRRHAGAQPVVLVVTDGEPTAHLEDGDGTSVF 577 (652)
T ss_pred --------CHH--------HHhcCCCccc----cccchHHHHHHHHHHHHhCcccCceEEEEeCCCccccccCCCCceEe
Confidence 111 1223332222 23456678888888887644 4788999999873 3332221
Q ss_pred cCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeC
Q 003269 576 RGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYP 643 (835)
Q Consensus 576 re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~ 643 (835)
.-|++|.+. +. ...+++ .+|.+.|+-|++|....+.-=..-+..+++.++|.+|+-+
T Consensus 578 -----f~yp~DP~t-~~----~Tvr~~-d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pd 634 (652)
T COG4867 578 -----FDYPPDPRT-IA----HTVRGF-DDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPD 634 (652)
T ss_pred -----cCCCCChhH-HH----HHHHHH-HHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecC
Confidence 123333221 11 112233 4689999999999998876545557889999999999754
No 81
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=68.42 E-value=8.7 Score=37.08 Aligned_cols=44 Identities=23% Similarity=0.301 Sum_probs=34.1
Q ss_pred EEEEecchhHHhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEE
Q 003269 431 FFLIDVSISAIRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHF 479 (835)
Q Consensus 431 vFvIDvS~~av~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~f 479 (835)
+++||+|.+.-+ ..|+.++..|...++... .+|-||.||..|+-
T Consensus 2 ~vaiDtSGSis~-~~l~~fl~ev~~i~~~~~----~~v~vi~~D~~v~~ 45 (126)
T PF09967_consen 2 VVAIDTSGSISD-EELRRFLSEVAGILRRFP----AEVHVIQFDAEVQD 45 (126)
T ss_pred EEEEECCCCCCH-HHHHHHHHHHHHHHHhCC----CCEEEEEECCEeee
Confidence 689999997633 357778888888877762 56999999998873
No 82
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=56.86 E-value=1.4e+02 Score=31.86 Aligned_cols=182 Identities=20% Similarity=0.284 Sum_probs=91.9
Q ss_pred CCCEEEEEEecchhHH----hhchHHHHHHHHHHHHhc-CCCCCCceEEEEE-EcCeEEEEecCCCCCCCceeeeccccc
Q 003269 426 MPPLYFFLIDVSISAI----RSGMLEVVAQTIKSCLDE-LPGFPRTQIGFIT-FDSTIHFYNMKSSLTQPQMMVISDLDD 499 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av----~sG~l~~~~~sI~~~L~~-Lp~~~rt~VGiIT-Fds~V~fynl~~~~~~pqmlVvsDldd 499 (835)
.|...+.+||..-... +.|-..-+++.|.--|.. |.-..+-||++|. |+..+.+.--+... .+-+++.|.
T Consensus 19 spslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s----~~k~se~e~ 94 (296)
T COG5242 19 SPSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSES----ALKASESEN 94 (296)
T ss_pred CCceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcch----hhhhhcccC
Confidence 3555666788765543 334445555555555543 3322335787765 66666543222211 123333331
Q ss_pred ccCCCCCCcccchhhhHHHHHHHHhhCCccccCCC--CcccchHHHHHHHHHHHHh------cCCEEEEEecCCCCCCcc
Q 003269 500 IFVPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNM--NVESAFGPALKAAFMVMSR------LGGKLLIFQNSLPSLGVG 571 (835)
Q Consensus 500 ~f~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~--~~~~alG~AL~aA~~lL~~------~GGkIivF~sg~Pt~GpG 571 (835)
.- ..+..- .-|++=+.+|+.|..+++..+ ....-+|-|+.+++....+ .-.||++|+.+ |
T Consensus 95 tr---~sd~yr---rfr~vde~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~~~e~slkSriliftls----G-- 162 (296)
T COG5242 95 TR---NSDMYR---RFRNVDETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLS----G-- 162 (296)
T ss_pred cc---chhhhh---hhcccchHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhhcccccccceEEEEEec----C--
Confidence 00 001000 001111223333333333222 2334678889988887754 35899999872 1
Q ss_pred cccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCC
Q 003269 572 CLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPS 644 (835)
Q Consensus 572 ~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~ 644 (835)
|+. . ..+ .+ |-+-.-.+.+.+|-||+|-+... -..|...+..|||.-...++
T Consensus 163 ----~d~-~--------~qY-ip----~mnCiF~Aqk~~ipI~v~~i~g~---s~fl~Q~~daTgG~Yl~ve~ 214 (296)
T COG5242 163 ----RDR-K--------DQY-IP----YMNCIFAAQKFGIPISVFSIFGN---SKFLLQCCDATGGDYLTVED 214 (296)
T ss_pred ----chh-h--------hhh-ch----hhhheeehhhcCCceEEEEecCc---cHHHHHHhhccCCeeEeecC
Confidence 111 0 000 00 11222234578899999977554 34577889999998777764
No 83
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=56.37 E-value=99 Score=34.21 Aligned_cols=63 Identities=13% Similarity=0.253 Sum_probs=42.3
Q ss_pred ccchHHHHHHHHHHHHh---------cCCEEEEEecCCCCCCcccccccCCcccccCCccccccCCCCcHHHHHHHHHHh
Q 003269 537 ESAFGPALKAAFMVMSR---------LGGKLLIFQNSLPSLGVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLT 607 (835)
Q Consensus 537 ~~alG~AL~aA~~lL~~---------~GGkIivF~sg~Pt~GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~ 607 (835)
+..+--||..|+..++. +|-.|++.+. |.|-.. -..+..+-..+++.
T Consensus 202 ~gNiLEaINlaln~~~~~~idRdl~rTG~~iivITp-----G~Gvf~-------------------Vd~~ll~~T~~rl~ 257 (281)
T PF12257_consen 202 KGNILEAINLALNQFDKHYIDRDLRRTGQSIIVITP-----GTGVFE-------------------VDYDLLRLTTQRLL 257 (281)
T ss_pred cccHHHHHHHHhhhcccccccCcccccCceEEEEcC-----CCceEE-------------------ECHHHHHHHHHHHH
Confidence 34566677777776653 4666666655 344432 23456678889999
Q ss_pred hcCeEEEEEEecCCcc
Q 003269 608 KFQIAVNVYAFSDKYT 623 (835)
Q Consensus 608 ~~gIsVDlF~~s~~~v 623 (835)
.+||++|+.+.+..-.
T Consensus 258 ~~gi~~DlIcL~~~PL 273 (281)
T PF12257_consen 258 DNGIGIDLICLSKPPL 273 (281)
T ss_pred hcCccEEEEEcCCCCc
Confidence 9999999999876543
No 84
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=53.69 E-value=5.2e+02 Score=32.45 Aligned_cols=297 Identities=15% Similarity=0.192 Sum_probs=132.8
Q ss_pred EEEEEecchhHHhh-chHHHHHHHHHHHHhcCCCCCCceEEEEEE-cCeEEEEecCC--CCCCCceeeecccccccCCCC
Q 003269 430 YFFLIDVSISAIRS-GMLEVVAQTIKSCLDELPGFPRTQIGFITF-DSTIHFYNMKS--SLTQPQMMVISDLDDIFVPLP 505 (835)
Q Consensus 430 yvFvIDvS~~av~s-G~l~~~~~sI~~~L~~Lp~~~rt~VGiITF-ds~V~fynl~~--~~~~pqmlVvsDldd~f~Pl~ 505 (835)
.-++.|+|+++... --|+.+=..|.+.|..|-.+ -|+||=.| |+.|.-|-... .+..| -++..+-..|..
T Consensus 135 LYyLMDlS~SM~DDl~~l~~LG~~L~~~m~~lT~n--frlGFGSFVDK~v~P~i~~~pekl~np----c~~~~~C~ppfg 208 (783)
T KOG1226|consen 135 LYYLMDLSYSMKDDLENLKSLGTDLAREMRKLTSN--FRLGFGSFVDKTVSPYISTTPEKLRNP----CPNYKNCAPPFG 208 (783)
T ss_pred EEEEeecchhhhhhHHHHHHHHHHHHHHHHHHhcc--CCccccchhccccccccccCcHHhcCC----CCCcccCCCCcc
Confidence 55789999998432 12455555666667777654 68999888 66665433211 11111 011111011111
Q ss_pred CCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-----CCEEEEEecCCCC--CCccccccc--
Q 003269 506 DDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-----GGKLLIFQNSLPS--LGVGCLKLR-- 576 (835)
Q Consensus 506 ~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-----GGkIivF~sg~Pt--~GpG~L~~r-- 576 (835)
-.-++.|.+..+.+++.+++= ++-.+-..++-.|-+-|++|+ -=+.+ .-|++||.+-.=. .|-|+|.--
T Consensus 209 fkhvLsLT~~~~~F~~~V~~q-~ISgNlDaPEGGfDAimQaav-C~~~IGWR~~a~~lLVF~td~~~H~a~DgkLaGiv~ 286 (783)
T KOG1226|consen 209 FKHVLSLTNDAEEFNEEVGKQ-RISGNLDAPEGGFDAIMQAAV-CTEKIGWRNDATRLLVFSTDAGFHFAGDGKLAGIVQ 286 (783)
T ss_pred cceeeecCCChHHHHHHHhhc-eeccCCCCCCchHHHHHhhhh-ccccccccccceeEEEEEcCcceeeecccceeeEec
Confidence 122445555544444443332 122223346666777777764 12233 3689999875432 366666432
Q ss_pred CCcccccCCcc-cccc-CCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChh-hhhhhcc-ccccEEEEeCCCCcchhHH
Q 003269 577 GDDLRVYGTDK-EHSL-RIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIA-SLGTLAK-YTGGQVYYYPSFQSTTHGE 652 (835)
Q Consensus 577 e~~~r~~gt~~-e~~l-~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdia-tL~~L~~-~TGG~v~~y~~F~~~~d~~ 652 (835)
.++.+-|-.++ +.+- ..-...---.|+.++++++|-+ ||+.....+++. .+..|.- .+-|.+- .++.+..
T Consensus 287 pnDG~CHL~~~g~Yt~S~~qdyPSia~l~~kl~~~ni~~-IFAVt~~~~~~Y~~l~~lip~s~vg~l~-----~DSsNi~ 360 (783)
T KOG1226|consen 287 PNDGQCHLDKNGEYTQSTTQDYPSIAQLAQKLADNNINT-IFAVTKNSQSLYEELSNLIPGSAVGVLS-----EDSSNIV 360 (783)
T ss_pred CCCCccccCCCCccceecCCCCCcHHHHHHHHhhhcchh-HHHHhhhhhhHHHhhhhhCCcccccccc-----cchhhHH
Confidence 12233221111 1110 0111122235566666666644 344443333332 3333332 1112221 1123333
Q ss_pred HHHHHHHhhcccccccceEEEE-EeCCCceEeeeecCcc----cCCCCceEeccCCCCCcEEEEEeeccccCCCceeEEE
Q 003269 653 RLRHELSRDLTRETAWEAVMRI-RCGKGVRFTNYHGNFM----LRSTDLLALPAVDCDKAYAMQLSLEETLLTTQTVYFQ 727 (835)
Q Consensus 653 ~L~~dL~r~l~r~~g~~a~mrV-R~S~Gl~V~~~~Gnf~----~rs~~~~~l~~id~d~Sia~~f~~d~~l~~~~~~~IQ 727 (835)
.|..+=++.+ --+..|++ -.+.||+++ |.+... .++ ..=.-.+|...+++.|+.+++.+.-. ....-+
T Consensus 361 qLI~~ay~~l----~s~v~l~~~~~p~gl~~~-y~s~C~~g~~~~~-~~~~c~~i~~gd~v~f~v~~~~~~C~-~~~~~~ 433 (783)
T KOG1226|consen 361 QLIIEAYNSL----SSKVILEDENQPEGLSLS-YTSSCSNGVSFPG-KRRKCSGITIGDEVTFEVSVTAKKCP-PEDQKG 433 (783)
T ss_pred HHHHHHHHhc----cceEEEeecCCCCceeEE-EeeecCCCCccCC-ccCCCCCcccCceeEEEEecccccCC-Cccccc
Confidence 4443333333 23445555 345666654 222211 111 11133456777888888887654322 111101
Q ss_pred -EEEEEEecCCcEEEEEEcCc
Q 003269 728 -VALLYTASCGERRIRVHTLA 747 (835)
Q Consensus 728 -~AllYT~~~GeRRIRV~Tl~ 747 (835)
+.+.=...+....++|+..+
T Consensus 434 ~~~i~pvgf~e~l~v~v~~~C 454 (783)
T KOG1226|consen 434 SFIIRPVGFTETLEVIVQYNC 454 (783)
T ss_pred eEEEccCCCCcceEEEeeccc
Confidence 22222233455666666665
No 85
>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown. It is found as part of a CO oxidising (Cox) system operon in several bacteria [].
Probab=48.52 E-value=25 Score=37.05 Aligned_cols=30 Identities=17% Similarity=0.259 Sum_probs=20.7
Q ss_pred CcccchHHHHHHHHHHHHhc---CCEEEEEecC
Q 003269 535 NVESAFGPALKAAFMVMSRL---GGKLLIFQNS 564 (835)
Q Consensus 535 ~~~~alG~AL~aA~~lL~~~---GGkIivF~sg 564 (835)
..++.+|.||..+...+... .-.|+++.+|
T Consensus 127 ~GgTdi~~aL~~~~~~~~~~~~~~t~vvIiSDg 159 (222)
T PF05762_consen 127 GGGTDIGQALREFLRQYARPDLRRTTVVIISDG 159 (222)
T ss_pred CCccHHHHHHHHHHHHhhcccccCcEEEEEecc
Confidence 45677889999888877632 3456666665
No 86
>PF02905 EBV-NA1: Epstein Barr virus nuclear antigen-1, DNA-binding domain; InterPro: IPR004186 The Epstein-Barr virus (strain GD1) nuclear antigen 1 (EBNA1) binds to and activates DNA replication from the latent origin of replication. The crystal structure of the DNA-binding and dimerization domains were solved [], and it was found that EBNA1 appears to bind DNA via two independent regions, the core and the flanking DNA-binding domains. This DNA-binding domain has a ferredoxin-like fold.; GO: 0003677 DNA binding, 0003688 DNA replication origin binding, 0006260 DNA replication, 0006275 regulation of DNA replication, 0045893 positive regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1B3T_B 1VHI_B.
Probab=43.93 E-value=37 Score=32.92 Aligned_cols=33 Identities=24% Similarity=0.338 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHhcCCC-CCCceEEEEEEcCeEE
Q 003269 446 LEVVAQTIKSCLDELPG-FPRTQIGFITFDSTIH 478 (835)
Q Consensus 446 l~~~~~sI~~~L~~Lp~-~~rt~VGiITFds~V~ 478 (835)
.+.++++|++.+..-|. ..+++|-+++||+.|-
T Consensus 112 Ae~vkDAi~Dyi~T~P~PT~~~~Vt~~~Fd~~V~ 145 (146)
T PF02905_consen 112 AECVKDAIRDYIMTRPQPTCNTQVTVCSFDDGVM 145 (146)
T ss_dssp HHHHHHHHHHHHCTS-TTGGGEEEEEEEEEEEE-
T ss_pred HHHHHHHHHHHhcCCCCCCcceEEEEEeCCCCCc
Confidence 36788888888876653 3468999999998764
No 87
>PF10221 DUF2151: Cell cycle and development regulator; InterPro: IPR019355 This entry represents the cell cycle regulator Mat89b, which plays an evolutionarily conserved role as a crucial regulator of both cell cycle and development []. Mat89Bb is a PNG kinase substrate that is essential for S-M cycles of early Drosophila embryogenesis, Xenopus embryonic cell cycles and morphogenesis, and cell division in cultured mammalian cells.
Probab=32.63 E-value=3e+02 Score=34.26 Aligned_cols=25 Identities=32% Similarity=0.409 Sum_probs=18.3
Q ss_pred HHhcC-CCCCCceEEEEEEcCeEEEEec
Q 003269 456 CLDEL-PGFPRTQIGFITFDSTIHFYNM 482 (835)
Q Consensus 456 ~L~~L-p~~~rt~VGiITFds~V~fynl 482 (835)
++.+| |++ ++|-||++|..-|+.|-
T Consensus 59 IV~DlFP~~--k~IrfivsD~~a~~lnt 84 (695)
T PF10221_consen 59 IVWDLFPDG--KLIRFIVSDTAAHILNT 84 (695)
T ss_pred HHhhccCCC--ceEEEEEEccccccccC
Confidence 34444 444 67999999999888875
No 88
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=32.49 E-value=3.6e+02 Score=28.45 Aligned_cols=120 Identities=21% Similarity=0.305 Sum_probs=75.4
Q ss_pred HhcCCEEEEEecCCCCC-CcccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecC-CccC---hh
Q 003269 552 SRLGGKLLIFQNSLPSL-GVGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSD-KYTD---IA 626 (835)
Q Consensus 552 ~~~GGkIivF~sg~Pt~-GpG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~-~~vd---ia 626 (835)
+..|=++++|....=+. |-|.|.+|. |.+.|...+....++++.++..-.+.. +|++++-. ++.| +.
T Consensus 29 ~~~g~~v~vfkp~iD~R~~~~~V~Sr~------G~~~~A~~i~~~~~i~~~i~~~~~~~~--~~~v~IDEaQF~~~~~v~ 100 (201)
T COG1435 29 KEAGMKVLVFKPAIDTRYGVGKVSSRI------GLSSEAVVIPSDTDIFDEIAALHEKPP--VDCVLIDEAQFFDEELVY 100 (201)
T ss_pred HHcCCeEEEEecccccccccceeeecc------CCcccceecCChHHHHHHHHhcccCCC--cCEEEEehhHhCCHHHHH
Confidence 34688999999999886 899998873 356667777888899998887533221 56665432 2232 44
Q ss_pred hhhhhccccccEEEEeC--------CCCcchhHHHHHHHHHh--hcccccccceEEEEEeCCC
Q 003269 627 SLGTLAKYTGGQVYYYP--------SFQSTTHGERLRHELSR--DLTRETAWEAVMRIRCGKG 679 (835)
Q Consensus 627 tL~~L~~~TGG~v~~y~--------~F~~~~d~~~L~~dL~r--~l~r~~g~~a~mrVR~S~G 679 (835)
.|..|+..-|=.|+.|- .|.....--.+...+.+ .+...+|-.|++.+|.-+|
T Consensus 101 ~l~~lad~lgi~Vi~~GL~~DFrgepFe~s~~Lla~ADkv~kL~aIC~~Cg~~At~~~Rl~~~ 163 (201)
T COG1435 101 VLNELADRLGIPVICYGLDTDFRGEPFEGSKYLLAIADKVTKLKAICNVCGRKATRTLRLING 163 (201)
T ss_pred HHHHHHhhcCCEEEEeccccccccCCCccHHHHHHHHHHHHHHHHHHHHhCCcceEEEEecCC
Confidence 56667776666666664 23222222222222322 2344678889999999887
No 89
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=28.81 E-value=4.5e+02 Score=29.49 Aligned_cols=31 Identities=19% Similarity=0.301 Sum_probs=23.4
Q ss_pred HHHHhhcCeEEEEEEecCCccChhhhhhhccccc
Q 003269 603 AADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTG 636 (835)
Q Consensus 603 a~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TG 636 (835)
...++...|-|.++..+.+ |+.-..+|+.|+
T Consensus 213 id~Lv~~~IrV~~igL~ae---vaicKeickaTn 243 (421)
T COG5151 213 IDKLVAYNIRVHFIGLCAE---VAICKEICKATN 243 (421)
T ss_pred HHHHHhhceEEEEEeehhH---HHHHHHHHhhcC
Confidence 3456778899998877644 777788888884
No 90
>KOG3572 consensus Uncharacterized conserved protein, contains DEP domain [Signal transduction mechanisms]
Probab=27.27 E-value=2.6e+02 Score=36.89 Aligned_cols=38 Identities=8% Similarity=0.231 Sum_probs=26.1
Q ss_pred HHHHhhcCeEEEEEEecCCccChhhhhhhccccccEEEEeCCCCcchhH
Q 003269 603 AADLTKFQIAVNVYAFSDKYTDIASLGTLAKYTGGQVYYYPSFQSTTHG 651 (835)
Q Consensus 603 a~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~TGG~v~~y~~F~~~~d~ 651 (835)
.+++...||++||++.+..-..+. =++.|.++...+|.
T Consensus 479 kqrlid~gigmDlVCLgeqPLHaV-----------PLFryhn~v~~~d~ 516 (1701)
T KOG3572|consen 479 KQRLIDMGIGMDLVCLGEQPLHAV-----------PLFRYHNIVGQMDK 516 (1701)
T ss_pred hhHhhhcccceeEEEccCCcccee-----------eeEEeccccccccc
Confidence 457788999999999876644432 25667776665554
No 91
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=27.04 E-value=7.7e+02 Score=26.05 Aligned_cols=144 Identities=17% Similarity=0.233 Sum_probs=81.2
Q ss_pred EEEEEecchhH---HhhchHHHHHHHHHHHHhcCCCCCCceEEEEEEcCeEEEEecCCCCCCCceeeecccccccCCCCC
Q 003269 430 YFFLIDVSISA---IRSGMLEVVAQTIKSCLDELPGFPRTQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIFVPLPD 506 (835)
Q Consensus 430 yvFvIDvS~~a---v~sG~l~~~~~sI~~~L~~Lp~~~rt~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f~Pl~~ 506 (835)
..+|||.|.++ -++|.++.+.|.|...=..+.++ ..|=+.+|++..+= +.|
T Consensus 4 V~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdD--G~i~v~~Fs~~~~~--------------~~~---------- 57 (200)
T PF10138_consen 4 VYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDD--GEIDVWFFSTEFDR--------------LPD---------- 57 (200)
T ss_pred EEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCC--CceEEEEeCCCCCc--------------CCC----------
Confidence 57899999987 57788888888888765555543 34555555543221 111
Q ss_pred CcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc-C---CEEEE-EecCCCCCCcccccccCCccc
Q 003269 507 DLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL-G---GKLLI-FQNSLPSLGVGCLKLRGDDLR 581 (835)
Q Consensus 507 ~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~-G---GkIiv-F~sg~Pt~GpG~L~~re~~~r 581 (835)
|.+.+....|..+...+..+ .+...+....||+.++.--... + --+++ ++.|-|+ .+
T Consensus 58 ---vt~~~~~~~v~~~~~~~~~~---~~~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~-------~~----- 119 (200)
T PF10138_consen 58 ---VTLDNYEGYVDELHAGLPDW---GRMGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPD-------DR----- 119 (200)
T ss_pred ---cCHHHHHHHHHHHhcccccc---CCCCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCcc-------ch-----
Confidence 12233344555544443222 2234477889999988766522 1 23444 4444332 11
Q ss_pred ccCCccccccCCCCcHHHHHHHHHHhhcCeEEEEEEecCCccChhhhhhhccc
Q 003269 582 VYGTDKEHSLRIPEDPFYKQMAADLTKFQIAVNVYAFSDKYTDIASLGTLAKY 634 (835)
Q Consensus 582 ~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsVDlF~~s~~~vdiatL~~L~~~ 634 (835)
.--+++-.+++...|-.-..-++.+..+ -|..|-.+
T Consensus 120 ---------------~~~~~~i~~as~~pifwqFVgiG~~~f~--fL~kLD~l 155 (200)
T PF10138_consen 120 ---------------RAIEKLIREASDEPIFWQFVGIGDSNFG--FLEKLDDL 155 (200)
T ss_pred ---------------HHHHHHHHhccCCCeeEEEEEecCCcch--HHHHhhcc
Confidence 1124555666777777777777766644 35666654
No 92
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=25.08 E-value=30 Score=36.31 Aligned_cols=34 Identities=15% Similarity=0.235 Sum_probs=25.1
Q ss_pred CCcceeecccceEeeC--------CceEEEcCCCCCCCCCcc
Q 003269 354 FICRTYVNPYVTFTDA--------GRKWRCNICALLNDVPGD 387 (835)
Q Consensus 354 ~rCrAYiNPf~~f~~~--------G~~W~Cn~C~~~N~vP~~ 387 (835)
..=.|.|++.|.+-.| -..|+|.+|++.|+.+.+
T Consensus 188 ~~~~alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 188 SPFKALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred CchhhhccccccccccccccccccchheecccchhhcCcccc
Confidence 4556778888877554 346999999999986643
No 93
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=24.51 E-value=38 Score=34.56 Aligned_cols=16 Identities=25% Similarity=1.057 Sum_probs=12.2
Q ss_pred eCCceEEEcCCCCCCC
Q 003269 368 DAGRKWRCNICALLND 383 (835)
Q Consensus 368 ~~G~~W~Cn~C~~~N~ 383 (835)
.+|+.|+|..||+.-.
T Consensus 130 ~~~~~~vC~vCGy~~~ 145 (166)
T COG1592 130 EEGKVWVCPVCGYTHE 145 (166)
T ss_pred hcCCEEEcCCCCCccc
Confidence 3456899999998753
No 94
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=23.65 E-value=1.8e+02 Score=23.81 Aligned_cols=45 Identities=13% Similarity=0.247 Sum_probs=29.7
Q ss_pred HHHHHHhcChhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 003269 754 LSDMYQQADTGAIVSVFSRLAIEKTLSHKLEDARNAVQLRLVKAL 798 (835)
Q Consensus 754 l~~vf~s~D~eai~~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL 798 (835)
+.++.+.+|.+.+..--.|+.+++-+.-++.+=+..|.+.+-++|
T Consensus 9 i~~iL~~~dl~~vT~k~vr~~Le~~~~~dL~~~K~~I~~~I~~~l 53 (54)
T PF08766_consen 9 IREILREADLDTVTKKQVREQLEERFGVDLSSRKKFIKELIDEFL 53 (54)
T ss_dssp HHHHHTTS-GGG--HHHHHHHHHHH-SS--SHHHHHHHHHHHHHH
T ss_pred HHHHHHhCCHhHhhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHh
Confidence 567899999999999999999988887777766666655555554
No 95
>COG1438 ArgR Arginine repressor [Transcription]
Probab=22.88 E-value=70 Score=32.15 Aligned_cols=112 Identities=16% Similarity=0.161 Sum_probs=70.5
Q ss_pred HHHHHHHhhcCeEEEEEEecCCccChhhhhh--hccccccEEEEeCCCCcchhHHHHHHHHHhhcccccccceEEEEEeC
Q 003269 600 KQMAADLTKFQIAVNVYAFSDKYTDIASLGT--LAKYTGGQVYYYPSFQSTTHGERLRHELSRDLTRETAWEAVMRIRCG 677 (835)
Q Consensus 600 k~La~~~~~~gIsVDlF~~s~~~vdiatL~~--L~~~TGG~v~~y~~F~~~~d~~~L~~dL~r~l~r~~g~~a~mrVR~S 677 (835)
++|.+.+.++|+.|.==..+ =||.+|+- +....|..+|-.+.-.......++.+.|.+.+..--.-+..+-|||.
T Consensus 24 ~Elv~~L~~~Gi~vTQaTvS---RDlkelglvKv~~~~g~~~Y~l~~~~~~~~~~~~~~~~~~~v~~vd~~~~~ivlkT~ 100 (150)
T COG1438 24 EELVELLQEEGIEVTQATVS---RDLKELGLVKVRNEKGTYVYSLPAELGVPPTSKLKRYLKDLVLSIDRNGNLIVLKTS 100 (150)
T ss_pred HHHHHHHHHcCCeEehHHHH---HHHHHcCCEEecCCCCcEEEEeCCccCCCchhhHHHHHHHHheeeccCCcEEEEEeC
Confidence 57888899999875433333 35556553 34455555666655444444444545555555444455678888999
Q ss_pred CCceEeeeecCcccCCCCceEeccCCCCCcEEEEEeecc
Q 003269 678 KGVRFTNYHGNFMLRSTDLLALPAVDCDKAYAMQLSLEE 716 (835)
Q Consensus 678 ~Gl~V~~~~Gnf~~rs~~~~~l~~id~d~Sia~~f~~d~ 716 (835)
.| -..+++++..+......++++--|.|+-+...-++
T Consensus 101 PG--~A~~ia~~lD~~~~~eIlGTIaGdDTilVi~r~~~ 137 (150)
T COG1438 101 PG--AAQLIARLLDSLAKDEILGTIAGDDTILVICRSEE 137 (150)
T ss_pred Cc--hHHHHHHHHHhcCchhhheeeeCCCeEEEEecCch
Confidence 88 34556666655555677888888888877776544
No 96
>KOG3189 consensus Phosphomannomutase [Lipid transport and metabolism]
Probab=22.86 E-value=78 Score=33.40 Aligned_cols=65 Identities=14% Similarity=0.335 Sum_probs=39.0
Q ss_pred HHHHHHHHHh-----cCCEEEEEecCCCCCC-cccccccCCcccccCCccccccCCCCcHHHHHHHHHHhhcCe
Q 003269 544 LKAAFMVMSR-----LGGKLLIFQNSLPSLG-VGCLKLRGDDLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQI 611 (835)
Q Consensus 544 L~aA~~lL~~-----~GGkIivF~sg~Pt~G-pG~L~~re~~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gI 611 (835)
+.-++..|+. .-|..|=|-+|+-|+- .|+-.++|+-....--||++++ ..+|-+.|-++++..|.
T Consensus 105 iNF~LrYlsdidlPiKRGtFiEFRNgMiNvsPIGR~cs~EER~eF~e~Dkk~~i---R~K~v~~Lr~~F~~~gL 175 (252)
T KOG3189|consen 105 INFCLRYLSDIDLPIKRGTFIEFRNGMINVSPIGRNCSQEERNEFEELDKKHKI---REKFVEALREEFADYGL 175 (252)
T ss_pred HHHHHHHHHhcCCcccccceEEecCCceeccccccccCHHHHHHHHHhhhhhhh---HHHHHHHHHHHhcccCe
Confidence 3344555544 3588899999998875 5665555431111112444333 35788888888887764
No 97
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=22.75 E-value=33 Score=24.61 Aligned_cols=14 Identities=29% Similarity=1.077 Sum_probs=12.1
Q ss_pred ceEEEcCCCCCCCC
Q 003269 371 RKWRCNICALLNDV 384 (835)
Q Consensus 371 ~~W~Cn~C~~~N~v 384 (835)
..|.|..|...|..
T Consensus 3 g~W~C~~C~~~N~~ 16 (30)
T PF00641_consen 3 GDWKCPSCTFMNPA 16 (30)
T ss_dssp SSEEETTTTEEEES
T ss_pred cCccCCCCcCCchH
Confidence 37999999999964
No 98
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=21.64 E-value=1.2e+02 Score=34.61 Aligned_cols=69 Identities=22% Similarity=0.384 Sum_probs=48.1
Q ss_pred cHHHHHHHH-------------HHhhcCeEEEEEEecCCc----cChhhhhhhccccccEEEEeCCCCcchhHHHHHHHH
Q 003269 596 DPFYKQMAA-------------DLTKFQIAVNVYAFSDKY----TDIASLGTLAKYTGGQVYYYPSFQSTTHGERLRHEL 658 (835)
Q Consensus 596 ~~FYk~La~-------------~~~~~gIsVDlF~~s~~~----vdiatL~~L~~~TGG~v~~y~~F~~~~d~~~L~~dL 658 (835)
++||+.|+. ++.+.| +||.++++.+. -++..|-..++.+||+|+.+++-+. .+++|.
T Consensus 265 ~~f~~~l~kd~~~~~YG~~eV~~Ale~G-AVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i~Ss~~e--~G~qL~--- 338 (351)
T TIGR00111 265 DEFLEHLAKDGDKAVYGEDEVVKAAEYG-AIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVILSTEHE--LGKQLD--- 338 (351)
T ss_pred HHHHHHHhcCCCeEEECHHHHHHHHHcC-CceEEEEecchhhhHHHHHHHHHHHHHcCCEEEEEcCCCc--cHHHHh---
Confidence 457777765 344444 67888888776 3577788889999999999987544 245541
Q ss_pred HhhcccccccceEEEEE
Q 003269 659 SRDLTRETAWEAVMRIR 675 (835)
Q Consensus 659 ~r~l~r~~g~~a~mrVR 675 (835)
.| .|.-|.+|.+
T Consensus 339 --~l---gGiaAiLRy~ 350 (351)
T TIGR00111 339 --SL---GGIAGILRFP 350 (351)
T ss_pred --hC---CCEEEEEecc
Confidence 22 4778887754
No 99
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=21.45 E-value=52 Score=27.33 Aligned_cols=13 Identities=38% Similarity=0.912 Sum_probs=11.2
Q ss_pred CceEEEcCCCCCC
Q 003269 370 GRKWRCNICALLN 382 (835)
Q Consensus 370 G~~W~Cn~C~~~N 382 (835)
.-+|+|..|+..|
T Consensus 42 ~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 42 EIQYRCPYCGALN 54 (54)
T ss_pred ceEEEcCCCCCcC
Confidence 4589999999887
No 100
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=21.42 E-value=47 Score=21.34 Aligned_cols=13 Identities=23% Similarity=0.577 Sum_probs=8.0
Q ss_pred EEEcCCCCCCCCC
Q 003269 373 WRCNICALLNDVP 385 (835)
Q Consensus 373 W~Cn~C~~~N~vP 385 (835)
|+|.+|+....-.
T Consensus 1 ~~C~~C~~~~~~~ 13 (24)
T PF13894_consen 1 FQCPICGKSFRSK 13 (24)
T ss_dssp EE-SSTS-EESSH
T ss_pred CCCcCCCCcCCcH
Confidence 8899998765443
No 101
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=20.72 E-value=3.4e+02 Score=32.73 Aligned_cols=164 Identities=18% Similarity=0.165 Sum_probs=80.6
Q ss_pred CCCEEEEEEecchhHHhhc-hHHHHHHHHHHHHhcCCCCCC---ceEEEEEEcCeEEEEecCCCCCCCceeeeccccccc
Q 003269 426 MPPLYFFLIDVSISAIRSG-MLEVVAQTIKSCLDELPGFPR---TQIGFITFDSTIHFYNMKSSLTQPQMMVISDLDDIF 501 (835)
Q Consensus 426 ~pp~yvFvIDvS~~av~sG-~l~~~~~sI~~~L~~Lp~~~r---t~VGiITFds~V~fynl~~~~~~pqmlVvsDldd~f 501 (835)
...++..+||||.++...= ...-++..++++|..|..+-. -.-.+.+|++.=.=| ..+-+|-|.|+-+
T Consensus 445 ~Dla~TLLvD~S~St~a~mdetrRvidl~~eaL~~la~~~qa~gd~~~~~~fts~rr~~--------vri~tvk~FDes~ 516 (637)
T COG4548 445 HDLAFTLLVDVSASTDAKMDETRRVIDLFHEALLVLAHGHQALGDSEDILDFTSRRRPW--------VRINTVKDFDESM 516 (637)
T ss_pred ccceeEEEeecccchHHHhhhhhhhHHHHHHHHHHhhchhhhhCCHHHhcCchhhcCcc--------eeeeeeecccccc
Confidence 3578999999999874310 011244455556655543200 011223333221111 1234566666544
Q ss_pred CCCCCCcccchhhhHHHHHHHHhhCCccccCCCCcccchHHHHHHHHHHHHhc---CCEEEEEecCCCCCCcccccccCC
Q 003269 502 VPLPDDLLVNLSESRSVVDTLLDSLPSMFQDNMNVESAFGPALKAAFMVMSRL---GGKLLIFQNSLPSLGVGCLKLRGD 578 (835)
Q Consensus 502 ~Pl~~~lLv~l~esr~~I~~lLd~L~~~~~~~~~~~~alG~AL~aA~~lL~~~---GGkIivF~sg~Pt~GpG~L~~re~ 578 (835)
... ....| -.|..- -.+-.|.||..|..-|-.. -=-+|||+.|-||- +..-
T Consensus 517 ~~~----------~~~RI----mALePg------~ytR~G~AIR~As~kL~~rpq~qklLivlSDGkPnd----~d~Y-- 570 (637)
T COG4548 517 GET----------VGPRI----MALEPG------YYTRDGAAIRHASAKLMERPQRQKLLIVLSDGKPND----FDHY-- 570 (637)
T ss_pred ccc----------cchhh----eecCcc------ccccccHHHHHHHHHHhcCcccceEEEEecCCCccc----cccc--
Confidence 321 11111 122211 1234799999998777442 23478899988862 1100
Q ss_pred cccccCCccccccCCCCcHHHHHHHHHHhhcCeEE-EEEEecCCccChhhhhhhccccccEEEE
Q 003269 579 DLRVYGTDKEHSLRIPEDPFYKQMAADLTKFQIAV-NVYAFSDKYTDIASLGTLAKYTGGQVYY 641 (835)
Q Consensus 579 ~~r~~gt~~e~~l~~pa~~FYk~La~~~~~~gIsV-DlF~~s~~~vdiatL~~L~~~TGG~v~~ 641 (835)
++| +|. .+.| +-..++.+.||.| +||+ |=..+..+..+||-..|.
T Consensus 571 Egr-~gI----------eDTr-~AV~eaRk~Gi~VF~Vtl------d~ea~~y~p~~fgqngYa 616 (637)
T COG4548 571 EGR-FGI----------EDTR-EAVIEARKSGIEVFNVTL------DREAISYLPALFGQNGYA 616 (637)
T ss_pred ccc-cch----------hhHH-HHHHHHHhcCceEEEEEe------cchhhhhhHHHhccCceE
Confidence 000 111 1122 3456788888864 4443 223566677777766663
No 102
>KOG4385 consensus Predicted forkhead transcription factor [Transcription]
Probab=20.49 E-value=1e+02 Score=36.29 Aligned_cols=61 Identities=21% Similarity=0.356 Sum_probs=41.9
Q ss_pred cccccCCH---HHHHHhcChhHHH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHhhhhhccCC
Q 003269 747 AAPVVSNL---SDMYQQADTGAIV--SVFSRLAIEKTLSHKLEDARNAVQLRLVKALKEYRNLYAVQHR 810 (835)
Q Consensus 747 ~lpvts~l---~~vf~s~D~eai~--~llaK~a~~~~~~~~l~d~R~~l~~~lv~iL~~YRk~~~a~~~ 810 (835)
..+++.++ .|.||+.|+--=. +.|+|+||.+.-.+.+ ...+|-+|..++|+.||+ +.|...
T Consensus 348 ~~Pisseia~N~dfyk~~dvRPPfTYAsLIRqAIlESpdkQL--TLNEIY~WFTrtFAYFRR-NaATWK 413 (581)
T KOG4385|consen 348 NGPISSEIAQNMDFYKNADVRPPFTYASLIRQAILESPDKQL--TLNEIYNWFTRTFAYFRR-NAATWK 413 (581)
T ss_pred cCchhHHhhhhhhhhhccccCCchhHHHHHHHHHhcCchhhc--cHHHHHHHHHHHHHHHhc-cchhHh
Confidence 44555544 5799999986443 4467888876655432 345678889999999999 666543
No 103
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=20.40 E-value=50 Score=24.71 Aligned_cols=11 Identities=27% Similarity=1.217 Sum_probs=9.5
Q ss_pred eEEEcCCCCCC
Q 003269 372 KWRCNICALLN 382 (835)
Q Consensus 372 ~W~Cn~C~~~N 382 (835)
.|+|..||+.-
T Consensus 2 ~~~C~~CG~i~ 12 (34)
T cd00729 2 VWVCPVCGYIH 12 (34)
T ss_pred eEECCCCCCEe
Confidence 69999999873
Done!