Query 003455
Match_columns 818
No_of_seqs 300 out of 1380
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 23:44:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003455.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003455hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11265 Med25_VWA: Mediator c 100.0 5.2E-65 1.1E-69 522.3 19.4 196 1-212 26-226 (226)
2 cd01452 VWA_26S_proteasome_sub 97.8 0.0005 1.1E-08 70.6 14.8 132 5-187 26-163 (187)
3 cd01480 vWA_collagen_alpha_1-V 97.8 0.00066 1.4E-08 68.4 15.4 130 3-174 18-150 (186)
4 cd01482 vWA_collagen_alphaI-XI 97.7 0.0019 4E-08 63.6 15.9 121 4-172 17-138 (164)
5 cd01450 vWFA_subfamily_ECM Von 97.6 0.0015 3.3E-08 62.0 13.7 126 1-173 13-141 (161)
6 cd01469 vWA_integrins_alpha_su 97.4 0.0029 6.3E-08 63.3 14.0 124 4-172 17-140 (177)
7 cd01481 vWA_collagen_alpha3-VI 97.3 0.0095 2E-07 59.4 15.6 126 3-173 16-142 (165)
8 cd01472 vWA_collagen von Wille 97.2 0.012 2.5E-07 57.7 15.6 136 4-186 17-154 (164)
9 cd01453 vWA_transcription_fact 97.2 0.0076 1.6E-07 61.2 14.0 115 33-188 46-161 (183)
10 PF13519 VWA_2: von Willebrand 97.1 0.0033 7.1E-08 60.1 10.0 129 5-188 22-154 (172)
11 cd01475 vWA_Matrilin VWA_Matri 96.9 0.015 3.3E-07 60.4 13.5 124 4-172 19-143 (224)
12 cd01476 VWA_integrin_invertebr 96.5 0.096 2.1E-06 50.9 15.1 126 1-173 13-140 (163)
13 cd01471 vWA_micronemal_protein 96.5 0.036 7.9E-07 55.3 12.1 124 5-173 19-146 (186)
14 cd01473 vWA_CTRP CTRP for CS 96.1 0.072 1.6E-06 54.5 12.2 141 5-187 18-161 (192)
15 cd01474 vWA_ATR ATR (Anthrax T 95.7 0.18 3.9E-06 50.6 12.8 123 1-171 17-141 (185)
16 cd01458 vWA_ku Ku70/Ku80 N-ter 95.6 0.13 2.8E-06 53.2 11.9 112 33-172 46-170 (218)
17 cd00198 vWFA Von Willebrand fa 95.6 0.37 7.9E-06 44.7 13.7 123 2-173 15-140 (161)
18 cd01477 vWA_F09G8-8_type VWA F 95.4 0.14 3E-06 52.7 11.2 131 5-172 37-169 (193)
19 PF00092 VWA: von Willebrand f 95.3 0.25 5.5E-06 47.7 12.2 135 5-183 17-154 (178)
20 KOG3598 Thyroid hormone recept 95.3 0.0099 2.1E-07 74.5 2.6 11 202-212 1730-1740(2220)
21 cd01456 vWA_ywmD_type VWA ywmD 94.6 0.63 1.4E-05 47.5 13.2 92 4-120 43-145 (206)
22 PF04056 Ssl1: Ssl1-like; Int 94.6 0.4 8.8E-06 49.8 11.8 130 10-187 23-154 (193)
23 smart00327 VWA von Willebrand 94.4 1.4 3E-05 42.2 14.4 137 2-185 16-158 (177)
24 cd01467 vWA_BatA_type VWA BatA 94.0 0.99 2.1E-05 44.5 12.8 96 33-171 42-139 (180)
25 PF11235 Med25_SD1: Mediator c 92.7 0.15 3.2E-06 50.7 4.5 78 223-307 8-97 (168)
26 TIGR02031 BchD-ChlD magnesium 92.6 1.7 3.6E-05 52.3 14.0 130 33-188 443-576 (589)
27 cd01451 vWA_Magnesium_chelatas 92.6 1.8 3.8E-05 43.4 12.1 120 33-189 37-161 (178)
28 cd01463 vWA_VGCC_like VWA Volt 92.4 0.59 1.3E-05 47.2 8.6 81 33-120 48-134 (190)
29 cd01470 vWA_complement_factors 92.4 1.4 3.1E-05 44.6 11.4 107 5-122 18-125 (198)
30 PRK13685 hypothetical protein; 92.3 2.2 4.8E-05 47.2 13.7 108 33-171 128-235 (326)
31 PF04811 Sec23_trunk: Sec23/Se 92.3 1.1 2.3E-05 47.3 10.7 166 4-189 21-220 (243)
32 cd01454 vWA_norD_type norD typ 91.6 2.7 5.8E-05 41.7 12.1 121 33-185 37-169 (174)
33 PRK13406 bchD magnesium chelat 91.3 3.1 6.7E-05 50.1 14.3 125 33-188 437-563 (584)
34 COG1240 ChlD Mg-chelatase subu 90.5 1 2.2E-05 48.9 8.2 123 33-189 115-241 (261)
35 PTZ00441 sporozoite surface pr 90.2 2.6 5.6E-05 50.5 12.0 118 6-172 62-186 (576)
36 cd01461 vWA_interalpha_trypsin 89.9 5 0.00011 38.8 12.0 133 5-188 20-155 (171)
37 TIGR03436 acidobact_VWFA VWFA- 88.7 8.2 0.00018 41.7 13.8 116 33-188 88-234 (296)
38 PF13768 VWA_3: von Willebrand 86.8 2 4.4E-05 41.5 7.0 95 1-121 13-108 (155)
39 smart00187 INB Integrin beta s 85.9 16 0.00035 42.4 14.5 168 1-183 112-310 (423)
40 cd01466 vWA_C3HC4_type VWA C3H 85.0 4.6 0.0001 39.5 8.6 74 33-120 35-109 (155)
41 cd01465 vWA_subgroup VWA subgr 81.6 40 0.00087 32.6 13.5 116 34-188 36-156 (170)
42 TIGR02442 Cob-chelat-sub cobal 81.2 10 0.00022 46.1 11.1 123 33-188 502-628 (633)
43 PF03731 Ku_N: Ku70/Ku80 N-ter 78.3 28 0.0006 36.0 11.9 109 33-171 43-171 (224)
44 cd01460 vWA_midasin VWA_Midasi 76.8 17 0.00036 39.8 10.1 103 34-173 99-203 (266)
45 cd01464 vWA_subfamily VWA subf 75.3 14 0.00031 36.6 8.5 101 3-121 19-119 (176)
46 cd01462 VWA_YIEM_type VWA YIEM 73.9 30 0.00066 33.2 10.1 54 33-95 36-89 (152)
47 cd01479 Sec24-like Sec24-like: 67.1 56 0.0012 34.9 11.2 113 64-190 96-216 (244)
48 TIGR00620 sporelyase spore pho 66.0 22 0.00048 37.5 7.7 132 5-188 5-146 (199)
49 cd01468 trunk_domain trunk dom 64.4 1.2E+02 0.0025 32.2 12.9 165 4-189 21-218 (239)
50 KOG4369 RTK signaling protein 61.2 4.1 9E-05 51.7 1.5 15 787-801 1911-1925(2131)
51 KOG2884 26S proteasome regulat 56.7 65 0.0014 34.7 9.0 140 34-223 47-188 (259)
52 COG4245 TerY Uncharacterized p 55.0 85 0.0018 33.2 9.4 101 3-121 19-119 (207)
53 PF11232 Med25: Mediator compl 54.7 3.9 8.5E-05 41.2 -0.1 68 550-622 5-82 (152)
54 TIGR00578 ku70 ATP-dependent D 54.0 87 0.0019 38.0 10.9 126 12-170 39-179 (584)
55 COG5151 SSL1 RNA polymerase II 53.0 1.5E+02 0.0031 33.6 11.3 146 9-215 114-261 (421)
56 KOG2807 RNA polymerase II tran 51.6 1.3E+02 0.0029 34.1 10.8 127 10-186 88-216 (378)
57 TIGR00670 asp_carb_tr aspartat 46.2 29 0.00062 38.6 4.9 93 46-175 94-187 (301)
58 cd01455 vWA_F11C1-5a_type Von 43.0 3.1E+02 0.0067 28.9 11.5 108 44-187 53-167 (191)
59 TIGR03788 marine_srt_targ mari 41.6 89 0.0019 37.7 8.4 74 33-120 306-380 (596)
60 PRK14805 ornithine carbamoyltr 40.6 24 0.00052 39.2 3.2 92 46-176 92-183 (302)
61 PF13362 Toprim_3: Toprim doma 40.5 42 0.00091 30.2 4.3 37 149-185 56-93 (96)
62 COG5148 RPN10 26S proteasome r 39.8 95 0.0021 32.8 7.0 125 34-208 47-171 (243)
63 PRK14804 ornithine carbamoyltr 39.3 54 0.0012 36.6 5.7 104 45-185 95-200 (311)
64 PRK00779 ornithine carbamoyltr 36.1 42 0.00091 37.3 4.2 125 45-208 96-224 (304)
65 TIGR00868 hCaCC calcium-activa 35.8 2.9E+02 0.0062 35.4 11.6 76 33-121 341-416 (863)
66 PRK02102 ornithine carbamoyltr 32.1 1.1E+02 0.0024 34.6 6.7 93 45-175 99-191 (331)
67 PLN02342 ornithine carbamoyltr 32.0 41 0.00089 38.3 3.4 125 46-209 139-267 (348)
68 KOG1984 Vesicle coat complex C 31.8 3.4E+02 0.0074 34.7 11.0 141 7-170 438-608 (1007)
69 KOG1781 Small Nuclear ribonucl 30.4 61 0.0013 30.6 3.6 40 5-45 47-87 (108)
70 PF00362 Integrin_beta: Integr 30.2 6.7E+02 0.015 29.5 12.8 138 32-176 138-305 (426)
71 PRK02255 putrescine carbamoylt 29.5 48 0.001 37.5 3.4 94 46-175 96-189 (338)
72 TIGR03316 ygeW probable carbam 27.0 1.4E+02 0.003 34.2 6.4 111 46-184 96-221 (357)
73 KOG4369 RTK signaling protein 26.6 64 0.0014 41.9 3.9 12 12-23 960-971 (2131)
74 PRK01713 ornithine carbamoyltr 25.4 1.4E+02 0.003 33.8 6.0 93 46-175 100-192 (334)
75 PRK13814 pyrB aspartate carbam 25.3 93 0.002 34.8 4.6 94 46-175 99-195 (310)
76 PRK04284 ornithine carbamoyltr 24.1 1.2E+02 0.0026 34.3 5.2 125 46-208 99-231 (332)
77 PHA02030 hypothetical protein 24.0 3.6E+02 0.0077 30.5 8.5 77 11-91 44-150 (336)
78 PF12637 TSCPD: TSCPD domain; 23.2 97 0.0021 28.7 3.6 21 58-78 54-74 (95)
79 TIGR00658 orni_carb_tr ornithi 22.9 1.7E+02 0.0038 32.5 6.1 91 46-175 93-183 (304)
80 PRK00856 pyrB aspartate carbam 21.7 2.3E+02 0.0049 31.7 6.7 94 45-175 98-193 (305)
81 PF14336 DUF4392: Domain of un 21.3 4.2E+02 0.009 29.5 8.6 42 147-188 59-101 (291)
No 1
>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=100.00 E-value=5.2e-65 Score=522.33 Aligned_cols=196 Identities=39% Similarity=0.580 Sum_probs=179.1
Q ss_pred CchhhHHHh-hhhHHHHHhhccccccccccCCC--cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCC
Q 003455 1 MCIYFYAYS-KLSLYFHRCFCVNELAGQKTSAS--NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGG 77 (818)
Q Consensus 1 m~~Y~~~l~-~YI~p~ie~f~~~~~~e~~~~~~--~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG 77 (818)
|++||+.|| +||+|+||||++|+++|++++++ +++|||||||+|||||+|+|+|+|||+|+++|++|||+|+|+|||
T Consensus 26 lgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~~~~~fl~~L~~I~f~GGG 105 (226)
T PF11265_consen 26 LGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRSGPTSSPQKFLQWLDAIQFSGGG 105 (226)
T ss_pred hhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceeccCCcCCHHHHHHHHHccCcCCCC
Confidence 799999999 79999999999999999998555 899999999999999999999999999999999999999999999
Q ss_pred -CChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHH
Q 003455 78 -FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETV 156 (818)
Q Consensus 78 -~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~l 156 (818)
+++++|||||++||+||+.....++...+.++|||||||||||||++|+. |+..|++ +++|++
T Consensus 106 ~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p~~---------------~~~~~~~-~~~d~l 169 (226)
T PF11265_consen 106 FESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLPVN---------------ECPQYSG-KTCDQL 169 (226)
T ss_pred cccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCcccccc---------------CCCcccC-CCHHHH
Confidence 55577999999999999833333444456789999999999999999986 5566655 799999
Q ss_pred HHHHhhcCceEEEeCCCcchHHHHHHHHhcCCCCC-CCCCCCCCCCCCeEEEeeccc
Q 003455 157 AKSFVQCSVSLSVICPKQLPKLTAIYNAAKRNPRA-ADPPVDNSKNPHFLVLISENF 212 (818)
Q Consensus 157 a~~~~~~~I~lSiIsPrklp~L~~lf~~a~~~~~~-~~~~~d~ak~p~hlVLl~g~~ 212 (818)
|.++.||+|+||||||||||+|++||||+++|++. +++++||||||||||||||+|
T Consensus 170 a~~~~~~~I~LSiisPrklP~l~~Lfeka~~~~~~~~~~~~~~ak~p~hlVLl~g~~ 226 (226)
T PF11265_consen 170 AVLISERNISLSIISPRKLPSLRSLFEKAKGNPRAAADPSKDYAKDPRHLVLLRGYF 226 (226)
T ss_pred HHHHHhcCceEEEEcCccCHHHHHHHHhcCCCcccccccccccccCCCeEEEeecCC
Confidence 99999999999999999999999999999999997 699999999999999999987
No 2
>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=97.80 E-value=0.0005 Score=70.57 Aligned_cols=132 Identities=20% Similarity=0.164 Sum_probs=91.4
Q ss_pred hHHHhhhhHHHH-HhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhH
Q 003455 5 FYAYSKLSLYFH-RCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAI 83 (818)
Q Consensus 5 ~~~l~~YI~p~i-e~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~ai 83 (818)
|+..|+++.-++ |||...+ ....|||+|.+..+|- ...+|.|...++..|++|+..| | +.|
T Consensus 26 L~aak~~i~~~~~~f~~~np---------~~~vGlv~fag~~a~v-----~~plT~D~~~~~~~L~~i~~~g-~---~~l 87 (187)
T cd01452 26 FQAQADAVNLICQAKTRSNP---------ENNVGLMTMAGNSPEV-----LVTLTNDQGKILSKLHDVQPKG-K---ANF 87 (187)
T ss_pred HHHHHHHHHHHHHHHHhcCC---------CccEEEEEecCCceEE-----EECCCCCHHHHHHHHHhCCCCC-c---chH
Confidence 345556777776 5554433 3689999999855543 4678999999999999999642 2 578
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCCCCc-cEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhh
Q 003455 84 AEGLSEALMMFSVAPNGSQNQQNVDGQ-RHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQ 162 (818)
Q Consensus 84 aEGLa~AL~~~~~~~~~~~~~~~~~~q-khCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~ 162 (818)
.+||..|+..|.- + ....+ +..|++..|+=-. .-.+.+.+|+.+.+
T Consensus 88 ~~AL~~A~~~L~~------~--~~~~~~~rivi~v~S~~~~-------------------------d~~~i~~~~~~lkk 134 (187)
T cd01452 88 ITGIQIAQLALKH------R--QNKNQKQRIVAFVGSPIEE-------------------------DEKDLVKLAKRLKK 134 (187)
T ss_pred HHHHHHHHHHHhc------C--CCcCCcceEEEEEecCCcC-------------------------CHHHHHHHHHHHHH
Confidence 8999999988851 1 11222 2444444443111 11357789999999
Q ss_pred cCceEEEeCC----CcchHHHHHHHHhcC
Q 003455 163 CSVSLSVICP----KQLPKLTAIYNAAKR 187 (818)
Q Consensus 163 ~~I~lSiIsP----rklp~L~~lf~~a~~ 187 (818)
+||.++||+= ...++|+.+++....
T Consensus 135 ~~I~v~vI~~G~~~~~~~~l~~~~~~~~~ 163 (187)
T cd01452 135 NNVSVDIINFGEIDDNTEKLTAFIDAVNG 163 (187)
T ss_pred cCCeEEEEEeCCCCCCHHHHHHHHHHhcC
Confidence 9999999985 357889999988743
No 3
>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=97.79 E-value=0.00066 Score=68.36 Aligned_cols=130 Identities=10% Similarity=0.160 Sum_probs=94.4
Q ss_pred hhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCC---CCHHHHHHHhccccCCCCCCC
Q 003455 3 IYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWT---KDVDIFLHWLSTIPFAGGGFN 79 (818)
Q Consensus 3 ~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T---~~~~~fl~wL~~i~f~GGG~~ 79 (818)
..|+..|+++..+++.|... ...+.....+.+|||+|.+... ..+.|+ .|...++..|++|++.|||
T Consensus 18 ~~~~~~k~~~~~~~~~l~~~--~~~~i~~~~~rvglv~fs~~~~------~~~~l~~~~~~~~~l~~~i~~l~~~gg~-- 87 (186)
T cd01480 18 QNFDITKNFVKRVAERFLKD--YYRKDPAGSWRVGVVQYSDQQE------VEAGFLRDIRNYTSLKEAVDNLEYIGGG-- 87 (186)
T ss_pred hhHHHHHHHHHHHHHHHhhh--hccCCCCCceEEEEEEecCCce------eeEecccccCCHHHHHHHHHhCccCCCC--
Confidence 56788888888888888431 0001122358999999996532 234555 7899999999999998876
Q ss_pred hhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHH
Q 003455 80 DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKS 159 (818)
Q Consensus 80 ~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~ 159 (818)
..+.+||..|+..+.. ..+....|+.||++.-.+..... .+.+..++.
T Consensus 88 -T~~~~AL~~a~~~l~~-------~~~~~~~~~iillTDG~~~~~~~------------------------~~~~~~~~~ 135 (186)
T cd01480 88 -TFTDCALKYATEQLLE-------GSHQKENKFLLVITDGHSDGSPD------------------------GGIEKAVNE 135 (186)
T ss_pred -ccHHHHHHHHHHHHhc-------cCCCCCceEEEEEeCCCcCCCcc------------------------hhHHHHHHH
Confidence 6889999999987741 12356789999998876633211 256778888
Q ss_pred HhhcCceEEEeCCCc
Q 003455 160 FVQCSVSLSVICPKQ 174 (818)
Q Consensus 160 ~~~~~I~lSiIsPrk 174 (818)
+.+.+|.+..|.-..
T Consensus 136 ~~~~gi~i~~vgig~ 150 (186)
T cd01480 136 ADHLGIKIFFVAVGS 150 (186)
T ss_pred HHHCCCEEEEEecCc
Confidence 999999999998865
No 4
>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=97.66 E-value=0.0019 Score=63.56 Aligned_cols=121 Identities=14% Similarity=0.200 Sum_probs=86.2
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhH
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAI 83 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~ai 83 (818)
-|+..+++|..+++.|.-+ ...+++|||+|.+.. ...+ .+.-+.+..+++..|++|.+.||+ ..+
T Consensus 17 ~~~~~k~~~~~l~~~~~~~--------~~~~rvgli~fs~~~---~~~~-~l~~~~~~~~l~~~l~~~~~~~g~---T~~ 81 (164)
T cd01482 17 NFNLVRSFLSSVVEAFEIG--------PDGVQVGLVQYSDDP---RTEF-DLNAYTSKEDVLAAIKNLPYKGGN---TRT 81 (164)
T ss_pred hHHHHHHHHHHHHhheeeC--------CCceEEEEEEECCCe---eEEE-ecCCCCCHHHHHHHHHhCcCCCCC---ChH
Confidence 5677788888888888321 236899999999974 1111 122346789999999999999886 368
Q ss_pred HHHHHHHHh-hhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhh
Q 003455 84 AEGLSEALM-MFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQ 162 (818)
Q Consensus 84 aEGLa~AL~-~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~ 162 (818)
.+||-.|++ +|. .. ...+....|.+||++.-.|.. +++.+|+.+.+
T Consensus 82 ~~aL~~a~~~~~~-~~----~~~r~~~~k~iillTDG~~~~----------------------------~~~~~a~~lk~ 128 (164)
T cd01482 82 GKALTHVREKNFT-PD----AGARPGVPKVVILITDGKSQD----------------------------DVELPARVLRN 128 (164)
T ss_pred HHHHHHHHHHhcc-cc----cCCCCCCCEEEEEEcCCCCCc----------------------------hHHHHHHHHHH
Confidence 999998886 443 11 112355678888887765321 55678899999
Q ss_pred cCceEEEeCC
Q 003455 163 CSVSLSVICP 172 (818)
Q Consensus 163 ~~I~lSiIsP 172 (818)
.+|.+.+|.=
T Consensus 129 ~gi~i~~ig~ 138 (164)
T cd01482 129 LGVNVFAVGV 138 (164)
T ss_pred CCCEEEEEec
Confidence 9999999964
No 5
>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=97.58 E-value=0.0015 Score=62.05 Aligned_cols=126 Identities=12% Similarity=0.126 Sum_probs=92.6
Q ss_pred Cch-hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCC--CHHHHHHHhccccCCCCC
Q 003455 1 MCI-YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTK--DVDIFLHWLSTIPFAGGG 77 (818)
Q Consensus 1 m~~-Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~--~~~~fl~wL~~i~f~GGG 77 (818)
|.. +|+.+++.|..+++.|...+ ...+++||+|++.. ...+.|+. +..+++.+|+++.+.+|
T Consensus 13 m~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~li~f~~~~------~~~~~~~~~~~~~~~~~~i~~~~~~~~- 77 (161)
T cd01450 13 VGPENFEKVKDFIEKLVEKLDIGP--------DKTRVGLVQYSDDV------RVEFSLNDYKSKDDLLKAVKNLKYLGG- 77 (161)
T ss_pred cCHHHHHHHHHHHHHHHHheeeCC--------CceEEEEEEEcCCc------eEEEECCCCCCHHHHHHHHHhcccCCC-
Confidence 444 67888888888888886422 35899999999842 12344444 48999999999998877
Q ss_pred CChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHH
Q 003455 78 FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVA 157 (818)
Q Consensus 78 ~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la 157 (818)
+...+.|||..|+..+..... .+....|+.|||....+.... +.++++
T Consensus 78 -~~t~~~~al~~a~~~~~~~~~-----~~~~~~~~iiliTDG~~~~~~--------------------------~~~~~~ 125 (161)
T cd01450 78 -GGTNTGKALQYALEQLFSESN-----ARENVPKVIIVLTDGRSDDGG--------------------------DPKEAA 125 (161)
T ss_pred -CCccHHHHHHHHHHHhccccc-----ccCCCCeEEEEECCCCCCCCc--------------------------chHHHH
Confidence 457889999999987751110 235677899999888664411 467888
Q ss_pred HHHhhcCceEEEeCCC
Q 003455 158 KSFVQCSVSLSVICPK 173 (818)
Q Consensus 158 ~~~~~~~I~lSiIsPr 173 (818)
+.+.+++|.+.+|+=.
T Consensus 126 ~~~~~~~v~v~~i~~g 141 (161)
T cd01450 126 AKLKDEGIKVFVVGVG 141 (161)
T ss_pred HHHHHCCCEEEEEecc
Confidence 9999999999988654
No 6
>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=97.43 E-value=0.0029 Score=63.34 Aligned_cols=124 Identities=10% Similarity=0.044 Sum_probs=88.6
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhH
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAI 83 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~ai 83 (818)
.|+..++++..+++.|.-++ ..+.+|||+|.+.. .-.+. +.-..+...++..++.|++.||+ ..+
T Consensus 17 ~f~~~k~fi~~~i~~l~~~~--------~~~rvgvv~fs~~~-~~~~~---l~~~~~~~~~~~~i~~~~~~~g~---T~~ 81 (177)
T cd01469 17 DFQKVKNFLSTVMKKLDIGP--------TKTQFGLVQYSESF-RTEFT---LNEYRTKEEPLSLVKHISQLLGL---TNT 81 (177)
T ss_pred HHHHHHHHHHHHHHHcCcCC--------CCcEEEEEEECCce-eEEEe---cCccCCHHHHHHHHHhCccCCCC---ccH
Confidence 68888999999999996432 35899999999873 11111 22234677899999999998887 788
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhc
Q 003455 84 AEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQC 163 (818)
Q Consensus 84 aEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~ 163 (818)
.+||..|+..+-. . .+..+....|..||+++-.++.-+ +.+.+++.+.+.
T Consensus 82 ~~AL~~a~~~l~~-~---~~g~R~~~~kv~illTDG~~~~~~--------------------------~~~~~~~~~k~~ 131 (177)
T cd01469 82 ATAIQYVVTELFS-E---SNGARKDATKVLVVITDGESHDDP--------------------------LLKDVIPQAERE 131 (177)
T ss_pred HHHHHHHHHHhcC-c---ccCCCCCCCeEEEEEeCCCCCCcc--------------------------ccHHHHHHHHHC
Confidence 9999999975420 1 112345688999999887766422 225678888889
Q ss_pred CceEEEeCC
Q 003455 164 SVSLSVICP 172 (818)
Q Consensus 164 ~I~lSiIsP 172 (818)
||.+-.|.=
T Consensus 132 gv~v~~Vgv 140 (177)
T cd01469 132 GIIRYAIGV 140 (177)
T ss_pred CcEEEEEEe
Confidence 998777653
No 7
>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=97.28 E-value=0.0095 Score=59.45 Aligned_cols=126 Identities=12% Similarity=0.151 Sum_probs=91.1
Q ss_pred hhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhh
Q 003455 3 IYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAA 82 (818)
Q Consensus 3 ~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~a 82 (818)
..|+..|+||..+++.|.-++ ..+.+|||+|.+.. ..++.+ .-..+..+++..|++|+|.||+. ..
T Consensus 16 ~~f~~~k~fi~~lv~~f~i~~--------~~~rVgvv~ys~~~-~~~~~l---~~~~~~~~l~~~i~~i~~~~g~~--t~ 81 (165)
T cd01481 16 GNFPAIRDFIERIVQSLDVGP--------DKIRVAVVQFSDTP-RPEFYL---NTHSTKADVLGAVRRLRLRGGSQ--LN 81 (165)
T ss_pred HHHHHHHHHHHHHHhhccCCC--------CCcEEEEEEecCCe-eEEEec---cccCCHHHHHHHHHhcccCCCCc--cc
Confidence 568999999999999996533 36999999998754 333333 23347899999999999998853 34
Q ss_pred HHHHHHHHHh-hhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHh
Q 003455 83 IAEGLSEALM-MFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFV 161 (818)
Q Consensus 83 iaEGLa~AL~-~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~ 161 (818)
+++||..|.. +|. .... ...+..+.|..|||++-... .+.+..|+.+.
T Consensus 82 t~~AL~~~~~~~f~--~~~g-~R~~~~~~kv~vviTdG~s~----------------------------d~~~~~a~~lr 130 (165)
T cd01481 82 TGSALDYVVKNLFT--KSAG-SRIEEGVPQFLVLITGGKSQ----------------------------DDVERPAVALK 130 (165)
T ss_pred HHHHHHHHHHhhcC--cccc-CCccCCCCeEEEEEeCCCCc----------------------------chHHHHHHHHH
Confidence 6888988874 664 1111 11235678899999876432 14677899999
Q ss_pred hcCceEEEeCCC
Q 003455 162 QCSVSLSVICPK 173 (818)
Q Consensus 162 ~~~I~lSiIsPr 173 (818)
+.||.+=.|.-.
T Consensus 131 ~~gv~i~~vG~~ 142 (165)
T cd01481 131 RAGIVPFAIGAR 142 (165)
T ss_pred HCCcEEEEEeCC
Confidence 999998887665
No 8
>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=97.25 E-value=0.012 Score=57.66 Aligned_cols=136 Identities=13% Similarity=0.143 Sum_probs=90.9
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhH
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAI 83 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~ai 83 (818)
.|+..++++..+++-|... ....++|||+|.+.... +..+....|...++.-|+++++.||+ ..+
T Consensus 17 ~~~~~k~~~~~~~~~l~~~--------~~~~~~giv~Fs~~~~~----~~~~~~~~~~~~~~~~l~~l~~~~g~---T~~ 81 (164)
T cd01472 17 NFNLVKDFVKRVVERLDIG--------PDGVRVGVVQYSDDPRT----EFYLNTYRSKDDVLEAVKNLRYIGGG---TNT 81 (164)
T ss_pred HHHHHHHHHHHHHhhcccC--------CCCeEEEEEEEcCceeE----EEecCCCCCHHHHHHHHHhCcCCCCC---chH
Confidence 5677788888888888421 13579999999975322 22223348899999999999988665 468
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhc
Q 003455 84 AEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQC 163 (818)
Q Consensus 84 aEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~ 163 (818)
++||..|++.+.... +..+....|+.|||+.--|.. +.+..+..+.+.
T Consensus 82 ~~al~~a~~~l~~~~----~~~~~~~~~~iiliTDG~~~~----------------------------~~~~~~~~l~~~ 129 (164)
T cd01472 82 GKALKYVRENLFTEA----SGSREGVPKVLVVITDGKSQD----------------------------DVEEPAVELKQA 129 (164)
T ss_pred HHHHHHHHHHhCCcc----cCCCCCCCEEEEEEcCCCCCc----------------------------hHHHHHHHHHHC
Confidence 999999998774110 112345678889998773211 223445667788
Q ss_pred CceEEEeCCC--cchHHHHHHHHhc
Q 003455 164 SVSLSVICPK--QLPKLTAIYNAAK 186 (818)
Q Consensus 164 ~I~lSiIsPr--klp~L~~lf~~a~ 186 (818)
+|.+-.|.-. ....|+.|-+..+
T Consensus 130 gv~i~~ig~g~~~~~~L~~ia~~~~ 154 (164)
T cd01472 130 GIEVFAVGVKNADEEELKQIASDPK 154 (164)
T ss_pred CCEEEEEECCcCCHHHHHHHHCCCc
Confidence 9999988653 3455666655443
No 9
>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=97.19 E-value=0.0076 Score=61.18 Aligned_cols=115 Identities=15% Similarity=0.168 Sum_probs=79.4
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
..++|||+|++..+|- ...+|.|...|+..|+.+...+|| .++.+||..|+..|. .. .....|+
T Consensus 46 ~~~vglv~f~~~~a~~-----~~PlT~D~~~~~~~L~~~~~~~G~---t~l~~aL~~A~~~l~--~~------~~~~~~~ 109 (183)
T cd01453 46 ISQLGIISIKNGRAEK-----LTDLTGNPRKHIQALKTARECSGE---PSLQNGLEMALESLK--HM------PSHGSRE 109 (183)
T ss_pred cccEEEEEEcCCccEE-----EECCCCCHHHHHHHhhcccCCCCc---hhHHHHHHHHHHHHh--cC------CccCceE
Confidence 3689999997666643 566899999999999988222333 689999999999985 10 1122354
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC-cchHHHHHHHHhcCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK-QLPKLTAIYNAAKRN 188 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr-klp~L~~lf~~a~~~ 188 (818)
.|||..+. .. +...+.+++++++.+.+|.+++|+=- ....|++|-++.++.
T Consensus 110 iiil~sd~-~~------------------------~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~~tgG~ 161 (183)
T cd01453 110 VLIIFSSL-ST------------------------CDPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICKATNGT 161 (183)
T ss_pred EEEEEcCC-Cc------------------------CChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHHHhCCe
Confidence 55444321 00 00014567899999999999999753 456799999998775
No 10
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=97.10 E-value=0.0033 Score=60.11 Aligned_cols=129 Identities=16% Similarity=0.123 Sum_probs=88.3
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHH
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIA 84 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aia 84 (818)
++..++.+.-+++.+. ...++||.|.+.. -..+.||.|...|+.+|+++...+.......+.
T Consensus 22 ~~~~~~~~~~~~~~~~------------~~~v~l~~f~~~~------~~~~~~t~~~~~~~~~l~~~~~~~~~~~~t~~~ 83 (172)
T PF13519_consen 22 IDQAKDALNELLANLP------------GDRVGLVSFSDSS------RTLSPLTSDKDELKNALNKLSPQGMPGGGTNLY 83 (172)
T ss_dssp HHHHHHHHHHHHHHHT------------TSEEEEEEESTSC------EEEEEEESSHHHHHHHHHTHHHHG--SSS--HH
T ss_pred HHHHHHHHHHHHHHCC------------CCEEEEEEecccc------cccccccccHHHHHHHhhcccccccCccCCcHH
Confidence 5666667766776651 2499999999843 235678999999999999999865445557889
Q ss_pred HHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcC
Q 003455 85 EGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCS 164 (818)
Q Consensus 85 EGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~ 164 (818)
+||.+|+.+|+-. ....|+.|||+.-.|. .+..++++.+.+++
T Consensus 84 ~al~~a~~~~~~~---------~~~~~~iv~iTDG~~~----------------------------~~~~~~~~~~~~~~ 126 (172)
T PF13519_consen 84 DALQEAAKMLASS---------DNRRRAIVLITDGEDN----------------------------SSDIEAAKALKQQG 126 (172)
T ss_dssp HHHHHHHHHHHC----------SSEEEEEEEEES-TTH----------------------------CHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHhC---------CCCceEEEEecCCCCC----------------------------cchhHHHHHHHHcC
Confidence 9999999999611 1466777888775222 13334888889999
Q ss_pred ceEEEeCCCc----chHHHHHHHHhcCC
Q 003455 165 VSLSVICPKQ----LPKLTAIYNAAKRN 188 (818)
Q Consensus 165 I~lSiIsPrk----lp~L~~lf~~a~~~ 188 (818)
|.+-+|.=.. ...|+.|.+..++.
T Consensus 127 i~i~~v~~~~~~~~~~~l~~la~~tgG~ 154 (172)
T PF13519_consen 127 ITIYTVGIGSDSDANEFLQRLAEATGGR 154 (172)
T ss_dssp EEEEEEEES-TT-EHHHHHHHHHHTEEE
T ss_pred CeEEEEEECCCccHHHHHHHHHHhcCCE
Confidence 9988775432 23588888776553
No 11
>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=96.91 E-value=0.015 Score=60.38 Aligned_cols=124 Identities=14% Similarity=0.122 Sum_probs=85.8
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhH
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAI 83 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~ai 83 (818)
-|+..|++|..+++.|.-++ ..+.+|||+|.+-.- ..+ ...+..+..++...|++|++.||| ..+
T Consensus 19 ~~~~~k~f~~~l~~~l~~~~--------~~~rvglv~fs~~~~-~~~---~l~~~~~~~~l~~~i~~i~~~~~~---t~t 83 (224)
T cd01475 19 NFELVKQFLNQIIDSLDVGP--------DATRVGLVQYSSTVK-QEF---PLGRFKSKADLKRAVRRMEYLETG---TMT 83 (224)
T ss_pred HHHHHHHHHHHHHHhcccCC--------CccEEEEEEecCcee-EEe---cccccCCHHHHHHHHHhCcCCCCC---ChH
Confidence 58888899999999995422 258999999998631 111 233346788999999999999887 245
Q ss_pred HHHHHHHHh-hhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhh
Q 003455 84 AEGLSEALM-MFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQ 162 (818)
Q Consensus 84 aEGLa~AL~-~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~ 162 (818)
.+||..|+. +|. .....|.......|..||+++-.+.. +.+.+|+.+.+
T Consensus 84 g~AL~~a~~~~~~--~~~g~r~~~~~~~kvvillTDG~s~~----------------------------~~~~~a~~lk~ 133 (224)
T cd01475 84 GLAIQYAMNNAFS--EAEGARPGSERVPRVGIVVTDGRPQD----------------------------DVSEVAAKARA 133 (224)
T ss_pred HHHHHHHHHHhCC--hhcCCCCCCCCCCeEEEEEcCCCCcc----------------------------cHHHHHHHHHH
Confidence 678888885 453 11222323334578889987765321 45677888888
Q ss_pred cCceEEEeCC
Q 003455 163 CSVSLSVICP 172 (818)
Q Consensus 163 ~~I~lSiIsP 172 (818)
.+|.+-.|.=
T Consensus 134 ~gv~i~~Vgv 143 (224)
T cd01475 134 LGIEMFAVGV 143 (224)
T ss_pred CCcEEEEEeC
Confidence 8998887754
No 12
>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=96.50 E-value=0.096 Score=50.90 Aligned_cols=126 Identities=15% Similarity=0.201 Sum_probs=82.8
Q ss_pred CchhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCc-eeeccCCCCHHHHHHHhccccCCCCCCC
Q 003455 1 MCIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACL-VQRSGWTKDVDIFLHWLSTIPFAGGGFN 79 (818)
Q Consensus 1 m~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~-v~~~g~T~~~~~fl~wL~~i~f~GGG~~ 79 (818)
|...|+..++++.-+++.|..+ ....++|||+|.+.. ... .-...++.+...++.-|+.|++.||+
T Consensus 13 m~~~~~~~~~~~~~~~~~l~~~--------~~~~~v~lv~f~~~~---~~~~~~~l~~~~~~~~l~~~i~~l~~~gg~-- 79 (163)
T cd01476 13 VRGKFEKYKKYIERIVEGLEIG--------PTATRVALITYSGRG---RQRVRFNLPKHNDGEELLEKVDNLRFIGGT-- 79 (163)
T ss_pred hhhhHHHHHHHHHHHHHhcCCC--------CCCcEEEEEEEcCCC---ceEEEecCCCCCCHHHHHHHHHhCccCCCC--
Confidence 3446777888888888888532 235899999997741 111 11245567889999999999987764
Q ss_pred hhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHH
Q 003455 80 DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKS 159 (818)
Q Consensus 80 ~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~ 159 (818)
..+++||..|+.++. .... .+....|..||++.=.+.. +....++.
T Consensus 80 -T~l~~aL~~a~~~l~--~~~~---~r~~~~~~villTDG~~~~----------------------------~~~~~~~~ 125 (163)
T cd01476 80 -TATGAAIEVALQQLD--PSEG---RREGIPKVVVVLTDGRSHD----------------------------DPEKQARI 125 (163)
T ss_pred -ccHHHHHHHHHHHhc--cccC---CCCCCCeEEEEECCCCCCC----------------------------chHHHHHH
Confidence 478999999998774 1111 1223457788887632211 23345666
Q ss_pred Hhh-cCceEEEeCCC
Q 003455 160 FVQ-CSVSLSVICPK 173 (818)
Q Consensus 160 ~~~-~~I~lSiIsPr 173 (818)
+.+ .+|.+-.|.-.
T Consensus 126 l~~~~~v~v~~vg~g 140 (163)
T cd01476 126 LRAVPNIETFAVGTG 140 (163)
T ss_pred HhhcCCCEEEEEECC
Confidence 777 77877777653
No 13
>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=96.46 E-value=0.036 Score=55.32 Aligned_cols=124 Identities=15% Similarity=0.174 Sum_probs=80.2
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceee-ccCCCCHHHHHHHhccc---cCCCCCCCh
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQR-SGWTKDVDIFLHWLSTI---PFAGGGFND 80 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~-~g~T~~~~~fl~wL~~i---~f~GGG~~~ 80 (818)
|+..++++..+++.|.-. .+.+.++||+|.+..- ..+.. ..++.+...++.++++| .+.|||
T Consensus 19 ~~~~k~~~~~~~~~~~~~--------~~~~~vglv~Fs~~~~---~~~~l~~~~~~~~~~~~~~i~~l~~~~~~~G~--- 84 (186)
T cd01471 19 VTHVVPFLHTFVQNLNIS--------PDEINLYLVTFSTNAK---ELIRLSSPNSTNKDLALNAIRALLSLYYPNGS--- 84 (186)
T ss_pred HHHHHHHHHHHHHhcccC--------CCceEEEEEEecCCce---EEEECCCccccchHHHHHHHHHHHhCcCCCCC---
Confidence 677788888888888532 1358999999986431 11111 12344666755555554 455554
Q ss_pred hhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHH
Q 003455 81 AAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSF 160 (818)
Q Consensus 81 ~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~ 160 (818)
..+++||..|...+... +..+.+..|++||++.-.|-..+ .+...|+.+
T Consensus 85 T~l~~aL~~a~~~l~~~-----~~~r~~~~~~villTDG~~~~~~--------------------------~~~~~a~~l 133 (186)
T cd01471 85 TNTTSALLVVEKHLFDT-----RGNRENAPQLVIIMTDGIPDSKF--------------------------RTLKEARKL 133 (186)
T ss_pred ccHHHHHHHHHHHhhcc-----CCCcccCceEEEEEccCCCCCCc--------------------------chhHHHHHH
Confidence 45899999999777411 12345678999999987653211 223567888
Q ss_pred hhcCceEEEeCCC
Q 003455 161 VQCSVSLSVICPK 173 (818)
Q Consensus 161 ~~~~I~lSiIsPr 173 (818)
.+.+|.+.+|.=.
T Consensus 134 ~~~gv~v~~igiG 146 (186)
T cd01471 134 RERGVIIAVLGVG 146 (186)
T ss_pred HHCCCEEEEEEee
Confidence 8999999998653
No 14
>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=96.10 E-value=0.072 Score=54.53 Aligned_cols=141 Identities=13% Similarity=0.154 Sum_probs=92.7
Q ss_pred hH-HHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccC--CCCCCChh
Q 003455 5 FY-AYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPF--AGGGFNDA 81 (818)
Q Consensus 5 ~~-~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f--~GGG~~~~ 81 (818)
|+ ..++++..+++.|.-++ ..+.+|||+|.+.. +-.+..... -..+-.+++..+++|.. ..||. .
T Consensus 18 f~~~~~~f~~~lv~~l~i~~--------~~~rvgvv~fs~~~-~~~~~~~~~-~~~~~~~l~~~i~~l~~~~~~~g~--T 85 (192)
T cd01473 18 WRKDVIPFTEKIINNLNISK--------DKVHVGILLFAEKN-RDVVPFSDE-ERYDKNELLKKINDLKNSYRSGGE--T 85 (192)
T ss_pred HHHHHHHHHHHHHHhCccCC--------CccEEEEEEecCCc-eeEEecCcc-cccCHHHHHHHHHHHHhccCCCCc--C
Confidence 66 46789999999996543 36899999999866 222222111 11345678888888852 32332 3
Q ss_pred hHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHh
Q 003455 82 AIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFV 161 (818)
Q Consensus 82 aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~ 161 (818)
.+++||..|++.|. ... ..+.+..|..||++....+.-- ..++.+.|+.+.
T Consensus 86 ~~~~AL~~a~~~~~--~~~---~~r~~~~kv~IllTDG~s~~~~------------------------~~~~~~~a~~lk 136 (192)
T cd01473 86 YIVEALKYGLKNYT--KHG---NRRKDAPKVTMLFTDGNDTSAS------------------------KKELQDISLLYK 136 (192)
T ss_pred cHHHHHHHHHHHhc--cCC---CCcccCCeEEEEEecCCCCCcc------------------------hhhHHHHHHHHH
Confidence 58899999998763 111 1234568999999987665410 025678899999
Q ss_pred hcCceEEEeCCCcchHHHHHHHHhcC
Q 003455 162 QCSVSLSVICPKQLPKLTAIYNAAKR 187 (818)
Q Consensus 162 ~~~I~lSiIsPrklp~L~~lf~~a~~ 187 (818)
+.||.+-+|-=.. .....|..-|+.
T Consensus 137 ~~gV~i~~vGiG~-~~~~el~~ia~~ 161 (192)
T cd01473 137 EENVKLLVVGVGA-ASENKLKLLAGC 161 (192)
T ss_pred HCCCEEEEEEecc-ccHHHHHHhcCC
Confidence 9999999987654 345666666644
No 15
>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=95.66 E-value=0.18 Score=50.64 Aligned_cols=123 Identities=16% Similarity=0.110 Sum_probs=76.0
Q ss_pred CchhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCC--CCCC
Q 003455 1 MCIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFA--GGGF 78 (818)
Q Consensus 1 m~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~--GGG~ 78 (818)
|+..|....+++..+++.|.. ..+++|||+|.+.. -..+.||.+...+.+.|+.|... |||
T Consensus 17 m~~~~~~~~~~~~~l~~~~~~----------~~~rvglv~Fs~~~------~~~~~l~~~~~~~~~~l~~l~~~~~~g~- 79 (185)
T cd01474 17 VAANWIEIYDFVEQLVDRFNS----------PGLRFSFITFSTRA------TKILPLTDDSSAIIKGLEVLKKVTPSGQ- 79 (185)
T ss_pred hhhhHHHHHHHHHHHHHHcCC----------CCcEEEEEEecCCc------eEEEeccccHHHHHHHHHHHhccCCCCC-
Confidence 444555555788888888842 23899999998762 22466777776666665544432 333
Q ss_pred ChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHH
Q 003455 79 NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAK 158 (818)
Q Consensus 79 ~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~ 158 (818)
.++++||..|+..+.. .... .+.. .|++|||+.-.+..-.. .+....|+
T Consensus 80 --T~~~~aL~~a~~~l~~-~~~~---~r~~-~~~villTDG~~~~~~~------------------------~~~~~~a~ 128 (185)
T cd01474 80 --TYIHEGLENANEQIFN-RNGG---GRET-VSVIIALTDGQLLLNGH------------------------KYPEHEAK 128 (185)
T ss_pred --CcHHHHHHHHHHHHHh-hccC---CCCC-CeEEEEEcCCCcCCCCC------------------------cchHHHHH
Confidence 6789999999965421 1111 1112 28899998765532110 13445677
Q ss_pred HHhhcCceEEEeC
Q 003455 159 SFVQCSVSLSVIC 171 (818)
Q Consensus 159 ~~~~~~I~lSiIs 171 (818)
.+.+.+|.+-.|.
T Consensus 129 ~l~~~gv~i~~vg 141 (185)
T cd01474 129 LSRKLGAIVYCVG 141 (185)
T ss_pred HHHHcCCEEEEEe
Confidence 7888889877765
No 16
>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=95.61 E-value=0.13 Score=53.21 Aligned_cols=112 Identities=17% Similarity=0.163 Sum_probs=76.2
Q ss_pred cceEEEEEEccCC-----CCCcCceeeccCCCCHHHHHHHhccccCC------CCC-CChhhHHHHHHHHHhhhccCCCC
Q 003455 33 NVELSLVTFNTHG-----SYCACLVQRSGWTKDVDIFLHWLSTIPFA------GGG-FNDAAIAEGLSEALMMFSVAPNG 100 (818)
Q Consensus 33 ~~~yaLVvf~~~~-----~~~~~~v~~~g~T~~~~~fl~wL~~i~f~------GGG-~~~~aiaEGLa~AL~~~~~~~~~ 100 (818)
.-+.|||+|++.. .|...+|-+---|.|...+..+++-++-. +.| .....+.++|..|+.+|.. .
T Consensus 46 ~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~---~ 122 (218)
T cd01458 46 KDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSK---G 122 (218)
T ss_pred CCeEEEEEEcccCCCCcCCCCceEEeecCCCCCHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHh---c
Confidence 4788999999975 35444444434477888887777765432 112 3458999999999999961 1
Q ss_pred CCCCCCCCCccEEEEeecC-CCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCC
Q 003455 101 SQNQQNVDGQRHCILVAAS-NPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICP 172 (818)
Q Consensus 101 ~~~~~~~~~qkhCILi~nS-pP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsP 172 (818)
......|+.||+++- .|+.-- . .. ..+++.+|+.+.+++|.|.+|.-
T Consensus 123 ----~~~~~~k~IvL~TDg~~p~~~~---------~----------~~--~~~~~~~a~~l~~~gI~i~~i~i 170 (218)
T cd01458 123 ----KKKKSHKRIFLFTNNDDPHGGD---------S----------IK--DSQAAVKAEDLKDKGIELELFPL 170 (218)
T ss_pred ----cccccccEEEEECCCCCCCCCC---------H----------HH--HHHHHHHHHHHHhCCcEEEEEec
Confidence 123457888999885 455400 0 00 12567899999999999999975
No 17
>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=95.58 E-value=0.37 Score=44.65 Aligned_cols=123 Identities=18% Similarity=0.188 Sum_probs=81.7
Q ss_pred chhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCC--CHHHHHHHhccccC-CCCCC
Q 003455 2 CIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTK--DVDIFLHWLSTIPF-AGGGF 78 (818)
Q Consensus 2 ~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~--~~~~fl~wL~~i~f-~GGG~ 78 (818)
..||+..++++.-+++.+... .....++||.|.+. ......++. +.+.+..-++.+.. .+|+
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~~--------~~~~~i~v~~f~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 79 (161)
T cd00198 15 GEKLDKAKEALKALVSSLSAS--------PPGDRVGLVTFGSN------ARVVLPLTTDTDKADLLEAIDALKKGLGGG- 79 (161)
T ss_pred cchHHHHHHHHHHHHHhcccC--------CCCcEEEEEEecCc------cceeecccccCCHHHHHHHHHhcccCCCCC-
Confidence 457788888888888888532 23579999999983 222344444 77888888888877 3333
Q ss_pred ChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHH
Q 003455 79 NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAK 158 (818)
Q Consensus 79 ~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~ 158 (818)
..+.++|..|+..+.... .....|..|||.+-.+..-. .+.+.+.+
T Consensus 80 --t~~~~al~~~~~~~~~~~-------~~~~~~~lvvitDg~~~~~~-------------------------~~~~~~~~ 125 (161)
T cd00198 80 --TNIGAALRLALELLKSAK-------RPNARRVIILLTDGEPNDGP-------------------------ELLAEAAR 125 (161)
T ss_pred --ccHHHHHHHHHHHhcccC-------CCCCceEEEEEeCCCCCCCc-------------------------chhHHHHH
Confidence 445688888888774110 23456667777765443311 25567788
Q ss_pred HHhhcCceEEEeCCC
Q 003455 159 SFVQCSVSLSVICPK 173 (818)
Q Consensus 159 ~~~~~~I~lSiIsPr 173 (818)
.+.+.+|.+.+|.=.
T Consensus 126 ~~~~~~v~v~~v~~g 140 (161)
T cd00198 126 ELRKLGITVYTIGIG 140 (161)
T ss_pred HHHHcCCEEEEEEcC
Confidence 888889999888554
No 18
>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=95.42 E-value=0.14 Score=52.73 Aligned_cols=131 Identities=11% Similarity=0.153 Sum_probs=82.7
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhcc-c-cCCCCCCChhh
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLST-I-PFAGGGFNDAA 82 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~-i-~f~GGG~~~~a 82 (818)
|+..|+.|..++..|..+.. ....-..+..|||+|.+. .+.++.++ -..+..+|+..|+. + ....|| ...
T Consensus 37 f~~~k~fi~~~~~~~~~~~~--~~~~~~~~rVGlV~fs~~-a~~~~~L~---d~~~~~~~~~ai~~~~~~~~~~g--gT~ 108 (193)
T cd01477 37 LWQVRATISSLFGSSSQIGT--DYDDPRSTRVGLVTYNSN-ATVVADLN---DLQSFDDLYSQIQGSLTDVSSTN--ASY 108 (193)
T ss_pred HHHHHHHHHHHHhhcccccc--ccCCCCCcEEEEEEccCc-eEEEEecc---cccCHHHHHHHHHHHhhccccCC--cch
Confidence 56667778787887753110 000123589999999884 34444443 23477888888885 2 232223 246
Q ss_pred HHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhh
Q 003455 83 IAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQ 162 (818)
Q Consensus 83 iaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~ 162 (818)
+..||..|+++|... .+..+....|+.|||+.-.- .... .+.+.+|+.+.+
T Consensus 109 ig~aL~~A~~~l~~~----~~~~R~~v~kvvIllTDg~~------------------------~~~~-~~~~~~a~~l~~ 159 (193)
T cd01477 109 LDTGLQAAEQMLAAG----KRTSRENYKKVVIVFASDYN------------------------DEGS-NDPRPIAARLKS 159 (193)
T ss_pred HHHHHHHHHHHHHhh----hccccCCCCeEEEEEecCcc------------------------CCCC-CCHHHHHHHHHH
Confidence 889999999988521 12234568999999985310 0011 256788999999
Q ss_pred cCceEEEeCC
Q 003455 163 CSVSLSVICP 172 (818)
Q Consensus 163 ~~I~lSiIsP 172 (818)
.||.+..|.=
T Consensus 160 ~GI~i~tVGi 169 (193)
T cd01477 160 TGIAIITVAF 169 (193)
T ss_pred CCCEEEEEEe
Confidence 9999999854
No 19
>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=95.34 E-value=0.25 Score=47.73 Aligned_cols=135 Identities=16% Similarity=0.192 Sum_probs=90.3
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHh-ccccCCCCCCChhhH
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWL-STIPFAGGGFNDAAI 83 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL-~~i~f~GGG~~~~ai 83 (818)
|+..+++|..+++.|.. ....+.++||.|.+..- .+-.+.-..+..+++..+ +.+.+.||+-. +
T Consensus 17 ~~~~~~~v~~~i~~~~~--------~~~~~rv~iv~f~~~~~----~~~~~~~~~~~~~~~~~i~~~~~~~~g~t~---~ 81 (178)
T PF00092_consen 17 FEKAKQFVKSIISRLSI--------SNNGTRVGIVTFSDSAR----VLFSLTDYQSKNDLLNAINDSIPSSGGGTN---L 81 (178)
T ss_dssp HHHHHHHHHHHHHHSTB--------STTSEEEEEEEESSSEE----EEEETTSHSSHHHHHHHHHTTGGCCBSSB----H
T ss_pred HHHHHHHHHHHHHhhhc--------cccccccceeeeecccc----cccccccccccccccccccccccccchhhh---H
Confidence 67788999999998842 23468999999998765 222333345688999998 89988887643 8
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhc
Q 003455 84 AEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQC 163 (818)
Q Consensus 84 aEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~ 163 (818)
++||-+|+..|... -...+....|..|||+...+..-+. ..+..+++..+.
T Consensus 82 ~~aL~~a~~~l~~~----~~~~r~~~~~~iiliTDG~~~~~~~-------------------------~~~~~~~~~~~~ 132 (178)
T PF00092_consen 82 GAALKFAREQLFSS----NNGGRPNSPKVIILITDGNSNDSDS-------------------------PSEEAANLKKSN 132 (178)
T ss_dssp HHHHHHHHHHTTSG----GGTTGTTSEEEEEEEESSSSSSHSG-------------------------HHHHHHHHHHHC
T ss_pred HHHHhhhhhccccc----ccccccccccceEEEEeecccCCcc-------------------------hHHHHHHHHHhc
Confidence 99999999887511 1112347788889999988766331 112223333335
Q ss_pred CceEEEeCC--CcchHHHHHHH
Q 003455 164 SVSLSVICP--KQLPKLTAIYN 183 (818)
Q Consensus 164 ~I~lSiIsP--rklp~L~~lf~ 183 (818)
+|.+=.|.. .....|++|..
T Consensus 133 ~i~~~~ig~~~~~~~~l~~la~ 154 (178)
T PF00092_consen 133 GIKVIAIGIDNADNEELRELAS 154 (178)
T ss_dssp TEEEEEEEESCCHHHHHHHHSH
T ss_pred CcEEEEEecCcCCHHHHHHHhC
Confidence 788877777 23555776664
No 20
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=95.27 E-value=0.0099 Score=74.46 Aligned_cols=11 Identities=18% Similarity=0.229 Sum_probs=4.8
Q ss_pred CCeEEEeeccc
Q 003455 202 PHFLVLISENF 212 (818)
Q Consensus 202 p~hlVLl~g~~ 212 (818)
..|++-|+=.|
T Consensus 1730 ~k~~aplsW~w 1740 (2220)
T KOG3598|consen 1730 TKHLAPLSWKW 1740 (2220)
T ss_pred CCCCCCcccee
Confidence 34444444333
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=94.57 E-value=0.63 Score=47.54 Aligned_cols=92 Identities=16% Similarity=0.179 Sum_probs=58.0
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCC----CCc-----Ccee-eccCC-CCHHHHHHHhcccc
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGS----YCA-----CLVQ-RSGWT-KDVDIFLHWLSTIP 72 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~----~~~-----~~v~-~~g~T-~~~~~fl~wL~~i~ 72 (818)
.|+.+|+=+.-+++.+. ....++||+|.+... |-. +... ..+++ .+...+..+|++|.
T Consensus 43 rl~~ak~a~~~~l~~l~-----------~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~i~~i~ 111 (206)
T cd01456 43 RLDNAKAALDETANALP-----------DGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQ 111 (206)
T ss_pred HHHHHHHHHHHHHHhCC-----------CCceEEEEEecCCCCCCccccccccccccccccCCCCcccHHHHHHHHHhhc
Confidence 44555554555555442 246899999998421 111 1111 23433 58899999999999
Q ss_pred CCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCC
Q 003455 73 FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASN 120 (818)
Q Consensus 73 f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSp 120 (818)
+.+|| ..|.+||..|+.++. ....+++|||+.--
T Consensus 112 ~~~G~---T~l~~aL~~a~~~l~-----------~~~~~~iillTDG~ 145 (206)
T cd01456 112 TPTGW---TPLAAALAEAAAYVD-----------PGRVNVVVLITDGE 145 (206)
T ss_pred CCCCc---ChHHHHHHHHHHHhC-----------CCCcceEEEEcCCC
Confidence 55554 578899999999883 11237888887653
No 22
>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=94.57 E-value=0.4 Score=49.85 Aligned_cols=130 Identities=15% Similarity=0.135 Sum_probs=92.1
Q ss_pred hhhHHHH-HhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHH
Q 003455 10 KLSLYFH-RCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLS 88 (818)
Q Consensus 10 ~YI~p~i-e~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa 88 (818)
+|+.-.| |||..+|+ .+.|+|+.++.-+ -..+.++.++.+..+.|+++... ++.++..+-.||.
T Consensus 23 ~~l~~Fv~eff~qNPi---------Sqlgii~~~~~~a-----~~ls~lsgn~~~h~~~L~~~~~~-~~~G~~SLqN~Le 87 (193)
T PF04056_consen 23 KALEEFVREFFDQNPI---------SQLGIIVMRDGRA-----ERLSELSGNPQEHIEALKKLRKL-EPSGEPSLQNGLE 87 (193)
T ss_pred HHHHHHHHHHHhcCCh---------hheeeeeeeccee-----EEeeecCCCHHHHHHHHHHhccC-CCCCChhHHHHHH
Confidence 4444433 56666666 8899999886432 23467888999999999888743 2345567888899
Q ss_pred HHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEE
Q 003455 89 EALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLS 168 (818)
Q Consensus 89 ~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lS 168 (818)
.|...+.-. ..-..|.+|+|..|-=.- ...|....++.|.+.+|.+|
T Consensus 88 ~A~~~L~~~--------p~~~srEIlvi~gSl~t~-------------------------Dp~di~~ti~~l~~~~Irvs 134 (193)
T PF04056_consen 88 MARSSLKHM--------PSHGSREILVIFGSLTTC-------------------------DPGDIHETIESLKKENIRVS 134 (193)
T ss_pred HHHHHHhhC--------ccccceEEEEEEeecccC-------------------------CchhHHHHHHHHHHcCCEEE
Confidence 999877411 123567777776553211 12478899999999999999
Q ss_pred EeCC-CcchHHHHHHHHhcC
Q 003455 169 VICP-KQLPKLTAIYNAAKR 187 (818)
Q Consensus 169 iIsP-rklp~L~~lf~~a~~ 187 (818)
||+= -.+-.+|+|.++.+|
T Consensus 135 vI~laaEv~I~k~i~~~T~G 154 (193)
T PF04056_consen 135 VISLAAEVYICKKICKETGG 154 (193)
T ss_pred EEEEhHHHHHHHHHHHhhCC
Confidence 9976 467789999998876
No 23
>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=94.35 E-value=1.4 Score=42.21 Aligned_cols=137 Identities=18% Similarity=0.211 Sum_probs=88.1
Q ss_pred chhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeecc--CCCCHHHHHHHhccccC-CCCCC
Q 003455 2 CIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSG--WTKDVDIFLHWLSTIPF-AGGGF 78 (818)
Q Consensus 2 ~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g--~T~~~~~fl~wL~~i~f-~GGG~ 78 (818)
..+|+..++++.-+++.+... ....+++||.|.+... .... .+++...+...++++.+ .+|+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~--------~~~~~i~ii~f~~~~~------~~~~~~~~~~~~~~~~~i~~~~~~~~~~- 80 (177)
T smart00327 16 PNRFEKAKEFVLKLVEQLDIG--------PDGDRVGLVTFSDDAT------VLFPLNDSRSKDALLEALASLSYKLGGG- 80 (177)
T ss_pred hHHHHHHHHHHHHHHHhcCCC--------CCCcEEEEEEeCCCce------EEEcccccCCHHHHHHHHHhcCCCCCCC-
Confidence 456777778888888877431 1358999999998321 1233 48999999999999998 3333
Q ss_pred ChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHH
Q 003455 79 NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAK 158 (818)
Q Consensus 79 ~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~ 158 (818)
..+.++|..|+..+. .. . ...+....+..|||..-.+... .+.+.+++
T Consensus 81 --~~~~~al~~~~~~~~--~~-~-~~~~~~~~~~iviitDg~~~~~--------------------------~~~~~~~~ 128 (177)
T smart00327 81 --TNLGAALQYALENLF--SK-S-AGSRRGAPKVLILITDGESNDG--------------------------GDLLKAAK 128 (177)
T ss_pred --chHHHHHHHHHHHhc--Cc-C-CCCCCCCCeEEEEEcCCCCCCC--------------------------ccHHHHHH
Confidence 456677777777663 01 0 0111222555666666555542 36678888
Q ss_pred HHhhcCceEEEeCCCc---chHHHHHHHHh
Q 003455 159 SFVQCSVSLSVICPKQ---LPKLTAIYNAA 185 (818)
Q Consensus 159 ~~~~~~I~lSiIsPrk---lp~L~~lf~~a 185 (818)
.+.+++|.+-+|.--. ...|+.|....
T Consensus 129 ~~~~~~i~i~~i~~~~~~~~~~l~~~~~~~ 158 (177)
T smart00327 129 ELKRSGVKVFVVGVGNDVDEEELKKLASAP 158 (177)
T ss_pred HHHHCCCEEEEEEccCccCHHHHHHHhCCC
Confidence 8999999999887753 33355544433
No 24
>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=94.00 E-value=0.99 Score=44.48 Aligned_cols=96 Identities=22% Similarity=0.253 Sum_probs=64.3
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccC--CCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCc
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPF--AGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQ 110 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f--~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~q 110 (818)
...++||+|.+.. .....||.+...+...|+.|.. .+|+ ..+.+||..|+.++... ....
T Consensus 42 ~~~v~lv~f~~~~------~~~~~~~~~~~~~~~~l~~l~~~~~~g~---T~l~~al~~a~~~l~~~---------~~~~ 103 (180)
T cd01467 42 NDRIGLVVFAGAA------FTQAPLTLDRESLKELLEDIKIGLAGQG---TAIGDAIGLAIKRLKNS---------EAKE 103 (180)
T ss_pred CCeEEEEEEcCCe------eeccCCCccHHHHHHHHHHhhhcccCCC---CcHHHHHHHHHHHHHhc---------CCCC
Confidence 4689999997642 2245788888888889998873 2333 45788999999888511 1223
Q ss_pred cEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeC
Q 003455 111 RHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVIC 171 (818)
Q Consensus 111 khCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIs 171 (818)
++.|||+.-.+..-+ .+.+++++.+.+.+|.+.+|.
T Consensus 104 ~~iiliTDG~~~~g~-------------------------~~~~~~~~~~~~~gi~i~~i~ 139 (180)
T cd01467 104 RVIVLLTDGENNAGE-------------------------IDPATAAELAKNKGVRIYTIG 139 (180)
T ss_pred CEEEEEeCCCCCCCC-------------------------CCHHHHHHHHHHCCCEEEEEE
Confidence 677777766543211 234556777778899888775
No 25
>PF11235 Med25_SD1: Mediator complex subunit 25 synapsin 1; InterPro: IPR021397 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, this SD1 - synapsin 1 - 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 The function of the SD domains is unclear [].
Probab=92.72 E-value=0.15 Score=50.71 Aligned_cols=78 Identities=19% Similarity=0.220 Sum_probs=56.8
Q ss_pred CCCCCCCCCCCcccccCCC-CccCCCCCCCCCCCCCC-CCCC----------cccCCccccceeeccccccccCCCCCCC
Q 003455 223 GVANLAPNQNPVKMDIAPV-TSVTGPAPTSIPSVNGI-NRPP----------ISVGNVPTATVKVEPSTVTSMVNGPTFP 290 (818)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~----------~~~~~~~~~~~k~e~~~~~~m~~~p~f~ 290 (818)
..+.+++++.++....+.+ +.+++++++.+|.|..+ |..+ ++..+||+|+. .+...|+||+
T Consensus 8 ~pg~lq~KQ~Vp~pP~p~~~~~l~aaP~q~LPpVs~pq~qvp~n~tLsaAq~AAq~AVEAAkn-------QKaglg~RF~ 80 (168)
T PF11235_consen 8 VPGPLQPKQPVPLPPAPVSPAQLSAAPQQPLPPVSPPQYQVPGNSTLSAAQVAAQNAVEAAKN-------QKAGLGPRFS 80 (168)
T ss_pred CCCCCCCCCcccCCCCCCCccccccCCcCCCCCCCccccccCccccchHHHHHHHHHHHHHHh-------ccccCCCCCC
Confidence 5688999999888887666 77788999999999666 4433 45677775554 4456789999
Q ss_pred CCCCCCCCCCCCCCCcc
Q 003455 291 HIPSVPRPASQGVPSLQ 307 (818)
Q Consensus 291 ~~~p~~~~~~~~~~~~q 307 (818)
.|+|+++..--|-|--|
T Consensus 81 pi~p~~~a~~vgpPFsQ 97 (168)
T PF11235_consen 81 PINPLQQAPGVGPPFSQ 97 (168)
T ss_pred CCCcccCCCCCCCCCcC
Confidence 99998886444444333
No 26
>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=92.60 E-value=1.7 Score=52.28 Aligned_cols=130 Identities=17% Similarity=0.212 Sum_probs=82.4
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
.-+++||+|++.... ....||++...+..+|+.|.. ||| ..+++||..|+.++.. . ......++
T Consensus 443 ~D~v~Li~F~~~~a~-----~~lp~t~~~~~~~~~L~~l~~-gGg---TpL~~gL~~A~~~~~~--~-----~~~~~~~~ 506 (589)
T TIGR02031 443 RDQVSLIAFRGTAAE-----VLLPPSRSVEQAKRRLDVLPG-GGG---TPLAAGLAAAFQTALQ--A-----RSSGGTPT 506 (589)
T ss_pred CCEEEEEEECCCCce-----EECCCCCCHHHHHHHHhcCCC-CCC---CcHHHHHHHHHHHHHH--h-----cccCCceE
Confidence 357999999866521 235789999999999999975 444 5678888888887741 0 11244578
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC----cchHHHHHHHHhcCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRN 188 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr----klp~L~~lf~~a~~~ 188 (818)
.|||+.=-+-- +.- -+++ ++ ....+....++..+|+.+.+.+|.++||.-. +.-.++.|-++.+++
T Consensus 507 ivllTDG~~nv-~~~------~~~~-~~--~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~ 576 (589)
T TIGR02031 507 IVLITDGRGNI-PLD------GDPE-SI--KADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAH 576 (589)
T ss_pred EEEECCCCCCC-CCC------cccc-cc--cccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCc
Confidence 88888653311 000 0000 00 0001111235678899999999999999773 344588888877665
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=92.55 E-value=1.8 Score=43.36 Aligned_cols=120 Identities=18% Similarity=0.226 Sum_probs=78.3
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
..+++||+|.+...+ ....+|.+...+..+|+.+.. ||+ ..+.+||..|+..+. ... ......+.
T Consensus 37 ~d~v~lv~F~~~~~~-----~~~~~t~~~~~~~~~l~~l~~-~G~---T~l~~aL~~a~~~l~--~~~----~~~~~~~~ 101 (178)
T cd01451 37 RDKVALIAFRGTEAE-----VLLPPTRSVELAKRRLARLPT-GGG---TPLAAGLLAAYELAA--EQA----RDPGQRPL 101 (178)
T ss_pred CCEEEEEEECCCCce-----EEeCCCCCHHHHHHHHHhCCC-CCC---CcHHHHHHHHHHHHH--HHh----cCCCCceE
Confidence 468999999865211 234678899999999999976 333 467788888887661 000 01123578
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCH-HHHHHHHhhcCceEEEeCCCc----chHHHHHHHHhcC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDA-ETVAKSFVQCSVSLSVICPKQ----LPKLTAIYNAAKR 187 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~-e~la~~~~~~~I~lSiIsPrk----lp~L~~lf~~a~~ 187 (818)
+|||+.-.+..-..+ . ..+ .++++.+.+.+|.+.+|.-.. -..|+.|=++.++
T Consensus 102 ivliTDG~~~~g~~~---------------------~-~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG 159 (178)
T cd01451 102 IVVITDGRANVGPDP---------------------T-ADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGG 159 (178)
T ss_pred EEEECCCCCCCCCCc---------------------h-hHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCC
Confidence 888886543321100 0 112 677889999999999998653 3458888888776
Q ss_pred CC
Q 003455 188 NP 189 (818)
Q Consensus 188 ~~ 189 (818)
.-
T Consensus 160 ~~ 161 (178)
T cd01451 160 QY 161 (178)
T ss_pred eE
Confidence 53
No 28
>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=92.43 E-value=0.59 Score=47.16 Aligned_cols=81 Identities=14% Similarity=0.137 Sum_probs=50.2
Q ss_pred cceEEEEEEccCCCCCcCceeec------cCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCC
Q 003455 33 NVELSLVTFNTHGSYCACLVQRS------GWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQN 106 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~------g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~ 106 (818)
..+++||.|.+..- ..+.++ .++.+.+.++.||+.|+..|| ..+.+||.+|+..+............
T Consensus 48 ~d~v~lv~F~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~G~----T~~~~al~~a~~~l~~~~~~~~~~~~ 120 (190)
T cd01463 48 NDFFNIITFSNEVN---PVVPCFNDTLVQATTSNKKVLKEALDMLEAKGI----ANYTKALEFAFSLLLKNLQSNHSGSR 120 (190)
T ss_pred CCEEEEEEeCCCee---EEeeecccceEecCHHHHHHHHHHHhhCCCCCc----chHHHHHHHHHHHHHHhhhccccccc
Confidence 35899999998742 122111 234688999999999998543 45778888888766410001111122
Q ss_pred CCCccEEEEeecCC
Q 003455 107 VDGQRHCILVAASN 120 (818)
Q Consensus 107 ~~~qkhCILi~nSp 120 (818)
....+++|||+.=-
T Consensus 121 ~~~~~~iillTDG~ 134 (190)
T cd01463 121 SQCNQAIMLITDGV 134 (190)
T ss_pred CCceeEEEEEeCCC
Confidence 34567888888654
No 29
>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=92.37 E-value=1.4 Score=44.62 Aligned_cols=107 Identities=10% Similarity=0.120 Sum_probs=65.7
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCC-CChhhH
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGG-FNDAAI 83 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG-~~~~ai 83 (818)
|+..|+-|.-+++.+...+ ...+++||+|.+..-. .+.. +..++.+...++.+|+++.+.+++ .....+
T Consensus 18 ~~~~k~~~~~l~~~l~~~~--------~~~~v~li~Fs~~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~ggT~~ 87 (198)
T cd01470 18 FDEAKNAIKTLIEKISSYE--------VSPRYEIISYASDPKE-IVSI-RDFNSNDADDVIKRLEDFNYDDHGDKTGTNT 87 (198)
T ss_pred HHHHHHHHHHHHHHccccC--------CCceEEEEEecCCceE-EEec-ccCCCCCHHHHHHHHHhCCcccccCccchhH
Confidence 5666667777777663211 1468999999887421 1111 134566889999999999886654 334678
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCC
Q 003455 84 AEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPH 122 (818)
Q Consensus 84 aEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~ 122 (818)
.+||..|+..+..... ..........+..|||+.--|.
T Consensus 88 ~~Al~~~~~~l~~~~~-~~~~~~~~~~~~iillTDG~~~ 125 (198)
T cd01470 88 AAALKKVYERMALEKV-RNKEAFNETRHVIILFTDGKSN 125 (198)
T ss_pred HHHHHHHHHHHHHHHh-cCccchhhcceEEEEEcCCCcC
Confidence 9999998876631110 0011123456677888876544
No 30
>PRK13685 hypothetical protein; Provisional
Probab=92.31 E-value=2.2 Score=47.20 Aligned_cols=108 Identities=16% Similarity=0.187 Sum_probs=66.5
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
..+.|||+|.+..- ....+|.|-+.+...|++++..|| .++.+||..|++.+... .+..........|+
T Consensus 128 ~d~vglv~Fa~~a~------~~~p~t~d~~~l~~~l~~l~~~~~----T~~g~al~~A~~~l~~~-~~~~~~~~~~~~~~ 196 (326)
T PRK13685 128 GINLGLIAFAGTAT------VLVSPTTNREATKNAIDKLQLADR----TATGEAIFTALQAIATV-GAVIGGGDTPPPAR 196 (326)
T ss_pred CCeEEEEEEcCcee------ecCCCCCCHHHHHHHHHhCCCCCC----cchHHHHHHHHHHHHhh-hcccccccCCCCCE
Confidence 35789999997632 224689999999999999997543 34567888888776410 00000011223467
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVIC 171 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIs 171 (818)
.||++.-....-..+ ....+..++++.+.+.+|.+++|.
T Consensus 197 IILlTDG~~~~~~~~--------------------~~~~~~~~aa~~a~~~gi~i~~Ig 235 (326)
T PRK13685 197 IVLMSDGKETVPTNP--------------------DNPRGAYTAARTAKDQGVPISTIS 235 (326)
T ss_pred EEEEcCCCCCCCCCC--------------------CCcccHHHHHHHHHHcCCeEEEEE
Confidence 788776432210000 011234567888889999999985
No 31
>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=92.31 E-value=1.1 Score=47.33 Aligned_cols=166 Identities=13% Similarity=0.121 Sum_probs=85.5
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCC--------------------------CCCcCceeeccC
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHG--------------------------SYCACLVQRSGW 57 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~--------------------------~~~~~~v~~~g~ 57 (818)
+++.+++-|..+|+++.. ..++..|||+|.+.= +..+.+|.....
T Consensus 21 ~~~~~~~sl~~~l~~l~~---------~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~~dl~~~~~p~~~~llv~~~e~ 91 (243)
T PF04811_consen 21 LLQSLIESLKSALDSLPG---------DERTRVGIITFDSSVHFYNLSSSLSQPQMIVVSDLDDPFIPLPDGLLVPLSEC 91 (243)
T ss_dssp HHHHHHHHHHHHGCTSST---------STT-EEEEEEESSSEEEEETTTTSSSTEEEEEHHTTSHHSSTSSSSSEETTTC
T ss_pred HHHHHHHHHHHHHHhccC---------CCCcEEEEEEeCCEEEEEECCCCcCCCcccchHHHhhcccCCcccEEEEhHHh
Confidence 445556666666666531 346899999997521 112223333333
Q ss_pred CCCHHHHHHHhccccCCCCC-CChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccc-c
Q 003455 58 TKDVDIFLHWLSTIPFAGGG-FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQ-N 135 (818)
Q Consensus 58 T~~~~~fl~wL~~i~f~GGG-~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~-~ 135 (818)
-.....++++|.++--...+ ....+++.+|..|+.++... ..--+.|+.+.++|-.=|=.++..... +
T Consensus 92 ~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~----------~~gGkI~~F~s~~pt~G~Gg~l~~~~~~~ 161 (243)
T PF04811_consen 92 RDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSR----------NTGGKILVFTSGPPTYGPGGSLKKREDSS 161 (243)
T ss_dssp HHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHH----------TS-EEEEEEESS---SSSTTSS-SBTTSC
T ss_pred HHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhcc----------ccCCEEEEEeccCCCCCCCceeccccccc
Confidence 33455666666663222223 45589999999999998511 122345555666775555122222211 1
Q ss_pred ccccchhhhhhhccCCC--HHHHHHHHhhcCceEEEeC-CC---cchHHHHHHHHhcCCC
Q 003455 136 LDQNENNEAQAESRLSD--AETVAKSFVQCSVSLSVIC-PK---QLPKLTAIYNAAKRNP 189 (818)
Q Consensus 136 l~~~~~~~~~~~~~l~~--~e~la~~~~~~~I~lSiIs-Pr---klp~L~~lf~~a~~~~ 189 (818)
+...+ .|...+..-++ .+.||..|.+.+|.+.+.+ +. -++.|..|....+|+.
T Consensus 162 ~~~~~-~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l 220 (243)
T PF04811_consen 162 HYDTE-KEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSL 220 (243)
T ss_dssp CCCHC-TTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EE
T ss_pred ccccc-cchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeE
Confidence 11111 11122222223 7899999999999887654 33 3788888888887764
No 32
>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=91.64 E-value=2.7 Score=41.66 Aligned_cols=121 Identities=12% Similarity=0.163 Sum_probs=74.1
Q ss_pred cceEEEEEEccCC--CCCcCceeeccCCCCH-HHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCC
Q 003455 33 NVELSLVTFNTHG--SYCACLVQRSGWTKDV-DIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDG 109 (818)
Q Consensus 33 ~~~yaLVvf~~~~--~~~~~~v~~~g~T~~~-~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~ 109 (818)
...++||+|.+.. .+...++....|+.+. ..+...|+.+.. || ...+++||..|+..+. .....
T Consensus 37 ~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~g--~T~~~~al~~a~~~l~---------~~~~~ 103 (174)
T cd01454 37 GVPHAILGFTTDAGGRERVRWIKIKDFDESLHERARKRLAALSP--GG--NTRDGAAIRHAAERLL---------ARPEK 103 (174)
T ss_pred CCcEEEEEecCCCCCccceEEEEecCcccccchhHHHHHHccCC--CC--CCcHHHHHHHHHHHHh---------cCCCc
Confidence 4789999999874 1111222323444443 356777777764 33 3568899999998885 12345
Q ss_pred ccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHH---HHHHhhcCceEEEeCC--Cc----chHHHH
Q 003455 110 QRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETV---AKSFVQCSVSLSVICP--KQ----LPKLTA 180 (818)
Q Consensus 110 qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~l---a~~~~~~~I~lSiIsP--rk----lp~L~~ 180 (818)
.|+.|||+.--|...... ...+..++++ ++.+.+.+|.+..|.= .. .+.|++
T Consensus 104 ~~~iiliTDG~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~~~~~~~~~~~~ 164 (174)
T cd01454 104 RKILLVISDGEPNDLDYY-------------------EGNVFATEDALRAVIEARKLGIEVFGITIDRDATTVDKEYLKN 164 (174)
T ss_pred CcEEEEEeCCCcCccccc-------------------CcchhHHHHHHHHHHHHHhCCcEEEEEEecCccccchHHHHHH
Confidence 788999998866543211 0111123344 7777888999886632 22 677888
Q ss_pred HHHHh
Q 003455 181 IYNAA 185 (818)
Q Consensus 181 lf~~a 185 (818)
+|++-
T Consensus 165 ~~~~~ 169 (174)
T cd01454 165 IFGEE 169 (174)
T ss_pred hhCcc
Confidence 88754
No 33
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=91.33 E-value=3.1 Score=50.08 Aligned_cols=125 Identities=18% Similarity=0.177 Sum_probs=82.0
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
.-+.+||+|++.+-. -...+|++...+..||+.|... || ..|++||..|+.++... ......++
T Consensus 437 rD~v~lI~F~g~~a~-----~~lppT~~~~~~~~~L~~l~~g-Gg---TpL~~gL~~A~~~l~~~-------~~~~~~~~ 500 (584)
T PRK13406 437 RDQVALVAFRGRGAE-----LLLPPTRSLVRAKRSLAGLPGG-GG---TPLAAGLDAAAALALQV-------RRKGMTPT 500 (584)
T ss_pred CCEEEEEEECCCcee-----EEcCCCcCHHHHHHHHhcCCCC-CC---ChHHHHHHHHHHHHHHh-------ccCCCceE
Confidence 468899999766432 1356899999999999988633 33 67889999999887511 01124578
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC--cchHHHHHHHHhcCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK--QLPKLTAIYNAAKRN 188 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr--klp~L~~lf~~a~~~ 188 (818)
.|||+.=-+.. +.. .... ....+.++..+|+.+.+.+|.+.+|.-. ....+++|-+..++.
T Consensus 501 iVLlTDG~~n~-~~~------~~~~--------~~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~ 563 (584)
T PRK13406 501 VVLLTDGRANI-ARD------GTAG--------RAQAEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGAR 563 (584)
T ss_pred EEEEeCCCCCC-Ccc------cccc--------ccchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCe
Confidence 89888654321 100 0000 0112346778899999999999999873 344577777766554
No 34
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=90.52 E-value=1 Score=48.87 Aligned_cols=123 Identities=16% Similarity=0.185 Sum_probs=83.5
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
..+.+||.|+.++.-- ...+|+|++++..||..+.. ||+ .=|++||-.|..+|. ++....-.++
T Consensus 115 RdkvavI~F~G~~A~l-----ll~pT~sv~~~~~~L~~l~~-GG~---TPL~~aL~~a~ev~~-------r~~r~~p~~~ 178 (261)
T COG1240 115 RDKVAVIAFRGEKAEL-----LLPPTSSVELAERALERLPT-GGK---TPLADALRQAYEVLA-------REKRRGPDRR 178 (261)
T ss_pred cceEEEEEecCCcceE-----EeCCcccHHHHHHHHHhCCC-CCC---CchHHHHHHHHHHHH-------HhhccCCCcc
Confidence 5789999999876421 47899999999999999975 333 237899999999986 3333344456
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC----cchHHHHHHHHhcCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRN 188 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr----klp~L~~lf~~a~~~ 188 (818)
|++|+=+.=. +.|. ....-..+....|..+..|++.|.||.=. ++-..+.|....+++
T Consensus 179 ~~~vviTDGr---~n~~---------------~~~~~~~e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~ 240 (261)
T COG1240 179 PVMVVITDGR---ANVP---------------IPLGPKAETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGE 240 (261)
T ss_pred eEEEEEeCCc---cCCC---------------CCCchHHHHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCe
Confidence 6555544322 1111 01111136667889999999999999653 355677888877765
Q ss_pred C
Q 003455 189 P 189 (818)
Q Consensus 189 ~ 189 (818)
-
T Consensus 241 ~ 241 (261)
T COG1240 241 Y 241 (261)
T ss_pred E
Confidence 4
No 35
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=90.22 E-value=2.6 Score=50.45 Aligned_cols=118 Identities=14% Similarity=0.130 Sum_probs=68.5
Q ss_pred HHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCC----CCHHHHHH---HhccccCCCCCC
Q 003455 6 YAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWT----KDVDIFLH---WLSTIPFAGGGF 78 (818)
Q Consensus 6 ~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T----~~~~~fl~---wL~~i~f~GGG~ 78 (818)
+..+..+..+|..|..+ .+.+.++||+|.+.. -..+.++ .|...++. .|......|||
T Consensus 62 e~AK~Fa~~LV~~l~Is--------~D~V~VgiV~FSd~~------r~vfpL~s~~s~Dk~~aL~~I~sL~~~~~pgGg- 126 (576)
T PTZ00441 62 THVIPMLMGLIQQLNLS--------DDAINLYMSLFSNNT------TELIRLGSGASKDKEQALIIVKSLRKTYLPYGK- 126 (576)
T ss_pred HHHHHHHHHHHHHhccC--------CCceEEEEEEeCCCc------eEEEecCCCccccHHHHHHHHHHHHhhccCCCC-
Confidence 45556777777777432 236888899987652 1122332 23334444 44444446665
Q ss_pred ChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHH
Q 003455 79 NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAK 158 (818)
Q Consensus 79 ~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~ 158 (818)
..+.+||..|...+. . +..+....|+.|||+.--+... .+....|+
T Consensus 127 --Tnig~AL~~Aae~L~--s----r~~R~nvpKVVILLTDG~sns~--------------------------~dvleaAq 172 (576)
T PTZ00441 127 --TNMTDALLEVRKHLN--D----RVNRENAIQLVILMTDGIPNSK--------------------------YRALEESR 172 (576)
T ss_pred --ccHHHHHHHHHHHHh--h----cccccCCceEEEEEecCCCCCc--------------------------ccHHHHHH
Confidence 457778888877663 1 1134567899999987665321 13334566
Q ss_pred HHhhcCceEEEeCC
Q 003455 159 SFVQCSVSLSVICP 172 (818)
Q Consensus 159 ~~~~~~I~lSiIsP 172 (818)
.|.+.+|.+.+|.=
T Consensus 173 ~LR~~GVeI~vIGV 186 (576)
T PTZ00441 173 KLKDRNVKLAVIGI 186 (576)
T ss_pred HHHHCCCEEEEEEe
Confidence 67777777666643
No 36
>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=89.85 E-value=5 Score=38.84 Aligned_cols=133 Identities=11% Similarity=0.084 Sum_probs=79.6
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHH
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIA 84 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aia 84 (818)
++..++.|..+++.+.. ...++||+|.+..-.- .......-+.+...++.+|+++.. ||| ..+.
T Consensus 20 ~~~~~~al~~~l~~l~~-----------~~~~~l~~Fs~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~-~g~---T~l~ 83 (171)
T cd01461 20 IEQTKEALLTALKDLPP-----------GDYFNIIGFSDTVEEF-SPSSVSATAENVAAAIEYVNRLQA-LGG---TNMN 83 (171)
T ss_pred HHHHHHHHHHHHHhCCC-----------CCEEEEEEeCCCceee-cCcceeCCHHHHHHHHHHHHhcCC-CCC---cCHH
Confidence 67777888887777632 2468999997652110 000001113456788889999887 444 4578
Q ss_pred HHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcC
Q 003455 85 EGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCS 164 (818)
Q Consensus 85 EGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~ 164 (818)
+||..|+..+.. .....+.+|||+.-.+.. + .++...++...+.+
T Consensus 84 ~al~~a~~~l~~---------~~~~~~~iillTDG~~~~-------------------~-------~~~~~~~~~~~~~~ 128 (171)
T cd01461 84 DALEAALELLNS---------SPGSVPQIILLTDGEVTN-------------------E-------SQILKNVREALSGR 128 (171)
T ss_pred HHHHHHHHhhcc---------CCCCccEEEEEeCCCCCC-------------------H-------HHHHHHHHHhcCCC
Confidence 888888887741 234568888888765211 0 12334444444457
Q ss_pred ceEEEeCCC---cchHHHHHHHHhcCC
Q 003455 165 VSLSVICPK---QLPKLTAIYNAAKRN 188 (818)
Q Consensus 165 I~lSiIsPr---klp~L~~lf~~a~~~ 188 (818)
|.+-.|.=. ..+.|+.|=+..++.
T Consensus 129 i~i~~i~~g~~~~~~~l~~ia~~~gG~ 155 (171)
T cd01461 129 IRLFTFGIGSDVNTYLLERLAREGRGI 155 (171)
T ss_pred ceEEEEEeCCccCHHHHHHHHHcCCCe
Confidence 777666532 356688887777654
No 37
>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=88.74 E-value=8.2 Score=41.70 Aligned_cols=116 Identities=20% Similarity=0.263 Sum_probs=75.3
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCC--------------CCCCChhhHHHHHHHH-HhhhccC
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFA--------------GGGFNDAAIAEGLSEA-LMMFSVA 97 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~--------------GGG~~~~aiaEGLa~A-L~~~~~~ 97 (818)
..+++||.|.+..- ....||.|...++..|+.+... +|| .++.+||..| ++++...
T Consensus 88 ~d~v~lv~f~~~~~------~~~~~t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~---T~l~~al~~aa~~~~~~~ 158 (296)
T TIGR03436 88 NDRVFVVTFNTRLR------LLQDFTSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGG---TALYDAITLAALEQLANA 158 (296)
T ss_pred CCEEEEEEeCCcee------EeecCCCCHHHHHHHHHhccCCCccccccccccccCCCc---chhHHHHHHHHHHHHHHh
Confidence 58999999996421 1358999999999999999873 233 4566776544 4555310
Q ss_pred CCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc--
Q 003455 98 PNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL-- 175 (818)
Q Consensus 98 ~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl-- 175 (818)
. ......|..|||+.--.. ....+.+++++.+.+.+|.+-.|.-..+
T Consensus 159 -~-----~~~p~rk~iIllTDG~~~-------------------------~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~ 207 (296)
T TIGR03436 159 -L-----AGIPGRKALIVISDGGDN-------------------------RSRDTLERAIDAAQRADVAIYSIDARGLRA 207 (296)
T ss_pred -h-----cCCCCCeEEEEEecCCCc-------------------------chHHHHHHHHHHHHHcCCEEEEeccCcccc
Confidence 0 011245666777653110 1113667888889999999999887532
Q ss_pred --------------hHHHHHHHHhcCC
Q 003455 176 --------------PKLTAIYNAAKRN 188 (818)
Q Consensus 176 --------------p~L~~lf~~a~~~ 188 (818)
..|+.|-+..++.
T Consensus 208 ~~~~~~~~~~~~~~~~L~~iA~~TGG~ 234 (296)
T TIGR03436 208 PDLGAGAKAGLGGPEALERLAEETGGR 234 (296)
T ss_pred CCcccccccCCCcHHHHHHHHHHhCCe
Confidence 3477777777765
No 38
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=86.78 E-value=2 Score=41.49 Aligned_cols=95 Identities=17% Similarity=0.251 Sum_probs=61.1
Q ss_pred CchhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCC-CCcCceeeccCCCCHHHHHHHhccccCCCCCCC
Q 003455 1 MCIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGS-YCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN 79 (818)
Q Consensus 1 m~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~-~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~ 79 (818)
|.-+++.+|+=|.-+|+.+. ....|.||.|++... +...++... ..+....+.||+.++..+||
T Consensus 13 m~g~~~~~k~al~~~l~~L~-----------~~d~fnii~f~~~~~~~~~~~~~~~--~~~~~~a~~~I~~~~~~~G~-- 77 (155)
T PF13768_consen 13 MSGEKELVKDALRAILRSLP-----------PGDRFNIIAFGSSVRPLFPGLVPAT--EENRQEALQWIKSLEANSGG-- 77 (155)
T ss_pred CCCcHHHHHHHHHHHHHhCC-----------CCCEEEEEEeCCEeeEcchhHHHHh--HHHHHHHHHHHHHhcccCCC--
Confidence 33344455555555555542 346899999999642 222222222 25668899999999996555
Q ss_pred hhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCC
Q 003455 80 DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 121 (818)
Q Consensus 80 ~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP 121 (818)
..+.++|.+|+..+. .....++.||++.-.|
T Consensus 78 -t~l~~aL~~a~~~~~----------~~~~~~~IilltDG~~ 108 (155)
T PF13768_consen 78 -TDLLAALRAALALLQ----------RPGCVRAIILLTDGQP 108 (155)
T ss_pred -ccHHHHHHHHHHhcc----------cCCCccEEEEEEeccC
Confidence 456777778887652 3566789999997766
No 39
>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=85.94 E-value=16 Score=42.44 Aligned_cols=168 Identities=14% Similarity=0.082 Sum_probs=98.0
Q ss_pred CchhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCC--CCCc--------------------C-ceeeccC
Q 003455 1 MCIYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHG--SYCA--------------------C-LVQRSGW 57 (818)
Q Consensus 1 m~~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~--~~~~--------------------~-~v~~~g~ 57 (818)
|+..++.||+-...+.+-... ...+..+|+=.|-+.+ +|-+ + +-..-..
T Consensus 112 M~ddl~~lk~lg~~L~~~m~~--------it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~f~f~~~L~L 183 (423)
T smart00187 112 MKDDLDNLKSLGDDLAREMKG--------LTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPPYGFKHVLSL 183 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHh--------cccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCCcceeeeccC
Confidence 666777788766666666643 2346777877777652 2211 1 1233678
Q ss_pred CCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC------CCCcCc
Q 003455 58 TKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP------TPVYRP 131 (818)
Q Consensus 58 T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp------~~~~~p 131 (818)
|+|..+|.+.+.+...+||......==+||--|..|-+ ..+- +....|..|+++....|-.- +..++-
T Consensus 184 T~~~~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~--~IGW----R~~a~rllv~~TDa~fH~AGDGkLaGIv~PND 257 (423)
T smart00187 184 TDDTDEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTE--QIGW----REDARRLLVFSTDAGFHFAGDGKLAGIVQPND 257 (423)
T ss_pred CCCHHHHHHHHhhceeecCCcCCcccHHHHHHHHhhcc--cccc----CCCceEEEEEEcCCCccccCCcceeeEecCCC
Confidence 99999999999999999998554333333433333322 1111 34566777888888777321 000112
Q ss_pred cccccccc-chhhhhhhccCCCHHHHHHHHhhcCceEEEeCC-CcchHHHHHHH
Q 003455 132 QMQNLDQN-ENNEAQAESRLSDAETVAKSFVQCSVSLSVICP-KQLPKLTAIYN 183 (818)
Q Consensus 132 ~~~~l~~~-~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsP-rklp~L~~lf~ 183 (818)
.-|-|+.+ +-.++.+++- -++.+|++.+.|++|.+=|--- +..+.+++|-+
T Consensus 258 g~CHL~~~g~Yt~s~~~DY-PSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~ 310 (423)
T smart00187 258 GQCHLDNNGEYTMSTTQDY-PSIGQLNQKLAENNINPIFAVTKKQVSLYKELSA 310 (423)
T ss_pred CcceeCCCCCcCccCcCCC-CCHHHHHHHHHhcCceEEEEEcccchhHHHHHHH
Confidence 23344322 1111122222 3899999999999999988444 55555444443
No 40
>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=85.02 E-value=4.6 Score=39.49 Aligned_cols=74 Identities=20% Similarity=0.266 Sum_probs=46.2
Q ss_pred cceEEEEEEccCCCCCcCceeeccCC-CCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCcc
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWT-KDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQR 111 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T-~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qk 111 (818)
...++||+|.+..-. ..... .++ .+.+.+..||++|...|| ..+.+||..|+.++.. . ......+
T Consensus 35 ~~~~~li~F~~~~~~-~~~~~--~~~~~~~~~~~~~i~~~~~~g~----T~~~~al~~a~~~~~~--~-----~~~~~~~ 100 (155)
T cd01466 35 ADRLSIVTFSTSAKR-LSPLR--RMTAKGKRSAKRVVDGLQAGGG----TNVVGGLKKALKVLGD--R-----RQKNPVA 100 (155)
T ss_pred cceEEEEEecCCccc-cCCCc--ccCHHHHHHHHHHHHhccCCCC----ccHHHHHHHHHHHHhh--c-----ccCCCce
Confidence 357999999985322 11111 122 256789999999876433 4677888888888741 0 1123457
Q ss_pred EEEEeecCC
Q 003455 112 HCILVAASN 120 (818)
Q Consensus 112 hCILi~nSp 120 (818)
+.|||+.--
T Consensus 101 ~iillTDG~ 109 (155)
T cd01466 101 SIMLLSDGQ 109 (155)
T ss_pred EEEEEcCCC
Confidence 888888654
No 41
>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=81.56 E-value=40 Score=32.58 Aligned_cols=116 Identities=16% Similarity=0.136 Sum_probs=66.5
Q ss_pred ceEEEEEEccCCCCCcCceeeccCC--CCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCcc
Q 003455 34 VELSLVTFNTHGSYCACLVQRSGWT--KDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQR 111 (818)
Q Consensus 34 ~~yaLVvf~~~~~~~~~~v~~~g~T--~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qk 111 (818)
..++||+|.+.... .+.|+ .+...++..|+++.. +|| ..+.+||..|+..+. ... .....+
T Consensus 36 ~~v~li~f~~~~~~------~~~~~~~~~~~~l~~~l~~~~~-~g~---T~~~~al~~a~~~~~--~~~-----~~~~~~ 98 (170)
T cd01465 36 DRLAIVTYDGAAET------VLPATPVRDKAAILAAIDRLTA-GGS---TAGGAGIQLGYQEAQ--KHF-----VPGGVN 98 (170)
T ss_pred CEEEEEEecCCccE------EecCcccchHHHHHHHHHcCCC-CCC---CCHHHHHHHHHHHHH--hhc-----CCCCee
Confidence 57999999986322 12333 467888888998875 333 345667777776663 110 112236
Q ss_pred EEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC---cchHHHHHHHHhcCC
Q 003455 112 HCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK---QLPKLTAIYNAAKRN 188 (818)
Q Consensus 112 hCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr---klp~L~~lf~~a~~~ 188 (818)
+.||++.-.+..-+.. ..++.++++.+.+.+|.+.+|.=- -...|++|-...++.
T Consensus 99 ~ivl~TDG~~~~~~~~----------------------~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~~~~g~ 156 (170)
T cd01465 99 RILLATDGDFNVGETD----------------------PDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIADAGNGN 156 (170)
T ss_pred EEEEEeCCCCCCCCCC----------------------HHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHhcCCce
Confidence 7788877665431100 013334455556678888877532 334466666555443
No 42
>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=81.20 E-value=10 Score=46.12 Aligned_cols=123 Identities=20% Similarity=0.247 Sum_probs=79.0
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
...++||+|++.... -...||++...+..+|+.+.. ||| ..+++||..|+.++... ........+.
T Consensus 502 ~D~v~lI~F~g~~a~-----~~~p~t~~~~~~~~~L~~l~~-gG~---Tpl~~aL~~A~~~l~~~-----~~~~~~~~~~ 567 (633)
T TIGR02442 502 RDKVALITFRGEEAE-----VLLPPTSSVELAARRLEELPT-GGR---TPLAAGLLKAAEVLSNE-----LLRDDDGRPL 567 (633)
T ss_pred CCEEEEEEECCCCce-----EEcCCCCCHHHHHHHHHhCCC-CCC---CCHHHHHHHHHHHHHHh-----hccCCCCceE
Confidence 478999999865311 146789999999999999976 333 45778888888877410 0011234566
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC----cchHHHHHHHHhcCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK----QLPKLTAIYNAAKRN 188 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr----klp~L~~lf~~a~~~ 188 (818)
.|||+.=-+-.-.. ......++..+|+.+.+.+|.+.||... +...+++|-+..++.
T Consensus 568 vvliTDG~~n~~~~-------------------~~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~ 628 (633)
T TIGR02442 568 LVVITDGRANVADG-------------------GEPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGE 628 (633)
T ss_pred EEEECCCCCCCCCC-------------------CCChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCe
Confidence 67776432211000 0011235678899999999999999762 356688887776553
No 43
>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=78.30 E-value=28 Score=36.03 Aligned_cols=109 Identities=15% Similarity=0.182 Sum_probs=59.3
Q ss_pred cceEEEEEEccCCCC--------CcCceeeccCCCCHHHHHHHhccccC------CCCCCChhhHHHHHHHHHhhhccCC
Q 003455 33 NVELSLVTFNTHGSY--------CACLVQRSGWTKDVDIFLHWLSTIPF------AGGGFNDAAIAEGLSEALMMFSVAP 98 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~--------~~~~v~~~g~T~~~~~fl~wL~~i~f------~GGG~~~~aiaEGLa~AL~~~~~~~ 98 (818)
..+.|||+||+...- ...+|-+-==..+++.+....+-+.- ..++.....+.++|-.|+.+|. .
T Consensus 43 kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~--~ 120 (224)
T PF03731_consen 43 KDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPSAERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFR--E 120 (224)
T ss_dssp --EEEEEEES-SS-BST-TTT-STTEEEEEECC--BHHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHH--C
T ss_pred CCeEEEEEEcCCCCCCcccccCCCceEEeecCCccCHHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHH--H
Confidence 478899999987653 33333221112244444444444433 2455667889999999999985 1
Q ss_pred CCCCCCCCCCCccEEEEeecC-CCCCCCCCCcCcccccccccchhhhhhhccCCCHHHH-----HHHHhhcCceEEEeC
Q 003455 99 NGSQNQQNVDGQRHCILVAAS-NPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETV-----AKSFVQCSVSLSVIC 171 (818)
Q Consensus 99 ~~~~~~~~~~~qkhCILi~nS-pP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~l-----a~~~~~~~I~lSiIs 171 (818)
.. .......|+.+||+|. .|+.-. .+.+.+ ++-|.+.+|.|.++-
T Consensus 121 ~~---~~~k~~~krI~l~Td~d~p~~~~-------------------------~~~~~~~~~l~~~Dl~~~~i~~~~~~ 171 (224)
T PF03731_consen 121 RT---CKKKKNKKRIFLFTDNDGPHEDD-------------------------DELERIIQKLKAKDLQDNGIEIELFF 171 (224)
T ss_dssp HC---TTS-ECEEEEEEEES-SSTTT-C-------------------------CCHHHHHHHHHHHHHHHHTEEEEEEE
T ss_pred Hh---hcccCCCcEEEEEeCCCCCCCCH-------------------------HHHHHHHHhhccccchhcCcceeEee
Confidence 10 1234667888888865 476511 133344 455889999988873
No 44
>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=76.77 E-value=17 Score=39.82 Aligned_cols=103 Identities=11% Similarity=0.077 Sum_probs=65.6
Q ss_pred ceEEEEEEccCCCCCcCceeeccCCCCHH--HHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCcc
Q 003455 34 VELSLVTFNTHGSYCACLVQRSGWTKDVD--IFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQR 111 (818)
Q Consensus 34 ~~yaLVvf~~~~~~~~~~v~~~g~T~~~~--~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qk 111 (818)
-++|||.|++.. .-.+.+|.|-. .++..++...|..+| ..|+.+|.+|+.+|+ +..... ......+
T Consensus 99 g~vgVv~Fg~~~------~~v~Plt~d~~~~a~~~~l~~~~f~~~~---Tni~~aL~~a~~~f~--~~~~~~-~s~~~~q 166 (266)
T cd01460 99 GQLGVCSFGEDV------QILHPFDEQFSSQSGPRILNQFTFQQDK---TDIANLLKFTAQIFE--DARTQS-SSGSLWQ 166 (266)
T ss_pred CcEEEEEeCCCc------eEeCCCCCCchhhHHHHHhCcccCCCCC---CcHHHHHHHHHHHHH--hhhccc-ccccccc
Confidence 689999999852 22355565554 567777766666555 469999999999996 111111 1122457
Q ss_pred EEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCC
Q 003455 112 HCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPK 173 (818)
Q Consensus 112 hCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPr 173 (818)
-+|||+.-- +.... .....+++.+.+++|.+-+|-=|
T Consensus 167 lilLISDG~-----------------------~~~~e--~~~~~~~r~a~e~~i~l~~I~ld 203 (266)
T cd01460 167 LLLIISDGR-----------------------GEFSE--GAQKVRLREAREQNVFVVFIIID 203 (266)
T ss_pred EEEEEECCC-----------------------cccCc--cHHHHHHHHHHHcCCeEEEEEEc
Confidence 888886532 00000 13445689999999999999544
No 45
>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=75.33 E-value=14 Score=36.61 Aligned_cols=101 Identities=18% Similarity=0.177 Sum_probs=51.3
Q ss_pred hhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhh
Q 003455 3 IYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAA 82 (818)
Q Consensus 3 ~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~a 82 (818)
..|+.+++-+..+++.+... ++.....+++||+|.+.. .. ...+|.. ... .++.+. .||| .+
T Consensus 19 ~~~~~~k~a~~~~~~~l~~~-----~~~~~~~~v~ii~F~~~a-~~-----~~~l~~~-~~~--~~~~l~-~~Gg---T~ 80 (176)
T cd01464 19 EPIEALNQGLQMLQSELRQD-----PYALESVEISVITFDSAA-RV-----IVPLTPL-ESF--QPPRLT-ASGG---TS 80 (176)
T ss_pred hHHHHHHHHHHHHHHHHhcC-----hhhccccEEEEEEecCCc-eE-----ecCCccH-Hhc--CCCccc-CCCC---Cc
Confidence 34566665555555555321 122236899999999842 22 1223331 111 234443 3444 67
Q ss_pred HHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCC
Q 003455 83 IAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 121 (818)
Q Consensus 83 iaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP 121 (818)
+.+||..|++.+................++.|||+.--|
T Consensus 81 l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~ 119 (176)
T cd01464 81 MGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEP 119 (176)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCC
Confidence 889999999887411100001112233456777766543
No 46
>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=73.92 E-value=30 Score=33.19 Aligned_cols=54 Identities=26% Similarity=0.451 Sum_probs=38.6
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhc
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFS 95 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~ 95 (818)
+..++||.|.+. + ......+..+..+++.+|..+.+ ||| ..++++|..|+.++.
T Consensus 36 ~~~v~li~F~~~--~---~~~~~~~~~~~~~~~~~l~~~~~-~gg---T~l~~al~~a~~~l~ 89 (152)
T cd01462 36 NRDTYLILFDSE--F---QTKIVDKTDDLEEPVEFLSGVQL-GGG---TDINKALRYALELIE 89 (152)
T ss_pred CCcEEEEEeCCC--c---eEEecCCcccHHHHHHHHhcCCC-CCC---cCHHHHHHHHHHHHH
Confidence 367899999887 1 12234467888999999988754 444 356788888888774
No 47
>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=67.11 E-value=56 Score=34.94 Aligned_cols=113 Identities=16% Similarity=0.213 Sum_probs=63.4
Q ss_pred HHHHhcccc--CCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcc-cccccccc
Q 003455 64 FLHWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQ-MQNLDQNE 140 (818)
Q Consensus 64 fl~wL~~i~--f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~-~~~l~~~~ 140 (818)
+...|++|. |.-+-....+++.||..|+.++. .. . -+.|+.+.++|-.=|=. ..+. ..++...+
T Consensus 96 i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~--~~---------G-GkIi~f~s~~pt~GpG~-l~~~~~~~~~~~~ 162 (244)
T cd01479 96 IEDLLDQIPEMFQDTKETESALGPALQAAFLLLK--ET---------G-GKIIVFQSSLPTLGAGK-LKSREDPKLLSTD 162 (244)
T ss_pred HHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHH--hc---------C-CEEEEEeCCCCCcCCcc-cccCccccccCch
Confidence 444455553 22334667899999999999995 11 1 23455555555433321 1111 11111111
Q ss_pred hhhhhhhcc-CCCHHHHHHHHhhcCceEEEeC-CC---cchHHHHHHHHhcCCCC
Q 003455 141 NNEAQAESR-LSDAETVAKSFVQCSVSLSVIC-PK---QLPKLTAIYNAAKRNPR 190 (818)
Q Consensus 141 ~~~~~~~~~-l~~~e~la~~~~~~~I~lSiIs-Pr---klp~L~~lf~~a~~~~~ 190 (818)
.|...+.. ..-.+++|..+.+++|.+.+.+ +. .|..|..|-+..+|...
T Consensus 163 -~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~ 216 (244)
T cd01479 163 -KEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVY 216 (244)
T ss_pred -hhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEE
Confidence 12111111 1135689999999999999874 33 46778888888888653
No 48
>TIGR00620 sporelyase spore photoproduct lyase. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.04 E-value=22 Score=37.46 Aligned_cols=132 Identities=12% Similarity=0.131 Sum_probs=87.5
Q ss_pred hHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCce-------eeccCCCCHHHHHHHhccccCCCCC
Q 003455 5 FYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLV-------QRSGWTKDVDIFLHWLSTIPFAGGG 77 (818)
Q Consensus 5 ~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v-------~~~g~T~~~~~fl~wL~~i~f~GGG 77 (818)
+|-++.|+..+||||.. -+.+...|+|.-.--+.+. .++.|+-++..+..-++ +|
T Consensus 5 lE~~Tg~l~~~I~ff~~------------~~~~~lef~TK~~nv~~Ll~l~~~~~t~~rfSlnp~~Ii~~~E-----~~- 66 (199)
T TIGR00620 5 IDHLTHTLKRAIEHFGQ------------SDFGKLRFVTKFHHVDHLLDAKHNGKTRFRFSINADYVIKNFE-----PG- 66 (199)
T ss_pred hhcccchHHHHHHHHcc------------CCCcEEEEEEcccchhhHhcCCCCCCEEEEEEeCHHHHHHHhc-----CC-
Confidence 57788999999999964 3344455555443333332 47999999999988654 22
Q ss_pred CChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHH
Q 003455 78 FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVA 157 (818)
Q Consensus 78 ~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la 157 (818)
.+.+.|=|.+|-.|.+ .+=+.|++|+ |+..| |.|.+....-+|+|+
T Consensus 67 --T~sl~~Rl~Aa~k~a~------------aGy~Vg~~~~-------PIi~~-------------egW~e~Y~~l~~~l~ 112 (199)
T TIGR00620 67 --TSPLDKRIEAAVKVAK------------AGYPLGFIIA-------PIYIH-------------EGWKEGYRNLLEKLD 112 (199)
T ss_pred --CCCHHHHHHHHHHHHH------------cCCeEEEEee-------ceEee-------------CChHHHHHHHHHHHH
Confidence 3556777777777774 4556666665 33322 223333333567777
Q ss_pred HHHh---hcCceEEEeCCCcchHHHHHHHHhcCC
Q 003455 158 KSFV---QCSVSLSVICPKQLPKLTAIYNAAKRN 188 (818)
Q Consensus 158 ~~~~---~~~I~lSiIsPrklp~L~~lf~~a~~~ 188 (818)
+.+. .+.|.+++|+=|=.+.++++-++.-.+
T Consensus 113 ~~l~~~~~~dl~~e~i~~R~t~~~k~~i~~~fP~ 146 (199)
T TIGR00620 113 EALPQDLRHDITFEVIQHRFTKPAKRVIEKNYPK 146 (199)
T ss_pred HhCCHhhhcCeEEEEEEEEcCHHHHHHHHHhCCC
Confidence 7777 455889999999888888888877554
No 49
>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=64.40 E-value=1.2e+02 Score=32.19 Aligned_cols=165 Identities=13% Similarity=0.138 Sum_probs=86.0
Q ss_pred hhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCC------CC---CcCcee----------eccCCCCH---
Q 003455 4 YFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHG------SY---CACLVQ----------RSGWTKDV--- 61 (818)
Q Consensus 4 Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~------~~---~~~~v~----------~~g~T~~~--- 61 (818)
+++.+++-|.-+|+.+-. ..++..|||+|.++= .. +..+|- ..++..++
T Consensus 21 ~l~~~~~sl~~~l~~lp~---------~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~~dl~d~f~p~~~~~l~~~~e~ 91 (239)
T cd01468 21 LLQALKESLLASLDLLPG---------DPRARVGLITYDSTVHFYNLSSDLAQPKMYVVSDLKDVFLPLPDRFLVPLSEC 91 (239)
T ss_pred HHHHHHHHHHHHHHhCCC---------CCCcEEEEEEeCCeEEEEECCCCCCCCeEEEeCCCccCcCCCcCceeeeHHHH
Confidence 567777777777777621 235888898886421 11 111110 01222233
Q ss_pred -HHHHHHhccccCCCC----CCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCccc-cc
Q 003455 62 -DIFLHWLSTIPFAGG----GFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQM-QN 135 (818)
Q Consensus 62 -~~fl~wL~~i~f~GG----G~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~-~~ 135 (818)
+.+...|++|.-... .-...+++-||..|+.++... ... -+.|+.+.++|-.=|=. ..+.. .+
T Consensus 92 ~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~---------~~g-GkI~~f~sg~pt~GpG~-l~~~~~~~ 160 (239)
T cd01468 92 KKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGT---------FAG-GRIIVFQGGLPTVGPGK-LKSREDKE 160 (239)
T ss_pred HHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhc---------CCC-ceEEEEECCCCCCCCCc-cccCcccc
Confidence 345555666655443 244588999999999999611 011 22334444444322211 11111 11
Q ss_pred ccccchhhhhhhccC-CCHHHHHHHHhhcCceEEEeC-CC---cchHHHHHHHHhcCCC
Q 003455 136 LDQNENNEAQAESRL-SDAETVAKSFVQCSVSLSVIC-PK---QLPKLTAIYNAAKRNP 189 (818)
Q Consensus 136 l~~~~~~~~~~~~~l-~~~e~la~~~~~~~I~lSiIs-Pr---klp~L~~lf~~a~~~~ 189 (818)
..+.+ .|...+..- .-.+.+|..|.+++|.+.|.+ +. -+..|..|.+..+|..
T Consensus 161 ~~~~~-~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v 218 (239)
T cd01468 161 PIRSH-DEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQV 218 (239)
T ss_pred cCCCc-cchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceE
Confidence 11110 111111110 124789999999999999874 33 4677888887777654
No 50
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=61.21 E-value=4.1 Score=51.69 Aligned_cols=15 Identities=27% Similarity=0.065 Sum_probs=7.4
Q ss_pred CCcCCCCccccccCC
Q 003455 787 GYVQGPGRTQLVSQG 801 (818)
Q Consensus 787 q~~q~~~~~~~~~~~ 801 (818)
+..|+++.++++..|
T Consensus 1911 ~~~q~~~~~~~q~~g 1925 (2131)
T KOG4369|consen 1911 QQQQQQLYNQMQSLG 1925 (2131)
T ss_pred cccCCcccccccccc
Confidence 555555555443333
No 51
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=56.73 E-value=65 Score=34.72 Aligned_cols=140 Identities=18% Similarity=0.214 Sum_probs=86.2
Q ss_pred ceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE-
Q 003455 34 VELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH- 112 (818)
Q Consensus 34 ~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh- 112 (818)
...||+....+.+- .-+.+|+|--+|+..|..|+..|+ +.+..||.-|+-.|. .| ....||.
T Consensus 47 ntvGiitla~a~~~-----vLsT~T~d~gkils~lh~i~~~g~----~~~~~~i~iA~lalk------hR--qnk~~~~r 109 (259)
T KOG2884|consen 47 NTVGIITLANASVQ-----VLSTLTSDRGKILSKLHGIQPHGK----ANFMTGIQIAQLALK------HR--QNKNQKQR 109 (259)
T ss_pred cceeeEeccCCCce-----eeeeccccchHHHHHhcCCCcCCc----ccHHHHHHHHHHHHH------hh--cCCCcceE
Confidence 44577776554431 237899999999999999999876 456677888888774 22 2333333
Q ss_pred EEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchH-HHHHHHHhcCCCCC
Q 003455 113 CILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPK-LTAIYNAAKRNPRA 191 (818)
Q Consensus 113 CILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~-L~~lf~~a~~~~~~ 191 (818)
.|+.+.|| +- ++. .+...+|+-+.+++|.+-||.=--.-. -.+||+..+
T Consensus 110 iVvFvGSp-----i~-------------------e~e-keLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fid----- 159 (259)
T KOG2884|consen 110 IVVFVGSP-----IE-------------------ESE-KELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFID----- 159 (259)
T ss_pred EEEEecCc-----ch-------------------hhH-HHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHH-----
Confidence 33333443 11 111 267899999999999999996532222 133333331
Q ss_pred CCCCCCCCCCCCeEEEeeccchhhhhccCCCC
Q 003455 192 ADPPVDNSKNPHFLVLISENFMEARAALSRPG 223 (818)
Q Consensus 192 ~~~~~d~ak~p~hlVLl~g~~l~~~~~~~~~~ 223 (818)
..|..-|-.|||-+....+-.-+-++-|.
T Consensus 160 ---a~N~~~~gshlv~Vppg~~L~d~l~ssPi 188 (259)
T KOG2884|consen 160 ---ALNGKGDGSHLVSVPPGPLLSDALLSSPI 188 (259)
T ss_pred ---HhcCCCCCceEEEeCCCccHHHHhhcCce
Confidence 11122345799988777665555555444
No 52
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=55.01 E-value=85 Score=33.20 Aligned_cols=101 Identities=22% Similarity=0.147 Sum_probs=62.5
Q ss_pred hhhHHHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhh
Q 003455 3 IYFYAYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAA 82 (818)
Q Consensus 3 ~Y~~~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~a 82 (818)
.=+|.+..=|..+++-+...+.++ ..++.++|+|..+ +..+-++.|+..|. =.+-+++||- .
T Consensus 19 e~IealN~Glq~m~~~Lkqdp~Al-----e~v~lsIVTF~~~-------a~~~~pf~~~~nF~---~p~L~a~GgT---~ 80 (207)
T COG4245 19 EPIEALNAGLQMMIDTLKQDPYAL-----ERVELSIVTFGGP-------ARVIQPFTDAANFN---PPILTAQGGT---P 80 (207)
T ss_pred ccHHHHHHHHHHHHHHHHhChhhh-----heeEEEEEEecCc-------ceEEechhhHhhcC---CCceecCCCC---c
Confidence 346777778888888887766544 3689999999863 23444555555442 2333566763 2
Q ss_pred HHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCC
Q 003455 83 IAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNP 121 (818)
Q Consensus 83 iaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP 121 (818)
+..||..|+.|.+..-...-.....+=.-..+||+...|
T Consensus 81 lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~P 119 (207)
T COG4245 81 LGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEP 119 (207)
T ss_pred hHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCc
Confidence 456688899999722222222333455556788888777
No 53
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. 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, an SD1 - synapsin 1 - 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 family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=54.74 E-value=3.9 Score=41.22 Aligned_cols=68 Identities=19% Similarity=0.415 Sum_probs=40.7
Q ss_pred ccceeeeccccccccCCCc-c-------cccccccccccccchhhccCCchhhHHhhccchhcccccc--ccCccceeee
Q 003455 550 SKYVKVWEGSLSGQRQGQP-V-------FITKLEGYRSASASETLAANWPPTMQIVRLISQDHMNNKQ--YVGKADFLVF 619 (818)
Q Consensus 550 ~~y~kvweg~Ls~qR~gqp-V-------~I~~~egyrsssasEtlAa~wP~amQilr~I~q~~mn~~q--y~gkad~lvf 619 (818)
..-.++|.|.|+|.+.+++ . +.|.+...... +..+.+||.-. +.++|+...+.+.. | +++..++|
T Consensus 5 ~~~~~iWsG~leW~ek~~~~~~~k~~~~L~c~v~~~~~e---~l~~e~WP~KL-~mql~pk~lL~~i~~~~-kns~~v~f 79 (152)
T PF11232_consen 5 SQRELIWSGVLEWEEKRKPDDQRKITRTLPCQVYANVKE---NLKAEDWPQKL-IMQLMPKQLLGNIGGLF-KNSRSVVF 79 (152)
T ss_dssp SSCEEEEEEEEEEESSS-STTTTS-EEEEEEEEEEESSS---S-SGCCS-SEE-EEEEEEHHHHGGGGGGG-SSEEEEEE
T ss_pred ccccceeeEEEEEEecCCCCcCcccceEEEEEEEecccc---ccCcccCChhh-eeehhhHHHHHHHHHHH-hcCeEEEE
Confidence 3567899999999998876 1 34444433332 47789999732 12346665555322 4 55667777
Q ss_pred ecC
Q 003455 620 RAM 622 (818)
Q Consensus 620 R~l 622 (818)
+..
T Consensus 80 ~~~ 82 (152)
T PF11232_consen 80 HFT 82 (152)
T ss_dssp EES
T ss_pred EcC
Confidence 776
No 54
>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=53.99 E-value=87 Score=38.00 Aligned_cols=126 Identities=19% Similarity=0.176 Sum_probs=73.7
Q ss_pred hHHHHHhhccccccccccCCCcceEEEEEEccCC-----CCCcCceeeccCCCCHHHHHHHhccccCC-C--------CC
Q 003455 12 SLYFHRCFCVNELAGQKTSASNVELSLVTFNTHG-----SYCACLVQRSGWTKDVDIFLHWLSTIPFA-G--------GG 77 (818)
Q Consensus 12 I~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~-----~~~~~~v~~~g~T~~~~~fl~wL~~i~f~-G--------GG 77 (818)
+++++..+...-+ ......+.|||+||+-. +|..++|-+.=-..|++.+ .-|+.|.-. | |.
T Consensus 39 al~~i~~l~q~kI----is~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p~a~~i-~~L~~l~~~~~~~~~~~~~~~ 113 (584)
T TIGR00578 39 SIQCIQSVYTSKI----ISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRI-LELDQFKGDQGPKKFRDTYGH 113 (584)
T ss_pred HHHHHHHHHHhcC----CCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCCCHHHH-HHHHHHhhccCccchhhccCC
Confidence 4455555543221 22346899999999965 4667766554444455443 223333211 1 11
Q ss_pred CChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecC-CCCCCCCCCcCcccccccccchhhhhhhccCCCHHHH
Q 003455 78 FNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS-NPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETV 156 (818)
Q Consensus 78 ~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nS-pP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~l 156 (818)
.....++++|-.|+.||. . . ...-..|+.+|++|. .||.-... .. .-+...
T Consensus 114 ~~~~~l~daL~~~~~~f~--~--~---~~k~~~kRI~lfTd~D~P~~~~~~------------------~~---~~a~~~ 165 (584)
T TIGR00578 114 GSDYSLSEVLWVCANLFS--D--V---QFRMSHKRIMLFTNEDNPHGNDSA------------------KA---SRARTK 165 (584)
T ss_pred CCCCcHHHHHHHHHHHHH--h--c---chhhcCcEEEEECCCCCCCCCchh------------------HH---HHHHHH
Confidence 223588999999999995 1 1 113456666666665 68873210 00 124567
Q ss_pred HHHHhhcCceEEEe
Q 003455 157 AKSFVQCSVSLSVI 170 (818)
Q Consensus 157 a~~~~~~~I~lSiI 170 (818)
|+-|.+.+|.|.++
T Consensus 166 a~dl~~~gi~ielf 179 (584)
T TIGR00578 166 AGDLRDTGIFLDLM 179 (584)
T ss_pred HHHHHhcCeEEEEE
Confidence 89999999999988
No 55
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=53.02 E-value=1.5e+02 Score=33.59 Aligned_cols=146 Identities=18% Similarity=0.275 Sum_probs=91.4
Q ss_pred hhhhHH-HHHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHH
Q 003455 9 SKLSLY-FHRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGL 87 (818)
Q Consensus 9 ~~YI~p-~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGL 87 (818)
.+|.+- +.|+|...|+ ..++++..++. |.--.+..--|++.++.-|.++.---|-|+ |
T Consensus 114 ikya~~Fv~eFf~qNPi---------Sqlsii~irdg-----~a~~~s~~~gnpq~hi~~lkS~rd~~gnfS-------L 172 (421)
T COG5151 114 IKYAEGFVPEFFSQNPI---------SQLSIISIRDG-----CAKYTSSMDGNPQAHIGQLKSKRDCSGNFS-------L 172 (421)
T ss_pred HHHHHHHhHHHhccCCc---------hheeeeehhhh-----HHHHhhhcCCCHHHHHHHhhcccccCCChh-------H
Confidence 355544 5678877777 77888887753 221235566689999999999995555566 4
Q ss_pred HHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceE
Q 003455 88 SEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSL 167 (818)
Q Consensus 88 a~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~l 167 (818)
-.||+|.-..-. ...--+.|..++|..|---+-| .|..+.+..+...+|.+
T Consensus 173 qNaLEmar~~l~----~~~~H~trEvLiifgS~st~DP-------------------------gdi~~tid~Lv~~~IrV 223 (421)
T COG5151 173 QNALEMARIELM----KNTMHGTREVLIIFGSTSTRDP-------------------------GDIAETIDKLVAYNIRV 223 (421)
T ss_pred HhHHHHhhhhhc----ccccccceEEEEEEeecccCCC-------------------------ccHHHHHHHHHhhceEE
Confidence 444444310000 0112234666777777554444 47777777888889999
Q ss_pred EEeCCC-cchHHHHHHHHhcCCCCCCCCCCCCCCCCCeEEEeeccchhh
Q 003455 168 SVICPK-QLPKLTAIYNAAKRNPRAADPPVDNSKNPHFLVLISENFMEA 215 (818)
Q Consensus 168 SiIsPr-klp~L~~lf~~a~~~~~~~~~~~d~ak~p~hlVLl~g~~l~~ 215 (818)
-||.=- .+...+.|..+. ||...-++.|+|++.-|+|
T Consensus 224 ~~igL~aevaicKeickaT-----------n~~~e~~y~v~vde~Hl~e 261 (421)
T COG5151 224 HFIGLCAEVAICKEICKAT-----------NSSTEGRYYVPVDEGHLSE 261 (421)
T ss_pred EEEeehhHHHHHHHHHhhc-----------CcCcCceeEeeecHHHHHH
Confidence 998642 344455555543 4455567899988776665
No 56
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=51.63 E-value=1.3e+02 Score=34.07 Aligned_cols=127 Identities=15% Similarity=0.150 Sum_probs=78.1
Q ss_pred hhhHHH-HHhhccccccccccCCCcceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHH
Q 003455 10 KLSLYF-HRCFCVNELAGQKTSASNVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLS 88 (818)
Q Consensus 10 ~YI~p~-ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa 88 (818)
+|+.-. -|||.++|+ ...|||+.++.-- + .....|.|+.+-.+.|..+.+-+|-||= =-||.
T Consensus 88 K~le~Fv~eFFdQNPi---------SQigii~~k~g~A--~---~lt~ltgnp~~hI~aL~~~~~~~g~fSL---qNaLe 150 (378)
T KOG2807|consen 88 KYLEGFVPEFFDQNPI---------SQIGIISIKDGKA--D---RLTDLTGNPRIHIHALKGLTECSGDFSL---QNALE 150 (378)
T ss_pred HHHHHHHHHHhccCch---------hheeEEEEecchh--h---HHHHhcCCHHHHHHHHhcccccCCChHH---HHHHH
Confidence 555553 356666666 7899999885321 1 2367889999999999999966666773 12233
Q ss_pred HHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEE
Q 003455 89 EALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLS 168 (818)
Q Consensus 89 ~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lS 168 (818)
-|...+. .--.-+.|..++|..|==-.. ..|..+.++.+..-+|..|
T Consensus 151 ~a~~~Lk--------~~p~H~sREVLii~sslsT~D-------------------------Pgdi~~tI~~lk~~kIRvs 197 (378)
T KOG2807|consen 151 LAREVLK--------HMPGHVSREVLIIFSSLSTCD-------------------------PGDIYETIDKLKAYKIRVS 197 (378)
T ss_pred HHHHHhc--------CCCcccceEEEEEEeeecccC-------------------------cccHHHHHHHHHhhCeEEE
Confidence 3333332 000233455555554422221 2578888899999999999
Q ss_pred EeCCC-cchHHHHHHHHhc
Q 003455 169 VICPK-QLPKLTAIYNAAK 186 (818)
Q Consensus 169 iIsPr-klp~L~~lf~~a~ 186 (818)
||.=- .+-.-+.|..+.+
T Consensus 198 vIgLsaEv~icK~l~kaT~ 216 (378)
T KOG2807|consen 198 VIGLSAEVFICKELCKATG 216 (378)
T ss_pred EEeechhHHHHHHHHHhhC
Confidence 99653 3444566665554
No 57
>TIGR00670 asp_carb_tr aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup.
Probab=46.18 E-value=29 Score=38.57 Aligned_cols=93 Identities=15% Similarity=0.276 Sum_probs=64.9
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCC-hhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPL 124 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~-~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~l 124 (818)
.|.+.+|=|+.....+.+|..|. .++.+=+|.+ ..+=..+|+..+.+.+ .++. ...-|.|++- . ..
T Consensus 94 ~y~D~iviR~~~~~~~~~~a~~s-~vPVINa~~g~~~HPtQ~LaDl~Ti~e--~~g~-----l~g~~va~vG-D----~~ 160 (301)
T TIGR00670 94 GYSDAIVIRHPLEGAARLAAEVS-EVPVINAGDGSNQHPTQTLLDLYTIYE--EFGR-----LDGLKIALVG-D----LK 160 (301)
T ss_pred HhCCEEEEECCchhHHHHHHhhC-CCCEEeCCCCCCCCcHHHHHHHHHHHH--HhCC-----CCCCEEEEEc-c----CC
Confidence 77888888888888999998884 7888888864 4778888998888875 2221 2222333321 0 00
Q ss_pred CCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 125 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 125 p~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
+ + ..+-.++.++...|++|.++||+.+
T Consensus 161 ~----------------------~--~v~~Sl~~~~a~~g~~v~~~~P~~~ 187 (301)
T TIGR00670 161 Y----------------------G--RTVHSLAEALTRFGVEVYLISPEEL 187 (301)
T ss_pred C----------------------C--cHHHHHHHHHHHcCCEEEEECCccc
Confidence 0 1 2456777888889999999999975
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=42.97 E-value=3.1e+02 Score=28.89 Aligned_cols=108 Identities=10% Similarity=-0.013 Sum_probs=65.0
Q ss_pred CCCCCcCceee-ccCCCCH---HHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecC
Q 003455 44 HGSYCACLVQR-SGWTKDV---DIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAAS 119 (818)
Q Consensus 44 ~~~~~~~~v~~-~g~T~~~---~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nS 119 (818)
.+.|.-|+|+. +.+|.|- +.+...|+..++ |-..+ .-||||..|++.|.- .+....|..||++.-
T Consensus 53 g~~~~~~~lt~d~p~t~d~~~~~~l~~~l~~~q~--g~ag~-~TadAi~~av~rl~~--------~~~a~~kvvILLTDG 121 (191)
T cd01455 53 GDGPCVPFVKTNHPPKNNKERLETLKMMHAHSQF--CWSGD-HTVEATEFAIKELAA--------KEDFDEAIVIVLSDA 121 (191)
T ss_pred CcccccCccccccCcccchhHHHHHHHHHHhccc--CccCc-cHHHHHHHHHHHHHh--------cCcCCCcEEEEEeCC
Confidence 33333555554 7778777 577778887776 21112 222999999998830 123346788887653
Q ss_pred CCCCCCCCCcCcccccccccchhhhhhhccCCCHHHH-HHHHhhcCceEEEeCCCc--chHHHHHHHHhcC
Q 003455 120 NPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETV-AKSFVQCSVSLSVICPKQ--LPKLTAIYNAAKR 187 (818)
Q Consensus 120 pP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~l-a~~~~~~~I~lSiIsPrk--lp~L~~lf~~a~~ 187 (818)
+= + -++ -+.+++ |++-.+.+|++-.|.==. -..|+.+-+..++
T Consensus 122 ~n--------------------~----~~~-i~P~~aAa~lA~~~gV~iytIgiG~~d~~~l~~iA~~tgG 167 (191)
T cd01455 122 NL--------------------E----RYG-IQPKKLADALAREPNVNAFVIFIGSLSDEADQLQRELPAG 167 (191)
T ss_pred Cc--------------------C----CCC-CChHHHHHHHHHhCCCEEEEEEecCCCHHHHHHHHhCCCC
Confidence 21 1 122 266675 577788999999997432 4446655555433
No 59
>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=41.64 E-value=89 Score=37.67 Aligned_cols=74 Identities=12% Similarity=0.201 Sum_probs=46.0
Q ss_pred cceEEEEEEccCCCCCcCceeeccC-CCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCcc
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGW-TKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQR 111 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~-T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qk 111 (818)
...|+||.|++....-... .... ..+......||+.|... || ..+..||..|+..+. .......|
T Consensus 306 ~d~~~ii~F~~~~~~~~~~--~~~~~~~~~~~a~~~i~~l~a~-Gg---T~l~~aL~~a~~~~~--------~~~~~~~~ 371 (596)
T TIGR03788 306 GDRFNIIQFDSDVTLLFPV--PVPATAHNLARARQFVAGLQAD-GG---TEMAGALSAALRDDG--------PESSGALR 371 (596)
T ss_pred CCEEEEEEECCcceEeccc--cccCCHHHHHHHHHHHhhCCCC-CC---ccHHHHHHHHHHhhc--------ccCCCcee
Confidence 4689999998764321110 1112 23577889999999875 44 347777888886542 01123457
Q ss_pred EEEEeecCC
Q 003455 112 HCILVAASN 120 (818)
Q Consensus 112 hCILi~nSp 120 (818)
++|||+.=-
T Consensus 372 ~iillTDG~ 380 (596)
T TIGR03788 372 QVVFLTDGA 380 (596)
T ss_pred EEEEEeCCC
Confidence 899998753
No 60
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=40.60 E-value=24 Score=39.19 Aligned_cols=92 Identities=12% Similarity=0.165 Sum_probs=62.7
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 125 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp 125 (818)
.|.+++|=|+.--..+.+|-.|. .++.+=+|.+..+=..+|+..+.+.+ .++ ..+.-|.+++--. .
T Consensus 92 ~y~D~iviR~~~~~~~~~~a~~~-~vPVINa~~~~~HPtQaL~Dl~Ti~e--~~g-----~l~g~kva~vGD~---~--- 157 (302)
T PRK14805 92 CWADAIVARVFSHSTIEQLAEHG-SVPVINALCDLYHPCQALADFLTLAE--QFG-----DVSKVKLAYVGDG---N--- 157 (302)
T ss_pred HhCCEEEEeCCChhHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHH--HhC-----CcCCcEEEEEcCC---C---
Confidence 78888888887778888888885 57776666555777888888888875 121 1233334333210 0
Q ss_pred CCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcch
Q 003455 126 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLP 176 (818)
Q Consensus 126 ~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp 176 (818)
..+-.++.++...|++|.|+||+.+-
T Consensus 158 -------------------------~v~~S~~~~~~~~g~~v~~~~P~~~~ 183 (302)
T PRK14805 158 -------------------------NVTHSLMYGAAILGATMTVICPPGHF 183 (302)
T ss_pred -------------------------ccHHHHHHHHHHcCCEEEEECCchhc
Confidence 13456677888889999999999753
No 61
>PF13362 Toprim_3: Toprim domain
Probab=40.50 E-value=42 Score=30.24 Aligned_cols=37 Identities=16% Similarity=0.254 Sum_probs=28.7
Q ss_pred cCCCHHHHHHHHhhcCceEEEeCC-CcchHHHHHHHHh
Q 003455 149 RLSDAETVAKSFVQCSVSLSVICP-KQLPKLTAIYNAA 185 (818)
Q Consensus 149 ~l~~~e~la~~~~~~~I~lSiIsP-rklp~L~~lf~~a 185 (818)
+...++.+++.|...++...|+.| ++---+.+++.+.
T Consensus 56 G~~~a~~~~~~~~~~g~~~~~~~p~~~g~D~ND~l~~~ 93 (96)
T PF13362_consen 56 GQKAAEKAAERLEAAGIAVSIVEPGPEGKDWNDLLQAR 93 (96)
T ss_pred hHHHHHHHHHHHHhCCCeEEEECCCCCCchHHHHHHhh
Confidence 345788999999999999999999 4444566666544
No 62
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=39.76 E-value=95 Score=32.82 Aligned_cols=125 Identities=18% Similarity=0.240 Sum_probs=82.6
Q ss_pred ceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEE
Q 003455 34 VELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHC 113 (818)
Q Consensus 34 ~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhC 113 (818)
...||+....+.+- .-+.+|++--+|+..|..|+..|| +.++.+|.-|+-.|. +|+.....+|.+
T Consensus 47 ntiGli~~~~a~p~-----vlsT~T~~~gkilt~lhd~~~~g~----a~~~~~lqiaql~lk------hR~nk~q~qriV 111 (243)
T COG5148 47 NTIGLIPLVQAQPN-----VLSTPTKQRGKILTFLHDIRLHGG----ADIMRCLQIAQLILK------HRDNKGQRQRIV 111 (243)
T ss_pred ceeeeeecccCCcc-----hhccchhhhhHHHHHhccccccCc----chHHHHHHHHHHHHh------cccCCccceEEE
Confidence 45577776655432 247899999999999999999988 456778999998884 233333333444
Q ss_pred EEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchHHHHHHHHhcCCCCCCC
Q 003455 114 ILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKRNPRAAD 193 (818)
Q Consensus 114 ILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~L~~lf~~a~~~~~~~~ 193 (818)
.+|| || +. ++ + .....+|+-+.++||-+-||-=-.+--...|||+.+--+
T Consensus 112 aFvg-Sp-----i~------es-----------e---deLirlak~lkknnVAidii~fGE~~n~~~l~efIda~N---- 161 (243)
T COG5148 112 AFVG-SP-----IQ------ES-----------E---DELIRLAKQLKKNNVAIDIIFFGEAANMAGLFEFIDATN---- 161 (243)
T ss_pred EEec-Cc-----cc------cc-----------H---HHHHHHHHHHHhcCeeEEEEehhhhhhhhHHHHHHHhhc----
Confidence 4443 22 11 11 1 245688999999999999997666666777777763221
Q ss_pred CCCCCCCCCCeEEEe
Q 003455 194 PPVDNSKNPHFLVLI 208 (818)
Q Consensus 194 ~~~d~ak~p~hlVLl 208 (818)
+ .|..||+.+
T Consensus 162 ----~-~dsshl~~~ 171 (243)
T COG5148 162 ----F-SDSSHLEVK 171 (243)
T ss_pred ----c-ccceeeEec
Confidence 1 345677765
No 63
>PRK14804 ornithine carbamoyltransferase; Provisional
Probab=39.29 E-value=54 Score=36.58 Aligned_cols=104 Identities=10% Similarity=0.111 Sum_probs=66.4
Q ss_pred CCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCC
Q 003455 45 GSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPL 124 (818)
Q Consensus 45 ~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~l 124 (818)
++|.+.+|=|+.-...+.+|..|. .++.+=+|.+..+=..+|+..+.+.+ .++. ...+...|.++-- +
T Consensus 95 s~~~D~iv~R~~~~~~~~~~a~~~-~vPVINag~~~~HPtQaL~Dl~Ti~e--~~g~-----~~l~g~~va~vGd--~-- 162 (311)
T PRK14804 95 SRNVSVIMARLKKHEDLLVMKNGS-QVPVINGCDNMFHPCQSLADIMTIAL--DSPE-----IPLNQKQLTYIGV--H-- 162 (311)
T ss_pred HhcCCEEEEeCCChHHHHHHHHHC-CCCEEECCCCCCChHHHHHHHHHHHH--HhCC-----CCCCCCEEEEECC--C--
Confidence 578888888887777788877774 57776666445777788888888875 1211 0122223333320 1
Q ss_pred CCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchH--HHHHHHHh
Q 003455 125 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPK--LTAIYNAA 185 (818)
Q Consensus 125 p~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~--L~~lf~~a 185 (818)
+ ..+-.++.++...|++|.++||+.++. +...++.+
T Consensus 163 -----------------------~--rv~~Sl~~~~~~~G~~v~~~~P~~~~~~~~~~~~~~~ 200 (311)
T PRK14804 163 -----------------------N--NVVNSLIGITAALGIHLTLVTPIAAKENIHAQTVERA 200 (311)
T ss_pred -----------------------C--cHHHHHHHHHHHcCCEEEEECCCCccHHHHHHHHHHH
Confidence 0 245567778888899999999999753 34445544
No 64
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=36.05 E-value=42 Score=37.32 Aligned_cols=125 Identities=14% Similarity=0.183 Sum_probs=74.6
Q ss_pred CCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCC
Q 003455 45 GSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPL 124 (818)
Q Consensus 45 ~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~l 124 (818)
++|.+.+|=|+.--..+.+|..|.+ ++.+=+|-+..+=.++|+..+.+.+ .++. .+.-|.| +|-- ..
T Consensus 96 ~~~~D~iv~R~~~~~~~~~~a~~~~-vPVINag~~~~HPtQaL~Dl~Ti~e--~~g~-----l~gl~i~--~vGd-~~-- 162 (304)
T PRK00779 96 SRYVDAIMIRTFEHETLEELAEYST-VPVINGLTDLSHPCQILADLLTIYE--HRGS-----LKGLKVA--WVGD-GN-- 162 (304)
T ss_pred HHhCCEEEEcCCChhHHHHHHHhCC-CCEEeCCCCCCChHHHHHHHHHHHH--HhCC-----cCCcEEE--EEeC-CC--
Confidence 3678888888877778888888754 6665555455777888988888875 2221 2333333 3321 11
Q ss_pred CCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchHHHHH----HHHhcCCCCCCCCCCCCCC
Q 003455 125 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAI----YNAAKRNPRAADPPVDNSK 200 (818)
Q Consensus 125 p~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~L~~l----f~~a~~~~~~~~~~~d~ak 200 (818)
..+-.++.++...|+.+.++||+.+-.-..+ .++.+.+-...+...+..+
T Consensus 163 --------------------------~v~~Sl~~~l~~~g~~v~~~~P~~~~~~~~~~~~~~~~~g~~~~~~~d~~~a~~ 216 (304)
T PRK00779 163 --------------------------NVANSLLLAAALLGFDLRVATPKGYEPDPEIVEKIAKETGASIEVTHDPKEAVK 216 (304)
T ss_pred --------------------------ccHHHHHHHHHHcCCEEEEECCcccCCCHHHHHHHHHHcCCeEEEEcCHHHHhC
Confidence 2456778888889999999999874321222 3333322111223345555
Q ss_pred CCCeEEEe
Q 003455 201 NPHFLVLI 208 (818)
Q Consensus 201 ~p~hlVLl 208 (818)
+-+.+...
T Consensus 217 ~aDvvy~~ 224 (304)
T PRK00779 217 GADVVYTD 224 (304)
T ss_pred CCCEEEec
Confidence 66666654
No 65
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=35.78 E-value=2.9e+02 Score=35.44 Aligned_cols=76 Identities=20% Similarity=0.263 Sum_probs=43.4
Q ss_pred cceEEEEEEccCCCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccE
Q 003455 33 NVELSLVTFNTHGSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRH 112 (818)
Q Consensus 33 ~~~yaLVvf~~~~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkh 112 (818)
..++|||+|.+..-.-..++. ..-..+...+..-|. +. .+|| .+|.+||.+|++++.- .. ....-++
T Consensus 341 ~DrVGLVtFsssA~vl~pLt~-Its~~dr~aL~~~L~-~~-A~GG---T~I~~GL~~Alq~L~~--~~-----~~~~~~~ 407 (863)
T TIGR00868 341 GSWVGMVTFDSAAYIKNELIQ-ITSSAERDALTANLP-TA-ASGG---TSICSGLKAAFQVIKK--SY-----QSTDGSE 407 (863)
T ss_pred CCEEEEEEECCceeEeecccc-CCcHHHHHHHHHhhc-cc-cCCC---CcHHHHHHHHHHHHHh--cc-----cccCCCE
Confidence 479999999997532111111 111124444444443 22 4444 6899999999998861 11 1123478
Q ss_pred EEEeecCCC
Q 003455 113 CILVAASNP 121 (818)
Q Consensus 113 CILi~nSpP 121 (818)
.||++.--+
T Consensus 408 IILLTDGed 416 (863)
T TIGR00868 408 IVLLTDGED 416 (863)
T ss_pred EEEEeCCCC
Confidence 899877544
No 66
>PRK02102 ornithine carbamoyltransferase; Validated
Probab=32.10 E-value=1.1e+02 Score=34.59 Aligned_cols=93 Identities=14% Similarity=0.178 Sum_probs=64.4
Q ss_pred CCCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCC
Q 003455 45 GSYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPL 124 (818)
Q Consensus 45 ~~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~l 124 (818)
++|.+++|=|+.-...+.+|-.|. .|+.+=+|....+=..+|+.++.+.+ .++. .+.-|.|++ .+. -+
T Consensus 99 s~y~D~iviR~~~~~~~~~~a~~~-~vPVINa~~~~~HPtQaLaDl~Ti~e--~~g~-----l~g~~va~v-Gd~-~~-- 166 (331)
T PRK02102 99 GRMYDGIEYRGFKQEIVEELAKYS-GVPVWNGLTDEWHPTQMLADFMTMKE--HFGP-----LKGLKLAYV-GDG-RN-- 166 (331)
T ss_pred hhcCCEEEEECCchHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHH--HhCC-----CCCCEEEEE-CCC-cc--
Confidence 488899999988888889988886 46766666566777888999888875 2221 223333322 110 00
Q ss_pred CCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 125 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 125 p~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
..+..++.++...|++|.+|+|+.+
T Consensus 167 --------------------------~v~~Sl~~~~~~~g~~v~~~~P~~~ 191 (331)
T PRK02102 167 --------------------------NMANSLMVGGAKLGMDVRICAPKEL 191 (331)
T ss_pred --------------------------cHHHHHHHHHHHcCCEEEEECCccc
Confidence 2456777888889999999999974
No 67
>PLN02342 ornithine carbamoyltransferase
Probab=32.03 E-value=41 Score=38.26 Aligned_cols=125 Identities=13% Similarity=0.145 Sum_probs=76.9
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 125 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp 125 (818)
.|.+++|=|+.-...+.+|-.|. .++.+=+|-...+=..+|+..+.+.+ .++ ..+.-|.|++--.
T Consensus 139 ~y~D~IviR~~~~~~~~~la~~~-~vPVINA~~~~~HPtQaLaDl~Ti~e--~~G-----~l~glkva~vGD~------- 203 (348)
T PLN02342 139 RYNDIIMARVFAHQDVLDLAEYS-SVPVINGLTDYNHPCQIMADALTIIE--HIG-----RLEGTKVVYVGDG------- 203 (348)
T ss_pred HhCCEEEEeCCChHHHHHHHHhC-CCCEEECCCCCCChHHHHHHHHHHHH--HhC-----CcCCCEEEEECCC-------
Confidence 78888888887777788888875 56766555445677888888888875 222 2344455553110
Q ss_pred CCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchHHHHHHHHhcC----CCCCCCCCCCCCCC
Q 003455 126 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNAAKR----NPRAADPPVDNSKN 201 (818)
Q Consensus 126 ~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~L~~lf~~a~~----~~~~~~~~~d~ak~ 201 (818)
...+-.++.++...|++|.|+||+.+-.-.++.+++.. +-...+-..+-.++
T Consensus 204 ------------------------~nva~Sli~~~~~~G~~v~~~~P~~~~~~~~~~~~a~~~g~~~~~~~~d~~eav~~ 259 (348)
T PLN02342 204 ------------------------NNIVHSWLLLAAVLPFHFVCACPKGYEPDAKTVEKARAAGISKIEITNDPAEAVKG 259 (348)
T ss_pred ------------------------chhHHHHHHHHHHcCCEEEEECCcccccCHHHHHHHHHhCCCcEEEEcCHHHHhCC
Confidence 01455677888888999999999986443444444321 11111222344555
Q ss_pred CCeEEEee
Q 003455 202 PHFLVLIS 209 (818)
Q Consensus 202 p~hlVLl~ 209 (818)
-+.+...+
T Consensus 260 aDVvy~~~ 267 (348)
T PLN02342 260 ADVVYTDV 267 (348)
T ss_pred CCEEEECC
Confidence 66666553
No 68
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.79 E-value=3.4e+02 Score=34.73 Aligned_cols=141 Identities=18% Similarity=0.252 Sum_probs=85.0
Q ss_pred HHhhhhHHHHHhhccccccccccCCCcceEEEEEEccCCCC------------------CcCcee-eccCC----CCHHH
Q 003455 7 AYSKLSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHGSY------------------CACLVQ-RSGWT----KDVDI 63 (818)
Q Consensus 7 ~l~~YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~~~------------------~~~~v~-~~g~T----~~~~~ 63 (818)
.+-+-|..++|+|-. ...+++-|+|+|...=.+ .+.+|= ..|++ .+...
T Consensus 438 a~ce~ik~~l~~lp~--------~~p~~~Vgivtfd~tvhFfnl~s~L~qp~mliVsdv~dvfvPf~~g~~V~~~es~~~ 509 (1007)
T KOG1984|consen 438 AACEAIKSVLEDLPR--------EEPNIRVGIVTFDKTVHFFNLSSNLAQPQMLIVSDVDDVFVPFLDGLFVNPNESRKV 509 (1007)
T ss_pred HHHHHHHHHHhhcCc--------cCCceEEEEEEecceeEeeccCccccCceEEEeecccccccccccCeeccchHHHHH
Confidence 334566677777732 245788999998764311 111111 12233 23455
Q ss_pred HHHHhcccc--CCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCCCCCcCcccccccccch
Q 003455 64 FLHWLSTIP--FAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLPTPVYRPQMQNLDQNEN 141 (818)
Q Consensus 64 fl~wL~~i~--f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp~~~~~p~~~~l~~~~~ 141 (818)
+-..||.|. |.+-++.+.+++.+|-.|+..+... +.-|-.|....-|=+..+. .+.+-++++-
T Consensus 510 i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~----------~gGKl~vF~s~Lpt~g~g~-----kl~~r~D~~l 574 (1007)
T KOG1984|consen 510 IELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAA----------DGGKLFVFHSVLPTAGAGG-----KLSNRDDRRL 574 (1007)
T ss_pred HHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhcc----------CCceEEEEecccccccCcc-----cccccchhhh
Confidence 666777776 7777888999999999999888622 2445555544434444332 2344444444
Q ss_pred hhhhhhccCC-----CHHHHHHHHhhcCceEEEe
Q 003455 142 NEAQAESRLS-----DAETVAKSFVQCSVSLSVI 170 (818)
Q Consensus 142 ~~~~~~~~l~-----~~e~la~~~~~~~I~lSiI 170 (818)
+...+|..|- +...||+.|.|.+|.|-|.
T Consensus 575 ~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF 608 (1007)
T KOG1984|consen 575 IGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLF 608 (1007)
T ss_pred hcccchhhccCcchhHHHHHHHHHHHhCceEEEE
Confidence 4545555433 4779999999999988764
No 69
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=30.42 E-value=61 Score=30.63 Aligned_cols=40 Identities=10% Similarity=-0.067 Sum_probs=27.5
Q ss_pred hHHHhh-hhHHHHHhhccccccccccCCCcceEEEEEEccCC
Q 003455 5 FYAYSK-LSLYFHRCFCVNELAGQKTSASNVELSLVTFNTHG 45 (818)
Q Consensus 5 ~~~l~~-YI~p~ie~f~~~~~~e~~~~~~~~~yaLVvf~~~~ 45 (818)
|+.|-| -||-++||..+ +.+..+....+-.+||||+|.-.
T Consensus 47 yDqLlNlVLDd~vEylrd-pdd~~~~~~~tR~LGLvV~RGTa 87 (108)
T KOG1781|consen 47 YDQLLNLVLDDTVEYLRD-PDDPYKLTDETRKLGLVVCRGTA 87 (108)
T ss_pred HHHHHHHHHHHHHHHhcC-CCCccchhhhhheeeeEEEcccE
Confidence 444555 78889999987 33344444446789999998754
No 70
>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=30.20 E-value=6.7e+02 Score=29.48 Aligned_cols=138 Identities=12% Similarity=0.125 Sum_probs=72.1
Q ss_pred CcceEEEEEEccCC--CCCc---------------------CceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHH
Q 003455 32 SNVELSLVTFNTHG--SYCA---------------------CLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLS 88 (818)
Q Consensus 32 ~~~~yaLVvf~~~~--~~~~---------------------~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa 88 (818)
.++.+|+=.|-+.+ +|-+ .+-.....|+|..+|.+.+.+...+|+-.....-=|||-
T Consensus 138 ~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~is~n~D~PEgg~dal~ 217 (426)
T PF00362_consen 138 SNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPPFSFRHVLSLTDDITEFNEEVNKQKISGNLDAPEGGLDALM 217 (426)
T ss_dssp SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B---SEEEEEEEES-HHHHHHHHHTS--B--SSSSBSHHHHHH
T ss_pred ccceEechhhcccccCCcccCChhhhcCcccccCCCCCCCeeeEEeecccchHHHHHHhhhhccccCCCCCCccccchhe
Confidence 46778888887765 2211 112335578999999999999999888866666667777
Q ss_pred HHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC----CCC--cCcccccccccch-hhhhhhccCCCHHHHHHHHh
Q 003455 89 EALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP----TPV--YRPQMQNLDQNEN-NEAQAESRLSDAETVAKSFV 161 (818)
Q Consensus 89 ~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp----~~~--~~p~~~~l~~~~~-~~~~~~~~l~~~e~la~~~~ 161 (818)
-|..|-+ ..+= +....|.-|+.+....|-.- ... ++...|-|+.+.. ..+..+ -.-+..+|++.+.
T Consensus 218 Qa~vC~~--~igW----r~~a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~~~y~~~~~~-DYPSv~ql~~~l~ 290 (426)
T PF00362_consen 218 QAAVCQE--EIGW----RNEARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDNGMYTASTEQ-DYPSVGQLVRKLS 290 (426)
T ss_dssp HHHH-HH--HHT------STSEEEEEEEESS-B--TTGGGGGT--S---SS--BSTTSBBGGGGCS-----HHHHHHHHH
T ss_pred eeeeccc--ccCc----ccCceEEEEEEcCCccccccccccceeeecCCCceEECCCCcccccccc-cCCCHHHHHHHHH
Confidence 6665532 0110 23444555555565555411 111 1233444554311 111112 2237899999999
Q ss_pred hcCceEEEeCCCcch
Q 003455 162 QCSVSLSVICPKQLP 176 (818)
Q Consensus 162 ~~~I~lSiIsPrklp 176 (818)
|++|..=|.-.++.-
T Consensus 291 e~~i~~IFAVt~~~~ 305 (426)
T PF00362_consen 291 ENNINPIFAVTKDVY 305 (426)
T ss_dssp HTTEEEEEEEEGGGH
T ss_pred HcCCEEEEEEchhhh
Confidence 999999888776543
No 71
>PRK02255 putrescine carbamoyltransferase; Provisional
Probab=29.52 E-value=48 Score=37.48 Aligned_cols=94 Identities=11% Similarity=0.135 Sum_probs=61.5
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 125 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp 125 (818)
+|.+++|=|+.--..+.+|-.| ..++.+=||-...+=..+|+..+.+.+ .++.- ...+.-|.||+-..+
T Consensus 96 ~y~D~iviR~~~~~~~~~~a~~-~~vPVINa~~~~~HPtQaLaDl~Ti~e--~~g~g--~~l~glkv~~vGD~~------ 164 (338)
T PRK02255 96 RLVDIIMARVDRHQTVVELAKY-ATVPVINGMSDYNHPTQELGDLFTMIE--HLPEG--KKLEDCKVVFVGDAT------ 164 (338)
T ss_pred HhCcEEEEecCChHHHHHHHHh-CCCCEEECCCCCCChHHHHHHHHHHHH--HhCCC--CCCCCCEEEEECCCc------
Confidence 7788887777666678888777 457777666455677888888888775 22100 012333444442100
Q ss_pred CCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 126 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 126 ~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
..+-.++.++...|++|.++||+.+
T Consensus 165 -------------------------~v~~Sl~~~~~~~g~~v~~~~P~~~ 189 (338)
T PRK02255 165 -------------------------QVCVSLMFIATKMGMDFVHFGPKGY 189 (338)
T ss_pred -------------------------hHHHHHHHHHHhCCCEEEEECCCcc
Confidence 1455677888889999999999964
No 72
>TIGR03316 ygeW probable carbamoyltransferase YgeW. Members of this protein family include the ygeW gene product of Escherichia coli. The function is unknown. Members show homology to ornithine carbamoyltransferase (TIGR00658) and aspartate carbamoyltransferase (carbamoyltransferase), and therefore may belong to the carbamoyltransferases in function. Members often are found in a large, conserved genomic region associated with purine catabolism.
Probab=27.00 E-value=1.4e+02 Score=34.21 Aligned_cols=111 Identities=10% Similarity=0.149 Sum_probs=64.9
Q ss_pred CCCcCceeeccCC-----CCHHHHHHHh----------ccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCc
Q 003455 46 SYCACLVQRSGWT-----KDVDIFLHWL----------STIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQ 110 (818)
Q Consensus 46 ~~~~~~v~~~g~T-----~~~~~fl~wL----------~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~q 110 (818)
+|.+.+|=|+.+. ..+.+|..|+ .+++.+=+|-...+=..+|+..+.+.+ .++.. .....-
T Consensus 96 ~y~D~Iv~R~~~~~~~~~~~l~~~a~~~~~~~~~~~~~s~vPVINa~~~~~HPtQaLaDl~Ti~e--~~G~~--~~l~g~ 171 (357)
T TIGR03316 96 FFADGIGIRDDMYIGVGNAYMREVAKYVQEGYKDGVLEQRPPLVNLQCDIDHPTQAMADIMTLQE--KFGGI--ENLKGK 171 (357)
T ss_pred HhCcEEEEeCCCccccccHHHHHHHHhhhhccccccccCCCCEEECCCCCCCchHHHHHHHHHHH--HhCCc--cccCCC
Confidence 7888888888652 2346788885 578877776455677788888888875 22210 001122
Q ss_pred cEEEEeecCCCCCCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchHHHHHHHH
Q 003455 111 RHCILVAASNPHPLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNA 184 (818)
Q Consensus 111 khCILi~nSpP~~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~L~~lf~~ 184 (818)
|.+|+-+...-|.-.+ .-+-.++.++...|++|.|+||+.+....++++.
T Consensus 172 kvai~~~~d~~~gr~~------------------------~v~~Sl~~~~~~~G~~v~~~~P~~~~~~~~~~~~ 221 (357)
T TIGR03316 172 KFAMTWAYSPSYGKPL------------------------SVPQGIIGLMTRFGMDVTLAHPEGYHLLPEVIEV 221 (357)
T ss_pred EEEEEeccccccCccc------------------------hHHHHHHHHHHHcCCEEEEECCCcccCCHHHHHH
Confidence 3333322222121111 1233466677888999999999976444444443
No 73
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=26.57 E-value=64 Score=41.89 Aligned_cols=12 Identities=0% Similarity=-0.388 Sum_probs=6.2
Q ss_pred hHHHHHhhcccc
Q 003455 12 SLYFHRCFCVNE 23 (818)
Q Consensus 12 I~p~ie~f~~~~ 23 (818)
|.|++|.-.+|-
T Consensus 960 ltplme~AsgGy 971 (2131)
T KOG4369|consen 960 LTPLMEMASGGY 971 (2131)
T ss_pred CcccchhhcCCc
Confidence 445555555544
No 74
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=25.38 E-value=1.4e+02 Score=33.83 Aligned_cols=93 Identities=11% Similarity=0.093 Sum_probs=60.3
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 125 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp 125 (818)
.|.+.+|=|+.-...+.+|-.|.+ |+.+=++-...+=..+|+..+.+.+ ..+. ...+-.|.++---.+.
T Consensus 100 ~y~D~iv~R~~~~~~~~~~a~~~~-vPVINa~~~~~HPtQaL~Dl~Ti~e--~~g~------~l~gl~ia~vGD~~~~-- 168 (334)
T PRK01713 100 RMYDAIEYRGFKQSIVNELAEYAG-VPVFNGLTDEFHPTQMLADVLTMIE--NCDK------PLSEISYVYIGDARNN-- 168 (334)
T ss_pred HhCCEEEEEcCchHHHHHHHHhCC-CCEEECCCCCCChHHHHHHHHHHHH--HcCC------CcCCcEEEEECCCccC--
Confidence 778888888887778888888865 5555444455777788888888875 1110 1122233332211111
Q ss_pred CCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 126 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 126 ~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
.+-.++.++...|++|.|+||+.+
T Consensus 169 --------------------------v~~Sl~~~~~~~g~~v~~~~P~~~ 192 (334)
T PRK01713 169 --------------------------MGNSLLLIGAKLGMDVRICAPKAL 192 (334)
T ss_pred --------------------------HHHHHHHHHHHcCCEEEEECCchh
Confidence 345667778888999999999975
No 75
>PRK13814 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=25.26 E-value=93 Score=34.82 Aligned_cols=94 Identities=13% Similarity=0.182 Sum_probs=62.8
Q ss_pred CC-CcCceeeccCCCCHHHHHHHhccccCCCCCCC-hhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCC
Q 003455 46 SY-CACLVQRSGWTKDVDIFLHWLSTIPFAGGGFN-DAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHP 123 (818)
Q Consensus 46 ~~-~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~-~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~ 123 (818)
.| .+.+|=|+.--..+.+|-.|.+++..+=+|.+ ..+=..+|+..+.+.+ .++. ..+..|.++- ..
T Consensus 99 ~y~~D~iv~R~~~~~~~~~~a~~~~~vPvINag~g~~~HPtQaLaDl~Ti~e--~~g~-------l~g~~va~vG---D~ 166 (310)
T PRK13814 99 AMGVYFFIVRHSENETPEQIAKQLSSGVVINAGDGNHQHPSQALIDLMTIKQ--HKPH-------WNKLCVTIIG---DI 166 (310)
T ss_pred HhCCCEEEEeCCchhHHHHHHHhCCCCCeEECCcCCCCCchHHHHHHHHHHH--HhCC-------cCCcEEEEEC---CC
Confidence 56 46666777767778888899888888888743 3777788888888875 2221 2222333321 00
Q ss_pred CCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCc-eEEEeCCCcc
Q 003455 124 LPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSV-SLSVICPKQL 175 (818)
Q Consensus 124 lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I-~lSiIsPrkl 175 (818)
.++ ..+-.++.++...++ +|.++||+.+
T Consensus 167 ----------------------~~~--rv~~Sl~~~~a~~g~~~v~~~~P~~~ 195 (310)
T PRK13814 167 ----------------------RHS--RVANSLMDGLVTMGVPEIRLVGPSSL 195 (310)
T ss_pred ----------------------CCC--cHHHHHHHHHHHcCCCEEEEeCCccc
Confidence 011 256678888999998 9999999864
No 76
>PRK04284 ornithine carbamoyltransferase; Provisional
Probab=24.07 E-value=1.2e+02 Score=34.30 Aligned_cols=125 Identities=11% Similarity=0.141 Sum_probs=72.4
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCC-CCCCCCCCCCCccEEEEeecCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAP-NGSQNQQNVDGQRHCILVAASNPHPL 124 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~-~~~~~~~~~~~qkhCILi~nSpP~~l 124 (818)
+|.+.+|=|+.-...+.+|-.|.+ |+.+=||-+..+=..+|+..+.+.+ . .+ ..+.-|.|+ +--.-+
T Consensus 99 ~y~D~iviR~~~~~~~~~~a~~s~-vPVINa~~~~~HPtQaL~Dl~Ti~e--~~~g-----~l~g~kia~--vGD~~~-- 166 (332)
T PRK04284 99 GMYDGIEYRGFSQRTVETLAEYSG-VPVWNGLTDEDHPTQVLADFLTAKE--HLKK-----PYKDIKFTY--VGDGRN-- 166 (332)
T ss_pred HhCCEEEEecCchHHHHHHHHhCC-CCEEECCCCCCChHHHHHHHHHHHH--HhcC-----CcCCcEEEE--ecCCCc--
Confidence 777888888877778888888864 5555444345777788888888775 1 11 122233333 311000
Q ss_pred CCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcchHHHHHHHH-------hcCCCCCCCCCCC
Q 003455 125 PTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQLPKLTAIYNA-------AKRNPRAADPPVD 197 (818)
Q Consensus 125 p~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrklp~L~~lf~~-------a~~~~~~~~~~~d 197 (818)
..+-.++.++...|++|.++||+.+-.-.++.++ .+.+-....-..+
T Consensus 167 --------------------------~v~~Sl~~~~~~~g~~v~~~~P~~~~~~~~~~~~~~~~~~~~g~~~~~~~d~~e 220 (332)
T PRK04284 167 --------------------------NVANALMQGAAIMGMDFHLVCPKELNPDDELLNKCKEIAAETGGKITITDDIDE 220 (332)
T ss_pred --------------------------chHHHHHHHHHHcCCEEEEECCccccCCHHHHHHHHHHHHHcCCeEEEEcCHHH
Confidence 1345667778888999999999864332333322 2221111222345
Q ss_pred CCCCCCeEEEe
Q 003455 198 NSKNPHFLVLI 208 (818)
Q Consensus 198 ~ak~p~hlVLl 208 (818)
..|+-+.+...
T Consensus 221 a~~~aDvvy~~ 231 (332)
T PRK04284 221 GVKGSDVIYTD 231 (332)
T ss_pred HhCCCCEEEEC
Confidence 56666666664
No 77
>PHA02030 hypothetical protein
Probab=24.01 E-value=3.6e+02 Score=30.46 Aligned_cols=77 Identities=14% Similarity=0.103 Sum_probs=45.9
Q ss_pred hhHHHHHhhccccccccccCC------CcceEEEEEEccCCCCC-------c--------------CceeeccCCCC---
Q 003455 11 LSLYFHRCFCVNELAGQKTSA------SNVELSLVTFNTHGSYC-------A--------------CLVQRSGWTKD--- 60 (818)
Q Consensus 11 YI~p~ie~f~~~~~~e~~~~~------~~~~yaLVvf~~~~~~~-------~--------------~~v~~~g~T~~--- 60 (818)
|....++||.-|.-.+ +|.| .++.+++.+|++.-+.. + -.+.++..|-+
T Consensus 44 a~~Rfv~YiE~Gkh~~-efqGK~k~~~~~vrLgf~L~G~~~p~~g~~~s~p~dlf~~~~~~g~~~P~~i~t~~mtlsnnE 122 (336)
T PHA02030 44 AMGRFCIYIELGKHAK-EFQGKLKPPAPNVRLGFALWGDVNPQAGNPQSRPDDLFHTYEADGNGKPGLIRTFEMTLGNNE 122 (336)
T ss_pred ceeEEEEEEEcccchh-hhCCCCCCcccceeEEEEEecCCCccccccccCccccccccccCCCcceeEEEeeeecccccc
Confidence 5555667776655444 3333 36889999999843222 1 12334444433
Q ss_pred HHHHHHHhccccCCCCCCChhhHHHHHHHHH
Q 003455 61 VDIFLHWLSTIPFAGGGFNDAAIAEGLSEAL 91 (818)
Q Consensus 61 ~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL 91 (818)
-..|...+|++.. ||+ .-++||.|..|.
T Consensus 123 Ks~~kk~Fd~Mn~-~G~--akh~ae~LG~aF 150 (336)
T PHA02030 123 KSKTKLAFDKMNW-SGQ--HKHFAQMLGQAF 150 (336)
T ss_pred hhhHHHHHHHhcc-CCc--hhhHHHHcCCce
Confidence 3567888888887 333 345788888876
No 78
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=23.15 E-value=97 Score=28.71 Aligned_cols=21 Identities=14% Similarity=0.080 Sum_probs=18.0
Q ss_pred CCCHHHHHHHhccccCCCCCC
Q 003455 58 TKDVDIFLHWLSTIPFAGGGF 78 (818)
Q Consensus 58 T~~~~~fl~wL~~i~f~GGG~ 78 (818)
--++++|..-|+.|.+...+.
T Consensus 54 G~~~~~ii~~L~gi~~~~~~~ 74 (95)
T PF12637_consen 54 GVPPEEIIDQLRGIRCGPSGT 74 (95)
T ss_pred CCCHHHHHHHhcCCCCCCCCc
Confidence 346889999999999999886
No 79
>TIGR00658 orni_carb_tr ornithine carbamoyltransferase. Most OTCases are homotrimers, but the homotrimers are organized into dodecamers built from four trimers in at least two species; the catabolic OTCase of Pseudomonas aeruginosa is allosterically regulated, while OTCase of the extreme thermophile Pyrococcus furiosus shows both allostery and thermophily.
Probab=22.87 E-value=1.7e+02 Score=32.49 Aligned_cols=91 Identities=14% Similarity=0.221 Sum_probs=60.4
Q ss_pred CCCcCceeeccCCCCHHHHHHHhccccCCCCCCChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCCCCC
Q 003455 46 SYCACLVQRSGWTKDVDIFLHWLSTIPFAGGGFNDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPHPLP 125 (818)
Q Consensus 46 ~~~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~~lp 125 (818)
+|.+.+|=|+.-...+.+|..|.+ ++.+=+|-...+=..+|+..+.+.+ .++ ..+.-|.+++- . .
T Consensus 93 ~y~D~iv~R~~~~~~~~~~a~~~~-vPVINa~~~~~HPtQaL~Dl~Ti~e--~~g-----~l~g~~v~~vG-d-~----- 157 (304)
T TIGR00658 93 RYVDGIMARVYKHEDVEELAKYAS-VPVINGLTDLFHPCQALADLLTIIE--HFG-----KLKGVKVVYVG-D-G----- 157 (304)
T ss_pred HhCCEEEEECCChHHHHHHHHhCC-CCEEECCCCCCChHHHHHHHHHHHH--HhC-----CCCCcEEEEEe-C-C-----
Confidence 778888888887778888888865 5544434345677788888887775 222 12223333221 1 0
Q ss_pred CCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 126 TPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 126 ~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
+ ..+-.++.++...|++|.|++|+.+
T Consensus 158 ----------------------~--~v~~Sl~~~l~~~g~~v~~~~P~~~ 183 (304)
T TIGR00658 158 ----------------------N--NVCNSLMLAGAKLGMDVVVATPEGY 183 (304)
T ss_pred ----------------------C--chHHHHHHHHHHcCCEEEEECCchh
Confidence 0 2456778888899999999999975
No 80
>PRK00856 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=21.74 E-value=2.3e+02 Score=31.71 Aligned_cols=94 Identities=16% Similarity=0.241 Sum_probs=64.5
Q ss_pred CCC-CcCceeeccCCCCHHHHHHHhccccCCCCCC-ChhhHHHHHHHHHhhhccCCCCCCCCCCCCCccEEEEeecCCCC
Q 003455 45 GSY-CACLVQRSGWTKDVDIFLHWLSTIPFAGGGF-NDAAIAEGLSEALMMFSVAPNGSQNQQNVDGQRHCILVAASNPH 122 (818)
Q Consensus 45 ~~~-~~~~v~~~g~T~~~~~fl~wL~~i~f~GGG~-~~~aiaEGLa~AL~~~~~~~~~~~~~~~~~~qkhCILi~nSpP~ 122 (818)
.+| .+++|=|+.--..+.+|-.| .+|+.+=+|. ...+=..+|+..+.+.+ .++. .+.-|.|++-.
T Consensus 98 s~y~~D~iv~R~~~~~~~~~~a~~-~~vPVINa~~g~~~HPtQ~LaDl~Ti~e--~~G~-----l~g~kv~~vGD----- 164 (305)
T PRK00856 98 SAMGADAIVIRHPQSGAARLLAES-SDVPVINAGDGSHQHPTQALLDLLTIRE--EFGR-----LEGLKVAIVGD----- 164 (305)
T ss_pred HhcCCCEEEEeCCChHHHHHHHHH-CCCCEEECCCCCCCCcHHHHHHHHHHHH--HhCC-----CCCCEEEEECC-----
Confidence 378 88888887777778888888 6789888875 46777888888888875 2221 22333333310
Q ss_pred CCCCCCcCcccccccccchhhhhhhccCCCHHHHHHHHhhcCceEEEeCCCcc
Q 003455 123 PLPTPVYRPQMQNLDQNENNEAQAESRLSDAETVAKSFVQCSVSLSVICPKQL 175 (818)
Q Consensus 123 ~lp~~~~~p~~~~l~~~~~~~~~~~~~l~~~e~la~~~~~~~I~lSiIsPrkl 175 (818)
..++ ..+-.++.++...+++|.++||+.+
T Consensus 165 ----------------------~~~~--~v~~Sl~~~~~~~g~~~~~~~P~~~ 193 (305)
T PRK00856 165 ----------------------IKHS--RVARSNIQALTRLGAEVRLIAPPTL 193 (305)
T ss_pred ----------------------CCCC--cHHHHHHHHHHHcCCEEEEECCccc
Confidence 0011 2456677888888999999999875
No 81
>PF14336 DUF4392: Domain of unknown function (DUF4392)
Probab=21.35 E-value=4.2e+02 Score=29.47 Aligned_cols=42 Identities=14% Similarity=0.196 Sum_probs=35.0
Q ss_pred hccCCCHHHHHHHHhhcCceEEEeCCCc-chHHHHHHHHhcCC
Q 003455 147 ESRLSDAETVAKSFVQCSVSLSVICPKQ-LPKLTAIYNAAKRN 188 (818)
Q Consensus 147 ~~~l~~~e~la~~~~~~~I~lSiIsPrk-lp~L~~lf~~a~~~ 188 (818)
.++.-.+-.||++|...+.+..|++.+. .+.++++++.+...
T Consensus 59 TDGP~GA~aLa~aL~~lG~~~~ivtd~~~~~~~~~~~~~~~~~ 101 (291)
T PF14336_consen 59 TDGPPGAAALARALQALGKEVVIVTDERCAPVVKAAVRAAGLQ 101 (291)
T ss_pred CCChHHHHHHHHHHHHcCCeEEEEECHHHHHHHHHHHHHHhhC
Confidence 3566678899999999999999999964 78899998887553
Done!