Query 040665
Match_columns 393
No_of_seqs 133 out of 154
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 10:37:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040665.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040665hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11443 DUF2828: Domain of un 100.0 9E-109 2E-113 855.0 34.3 347 4-375 53-531 (534)
2 cd01461 vWA_interalpha_trypsin 96.6 0.0043 9.3E-08 53.9 5.4 49 267-316 3-52 (171)
3 cd01464 vWA_subfamily VWA subf 96.2 0.0083 1.8E-07 53.6 5.2 49 268-316 5-59 (176)
4 cd01465 vWA_subgroup VWA subgr 95.7 0.023 4.9E-07 49.5 5.6 48 268-316 2-50 (170)
5 cd01470 vWA_complement_factors 95.5 0.023 5E-07 51.7 5.1 49 268-316 2-53 (198)
6 cd01462 VWA_YIEM_type VWA YIEM 95.4 0.033 7.2E-07 48.2 5.6 51 268-318 2-53 (152)
7 PF13768 VWA_3: von Willebrand 95.3 0.029 6.3E-07 48.7 5.1 47 268-315 2-48 (155)
8 PF05762 VWA_CoxE: VWA domain 94.6 0.027 5.9E-07 53.2 3.1 76 228-318 28-103 (222)
9 PRK10997 yieM hypothetical pro 94.5 0.053 1.1E-06 57.8 5.3 53 266-320 323-378 (487)
10 cd01474 vWA_ATR ATR (Anthrax T 94.3 0.07 1.5E-06 48.2 5.1 50 267-316 5-54 (185)
11 cd01450 vWFA_subfamily_ECM Von 94.3 0.071 1.5E-06 45.2 4.7 48 268-315 2-52 (161)
12 cd01463 vWA_VGCC_like VWA Volt 94.3 0.082 1.8E-06 47.9 5.4 50 266-316 13-63 (190)
13 smart00327 VWA von Willebrand 93.6 0.13 2.9E-06 44.0 5.2 48 268-315 3-53 (177)
14 COG2425 Uncharacterized protei 93.3 0.14 3E-06 54.0 5.6 88 228-319 235-324 (437)
15 cd01454 vWA_norD_type norD typ 92.9 0.14 3.1E-06 45.5 4.4 45 269-313 3-49 (174)
16 cd01456 vWA_ywmD_type VWA ywmD 92.7 0.2 4.3E-06 46.0 5.1 48 266-313 20-73 (206)
17 cd01471 vWA_micronemal_protein 92.6 0.27 5.8E-06 44.1 5.8 49 268-316 2-54 (186)
18 cd01472 vWA_collagen von Wille 92.5 0.22 4.9E-06 43.7 5.0 49 268-316 2-53 (164)
19 cd01466 vWA_C3HC4_type VWA C3H 92.4 0.24 5.2E-06 43.6 5.1 47 268-315 2-49 (155)
20 cd00198 vWFA Von Willebrand fa 91.8 0.37 8.1E-06 39.7 5.3 49 268-316 2-53 (161)
21 cd01480 vWA_collagen_alpha_1-V 91.3 0.3 6.5E-06 44.3 4.6 50 268-317 4-62 (186)
22 PF13519 VWA_2: von Willebrand 91.0 0.32 7E-06 41.4 4.2 46 268-315 1-52 (172)
23 cd01482 vWA_collagen_alphaI-XI 90.9 0.4 8.8E-06 42.3 4.9 49 268-316 2-53 (164)
24 TIGR03788 marine_srt_targ mari 90.9 0.38 8.3E-06 51.8 5.7 49 267-316 272-321 (596)
25 COG4245 TerY Uncharacterized p 90.2 0.43 9.4E-06 45.6 4.6 44 268-311 5-54 (207)
26 COG3552 CoxE Protein containin 89.9 0.26 5.7E-06 51.0 3.2 43 266-312 218-260 (395)
27 cd01451 vWA_Magnesium_chelatas 89.8 0.69 1.5E-05 41.6 5.5 43 270-312 4-48 (178)
28 cd01475 vWA_Matrilin VWA_Matri 87.6 0.95 2.1E-05 42.3 5.0 49 268-316 4-55 (224)
29 PF00092 VWA: von Willebrand f 86.7 0.93 2E-05 39.1 4.2 47 268-314 1-50 (178)
30 PF11775 CobT_C: Cobalamin bio 86.0 0.86 1.9E-05 44.2 3.9 43 270-312 16-59 (219)
31 cd01467 vWA_BatA_type VWA BatA 85.0 1.5 3.3E-05 38.6 4.8 47 268-315 4-56 (180)
32 cd01457 vWA_ORF176_type VWA OR 84.9 1.8 3.8E-05 39.7 5.2 48 267-314 3-59 (199)
33 cd01469 vWA_integrins_alpha_su 84.6 1.9 4E-05 38.9 5.2 49 268-316 2-53 (177)
34 PRK13685 hypothetical protein; 83.7 2 4.4E-05 42.8 5.5 50 266-316 88-143 (326)
35 cd01476 VWA_integrin_invertebr 82.1 3.7 8E-05 35.7 5.9 46 268-313 2-49 (163)
36 PF09967 DUF2201: VWA-like dom 81.1 2.3 5E-05 37.1 4.2 42 270-313 2-43 (126)
37 TIGR00868 hCaCC calcium-activa 80.9 2.6 5.5E-05 48.2 5.5 48 269-316 307-356 (863)
38 TIGR03436 acidobact_VWFA VWFA- 79.7 2.9 6.3E-05 40.5 4.9 48 268-316 55-103 (296)
39 TIGR02031 BchD-ChlD magnesium 75.5 4.9 0.00011 43.8 5.5 49 265-313 406-455 (589)
40 TIGR02442 Cob-chelat-sub cobal 73.0 8.9 0.00019 42.0 6.8 54 259-312 458-513 (633)
41 PRK13406 bchD magnesium chelat 70.8 7.6 0.00017 42.5 5.7 49 264-312 399-448 (584)
42 COG4547 CobT Cobalamin biosynt 70.4 2.7 6E-05 45.1 2.1 26 271-296 418-443 (620)
43 PRK05325 hypothetical protein; 69.2 4.3 9.2E-05 42.7 3.2 44 266-309 220-265 (401)
44 KOG2353 L-type voltage-depende 67.2 7.3 0.00016 45.7 4.8 58 259-317 218-276 (1104)
45 PTZ00441 sporozoite surface pr 65.0 13 0.00028 40.9 5.9 51 266-316 42-96 (576)
46 cd01477 vWA_F09G8-8_type VWA F 63.1 13 0.00029 34.6 4.9 50 267-316 20-78 (193)
47 COG3864 Uncharacterized protei 59.2 11 0.00024 39.0 3.8 25 265-289 260-284 (396)
48 PF04285 DUF444: Protein of un 52.0 16 0.00035 38.7 3.9 40 266-305 244-285 (421)
49 TIGR02877 spore_yhbH sporulati 51.2 16 0.00036 38.1 3.7 45 266-310 200-246 (371)
50 TIGR01651 CobT cobaltochelatas 50.4 15 0.00033 40.5 3.5 43 270-312 396-439 (600)
51 cd01473 vWA_CTRP CTRP for CS 45.7 48 0.001 30.6 5.6 49 268-316 2-54 (192)
52 cd01460 vWA_midasin VWA_Midasi 45.3 35 0.00076 33.9 4.8 50 265-316 59-113 (266)
53 cd01481 vWA_collagen_alpha3-VI 41.4 54 0.0012 29.5 5.1 49 268-316 2-53 (165)
54 PF10138 vWA-TerF-like: vWA fo 39.4 18 0.00039 34.7 1.8 13 269-281 4-16 (200)
55 cd01453 vWA_transcription_fact 33.6 70 0.0015 29.3 4.6 51 266-316 3-62 (183)
56 COG2265 TrmA SAM-dependent met 31.9 41 0.0009 35.6 3.2 38 5-46 368-413 (432)
57 KOG4465 Uncharacterized conser 29.8 29 0.00063 36.7 1.6 38 16-53 171-210 (598)
58 cd01455 vWA_F11C1-5a_type Von 29.0 22 0.00047 33.9 0.5 12 269-280 3-14 (191)
59 TIGR00824 EIIA-man PTS system, 28.2 1.6E+02 0.0035 25.2 5.7 34 250-289 45-78 (116)
60 PF04315 DUF462: Protein of un 27.9 30 0.00066 32.4 1.2 30 16-47 38-68 (164)
61 smart00467 GS GS motif. Aa app 25.0 41 0.0009 23.2 1.1 13 275-287 11-23 (30)
62 COG1240 ChlD Mg-chelatase subu 22.3 1.4E+02 0.0031 30.0 4.7 50 266-316 78-131 (261)
63 PF14779 BBS1: Ciliary BBSome 22.2 76 0.0016 31.7 2.9 43 263-323 13-55 (257)
No 1
>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins.
Probab=100.00 E-value=8.9e-109 Score=855.00 Aligned_cols=347 Identities=42% Similarity=0.633 Sum_probs=313.1
Q ss_pred CCCCCCCCCCcchHHHHHHHHHHhhhCHHHHHhchhhhccCCchhhHHHHHHHHhcCCccccccccccccCCCCCCCchh
Q 040665 4 ASDPPMGLTENSAPMYFSSAISLYKKQKKTLALNSSAFVDFGYLKDLTEILYRILEGPERTRGKIKRGRKRGRKFDDSEE 83 (393)
Q Consensus 4 ~~~~~~glGks~r~~Fy~a~~WL~~~HP~TL~~NL~~l~~~GywKDLleLL~~~l~g~~~~~~~~~~~~~~~~~~~~~~~ 83 (393)
+||-+ .|||+|.+||++++|||++||+|+++|++.+++|||||||++||+++++|...+..++.... ..
T Consensus 53 lRdIR--~GkgeR~~F~~~~~wL~~~hP~tl~~nl~~i~e~GywkDLl~ll~~~~e~~~~~~~~~~~~~---------~~ 121 (534)
T PF11443_consen 53 LRDIR--GGKGEREGFYRALKWLAENHPRTLAKNLPHIPEYGYWKDLLELLYTILEGKLSRKIDPKEVL---------LR 121 (534)
T ss_pred ccCCC--CCCccHHHHHHHHHHHHhcCHHHHHHHhhcccccccHHHHHHHHHHHhcCccccccCHHHHh---------hh
Confidence 45656 56669999999999999999999999999999999999999999999999987654443221 12
Q ss_pred HHHHHHHHhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCh------------------hHHHhhccCCccccc
Q 040665 84 EDQQEEVVEKKDEEMCSVISKEEARVLRKEREIAKARKALEKYSSDS------------------SDMKKLNSEDLSQIS 145 (393)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~i~~~~a~~~r~~~~~~~a~~~l~~~~~d~------------------~Dl~~L~~g~~~~iS 145 (393)
++.+++.+.++ ....+++|+++|+++++++|+++ .+|+ +|+++|++|+.++||
T Consensus 122 ~~~~~~~~~~~-----~~~~~~~a~~~r~~~~~~~~~~~----~~d~~yr~L~~~v~~lfa~qL~~D~~~l~~~~~~~iS 192 (534)
T PF11443_consen 122 REERVANSEEK-----NQEEKAEAKEERKEKRAQLAKRA----SNDPFYRALHDTVARLFAEQLKKDLEALNSGKKEKIS 192 (534)
T ss_pred hHHHHhhHHHh-----hhHhHHHhHHHHHHHHHHHHHHh----ccChhHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccc
Confidence 56667777667 56778889999999999998887 6777 999999999889999
Q ss_pred ccccccCCCCCCcchhhHHHHHHHHH---------------H-HHHHHHhhC--Ccc---------c-----chHHHHhc
Q 040665 146 LAAKCCPSIDSSYDKTTLICEGIARR---------------R-VRDRLRKQV--PYV---------L-----LFNCQRTK 193 (393)
Q Consensus 146 L~AKW~PS~~~s~d~~t~l~~~iA~~---------------~-~~~~LRk~i--pE~---------~-----py~AM~~Y 193 (393)
||||||||+++|||++|++|++||++ | +++.|||++ +|+ + |+.||++|
T Consensus 193 LaAKW~PS~~~s~d~~t~~a~~ia~~lfp~~~l~~~~~~yRK~~Ls~LRk~l~ivE~~ms~~~w~~i~Y~rVpS~Am~~y 272 (534)
T PF11443_consen 193 LAAKWAPSENSSHDRSTLIAKAIARLLFPRESLGRARKEYRKEVLSPLRKALEIVERYMSANDWDEIDYSRVPSVAMKKY 272 (534)
T ss_pred hHHhhCCCCCCCcchHHHHHHHHHHHhCchhhhhhHHHHHHHHHHHHHHHhhcccHHHhhhccccCCCccccccHHHHHH
Confidence 99999999999999999999999987 4 666777776 443 2 55599999
Q ss_pred hHHHhhhCHHHHHHHHHHhhcCCccccCCCCCCcccChHHHHHHhhhccccchhHHHHHHHHHHHHHhhcCCCcceEEEE
Q 040665 194 TPLFEKHDKEMFKDILEKVKSGKANIPRPGGGGVGLLPHQIIKSLDAKNENGAEVAELQWSRMVEDMSKKGKLTNCLAVT 273 (393)
Q Consensus 194 ~~aF~khD~eRf~~yL~~V~~GkakI~a~~~~~~~L~Pheiv~~~~~~~~~~~~vae~QWk~lv~~l~~~g~l~n~iaV~ 273 (393)
+++|.|||+|||++||++|++||+|||+ + +|+|||||++++.++.+.+.++|+||++|||+++++|+++||||||
T Consensus 273 ~~aF~k~D~erf~~yl~~v~~G~~ki~~---~--~L~P~eiv~~~~~~~~~~~~~~e~qWk~lv~~~~~~g~l~n~iav~ 347 (534)
T PF11443_consen 273 KKAFLKHDEERFQEYLEDVKKGKAKINA---G--TLLPHEIVASALKGDSDDSEVAELQWKTLVDYLKDSGSLENCIAVC 347 (534)
T ss_pred HHHHHhhCHHHHHHHHHHHhcCcceecC---C--CCCHHHHHHHHhccccchhHHHHHHHHHHHHHHhccCCccceEEEE
Confidence 9999999999999999999999999999 9 9999999999998655556789999999999999999999999999
Q ss_pred ecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCCCeeEeecCCCC------------------------------
Q 040665 274 DVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSENPEIHLIQGDEI------------------------------ 323 (393)
Q Consensus 274 DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~~~i~g~~l------------------------------ 323 (393)
||||||+|+||+|||||||||||+++|||||+|||||++|+||+|+|.+|
T Consensus 348 DvSGSM~~~pm~vaiaLgll~ae~~~~pf~~~~ITFs~~P~~~~i~g~~l~ekv~~~~~~~wg~nTn~~aVFdlIL~~Av 427 (534)
T PF11443_consen 348 DVSGSMSGPPMDVAIALGLLIAELNKGPFKGRFITFSENPQLHKIKGDTLREKVRFIRRMDWGMNTNFQAVFDLILETAV 427 (534)
T ss_pred ecCCccCccHHHHHHHHHHHHHHhcccccCCeEEeecCCceEEEecCCCHHHHHHHHHhCCcccCCcHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999
Q ss_pred -------------------------------------------------CceeEEeeCCCC-CCCCccccCCCeEEeccC
Q 040665 324 -------------------------------------------------NPETVFWNLRYS-PSTPVVAKQTGVAMLNGF 353 (393)
Q Consensus 324 -------------------------------------------------~PeiVFWNl~~~-~~~PV~~~~~GvaLVSGf 353 (393)
|||||||||+++ .++||+++++||+|||||
T Consensus 428 ~~~l~~e~M~k~lfV~SDMeFD~a~~~~~~~w~T~~e~i~~~f~~aGY~~P~iVFWNl~~~~~~~PV~~~~~GvaLVSGf 507 (534)
T PF11443_consen 428 KNKLKQEDMPKRLFVFSDMEFDQASNSSDRPWETNFEAIKRKFEEAGYELPEIVFWNLRGRSSNKPVTANEKGVALVSGF 507 (534)
T ss_pred HcCCChHHCCceEEEEeccccccccccccCccccHHHHHHHHHHHhCCCCCceEEeecCCCCCCCCceeCCCCeEEEecC
Confidence 999999999998 459999999999999999
Q ss_pred CHHHHHHHHhCCC--CChhhhccc
Q 040665 354 SKNLLSVFLNEGG--NRPVLLMST 375 (393)
Q Consensus 354 S~~llk~fl~~~~--~~P~~~M~~ 375 (393)
||+|||+||++|+ +||+++|++
T Consensus 508 S~~llk~~l~~~~~~~~P~~~m~~ 531 (534)
T PF11443_consen 508 SPNLLKMFLEGGGKEMDPYSVMLK 531 (534)
T ss_pred CHHHHHHHHcCCCCCCCHHHHHHH
Confidence 9999999999966 999999975
No 2
>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=96.55 E-value=0.0043 Score=53.90 Aligned_cols=49 Identities=29% Similarity=0.301 Sum_probs=38.0
Q ss_pred cceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 267 TNCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 267 ~n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
.|.+.|.|+||||.|.+++.+- +|..++..+..+.. =.+|+|++++...
T Consensus 3 ~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~-~~l~~Fs~~~~~~ 52 (171)
T cd01461 3 KEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDY-FNIIGFSDTVEEF 52 (171)
T ss_pred ceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCE-EEEEEeCCCceee
Confidence 3788999999999998888665 77777788876542 2689999986543
No 3
>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=96.18 E-value=0.0083 Score=53.65 Aligned_cols=49 Identities=33% Similarity=0.456 Sum_probs=36.9
Q ss_pred ceEEEEecCCCCCCchhHHH-HHHHHHHhhcCcCcC-----CCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELS-IALGLLVSELSEEPC-----KGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~va-iaLgLl~aEl~~~pf-----k~~~ITFS~~P~~~ 316 (393)
+.+.|+|+||||.|.+++-+ -++-.++..+...+. +=.+|+|+++.+.+
T Consensus 5 ~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~~ 59 (176)
T cd01464 5 PIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARVI 59 (176)
T ss_pred CEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceEe
Confidence 56789999999999887655 366667777766553 34599999987654
No 4
>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=95.67 E-value=0.023 Score=49.45 Aligned_cols=48 Identities=33% Similarity=0.406 Sum_probs=35.7
Q ss_pred ceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
|.+.|+|+||||.+..++.+. ++..++..+.... +=.+|+|+++++..
T Consensus 2 ~~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~-~v~li~f~~~~~~~ 50 (170)
T cd01465 2 NLVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDD-RLAIVTYDGAAETV 50 (170)
T ss_pred cEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCC-EEEEEEecCCccEE
Confidence 567899999999987677666 5566666665543 55689999987653
No 5
>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=95.46 E-value=0.023 Score=51.74 Aligned_cols=49 Identities=20% Similarity=0.306 Sum_probs=37.0
Q ss_pred ceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCc--CCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEP--CKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~p--fk~~~ITFS~~P~~~ 316 (393)
|.+.|+|+||||.+.+++.+- ++.-++..+...+ .+=.+|+|+++++.+
T Consensus 2 di~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~ 53 (198)
T cd01470 2 NIYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEI 53 (198)
T ss_pred cEEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEE
Confidence 567899999999988777555 6666777775432 455789999998765
No 6
>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=95.37 E-value=0.033 Score=48.20 Aligned_cols=51 Identities=24% Similarity=0.313 Sum_probs=35.9
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCc-CCCeeEEecCCCeeEee
Q 040665 268 NCLAVTDVSASMGGFPMELSIALGLLVSELSEEP-CKGKLITFSENPEIHLI 318 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~p-fk~~~ITFS~~P~~~~i 318 (393)
+.+.++|+||||.+.+++.+..+...+.+....+ =+=.+|+|++..+...+
T Consensus 2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~~~~~~ 53 (152)
T cd01462 2 PVILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEFQTKIV 53 (152)
T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCceEEec
Confidence 5678999999999988888877776666644321 13358999998544443
No 7
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=95.32 E-value=0.029 Score=48.72 Aligned_cols=47 Identities=21% Similarity=0.258 Sum_probs=37.9
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~ 315 (393)
+.+.|+|+||||.|.+-.+--+|-+++.+|+.+- +=.+|+|.+++..
T Consensus 2 ~vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d-~fnii~f~~~~~~ 48 (155)
T PF13768_consen 2 DVVILVDTSGSMSGEKELVKDALRAILRSLPPGD-RFNIIAFGSSVRP 48 (155)
T ss_pred eEEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCC-EEEEEEeCCEeeE
Confidence 6789999999999987555558888899988766 5568999998663
No 8
>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=94.60 E-value=0.027 Score=53.24 Aligned_cols=76 Identities=25% Similarity=0.274 Sum_probs=41.3
Q ss_pred ccChHHHHHHhhhccccchhHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeE
Q 040665 228 GLLPHQIIKSLDAKNENGAEVAELQWSRMVEDMSKKGKLTNCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLI 307 (393)
Q Consensus 228 ~L~Pheiv~~~~~~~~~~~~vae~QWk~lv~~l~~~g~l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~I 307 (393)
.=++..|-+.+.. .....+..|+.=.. ..-...+++|||||||.+..- +.|.++.+=....+ +=+++
T Consensus 28 lD~rrTir~~~r~----~g~~~~l~~r~~r~-----~~~~~lvvl~DvSGSM~~~s~---~~l~~~~~l~~~~~-~~~~f 94 (222)
T PF05762_consen 28 LDLRRTIRASLRT----GGEPLRLVRRRRRP-----RKPRRLVVLCDVSGSMAGYSE---FMLAFLYALQRQFR-RVRVF 94 (222)
T ss_pred CCHHHHHHHHHhc----CCCcceeecccccc-----CCCccEEEEEeCCCChHHHHH---HHHHHHHHHHHhCC-CEEEE
Confidence 3344555555443 22355556655211 222478999999999997432 22333333222223 77888
Q ss_pred EecCCCeeEee
Q 040665 308 TFSENPEIHLI 318 (393)
Q Consensus 308 TFS~~P~~~~i 318 (393)
.|+.. +..|
T Consensus 95 ~F~~~--l~~v 103 (222)
T PF05762_consen 95 VFSTR--LTEV 103 (222)
T ss_pred EEeee--hhhh
Confidence 88874 4444
No 9
>PRK10997 yieM hypothetical protein; Provisional
Probab=94.53 E-value=0.053 Score=57.78 Aligned_cols=53 Identities=25% Similarity=0.386 Sum_probs=37.0
Q ss_pred CcceEEEEecCCCCCCchhHHHHHHHHHHhhc---CcCcCCCeeEEecCCCeeEeecC
Q 040665 266 LTNCLAVTDVSASMGGFPMELSIALGLLVSEL---SEEPCKGKLITFSENPEIHLIQG 320 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl---~~~pfk~~~ITFS~~P~~~~i~g 320 (393)
-...|+++|+||||.|.|.+.|.++++.++.. ....+ .+|.||+...-..+.+
T Consensus 323 kGpiII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~--~li~Fs~~i~~~~l~~ 378 (487)
T PRK10997 323 RGPFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRC--YIMLFSTEVVTYELTG 378 (487)
T ss_pred CCcEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCE--EEEEecCCceeeccCC
Confidence 45679999999999998877766655554433 33444 3999999765544554
No 10
>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=94.35 E-value=0.07 Score=48.17 Aligned_cols=50 Identities=22% Similarity=0.137 Sum_probs=32.8
Q ss_pred cceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 267 TNCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 267 ~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
-|.+.|.|+||||.+......-.+--++..+..+--+=.+||||++++.+
T Consensus 5 ~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~ 54 (185)
T cd01474 5 FDLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKI 54 (185)
T ss_pred eeEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEE
Confidence 36788999999999854444322222333444444666799999998663
No 11
>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=94.32 E-value=0.071 Score=45.22 Aligned_cols=48 Identities=21% Similarity=0.254 Sum_probs=36.7
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCcC--cCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSEE--PCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~~--pfk~~~ITFS~~P~~ 315 (393)
|.+.|+|+||||.+..++.+.. +.-++..+... --+-.+|+|++++..
T Consensus 2 di~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~ 52 (161)
T cd01450 2 DIVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRV 52 (161)
T ss_pred cEEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceE
Confidence 5778999999999877777774 67777777654 345568999997654
No 12
>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=94.28 E-value=0.082 Score=47.93 Aligned_cols=50 Identities=26% Similarity=0.320 Sum_probs=36.2
Q ss_pred CcceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 266 LTNCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
-.+++.|.|+||||.+..++.+- ++..++..+..+. +=.+|+|+++++..
T Consensus 13 p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d-~v~lv~F~~~~~~~ 63 (190)
T cd01463 13 PKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDND-FFNIITFSNEVNPV 63 (190)
T ss_pred CceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCC-EEEEEEeCCCeeEE
Confidence 45888999999999998888775 4444555564332 33589999998764
No 13
>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=93.64 E-value=0.13 Score=43.95 Aligned_cols=48 Identities=27% Similarity=0.295 Sum_probs=35.9
Q ss_pred ceEEEEecCCCCCCchhHHHHHH-HHHHhhcCcC--cCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGFPMELSIAL-GLLVSELSEE--PCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaL-gLl~aEl~~~--pfk~~~ITFS~~P~~ 315 (393)
+.+.|+|+||||.+.+++.+... .-++.++... -.+=.+|+|++.+..
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~ 53 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATV 53 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceE
Confidence 56789999999998888888864 5555566554 566678999996543
No 14
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.30 E-value=0.14 Score=53.98 Aligned_cols=88 Identities=18% Similarity=0.185 Sum_probs=54.6
Q ss_pred ccChHHHHHHhhhccccchhHHHHHHHHHHHH-HhhcCCCcceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCC-e
Q 040665 228 GLLPHQIIKSLDAKNENGAEVAELQWSRMVED-MSKKGKLTNCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKG-K 305 (393)
Q Consensus 228 ~L~Pheiv~~~~~~~~~~~~vae~QWk~lv~~-l~~~g~l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~-~ 305 (393)
.|+|-|.+.-...- -...=-..+-|+.|..+ ++. .+-.-.++..|-||||+|.|+.+|=|.++-+.+...--.++ .
T Consensus 235 ~Llp~E~~~l~~~~-L~~eFy~kl~e~kLl~Yr~~g-k~~GpvilllD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~ 312 (437)
T COG2425 235 RLLPIERASLADPI-LSVEFYRKLVEKKLLTYRLQG-KSEGPVILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCY 312 (437)
T ss_pred ccCcHHHHHhhhHH-HHHHHHHHhhhccchhhhhhc-CCCCCEEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceE
Confidence 36666655533320 00112344455555553 332 33467888999999999999999888777777776655555 4
Q ss_pred eEEecCCCeeEeec
Q 040665 306 LITFSENPEIHLIQ 319 (393)
Q Consensus 306 ~ITFS~~P~~~~i~ 319 (393)
+|-|++ +++++.
T Consensus 313 ~~lF~s--~~~~~e 324 (437)
T COG2425 313 VILFDS--EVIEYE 324 (437)
T ss_pred EEEecc--cceeee
Confidence 667777 666553
No 15
>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=92.91 E-value=0.14 Score=45.52 Aligned_cols=45 Identities=18% Similarity=0.282 Sum_probs=32.8
Q ss_pred eEEEEecCCCCCC-chhHHHHHHHHHHhhcCcC-cCCCeeEEecCCC
Q 040665 269 CLAVTDVSASMGG-FPMELSIALGLLVSELSEE-PCKGKLITFSENP 313 (393)
Q Consensus 269 ~iaV~DvSGSM~g-~Pm~vaiaLgLl~aEl~~~-pfk~~~ITFS~~P 313 (393)
+..++|+||||.+ ..++.|-.....+++.-.. --+=.+++|+++.
T Consensus 3 v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~ 49 (174)
T cd01454 3 VTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDA 49 (174)
T ss_pred EEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCC
Confidence 5678999999998 5888888766666654332 2345679999883
No 16
>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=92.67 E-value=0.2 Score=46.00 Aligned_cols=48 Identities=23% Similarity=0.070 Sum_probs=33.7
Q ss_pred CcceEEEEecCCCCC------CchhHHHHHHHHHHhhcCcCcCCCeeEEecCCC
Q 040665 266 LTNCLAVTDVSASMG------GFPMELSIALGLLVSELSEEPCKGKLITFSENP 313 (393)
Q Consensus 266 l~n~iaV~DvSGSM~------g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P 313 (393)
-.+.+.|+|+||||. +..|+.+.....-+.+.-.+.-+=.+++|+++.
T Consensus 20 ~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~ 73 (206)
T cd01456 20 PPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDG 73 (206)
T ss_pred CCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCC
Confidence 468999999999998 467887765444444433333456689999853
No 17
>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=92.64 E-value=0.27 Score=44.08 Aligned_cols=49 Identities=27% Similarity=0.271 Sum_probs=34.4
Q ss_pred ceEEEEecCCCCCCch-hHHHHH-HHHHHhhcCcCcCCC--eeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFP-MELSIA-LGLLVSELSEEPCKG--KLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~P-m~vaia-LgLl~aEl~~~pfk~--~~ITFS~~P~~~ 316 (393)
+.+.|.|+||||.+.. ++.+.. +.-++..+.-.|=.. .+|+|++.++.+
T Consensus 2 Dv~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~ 54 (186)
T cd01471 2 DLYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKEL 54 (186)
T ss_pred cEEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEE
Confidence 4567999999999877 665554 556666665444333 479999998753
No 18
>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=92.50 E-value=0.22 Score=43.67 Aligned_cols=49 Identities=20% Similarity=0.317 Sum_probs=34.5
Q ss_pred ceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCc--CCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEP--CKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~p--fk~~~ITFS~~P~~~ 316 (393)
|.+.|.|+||||.+..++.+. ++.-++..+...+ -+=.+|+|+++++..
T Consensus 2 Dvv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~ 53 (164)
T cd01472 2 DIVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTE 53 (164)
T ss_pred CEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEE
Confidence 678899999999986666554 3555556665332 334579999998764
No 19
>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=92.38 E-value=0.24 Score=43.62 Aligned_cols=47 Identities=34% Similarity=0.488 Sum_probs=34.5
Q ss_pred ceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEPCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~ 315 (393)
+++.|.|+||||.+..++.+- ++..++.++.+.. +=.+|+|++.+..
T Consensus 2 ~v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~-~~~li~F~~~~~~ 49 (155)
T cd01466 2 DLVAVLDVSGSMAGDKLQLVKHALRFVISSLGDAD-RLSIVTFSTSAKR 49 (155)
T ss_pred cEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcc-eEEEEEecCCccc
Confidence 567899999999987666554 4666777776543 3568999998654
No 20
>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=91.84 E-value=0.37 Score=39.68 Aligned_cols=49 Identities=35% Similarity=0.430 Sum_probs=34.4
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCc--CcCCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSE--EPCKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~--~pfk~~~ITFS~~P~~~ 316 (393)
+.+.|+|.||||....++.+.. +..++..+.. +..+=.+++|+..+...
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~ 53 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVV 53 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCcccee
Confidence 4678999999996666666664 4444455554 46677889999876544
No 21
>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=91.31 E-value=0.3 Score=44.31 Aligned_cols=50 Identities=14% Similarity=0.211 Sum_probs=34.5
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHH-HHhhcC--------cCcCCCeeEEecCCCeeEe
Q 040665 268 NCLAVTDVSASMGGFPMELSIALGL-LVSELS--------EEPCKGKLITFSENPEIHL 317 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaLgL-l~aEl~--------~~pfk~~~ITFS~~P~~~~ 317 (393)
+.+-|.|+||||.+.+++.+..... ++..+. .+-.+=.+|+||+.|+++.
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~ 62 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEA 62 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeE
Confidence 5678999999999888877664332 233332 2225668999999987653
No 22
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=90.99 E-value=0.32 Score=41.41 Aligned_cols=46 Identities=28% Similarity=0.489 Sum_probs=31.3
Q ss_pred ceEEEEecCCCCCCc-----hhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGF-----PMELSI-ALGLLVSELSEEPCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~-----Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~ 315 (393)
|.+.|.|+||||.+. -++.+. +|.-++.++... +=.+++|++++.+
T Consensus 1 dvv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~~~--~v~l~~f~~~~~~ 52 (172)
T PF13519_consen 1 DVVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLPGD--RVGLVSFSDSSRT 52 (172)
T ss_dssp EEEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHTTS--EEEEEEESTSCEE
T ss_pred CEEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCCCC--EEEEEEecccccc
Confidence 468899999999975 355555 566667665322 4458999998754
No 23
>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=90.93 E-value=0.4 Score=42.33 Aligned_cols=49 Identities=22% Similarity=0.351 Sum_probs=33.4
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCcCc--CCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSEEP--CKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~~p--fk~~~ITFS~~P~~~ 316 (393)
|.+.|+|.||||.+..+.-+.. +--++..+.-.| -+=.+|+||+.|+.+
T Consensus 2 Dv~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~ 53 (164)
T cd01482 2 DIVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTE 53 (164)
T ss_pred CEEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEE
Confidence 5678999999999866665554 334455443333 445689999998654
No 24
>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=90.92 E-value=0.38 Score=51.77 Aligned_cols=49 Identities=27% Similarity=0.322 Sum_probs=36.0
Q ss_pred cceEEEEecCCCCCCchhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 267 TNCLAVTDVSASMGGFPMELSI-ALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 267 ~n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
.+.+.|+|+||||.|.+|+.+- +|..++..+..+. +=.+|+|+++.+..
T Consensus 272 ~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d-~~~ii~F~~~~~~~ 321 (596)
T TIGR03788 272 RELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGD-RFNIIQFDSDVTLL 321 (596)
T ss_pred ceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCC-EEEEEEECCcceEe
Confidence 4789999999999998887665 5555667776543 33578898887643
No 25
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=90.19 E-value=0.43 Score=45.60 Aligned_cols=44 Identities=30% Similarity=0.532 Sum_probs=37.7
Q ss_pred ceEEEEecCCCCCCchhHHH-HHHHHHHhhcCcCcCCC-----eeEEecC
Q 040665 268 NCLAVTDVSASMGGFPMELS-IALGLLVSELSEEPCKG-----KLITFSE 311 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~va-iaLgLl~aEl~~~pfk~-----~~ITFS~ 311 (393)
-|+-+.|+||||.|.|+++- .+|-.++++|-+.|++= .+|||.+
T Consensus 5 P~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~ 54 (207)
T COG4245 5 PCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGG 54 (207)
T ss_pred CEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecC
Confidence 47889999999999998754 57888999999999875 4799988
No 26
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=89.94 E-value=0.26 Score=51.05 Aligned_cols=43 Identities=28% Similarity=0.350 Sum_probs=30.5
Q ss_pred CcceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCC
Q 040665 266 LTNCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSEN 312 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~ 312 (393)
-..-+++|||||||.+ ...+-|.|+-| +.+.+.+.++.+|+..
T Consensus 218 ~~~lvvL~DVSGSm~~---ys~~~L~l~hA-l~q~~~R~~~F~F~TR 260 (395)
T COG3552 218 KPPLVVLCDVSGSMSG---YSRIFLHLLHA-LRQQRSRVHVFLFGTR 260 (395)
T ss_pred CCCeEEEEecccchhh---hHHHHHHHHHH-HHhcccceeEEEeech
Confidence 3467999999999997 23344444433 4556778889999875
No 27
>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=89.76 E-value=0.69 Score=41.56 Aligned_cols=43 Identities=26% Similarity=0.191 Sum_probs=27.7
Q ss_pred EEEEecCCCCCCc-hhHHHHHHHHHHhh-cCcCcCCCeeEEecCC
Q 040665 270 LAVTDVSASMGGF-PMELSIALGLLVSE-LSEEPCKGKLITFSEN 312 (393)
Q Consensus 270 iaV~DvSGSM~g~-Pm~vaiaLgLl~aE-l~~~pfk~~~ITFS~~ 312 (393)
+.|.|+||||.+. .++.+......+.. ...+--+=.+|+|+++
T Consensus 4 ~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~ 48 (178)
T cd01451 4 IFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGT 48 (178)
T ss_pred EEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCC
Confidence 5689999999975 77777765544442 2222123347999875
No 28
>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=87.61 E-value=0.95 Score=42.34 Aligned_cols=49 Identities=20% Similarity=0.264 Sum_probs=37.0
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCcCc--CCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSEEP--CKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~~p--fk~~~ITFS~~P~~~ 316 (393)
+.+-|.|+||||.+..++-+.. +.-++..++-+| .+=.+|+||++|+.+
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~ 55 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQE 55 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEE
Confidence 5677899999999888877775 555666676655 345689999998764
No 29
>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=86.71 E-value=0.93 Score=39.11 Aligned_cols=47 Identities=26% Similarity=0.362 Sum_probs=32.0
Q ss_pred ceEEEEecCCCCCCchhHHHH-HHHHHHhhc--CcCcCCCeeEEecCCCe
Q 040665 268 NCLAVTDVSASMGGFPMELSI-ALGLLVSEL--SEEPCKGKLITFSENPE 314 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl--~~~pfk~~~ITFS~~P~ 314 (393)
|.+.|.|+||||++.-++.+. ++.-++..+ ..+-.+=.++||++++.
T Consensus 1 DivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~ 50 (178)
T PF00092_consen 1 DIVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR 50 (178)
T ss_dssp EEEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE
T ss_pred CEEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeecccc
Confidence 457799999999985555544 444455555 44446667899999987
No 30
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=86.00 E-value=0.86 Score=44.16 Aligned_cols=43 Identities=21% Similarity=0.313 Sum_probs=32.9
Q ss_pred EEEEecCCCCCCchhHHHHHHHHHHhh-cCcCcCCCeeEEecCC
Q 040665 270 LAVTDVSASMGGFPMELSIALGLLVSE-LSEEPCKGKLITFSEN 312 (393)
Q Consensus 270 iaV~DvSGSM~g~Pm~vaiaLgLl~aE-l~~~pfk~~~ITFS~~ 312 (393)
-.+.|-||||.|.|+++|+..+.++++ |..--.+-.++-|+..
T Consensus 16 tlLID~SGSMrgr~~~vA~~~adila~aL~~~gvp~EVlGFtT~ 59 (219)
T PF11775_consen 16 TLLIDCSGSMRGRPIEVAALCADILARALERCGVPVEVLGFTTR 59 (219)
T ss_pred EEEEeCCcCCCCChHHHHHHHHHHHHHHHHhCCCCeEEEeeecC
Confidence 347899999999999999877777775 3334466677777776
No 31
>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=84.98 E-value=1.5 Score=38.61 Aligned_cols=47 Identities=19% Similarity=0.090 Sum_probs=28.3
Q ss_pred ceEEEEecCCCCCCc------hhHHHHHHHHHHhhcCcCcCCCeeEEecCCCee
Q 040665 268 NCLAVTDVSASMGGF------PMELSIALGLLVSELSEEPCKGKLITFSENPEI 315 (393)
Q Consensus 268 n~iaV~DvSGSM~g~------Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~ 315 (393)
|.+.|+|+||||... -++.+..+..-+.+... --+=.+|+|++.++.
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~~-~~~v~lv~f~~~~~~ 56 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRRE-NDRIGLVVFAGAAFT 56 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhCC-CCeEEEEEEcCCeee
Confidence 678899999999752 24555544433333321 123357899987653
No 32
>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=84.87 E-value=1.8 Score=39.73 Aligned_cols=48 Identities=17% Similarity=0.050 Sum_probs=26.7
Q ss_pred cceEEEEecCCCCCCch-------hHHHHHHHHHHhh-cCcCcCC-CeeEEecCCCe
Q 040665 267 TNCLAVTDVSASMGGFP-------MELSIALGLLVSE-LSEEPCK-GKLITFSENPE 314 (393)
Q Consensus 267 ~n~iaV~DvSGSM~g~P-------m~vaiaLgLl~aE-l~~~pfk-~~~ITFS~~P~ 314 (393)
.+++.++|+||||.... ++.+--+..-+++ +..-.-. -.+++|++++.
T Consensus 3 ~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~ 59 (199)
T cd01457 3 RDYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGDFR 59 (199)
T ss_pred cCEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCcc
Confidence 37899999999998521 3333333222222 2222222 23688888753
No 33
>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=84.56 E-value=1.9 Score=38.92 Aligned_cols=49 Identities=20% Similarity=0.171 Sum_probs=35.9
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCcCcC--CCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSEEPC--KGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~~pf--k~~~ITFS~~P~~~ 316 (393)
+.+-|.|+||||++..++-+.. +.-++..++..|- +=.+|+||++|+.+
T Consensus 2 Di~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~ 53 (177)
T cd01469 2 DIVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTE 53 (177)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEE
Confidence 3567899999999766666664 4556677777664 44579999998764
No 34
>PRK13685 hypothetical protein; Provisional
Probab=83.68 E-value=2 Score=42.80 Aligned_cols=50 Identities=22% Similarity=0.226 Sum_probs=33.6
Q ss_pred CcceEEEEecCCCCCC-----chhHHHHHHH-HHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 266 LTNCLAVTDVSASMGG-----FPMELSIALG-LLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g-----~Pm~vaiaLg-Ll~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
..+.+.|.|+||||.+ +-++.|-... -++.++..+ -+=.+|+|+.++.+.
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 4578899999999986 3466665443 344554332 234689999998754
No 35
>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=82.11 E-value=3.7 Score=35.66 Aligned_cols=46 Identities=28% Similarity=0.257 Sum_probs=26.9
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCC--eeEEecCCC
Q 040665 268 NCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKG--KLITFSENP 313 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~--~~ITFS~~P 313 (393)
|.+.|.|+||||.+.--..--.+.-++..+...|-.. .+|+|++.+
T Consensus 2 dv~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~ 49 (163)
T cd01476 2 DLLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRG 49 (163)
T ss_pred CEEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCC
Confidence 5678999999998731111112333445555444333 479999954
No 36
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=81.13 E-value=2.3 Score=37.14 Aligned_cols=42 Identities=14% Similarity=0.124 Sum_probs=25.1
Q ss_pred EEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCCC
Q 040665 270 LAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSENP 313 (393)
Q Consensus 270 iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P 313 (393)
.+++|+||||+..-+.-+++--.-+.+.. +.+=++|.|...=
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v 43 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEV 43 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEe
Confidence 46889999999754443333222223322 5667778777653
No 37
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=80.88 E-value=2.6 Score=48.19 Aligned_cols=48 Identities=23% Similarity=0.127 Sum_probs=31.9
Q ss_pred eEEEEecCCCCCC-chhHHHH-HHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 269 CLAVTDVSASMGG-FPMELSI-ALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 269 ~iaV~DvSGSM~g-~Pm~vai-aLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
++.|.|+||||.+ .+++.+- |+..++.++-.+--+=.+|+|++++.+.
T Consensus 307 VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl 356 (863)
T TIGR00868 307 VCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIK 356 (863)
T ss_pred EEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEe
Confidence 5668999999986 4666543 4444555543332344579999998753
No 38
>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=79.69 E-value=2.9 Score=40.52 Aligned_cols=48 Identities=17% Similarity=0.092 Sum_probs=28.9
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHHHHhhc-CcCcCCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIALGLLVSEL-SEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl-~~~pfk~~~ITFS~~P~~~ 316 (393)
+++.|.|+||||.+. +..+....+-+.+. -.+-=+=.+|+|+..+.+.
T Consensus 55 ~vvlvlD~SgSM~~~-~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~ 103 (296)
T TIGR03436 55 TVGLVIDTSGSMRND-LDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLL 103 (296)
T ss_pred eEEEEEECCCCchHH-HHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEe
Confidence 678899999999974 33333322322222 2222334589999987653
No 39
>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=75.51 E-value=4.9 Score=43.81 Aligned_cols=49 Identities=20% Similarity=0.047 Sum_probs=31.1
Q ss_pred CCcceEEEEecCCCCCCchhHHHHHHHH-HHhhcCcCcCCCeeEEecCCC
Q 040665 265 KLTNCLAVTDVSASMGGFPMELSIALGL-LVSELSEEPCKGKLITFSENP 313 (393)
Q Consensus 265 ~l~n~iaV~DvSGSM~g~Pm~vaiaLgL-l~aEl~~~pfk~~~ITFS~~P 313 (393)
....++.|+|.||||.+..|+.+-.+.. |+.+.-..-=+=.+|+|+.+.
T Consensus 406 ~~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~ 455 (589)
T TIGR02031 406 SGRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTA 455 (589)
T ss_pred cCceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCC
Confidence 3445889999999998877777654433 333321111134589998765
No 40
>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=72.97 E-value=8.9 Score=42.04 Aligned_cols=54 Identities=22% Similarity=0.129 Sum_probs=32.3
Q ss_pred HHhhcCCCcceEEEEecCCCCCCc-hhHHHHHHHHHHhh-cCcCcCCCeeEEecCC
Q 040665 259 DMSKKGKLTNCLAVTDVSASMGGF-PMELSIALGLLVSE-LSEEPCKGKLITFSEN 312 (393)
Q Consensus 259 ~l~~~g~l~n~iaV~DvSGSM~g~-Pm~vaiaLgLl~aE-l~~~pfk~~~ITFS~~ 312 (393)
..++..+-..++.|+|+||||.+. -|..+.+..+-+.. .-..--+=.+|+|+.+
T Consensus 458 ~~~~~r~~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~ 513 (633)
T TIGR02442 458 KIRAGRAGNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGE 513 (633)
T ss_pred HHhcCCCCceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCC
Confidence 344444566788999999999873 66666544433322 1111123357999865
No 41
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=70.79 E-value=7.6 Score=42.50 Aligned_cols=49 Identities=18% Similarity=0.088 Sum_probs=33.0
Q ss_pred CCCcceEEEEecCCCCCCchhHHHHHHHH-HHhhcCcCcCCCeeEEecCC
Q 040665 264 GKLTNCLAVTDVSASMGGFPMELSIALGL-LVSELSEEPCKGKLITFSEN 312 (393)
Q Consensus 264 g~l~n~iaV~DvSGSM~g~Pm~vaiaLgL-l~aEl~~~pfk~~~ITFS~~ 312 (393)
..-...+.|.|+||||.+..|..+-+... |+.+.-.+-=+=.+|+|+.+
T Consensus 399 ~~~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~ 448 (584)
T PRK13406 399 RSETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGR 448 (584)
T ss_pred cCCccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCC
Confidence 34567788999999998877877775433 34443222224468999776
No 42
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=70.40 E-value=2.7 Score=45.07 Aligned_cols=26 Identities=27% Similarity=0.379 Sum_probs=23.2
Q ss_pred EEEecCCCCCCchhHHHHHHHHHHhh
Q 040665 271 AVTDVSASMGGFPMELSIALGLLVSE 296 (393)
Q Consensus 271 aV~DvSGSM~g~Pm~vaiaLgLl~aE 296 (393)
-|+|-||||.|+|+.||..-+-.+|-
T Consensus 418 lviDnSGSMrGRpItvAatcAdilAr 443 (620)
T COG4547 418 LVIDNSGSMRGRPITVAATCADILAR 443 (620)
T ss_pred eeeccCCCcCCcceehhHHHHHHHHH
Confidence 48999999999999999988888873
No 43
>PRK05325 hypothetical protein; Provisional
Probab=69.25 E-value=4.3 Score=42.67 Aligned_cols=44 Identities=18% Similarity=0.190 Sum_probs=32.9
Q ss_pred CcceEEEE--ecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEe
Q 040665 266 LTNCLAVT--DVSASMGGFPMELSIALGLLVSELSEEPCKGKLITF 309 (393)
Q Consensus 266 l~n~iaV~--DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITF 309 (393)
-.|++++| ||||||.+..-++|-..-+++--.-+--|++-=|-|
T Consensus 220 ~s~AVmfclMDvSGSM~~~~K~lakrff~lly~fL~r~Y~~vEvvF 265 (401)
T PRK05325 220 ESQAVMFCLMDVSGSMDEAEKDLAKRFFFLLYLFLRRKYENVEVVF 265 (401)
T ss_pred cCcEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHhccCceEEEE
Confidence 45776555 999999998888888888877766666666654444
No 44
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=67.24 E-value=7.3 Score=45.73 Aligned_cols=58 Identities=19% Similarity=0.229 Sum_probs=41.4
Q ss_pred HHhhcCCCcceEEEEecCCCCCCchhHHHHHHHHHHh-hcCcCcCCCeeEEecCCCeeEe
Q 040665 259 DMSKKGKLTNCLAVTDVSASMGGFPMELSIALGLLVS-ELSEEPCKGKLITFSENPEIHL 317 (393)
Q Consensus 259 ~l~~~g~l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~a-El~~~pfk~~~ITFS~~P~~~~ 317 (393)
+|....+-.+.+.+.|+||||.|..|++|=+.--.+= -|+...|= .++||+++=..+.
T Consensus 218 yi~aAt~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfv-ni~tf~~~~~~v~ 276 (1104)
T KOG2353|consen 218 YIQAATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFV-NILTFNSEVNPVS 276 (1104)
T ss_pred cccccCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeE-EEEeeccccCccc
Confidence 4444456778899999999999999999987655444 35555554 4678888755443
No 45
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=65.04 E-value=13 Score=40.94 Aligned_cols=51 Identities=22% Similarity=0.087 Sum_probs=31.2
Q ss_pred CcceEEEEecCCCCCC-chhHHHH-HHHHHHhhcCcCcCCCe--eEEecCCCeeE
Q 040665 266 LTNCLAVTDVSASMGG-FPMELSI-ALGLLVSELSEEPCKGK--LITFSENPEIH 316 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g-~Pm~vai-aLgLl~aEl~~~pfk~~--~ITFS~~P~~~ 316 (393)
--+.+.|+|+||||+- ..++-+. .+.-++.-+...+-.=+ +|+||++++.+
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~v 96 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTEL 96 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEE
Confidence 3467889999999973 3334333 33344444544443333 48999998754
No 46
>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=63.15 E-value=13 Score=34.62 Aligned_cols=50 Identities=20% Similarity=0.214 Sum_probs=30.6
Q ss_pred cceEEEEecCCCCCCchhHHHH-HHHHHHhhcCc---C---cC--CCeeEEecCCCeeE
Q 040665 267 TNCLAVTDVSASMGGFPMELSI-ALGLLVSELSE---E---PC--KGKLITFSENPEIH 316 (393)
Q Consensus 267 ~n~iaV~DvSGSM~g~Pm~vai-aLgLl~aEl~~---~---pf--k~~~ITFS~~P~~~ 316 (393)
-+.+-|.|+||||...=++-+. .+.-++..++- . |- +=.+|+||+.|+++
T Consensus 20 ~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~ 78 (193)
T cd01477 20 LDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVV 78 (193)
T ss_pred eeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEE
Confidence 3557799999999853233222 23334444443 2 33 33579999998776
No 47
>COG3864 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.25 E-value=11 Score=38.97 Aligned_cols=25 Identities=20% Similarity=0.321 Sum_probs=19.1
Q ss_pred CCcceEEEEecCCCCCCchhHHHHH
Q 040665 265 KLTNCLAVTDVSASMGGFPMELSIA 289 (393)
Q Consensus 265 ~l~n~iaV~DvSGSM~g~Pm~vaia 289 (393)
.+-..++++|.||||..--++.+|+
T Consensus 260 ~l~~i~vaVDtSGS~~d~ei~a~~~ 284 (396)
T COG3864 260 HLIKIVVAVDTSGSMTDAEIDAAMT 284 (396)
T ss_pred hhhheEEEEecCCCccHHHHHHHHH
Confidence 3455788999999999876666654
No 48
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=51.97 E-value=16 Score=38.65 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=28.4
Q ss_pred CcceEEEE--ecCCCCCCchhHHHHHHHHHHhhcCcCcCCCe
Q 040665 266 LTNCLAVT--DVSASMGGFPMELSIALGLLVSELSEEPCKGK 305 (393)
Q Consensus 266 l~n~iaV~--DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~ 305 (393)
-.||+++| ||||||...--++|-..-+++--.-+.-|.+-
T Consensus 244 ~s~AVv~~lmDvSGSM~~~~K~lak~ff~~l~~fL~~~Y~~V 285 (421)
T PF04285_consen 244 ESNAVVFCLMDVSGSMGEFKKDLAKRFFFWLYLFLRRKYENV 285 (421)
T ss_pred cCcEEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHHhccCce
Confidence 35776555 99999999877777777766665555556653
No 49
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=51.21 E-value=16 Score=38.08 Aligned_cols=45 Identities=20% Similarity=0.273 Sum_probs=33.4
Q ss_pred CcceEEE--EecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEec
Q 040665 266 LTNCLAV--TDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFS 310 (393)
Q Consensus 266 l~n~iaV--~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS 310 (393)
-.||+++ -||||||....-++|-..-+++--.-+--|++-=|-|=
T Consensus 200 ~s~AV~fc~MDvSGSM~~~~K~lak~ff~~ly~FL~~~Y~~VeivFI 246 (371)
T TIGR02877 200 ESNAVVIAMMDTSGSMGQFKKYIARSFFFWMVKFLRTKYENVEICFI 246 (371)
T ss_pred cCcEEEEEEEeCCCCCCHHHHHHHHHHHHHHHHHHHhccCceEEEEE
Confidence 4577555 49999999988888888888877666666766555553
No 50
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=50.41 E-value=15 Score=40.46 Aligned_cols=43 Identities=19% Similarity=0.278 Sum_probs=31.4
Q ss_pred EEEEecCCCCCCchhHHHHHHHHHHhhc-CcCcCCCeeEEecCC
Q 040665 270 LAVTDVSASMGGFPMELSIALGLLVSEL-SEEPCKGKLITFSEN 312 (393)
Q Consensus 270 iaV~DvSGSM~g~Pm~vaiaLgLl~aEl-~~~pfk~~~ITFS~~ 312 (393)
-.+.|-||||.|.|+.||..-+.++++- ..--.+-.++-|++.
T Consensus 396 ~LLID~SGSM~~r~~~vA~~~a~iLa~aL~~~gIp~eVlGFtt~ 439 (600)
T TIGR01651 396 TLLIDNSGSMRGRPITVAATCADILARTLERCGVKVEILGFTTR 439 (600)
T ss_pred EEEEECCccCCCCHHHHHHHHHHHHHHHHHHCCCCeEEEeeccc
Confidence 3478999999999999887666666653 333456677777765
No 51
>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=45.72 E-value=48 Score=30.60 Aligned_cols=49 Identities=18% Similarity=0.117 Sum_probs=31.0
Q ss_pred ceEEEEecCCCCCCchhH--HHHHHHHHHhhcCcCcCCC--eeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPME--LSIALGLLVSELSEEPCKG--KLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~--vaiaLgLl~aEl~~~pfk~--~~ITFS~~P~~~ 316 (393)
+.+-+.|.||||...-.. +---+--++..++-+|=+- .+|+||+.|+++
T Consensus 2 Di~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~ 54 (192)
T cd01473 2 DLTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDV 54 (192)
T ss_pred cEEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeE
Confidence 346689999999853111 1113334566666665443 479999999754
No 52
>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=45.26 E-value=35 Score=33.94 Aligned_cols=50 Identities=20% Similarity=0.179 Sum_probs=32.5
Q ss_pred CCcceEEEEecCCCCCC-----chhHHHHHHHHHHhhcCcCcCCCeeEEecCCCeeE
Q 040665 265 KLTNCLAVTDVSASMGG-----FPMELSIALGLLVSELSEEPCKGKLITFSENPEIH 316 (393)
Q Consensus 265 ~l~n~iaV~DvSGSM~g-----~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~~ 316 (393)
.--+.+...|+|.||.- .+++.=..++=.++.+..+.+ .++.|+++|.++
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~aleak~lIs~al~~Le~g~v--gVv~Fg~~~~~v 113 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALESLCLVSKALTLLEVGQL--GVCSFGEDVQIL 113 (266)
T ss_pred cCceEEEEEecchhcccccccccHHHHHHHHHHHHHhCcCCcE--EEEEeCCCceEe
Confidence 34577888999999963 345522223334455666555 499999998754
No 53
>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=41.44 E-value=54 Score=29.45 Aligned_cols=49 Identities=18% Similarity=0.278 Sum_probs=31.5
Q ss_pred ceEEEEecCCCCCCchhHHHHH-HHHHHhhcCcCc--CCCeeEEecCCCeeE
Q 040665 268 NCLAVTDVSASMGGFPMELSIA-LGLLVSELSEEP--CKGKLITFSENPEIH 316 (393)
Q Consensus 268 n~iaV~DvSGSM~g~Pm~vaia-LgLl~aEl~~~p--fk~~~ITFS~~P~~~ 316 (393)
+.+-+.|.||||...-++-... +.-++..++-+| =+=.+|+||+.|+.+
T Consensus 2 DivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~ 53 (165)
T cd01481 2 DIVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPE 53 (165)
T ss_pred CEEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEE
Confidence 5677999999998543444433 333444454444 344689999999764
No 54
>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=39.42 E-value=18 Score=34.73 Aligned_cols=13 Identities=38% Similarity=0.394 Sum_probs=10.9
Q ss_pred eEEEEecCCCCCC
Q 040665 269 CLAVTDVSASMGG 281 (393)
Q Consensus 269 ~iaV~DvSGSM~g 281 (393)
...|.|.||||.+
T Consensus 4 V~LVLD~SGSM~~ 16 (200)
T PF10138_consen 4 VYLVLDISGSMRP 16 (200)
T ss_pred EEEEEeCCCCCch
Confidence 4568999999986
No 55
>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=33.65 E-value=70 Score=29.31 Aligned_cols=51 Identities=22% Similarity=0.348 Sum_probs=31.4
Q ss_pred CcceEEEEecCCCCCC-----chhHHHH-HHHHHHhhc-CcCcC-CCeeEEe-cCCCeeE
Q 040665 266 LTNCLAVTDVSASMGG-----FPMELSI-ALGLLVSEL-SEEPC-KGKLITF-SENPEIH 316 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g-----~Pm~vai-aLgLl~aEl-~~~pf-k~~~ITF-S~~P~~~ 316 (393)
+.+.+.|.|+|+||.. +-++.|- ++.-++..+ ...|- +=.+|+| +..|.++
T Consensus 3 ~r~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~ 62 (183)
T cd01453 3 MRHLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKL 62 (183)
T ss_pred eeEEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEE
Confidence 5678899999999984 2366555 333444433 22232 3357999 6777543
No 56
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=31.87 E-value=41 Score=35.58 Aligned_cols=38 Identities=29% Similarity=0.397 Sum_probs=30.3
Q ss_pred CCCCC-CCCCcchHHHHHHHHHHhhh-------CHHHHHhchhhhccCCc
Q 040665 5 SDPPM-GLTENSAPMYFSSAISLYKK-------QKKTLALNSSAFVDFGY 46 (393)
Q Consensus 5 ~~~~~-glGks~r~~Fy~a~~WL~~~-------HP~TL~~NL~~l~~~Gy 46 (393)
-|||. |++ ..|=+.+.-+.-. +|.||+.++..|.++||
T Consensus 368 vDPPR~G~~----~~~lk~l~~~~p~~IvYVSCNP~TlaRDl~~L~~~gy 413 (432)
T COG2265 368 VDPPRAGAD----REVLKQLAKLKPKRIVYVSCNPATLARDLAILASTGY 413 (432)
T ss_pred ECCCCCCCC----HHHHHHHHhcCCCcEEEEeCCHHHHHHHHHHHHhCCe
Confidence 37777 998 4566666666555 89999999999999999
No 57
>KOG4465 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.83 E-value=29 Score=36.66 Aligned_cols=38 Identities=21% Similarity=0.110 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHhhhCHHHHHhchhhhccCCch--hhHHHH
Q 040665 16 APMYFSSAISLYKKQKKTLALNSSAFVDFGYL--KDLTEI 53 (393)
Q Consensus 16 r~~Fy~a~~WL~~~HP~TL~~NL~~l~~~Gyw--KDLleL 53 (393)
|.+=-..+.|-.+.--..|+.-|...+.--=| |||+.|
T Consensus 171 ralr~aia~wy~~k~~e~lal~ltky~qregwshkdlfrl 210 (598)
T KOG4465|consen 171 RALRKAIADWYNEKGGEALALALTKYKQREGWSHKDLFRL 210 (598)
T ss_pred HHHHHHHHHHHhccchHHHHHHHhhcccccCCchHhHHHh
Confidence 55556667888888887777766655532223 676644
No 58
>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=29.02 E-value=22 Score=33.90 Aligned_cols=12 Identities=50% Similarity=0.332 Sum_probs=9.9
Q ss_pred eEEEEecCCCCC
Q 040665 269 CLAVTDVSASMG 280 (393)
Q Consensus 269 ~iaV~DvSGSM~ 280 (393)
-+.+.|+||||+
T Consensus 3 l~lavDlSgSM~ 14 (191)
T cd01455 3 LKLVVDVSGSMY 14 (191)
T ss_pred eEEEEECcHhHH
Confidence 467899999994
No 59
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=28.24 E-value=1.6e+02 Score=25.16 Aligned_cols=34 Identities=15% Similarity=0.307 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhcCCCcceEEEEecCCCCCCchhHHHHH
Q 040665 250 ELQWSRMVEDMSKKGKLTNCLAVTDVSASMGGFPMELSIA 289 (393)
Q Consensus 250 e~QWk~lv~~l~~~g~l~n~iaV~DvSGSM~g~Pm~vaia 289 (393)
..+-+..++.+ ...+..|+++|.-| |+|-.+|..
T Consensus 45 ~~~l~~~i~~~---~~~~~vivltDl~G---GSp~n~a~~ 78 (116)
T TIGR00824 45 QEKYNAALADL---DTEEEVLFLVDIFG---GSPYNAAAR 78 (116)
T ss_pred HHHHHHHHHhc---CCCCCEEEEEeCCC---CCHHHHHHH
Confidence 33444444443 45678999999864 788887753
No 60
>PF04315 DUF462: Protein of unknown function, DUF462; InterPro: IPR007411 This family consists of bacterial proteins of uncharacterised function.
Probab=27.91 E-value=30 Score=32.38 Aligned_cols=30 Identities=33% Similarity=0.424 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHhhhCHHHHHhch-hhhccCCch
Q 040665 16 APMYFSSAISLYKKQKKTLALNS-SAFVDFGYL 47 (393)
Q Consensus 16 r~~Fy~a~~WL~~~HP~TL~~NL-~~l~~~Gyw 47 (393)
+++||+++ ||+-..-.++.-- ..+++||||
T Consensus 38 ahgf~aSA--LHEIaHWciAG~~RR~l~DfGYW 68 (164)
T PF04315_consen 38 AHGFFASA--LHEIAHWCIAGPERRQLEDFGYW 68 (164)
T ss_pred ecchHHHH--HHHHHHHHhccccccccccCCCC
Confidence 46788777 5665555555544 567789999
No 61
>smart00467 GS GS motif. Aa approx. 30 amino acid motif that precedes the kinase domain in types I and II TGF beta receptors. Mutation of two or more of the serines or threonines in the TTSGSGSG of TGF-beta type I receptor impairs phosphorylation and signaling activity.
Probab=24.96 E-value=41 Score=23.25 Aligned_cols=13 Identities=31% Similarity=0.514 Sum_probs=10.6
Q ss_pred cCCCCCCchhHHH
Q 040665 275 VSASMGGFPMELS 287 (393)
Q Consensus 275 vSGSM~g~Pm~va 287 (393)
.|||++|.|.-|=
T Consensus 11 tSGSGSG~p~Lvq 23 (30)
T smart00467 11 TSGSGSGLPLLVQ 23 (30)
T ss_pred cCCCCCCchhHHH
Confidence 7899999987653
No 62
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=22.30 E-value=1.4e+02 Score=29.96 Aligned_cols=50 Identities=30% Similarity=0.266 Sum_probs=30.8
Q ss_pred CcceEEEEecCCCCCCc-hhHHHH--HHHHHHhhcCcCcCCCeeEEec-CCCeeE
Q 040665 266 LTNCLAVTDVSASMGGF-PMELSI--ALGLLVSELSEEPCKGKLITFS-ENPEIH 316 (393)
Q Consensus 266 l~n~iaV~DvSGSM~g~-Pm~vai--aLgLl~aEl~~~pfk~~~ITFS-~~P~~~ 316 (393)
..-.|.|+|.||||... -|..|= +++||-.-... -=|=.+|+|. ++.+++
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~-RdkvavI~F~G~~A~ll 131 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQR-RDKVAVIAFRGEKAELL 131 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHc-cceEEEEEecCCcceEE
Confidence 44568899999999974 566654 44444332211 1133489999 666655
No 63
>PF14779 BBS1: Ciliary BBSome complex subunit 1
Probab=22.23 E-value=76 Score=31.66 Aligned_cols=43 Identities=21% Similarity=0.386 Sum_probs=28.1
Q ss_pred cCCCcceEEEEecCCCCCCchhHHHHHHHHHHhhcCcCcCCCeeEEecCCCeeEeecCCCC
Q 040665 263 KGKLTNCLAVTDVSASMGGFPMELSIALGLLVSELSEEPCKGKLITFSENPEIHLIQGDEI 323 (393)
Q Consensus 263 ~g~l~n~iaV~DvSGSM~g~Pm~vaiaLgLl~aEl~~~pfk~~~ITFS~~P~~~~i~g~~l 323 (393)
.-.+.+||+++|+.|.=.-. |++|.+. ++..+|++...+|.++
T Consensus 13 l~t~ssC~~l~Dl~gDGd~k---------LvvaD~g---------~~~~~~kLKVykGt~l 55 (257)
T PF14779_consen 13 LYTFSSCMALADLQGDGDYK---------LVVADLG---------TGDQNMKLKVYKGTSL 55 (257)
T ss_pred ccccCceeEeeecCCCCeEE---------EEEEecC---------CcCCCceEEEEcCCCh
Confidence 35789999999999864432 2333333 3446677777777666
Done!