Query 005694
Match_columns 682
No_of_seqs 235 out of 1408
Neff 7.8
Searched_HMMs 46136
Date Thu Mar 28 12:20:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005694.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005694hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00578 ku70 ATP-dependent D 100.0 1.8E-78 3.9E-83 686.0 45.8 466 4-512 9-516 (584)
2 KOG2326 DNA-binding subunit of 100.0 1.7E-75 3.7E-80 620.4 40.6 638 4-675 3-668 (669)
3 cd00873 KU80 Ku-core domain, K 100.0 6.9E-57 1.5E-61 474.0 31.2 296 208-508 2-300 (300)
4 cd00788 KU70 Ku-core domain, K 100.0 3.1E-50 6.7E-55 420.9 29.6 276 207-502 1-287 (287)
5 cd00594 KU Ku-core domain; inc 100.0 5.7E-50 1.2E-54 417.7 29.4 271 207-502 1-272 (272)
6 cd00789 KU_like Ku-core domain 100.0 1.8E-47 3.8E-52 389.3 26.4 252 207-503 1-253 (256)
7 TIGR02772 Ku_bact Ku protein, 100.0 1.4E-46 3.1E-51 383.1 25.1 253 206-503 1-255 (258)
8 KOG2327 DNA-binding subunit of 100.0 3.5E-44 7.5E-49 385.3 31.1 460 4-505 17-524 (602)
9 PF02735 Ku: Ku70/Ku80 beta-ba 100.0 7.1E-41 1.5E-45 333.0 18.5 199 214-424 1-200 (200)
10 PF08785 Ku_PK_bind: Ku C term 100.0 2.5E-38 5.3E-43 286.8 6.9 120 555-677 1-120 (120)
11 COG1273 Ku-homolog [Replicatio 100.0 1.7E-35 3.6E-40 289.7 18.6 260 206-512 3-266 (278)
12 smart00559 Ku78 Ku70 and Ku80 100.0 2.7E-34 5.8E-39 268.3 13.5 136 270-408 2-138 (140)
13 PF03731 Ku_N: Ku70/Ku80 N-ter 99.9 3.2E-24 7E-29 217.4 17.0 192 7-208 1-223 (224)
14 cd01458 vWA_ku Ku70/Ku80 N-ter 99.9 5E-21 1.1E-25 193.2 14.8 146 5-157 1-172 (218)
15 cd01453 vWA_transcription_fact 98.9 8.9E-08 1.9E-12 94.0 16.3 156 7-198 5-174 (183)
16 PF03730 Ku_C: Ku70/Ku80 C-ter 98.8 1.3E-09 2.9E-14 95.1 2.6 65 441-507 4-68 (96)
17 cd01452 VWA_26S_proteasome_sub 98.7 1.2E-06 2.6E-11 85.6 17.0 146 5-183 3-162 (187)
18 PRK13685 hypothetical protein; 98.6 1.7E-06 3.8E-11 92.7 18.5 167 6-193 89-277 (326)
19 cd01451 vWA_Magnesium_chelatas 98.6 2.8E-06 6E-11 83.0 17.6 156 7-192 2-167 (178)
20 cd01465 vWA_subgroup VWA subgr 98.6 4.6E-06 9.9E-11 80.3 18.2 155 8-195 3-166 (170)
21 cd01467 vWA_BatA_type VWA BatA 98.6 2.7E-06 5.9E-11 82.8 16.7 158 7-192 4-177 (180)
22 cd01470 vWA_complement_factors 98.5 3.8E-06 8.1E-11 83.5 15.1 157 8-194 3-192 (198)
23 cd01474 vWA_ATR ATR (Anthrax T 98.5 4.1E-06 8.8E-11 82.3 15.2 146 5-185 4-160 (185)
24 cd01472 vWA_collagen von Wille 98.4 8E-06 1.7E-10 78.5 16.4 141 8-185 3-156 (164)
25 cd01480 vWA_collagen_alpha_1-V 98.4 6.9E-06 1.5E-10 80.8 16.1 146 7-185 4-166 (186)
26 TIGR03436 acidobact_VWFA VWFA- 98.4 4.6E-06 9.9E-11 88.3 15.7 159 6-189 54-238 (296)
27 cd01456 vWA_ywmD_type VWA ywmD 98.4 5.2E-06 1.1E-10 83.0 15.2 158 5-192 20-203 (206)
28 cd01473 vWA_CTRP CTRP for CS 98.4 4.8E-06 1E-10 82.3 13.3 129 8-157 3-149 (192)
29 PF13519 VWA_2: von Willebrand 98.3 3.2E-06 7E-11 80.9 11.0 142 8-189 2-158 (172)
30 cd01482 vWA_collagen_alphaI-XI 98.3 1.5E-05 3.2E-10 76.7 15.4 138 8-182 3-153 (164)
31 cd01454 vWA_norD_type norD typ 98.3 4.2E-05 9.1E-10 74.2 17.1 139 7-157 2-152 (174)
32 cd01469 vWA_integrins_alpha_su 98.3 3.4E-05 7.4E-10 75.2 16.4 154 8-191 3-170 (177)
33 cd01461 vWA_interalpha_trypsin 98.3 5.3E-05 1.1E-09 72.8 17.4 154 7-197 4-167 (171)
34 cd01475 vWA_Matrilin VWA_Matri 98.3 1.7E-05 3.8E-10 80.4 14.5 140 7-183 4-159 (224)
35 cd00198 vWFA Von Willebrand fa 98.2 5.6E-05 1.2E-09 70.7 15.0 128 7-156 2-140 (161)
36 cd01450 vWFA_subfamily_ECM Von 98.2 4.8E-05 1E-09 72.0 14.6 140 8-182 3-155 (161)
37 PRK13406 bchD magnesium chelat 98.2 6.2E-05 1.3E-09 86.2 17.9 158 5-192 401-570 (584)
38 cd01476 VWA_integrin_invertebr 98.1 3E-05 6.6E-10 74.2 12.8 127 8-157 3-141 (163)
39 cd01471 vWA_micronemal_protein 98.1 6.4E-05 1.4E-09 73.7 14.4 127 8-157 3-147 (186)
40 cd01463 vWA_VGCC_like VWA Volt 98.1 0.00014 3E-09 71.8 16.4 155 5-191 13-188 (190)
41 smart00327 VWA von Willebrand 98.1 0.00021 4.5E-09 68.6 17.0 146 7-186 3-162 (177)
42 cd01477 vWA_F09G8-8_type VWA F 98.0 0.0001 2.3E-09 72.8 14.3 128 8-157 22-171 (193)
43 PTZ00441 sporozoite surface pr 98.0 0.00011 2.4E-09 82.3 15.4 130 5-157 42-188 (576)
44 TIGR02031 BchD-ChlD magnesium 98.0 0.00018 4E-09 83.0 17.7 158 8-192 410-583 (589)
45 TIGR00868 hCaCC calcium-activa 98.0 0.00017 3.7E-09 85.1 16.5 144 7-190 306-461 (863)
46 cd01466 vWA_C3HC4_type VWA C3H 97.9 0.00014 3.1E-09 69.2 12.3 140 8-188 3-153 (155)
47 cd01455 vWA_F11C1-5a_type Von 97.9 0.0002 4.3E-09 70.0 12.9 154 8-194 3-177 (191)
48 cd01481 vWA_collagen_alpha3-VI 97.9 0.00042 9.2E-09 66.8 14.9 124 8-156 3-142 (165)
49 PF13768 VWA_3: von Willebrand 97.8 0.00049 1.1E-08 65.3 14.7 144 7-186 2-153 (155)
50 TIGR02442 Cob-chelat-sub cobal 97.8 0.00096 2.1E-08 78.0 18.8 157 5-189 465-632 (633)
51 cd01460 vWA_midasin VWA_Midasi 97.8 0.00038 8.2E-09 71.9 13.7 127 5-157 60-204 (266)
52 cd01464 vWA_subfamily VWA subf 97.8 0.00034 7.4E-09 68.0 12.6 139 6-180 4-159 (176)
53 cd01462 VWA_YIEM_type VWA YIEM 97.7 0.0014 2.9E-08 62.0 15.4 127 7-157 2-134 (152)
54 COG1240 ChlD Mg-chelatase subu 97.7 0.0018 4E-08 65.3 16.4 157 7-192 80-247 (261)
55 PF00092 VWA: von Willebrand f 97.6 0.00096 2.1E-08 64.2 13.4 140 8-181 2-155 (178)
56 TIGR03788 marine_srt_targ mari 97.4 0.0053 1.1E-07 71.5 17.7 149 6-192 272-431 (596)
57 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0043 9.2E-08 60.9 13.7 144 11-188 1-158 (193)
58 KOG2884 26S proteasome regulat 96.6 0.043 9.4E-07 53.7 13.1 131 5-157 3-146 (259)
59 COG5148 RPN10 26S proteasome r 96.3 0.11 2.3E-06 49.8 13.2 129 5-157 3-146 (243)
60 cd01457 vWA_ORF176_type VWA OR 95.9 0.14 3E-06 50.7 13.1 46 7-53 4-57 (199)
61 PRK10997 yieM hypothetical pro 95.0 0.43 9.4E-06 53.5 14.3 126 4-156 322-456 (487)
62 COG4867 Uncharacterized protei 94.0 1 2.2E-05 48.6 13.4 149 4-187 462-631 (652)
63 PF05762 VWA_CoxE: VWA domain 93.7 0.6 1.3E-05 47.2 11.1 120 7-154 59-186 (222)
64 KOG2807 RNA polymerase II tran 91.8 4 8.8E-05 42.6 13.7 145 7-188 62-221 (378)
65 PF11265 Med25_VWA: Mediator c 91.3 4.4 9.6E-05 40.8 13.2 139 6-155 14-185 (226)
66 PF10138 vWA-TerF-like: vWA fo 91.1 5.2 0.00011 39.6 13.3 124 7-157 3-143 (200)
67 KOG2326 DNA-binding subunit of 90.7 0.0047 1E-07 68.4 -9.1 133 272-406 325-468 (669)
68 COG4245 TerY Uncharacterized p 90.1 2.9 6.4E-05 40.5 10.2 46 7-52 5-54 (207)
69 cd01479 Sec24-like Sec24-like: 89.9 11 0.00023 38.8 15.2 164 7-189 5-218 (244)
70 COG2425 Uncharacterized protei 87.1 7 0.00015 43.3 12.1 124 7-157 274-406 (437)
71 cd01468 trunk_domain trunk dom 86.6 32 0.0007 35.0 16.2 167 7-190 5-222 (239)
72 TIGR00627 tfb4 transcription f 86.4 9.5 0.00021 39.9 12.1 170 6-192 3-210 (279)
73 COG4548 NorD Nitric oxide redu 80.0 6.1 0.00013 44.2 7.9 144 7-156 448-599 (637)
74 PF11775 CobT_C: Cobalamin bio 77.3 25 0.00055 35.2 10.6 47 6-54 13-60 (219)
75 KOG1984 Vesicle coat complex C 75.3 73 0.0016 38.1 15.0 204 6-229 418-679 (1007)
76 PF09967 DUF2201: VWA-like dom 73.9 19 0.00042 32.8 8.4 41 8-53 1-42 (126)
77 TIGR01651 CobT cobaltochelatas 70.5 63 0.0014 37.3 12.9 46 111-157 515-567 (600)
78 COG5242 TFB4 RNA polymerase II 69.4 96 0.0021 31.1 12.2 166 7-193 22-216 (296)
79 KOG2487 RNA polymerase II tran 68.2 84 0.0018 32.5 11.9 167 7-192 25-228 (314)
80 PF03850 Tfb4: Transcription f 66.1 43 0.00094 35.0 10.0 172 7-196 3-212 (276)
81 smart00187 INB Integrin beta s 64.0 51 0.0011 36.5 10.3 44 8-51 102-145 (423)
82 PTZ00395 Sec24-related protein 62.3 1.9E+02 0.0041 36.8 15.3 87 134-228 1131-1223(1560)
83 PF08064 UME: UME (NUC010) dom 51.7 34 0.00074 30.2 5.4 59 576-636 32-91 (107)
84 COG1721 Uncharacterized conser 48.7 28 0.0006 38.8 5.4 47 5-53 224-276 (416)
85 cd01459 vWA_copine_like VWA Co 48.1 2.9E+02 0.0063 28.6 12.3 134 6-157 32-195 (254)
86 KOG2353 L-type voltage-depende 48.1 1.4E+02 0.0031 37.2 11.6 131 2-156 222-372 (1104)
87 cd01478 Sec23-like Sec23-like: 44.9 71 0.0015 33.3 7.4 73 7-85 5-77 (267)
88 PF04811 Sec23_trunk: Sec23/Se 41.8 20 0.00043 36.6 2.7 167 6-189 4-223 (243)
89 smart00802 UME Domain in UVSB 36.0 43 0.00093 29.7 3.5 56 578-635 34-90 (107)
90 smart00544 MA3 Domain in DAP-5 32.5 64 0.0014 28.4 4.1 61 585-647 3-83 (113)
91 cd03364 TOPRIM_DnaG_primases T 30.2 83 0.0018 25.8 4.2 35 111-153 43-77 (79)
92 COG3552 CoxE Protein containin 28.1 68 0.0015 34.7 4.0 46 5-56 218-263 (395)
93 KOG0624 dsRNA-activated protei 28.0 2.1E+02 0.0045 30.9 7.4 69 559-635 125-199 (504)
94 COG5151 SSL1 RNA polymerase II 26.4 3.7E+02 0.0081 28.3 8.7 124 7-156 89-229 (421)
95 PF13662 Toprim_4: Toprim doma 26.2 43 0.00093 27.7 1.8 35 111-153 46-80 (81)
96 PF12257 DUF3608: Protein of u 25.1 6.2E+02 0.013 26.6 10.3 144 8-157 73-270 (281)
97 COG4902 Uncharacterized protei 23.7 2.4E+02 0.0051 26.4 6.0 44 417-462 87-130 (189)
98 COG2718 Uncharacterized conser 22.7 1.8E+02 0.004 31.7 5.9 49 4-53 244-293 (423)
99 PLN00162 transport protein sec 22.5 2.4E+02 0.0052 34.1 7.7 75 6-86 125-199 (761)
100 PF07744 SPOC: SPOC domain; I 20.0 1.5E+02 0.0032 26.2 4.2 41 335-376 79-119 (119)
No 1
>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=100.00 E-value=1.8e-78 Score=686.00 Aligned_cols=466 Identities=19% Similarity=0.278 Sum_probs=388.4
Q ss_pred CCeEEEEEEeCCCCcCC---------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEec
Q 005694 4 TREALLLLLDVSPSMHS---------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (682)
Q Consensus 4 ~Kea~vf~iDv~~sM~~---------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~ 74 (682)
.|||+|||||||++|++ +|..|++|+.+++++|||++++|+||||||||++|+|++ +|+||+|+++
T Consensus 9 ~keailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~-----~~~~i~v~~~ 83 (584)
T TIGR00578 9 GRDSLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSV-----NFKNIYVLQE 83 (584)
T ss_pred ceeEEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCcc-----CCCceEEEee
Confidence 69999999999999996 267899999999999999999999999999999999997 7999999999
Q ss_pred cCCCCHHHHHHhhcCCCCCCC---------------Ch--HHHHHHHc--CCCcccceEEEEeCCCCCCCCCCCCCchhh
Q 005694 75 IKVVDGHLVQSLKHLPQGTCA---------------GD--YMLIKKYG--ETYKGKKHLCLITDALCPLKDPDVGTKEDQ 135 (682)
Q Consensus 75 l~~~~~~~l~~L~~l~~~~~~---------------gD--~~li~~~~--~~kk~~krI~L~Td~~~p~~~~~~~~~~~~ 135 (682)
|+.|+++.++.|++|..+... +| |.|++.|. .+|+.+||||||||+++|+.++ ....++
T Consensus 84 L~~p~a~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~~--~~~~~~ 161 (584)
T TIGR00578 84 LDNPGAKRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGND--SAKASR 161 (584)
T ss_pred CCCCCHHHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCCc--hhHHHH
Confidence 999999999999987553211 23 24555553 2456799999999999999852 333455
Q ss_pred HHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCe----eeehh-chHHhhcccccccCCcceee
Q 005694 136 VSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAK----TLFVD-STTSLRGARKTRDISPVTIF 210 (682)
Q Consensus 136 ~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~----~~~~~-~a~~ll~~~~~k~~~~~~~~ 210 (682)
+..++++|++.||.|++|+++ .+++|+.. .|+..+....++. ..... ...+++..++.|.+++|+.|
T Consensus 162 a~~~a~dl~~~gi~ielf~l~--~~~~Fd~s------~Fy~dii~~~~~~~~~~~~~~~~~l~~l~~~l~~k~~~kR~~~ 233 (584)
T TIGR00578 162 ARTKAGDLRDTGIFLDLMHLK--KPGGFDIS------LFYRDIITDAEDEDLGVHPEESSKLEDLLRKVRAKETRKRALS 233 (584)
T ss_pred HHHHHHHHHhcCeEEEEEecC--CCCCCChh------hhhHhhhccccccccccCcchhHHHHHHHHHHhhcccceeeEE
Confidence 678999999999999999984 33433332 4444443211111 11111 13466788999999999999
Q ss_pred eeeEeecCCeEEEEEEEeecccccCCc-ceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecCCeeEe
Q 005694 211 RGDLELSEKMKIKVWVYKKTGEEKFPT-LKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQVVP 289 (682)
Q Consensus 211 ~g~L~lg~~l~I~V~~Y~~~~~~k~p~-~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~~~Vp 289 (682)
+|+|+||++++|+|++|.+++++++|. .+.+..+ ...|+.+|+|+ +.+++++|++++++|||+||+++|+
T Consensus 234 ~~~L~lg~~~~I~V~~Y~~~~~~~~~~~~~l~~~~--------~~~v~~~~~~~-~~dtg~~V~~~~i~Kgy~yGg~~V~ 304 (584)
T TIGR00578 234 RLKLKLNKDVVMSVGIYNLVQKAGKPAPVKLYRET--------NEPVKTKTRTF-NMDTGSLLLPSDTKRSQTYGGRQIY 304 (584)
T ss_pred eccEEECCCCEEEEEEEEEEEeecCCceEEEecCC--------ceeeEEEEEEE-ecCCccccCHHHceeeeeECCEEEe
Confidence 999999999999999999999987654 4666543 35799898888 5778889999999999999999999
Q ss_pred cChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCC-hhhHHHHHHHHHHHHhcCceEEEEEEecCCCCc
Q 005694 290 ISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGN-SRATVAVSALARAMKEMNKVAIVRCVWRQGQQS 368 (682)
Q Consensus 290 ~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~-~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p 368 (682)
|+++|++++|..++|+|+||||+|++.|+++|+++++|||+|+++. .||.+||+||+++|.++++|||||||+|+|+.|
T Consensus 305 ~t~ee~~~lk~~~~~~l~ilGF~~~s~l~~~~~~~~s~fi~Pde~~~~gs~~afsaL~~~l~~~~kvAI~~~v~r~~~~P 384 (584)
T TIGR00578 305 LEKEETEELKRFDPPGLQLMGFKPLSMLKKHHHLRPSLFVYPEESLVRGSTTLFSALLQKCLEKEVAALCRYISRRNQPP 384 (584)
T ss_pred cCHHHHHHHhccCCCceEEEeeccHHHCCchhhcCCceEEecCCcccccHHHHHHHHHHHHHhcCcEEEEEEEecCCCCC
Confidence 9999999999999999999999999999999999999999999853 489999999999999999999999999999875
Q ss_pred eEEEEeeccccCCC-----CCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCC
Q 005694 369 VVVGVLTPNVSEKI-----NIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQ 443 (682)
Q Consensus 369 ~~l~~L~P~~~~~~-----~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~~~e~~~ 443 (682)
. +++|+|+.+... ..|+|||+++|||+||||+++|++ ...++++|+++|++||++|++. |+
T Consensus 385 ~-lvaL~P~~~~~d~~~~q~~p~G~~l~~LPfadDIR~~~~~~------~~~~~~e~~~~a~~LI~~l~~~-------y~ 450 (584)
T TIGR00578 385 Y-FVALVPQEEELDDQKIQVTPPGFHLVFLPFADDKRKVPFTE------KVKATPEQVDKMKAIVEKLRFT-------YR 450 (584)
T ss_pred E-EEEEeCCcccccccCCccCCCeEEEEecCchhhccCCCCcc------cCCCCHHHHHHHHHHHHhcCCC-------CC
Confidence 5 556889865331 257899999999999999998742 2469999999999999999996 99
Q ss_pred CCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHH-HHHHHHHHHHh-hcCCccCCcccc
Q 005694 444 PELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLA-ESQSAIDAFCG-QFVIKENPKLKK 512 (682)
Q Consensus 444 p~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~-~~~~~le~lk~-~f~~~~~~~k~k 512 (682)
|..|+||+|||||++|+++||+++.|.|+.|.++ |+...+. |+++.+++|++ +|+.+.++.++.
T Consensus 451 P~~~~NP~LQ~hY~~LealAL~~~~~~~~~D~tl-----p~~~~i~~r~~~~i~~~~~~~~~~~~~~~~~~ 516 (584)
T TIGR00578 451 SDSFENPVLQQHFRNLEALALDMMEPEQAVDLTL-----PKVEAMKKRLGSLVDEFKELVYPPDYNPEGKV 516 (584)
T ss_pred cccCCChHHHHHHHHHHHHhCCCCCCCCCccccc-----CCHHHHHHHHHHHHHHHHHHhcccccCccccc
Confidence 9999999999999999999999999988877654 5544554 78999999999 888888876543
No 2
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=100.00 E-value=1.7e-75 Score=620.42 Aligned_cols=638 Identities=18% Similarity=0.202 Sum_probs=516.8
Q ss_pred CCeEEEEEEeCCCCcCC-------ChhHHHHHHHHHHHHhHhcC-CccEEEEEEecCCccCccccccCCCcCcEEEEecc
Q 005694 4 TREALLLLLDVSPSMHS-------VLPDVEKLCSRLIQKKLIYG-KNHEVGVILFGTEETENELTKEVGGYEHVKVLQDI 75 (682)
Q Consensus 4 ~Kea~vf~iDv~~sM~~-------~l~~a~~~~~~~~~~ki~~~-~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l 75 (682)
+++|++|++|||++|+. .++.|.+++..++++|.|++ ++|+||||+|||+.|+|++. +...|+||+++.|+
T Consensus 3 ~se~ttfilDvG~~Ms~~~~~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~ten~le-gg~~fqnisvl~p~ 81 (669)
T KOG2326|consen 3 SSESTTFILDVGPSMSKNNETGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTENSLE-GGNVFQNISVLAPV 81 (669)
T ss_pred CCcceEEEEecCccccccCCCccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCccCccc-cccccceeEEeecc
Confidence 78999999999999976 47899999999999999976 99999999999999999995 55699999999999
Q ss_pred CCCCHHHH-HHhhc-CCCCCCCChH--------H-HHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHh
Q 005694 76 KVVDGHLV-QSLKH-LPQGTCAGDY--------M-LIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMV 144 (682)
Q Consensus 76 ~~~~~~~l-~~L~~-l~~~~~~gD~--------~-li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~ 144 (682)
..|....+ +.++. ++++++.+|+ . ++++...+|+..+|++|++++..- + ..++.. |+++|.
T Consensus 82 ~tpaf~~l~k~~~~~~qqns~q~Df~gal~vs~dL~~qhe~~~k~~~kr~Il~~~~l~~-d-----fsd~~~--ive~l~ 153 (669)
T KOG2326|consen 82 TTPAFIGLIKRLKQYCQQNSHQSDFEGALSVSQDLLVQHEDIKKQFQKRKILKQIVLFT-D-----FSDDLF--IVEDLT 153 (669)
T ss_pred cchhhHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhccchhhceEEEEeecccc-c-----chhhHH--HHHHHh
Confidence 98887654 45554 6889999997 2 344545455566777777665442 1 122334 999999
Q ss_pred hcCcEEEEEeeccCC-----CCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHhhcccccccCCcceeeeeeEeec-C
Q 005694 145 AFGLRMKNIVVRASL-----SGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGARKTRDISPVTIFRGDLELS-E 218 (682)
Q Consensus 145 ~~~I~l~vi~i~~~~-----~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ll~~~~~k~~~~~~~~~g~L~lg-~ 218 (682)
+.+|.|-++|++.+. +++.+.+.+..|+-+++.+..-+.++++++++....+..++++.++|..+|+|.|+|| +
T Consensus 154 ~~didL~~~gldf~~e~id~s~dl~e~~kk~n~~~~q~~e~l~~~q~~~~~eiYn~i~spa~~~v~pv~if~g~l~ig~~ 233 (669)
T KOG2326|consen 154 DEDIDLLTEGLDFRIELIDCSKDLQEERKKSNYTWLQLVEALPNSQIYNMNEIYNEITSPATSVVKPVRIFSGELRIGAD 233 (669)
T ss_pred hcCcceeEeeccCCccccccCccccccccccchHHHHHHHhcchhhHHhHHHHHHhhcCcccccccceEEEeeeEeeccc
Confidence 999999999994211 2333445566788888888778889999999999999999999999988999999999 7
Q ss_pred CeEEEEEEEeecccccCCcceEeccCC-CCCcccccceeEEEEEEeecCCCCCCCCccccccceecCCeeEecChhhHHh
Q 005694 219 KMKIKVWVYKKTGEEKFPTLKKYSDKA-PSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQVVPISSAEWEA 297 (682)
Q Consensus 219 ~l~I~V~~Y~~~~~~k~p~~~~~~~~~-~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~~~Vp~s~~e~~~ 297 (682)
.++|.+..|+.+...+++..+.....- ++.. ..+...++.|...++.+.+|-+++++.||.||.++||++..|.+.
T Consensus 234 ~Lsiq~a~y~g~~q~r~~~~~~~vea~~etk~---ke~~n~ktV~~~~d~d~~evlKed~~sGysyG~~iIp~s~nDenv 310 (669)
T KOG2326|consen 234 ILSIQTANYSGSMQDRNECLCIKVEAFPETKA---KEGLNRKTVVEVEDSDKLEVLKEDYVSGYSYGEYIIPNSGNDENV 310 (669)
T ss_pred eeEEeccCCCccccccccceeEEeecchhhcc---chhcccceeEEeecCCchhhHHHhhhhhcccceeEeccCCcchhh
Confidence 799999999999999998766554321 1111 123334455654455557899999999999999999999999999
Q ss_pred hhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecCCCCceEEEEeecc
Q 005694 298 VKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVGVLTPN 377 (682)
Q Consensus 298 ~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~l~~L~P~ 377 (682)
+++.+.+|+.||||+++++|++.|++|..+.|+|.-.+.+|..|+++|++||...+++|||||++..++. |++++|+|+
T Consensus 311 ~e~dt~g~~~ilgFikkssv~~~Y~~g~~~~Vlpa~dd~~a~~a~ssli~al~~l~r~Al~Ry~~~~ks~-pql~vl~Ph 389 (669)
T KOG2326|consen 311 SEDDTSGSSYILGFIKKSSVTKAYRYGADYVVLPAVDDDQAVYASSSLIDALGFLNREALPRYFLTSKSS-PQLAVLRPH 389 (669)
T ss_pred cccccCCceEEeeeeccccccceeeecCceEEecccCchHhHHhhhHHHHHHhhhhHHHhhhhhhccCCC-ceEeeeccc
Confidence 9999999999999999999999999998899999866778999999999999999999999999999986 667889999
Q ss_pred ccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCC--CCCccCCCCCCCCchhHHH
Q 005694 378 VSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPS--GKGEILQPELTPNPALERF 455 (682)
Q Consensus 378 ~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~--~~~e~~~p~~~~NP~lqr~ 455 (682)
...+-. ..||+.++|||+||+|.|.|+.+++. ....|+..|+.|+++|||.|+|..+ +.++.|.|.. +||..||+
T Consensus 390 ~~~~~~-~~yLvdVqLPF~eD~R~y~Fskf~~~-~n~~pt~aql~AVsnlID~M~L~ksdtl~~~pf~p~~-~~mr~hrL 466 (669)
T KOG2326|consen 390 CQSDLA-FSYLVDVQLPFREDARAYYFSKFDSE-VNMCPTCAQLIAVSNLIDEMKLVKSDTLCRLPFAPPK-LDMRVHRL 466 (669)
T ss_pred cccccc-eeeEEEeeccchhhhHHhhcccccch-hccCchHHHHHHHHHHhhhhhhhhhccccCCCCCCCC-ccchhhhH
Confidence 887632 35899999999999999999999875 4578999999999999999999743 2345566655 89999999
Q ss_pred HHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcCCccCCccccchhhhccCCCCCCCCCCCCCCCC
Q 005694 456 YHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENPKLKKSTRRFLREKPSGSDEPNGDGSVS 535 (682)
Q Consensus 456 ~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~~~~~~~k~k~~~~~~~~~~~~~d~~~~~~~~~ 535 (682)
.++|-|+|.+|+.++|+.+.+|.+++.||..+.+.+...+.+++..|++. +|+|.+ -... ..++ ..+.+.... ..
T Consensus 467 ~qlllh~a~spe~~lp~tnq~l~~~lnPp~~V~~~~~~~l~kIk~~f~lq-ipkke~-vT~q-e~~~-dt~~pt~kK-q~ 541 (669)
T KOG2326|consen 467 PQLLLHTATSPEPLLPETNQHLIDELNPPRFVDSMDTDELPKIKLGFYLQ-IPKKEV-VTDQ-ELPL-DTSLPTLKK-QQ 541 (669)
T ss_pred HHHhccccCCCCCCCCccchHHHHhhCcchhccccCchhhhhhcccceee-ccccce-eccc-cccc-ccCCcchhh-HH
Confidence 99999999999999999999999999999999999999999999999998 553322 1111 0010 011111100 00
Q ss_pred hhhhccccCCCCCcceeeecCCChHHHHHHHHhCCCCchhHHHHHHHHHHHHHHHhcccCCCCChHHHHHHHHHHHHHhh
Q 005694 536 DAQAVNSMESKPVVTVDKIGDLTPIQDFEAMMSRRDCPDWVDKAIEDMKNKIFGLLENSNEGINYPKAVELLVALRKGCI 615 (682)
Q Consensus 536 ~~~~~~~~~~~~~~~~~~ig~~~pv~dF~~~l~~~~~~~~~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~cl~~~R~~~i 615 (682)
.++....++++.+ +...|+.++|-+.|...+.+....+.++.|+.||.+.|++++.. .+|++++.||+++|...|
T Consensus 542 eeq~~sg~s~~eg-~kp~v~~v~~ke~v~~~i~qlk~~~~~e~ai~Emi~~iknfid~----~yf~k~~dsl~~~R~~~I 616 (669)
T KOG2326|consen 542 EEQVKSGASQDEG-RKPTVFVVRQKEVVLEWIHQLKINDSREFAIPELIDSIKNFIDP----EYFHKKFDSLKLVRVLGI 616 (669)
T ss_pred HHhhhcccccccc-cccceeEechhhhHHHHHHHhccchhHhHHHHHHHHHHHhcCCc----HHHHHHHHHHHHHHHHHh
Confidence 0111111222232 35778888888888888877666678999999999999999976 489999999999999999
Q ss_pred hhcCchHHHHHHHHHHHHHhcCChhhHHHHHHhCCcccccccccCcCCCCHHHHhccccc
Q 005694 616 LEQEPKQFNDVLEKVCKICRKRNFSTFFDFLMSKKLSLISKSEAVDSDITDDEAGSFIVK 675 (682)
Q Consensus 616 ~~~e~~~~N~fl~~lk~~~~~~~~~~fw~~i~~~~l~lI~~~E~~~s~vt~~ea~~F~~~ 675 (682)
+++|...||+||+.||+...-.. | .+.+.||++.|+.+|+|+..+|.+|+..
T Consensus 617 k~se~~rFNe~Lk~Lke~e~i~~---l-----~k~~~lI~k~esSgs~v~~~na~~f~~~ 668 (669)
T KOG2326|consen 617 KKSEKLRFNEELKTLKEREKIPD---L-----EKTLLLIGKQESSGSPVNSNNAAEFWEE 668 (669)
T ss_pred hhhHHHHHHHHHHHHHHhhhccc---h-----hhhcccccchhccCCccchhhHHhhccC
Confidence 99999999999999999865443 3 8899999999999999999999999964
No 3
>cd00873 KU80 Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the regulation of all the diverse functions of Ku is still unclear, although it seems that Ku is a multifunctional protein that works in nuclei. In mammalian cells, the Ku heterodimer recruits the catalytic subunit of DNA-dependent protein kinase (DNA-PK), which is dependent on its association with the Ku70/80 heterodimer bound to DNA for its protein kinase activity.
Probab=100.00 E-value=6.9e-57 Score=474.00 Aligned_cols=296 Identities=39% Similarity=0.620 Sum_probs=264.2
Q ss_pred eeeeeeEeecCCeEEEEEEEeecccccCCcceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecCCee
Q 005694 208 TIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQV 287 (682)
Q Consensus 208 ~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~~~ 287 (682)
+.|+|.|+||.+++|+|++|++|+++++|+.+++....... ......|+..+.|..+++++.+|+++|++|||+||+++
T Consensus 2 ~~~~g~L~~g~~v~I~V~~y~at~~~~~~~~~~~~~~~~~~-e~~~~~v~~~~~~~~~~~~~~eV~~~~ivkgY~yg~~~ 80 (300)
T cd00873 2 AAFKGQLTLGSPLSIAVELYKKTKEERPPKLKKVSDAEKTG-EDAFEDVKSERSYDVNDDDKTEVEKEDLIKGYRYGRDI 80 (300)
T ss_pred CcccceeEecCceEEEEEEEEeeeeccCCceEEEEecccCC-ccccccceEEEEEEccCCCCcccCHHHhhhheecCCcE
Confidence 58999999998899999999999999987766665421000 00125699999998667888899999999999999999
Q ss_pred EecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecCCCC
Q 005694 288 VPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQGQQ 367 (682)
Q Consensus 288 Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~ 367 (682)
|+|+++|++.+++.+++||+|+||+++++|+++|+|+++|||+|++++.++.+||+||++||.+++++||||||+|+++.
T Consensus 81 V~~~~~e~~~~~~~~~~~l~ilgF~~~~~i~~~~~~~~s~~l~P~~~~~~~~~a~~aL~~am~~~~k~aI~r~v~r~~~~ 160 (300)
T cd00873 81 VPLSEEDEEATKLSTSKGLDILGFIKASNVPRYYLMGESSYVVPQQDDEAAALAFSALVRALAELDKYAIARYVYKDNSE 160 (300)
T ss_pred EecCHHHHHHHhcCCCCceEEEeeccHHHCChhheeCCcEEEEcCCCChhHHHHHHHHHHHHHhCCCEEEEEEEEcCCCC
Confidence 99999999999999999999999999999999999999999999998889999999999999999999999999999975
Q ss_pred ceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCC---CCccCCC
Q 005694 368 SVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSG---KGEILQP 444 (682)
Q Consensus 368 p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~---~~e~~~p 444 (682)
|.+|+|+|++... ++||++++|||+||||.+.||+|....+...++++|+++|++||++|++++.+ ..++|+|
T Consensus 161 -p~l~aL~P~~~~~---~~~l~l~~LPf~eDvR~~~f~~l~~~~~~~~~~~e~~~~a~~lId~m~l~~~~~~~~~~~f~p 236 (300)
T cd00873 161 -PQLGVLFPRIKED---YECLVLVRLPFAEDVRQYRFPSLDKLKTPNLPTEEQLEAMDDLVDSMDLDDDEEDDPEEALKP 236 (300)
T ss_pred -cEEEEEeccccCC---CCEEEEEecCchhhhhccCCCCCCcccCCCCCCHHHHHHHHHHHHhcCCCcccccccccccCc
Confidence 6688899998765 57999999999999999999998653222479999999999999999997432 3567999
Q ss_pred CCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcCCccCC
Q 005694 445 ELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENP 508 (682)
Q Consensus 445 ~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~~~~~~ 508 (682)
+.++||++||+|++|+++|++|+.++|++++.|.+|++|+..+.+++++.++++++.|++++++
T Consensus 237 ~~~~nP~~q~~~~~i~~~al~~~~~lp~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~ 300 (300)
T cd00873 237 DETPNPVLQRIYQALRHRALHPDEPLPPLLQVLLRYLEPPEEVLEKSKEALKKIKEKFPLKEVP 300 (300)
T ss_pred ccCCChHHHHHHHHHHHHhcCCCCCCCCccHHHHHhcCCCHHHHHHHHHHHHHHHHhcCcccCC
Confidence 9999999999999999999999999999999999999999999999999999999999998753
No 4
>cd00788 KU70 Ku-core domain, Ku70 subfamily; Ku70 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the regulation of all the diverse functions of Ku is still unclear, although it seems that Ku is a multifunctional protein that works in the nuclei. In mammalian cells, the Ku heterodimer recruits the catalytic subunit of DNA-dependent protein kinase (DNA-PK), which is dependent on its association with the Ku70/80 heterodimer bound to DNA for its protein kinase activity.
Probab=100.00 E-value=3.1e-50 Score=420.93 Aligned_cols=276 Identities=25% Similarity=0.357 Sum_probs=237.8
Q ss_pred ceeeeeeEeecCC--eEEEEEEEeecccccCC-cceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceec
Q 005694 207 VTIFRGDLELSEK--MKIKVWVYKKTGEEKFP-TLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRY 283 (682)
Q Consensus 207 ~~~~~g~L~lg~~--l~I~V~~Y~~~~~~k~p-~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~y 283 (682)
|+.|+|+|+||++ ++|+|++|.++++++.+ +.+.+..++.. ...|+.+++|+ +.+++++|+++|++|||+|
T Consensus 1 R~~~~~~l~ig~~~~v~I~V~~Y~~~~~~~~~~~~~l~~~~~~~-----~~~v~~~~~~v-~~~~~~~v~~~di~kgy~~ 74 (287)
T cd00788 1 RALFRLPLELGPGNKLVISVKGYSLVSHAKKPRKYKLDREKNEE-----RREVKSKRKFF-DVESGKTLEKADIKKGYKI 74 (287)
T ss_pred CccEeeeEEECCCCCeEEEEEEEEEeecccCCceEEEecCCCcc-----ceeeEEEEEEE-ecCCCcccChhheEEeEEe
Confidence 4679999999998 99999999999998866 45666544321 11488889998 4667889999999999999
Q ss_pred CCeeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCC-ChhhHHHHHHHHHHHHhcCceEEEEEEe
Q 005694 284 GPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPG-NSRATVAVSALARAMKEMNKVAIVRCVW 362 (682)
Q Consensus 284 G~~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~-~~~s~~afsaL~~Am~e~~~vaI~r~v~ 362 (682)
|+++|+|+++|++.++..+.+||+||||+++++|+++|+++++|||+|+++ ..+|.+||+||++||.++++|||||||+
T Consensus 75 g~~~V~~~~~e~~~i~~~~~~~l~ilgF~~~~~i~~~~~~~~s~fl~P~~~~~~gs~~af~aL~~am~~~~kvaIa~~v~ 154 (287)
T cd00788 75 GGEKIIFTKEELKKIKSFGEPGLRLIGFKPRSTLKPYHNIKKSYFIYPDESDYKGSTRLFAALLRSCLKKNKVAICWYIL 154 (287)
T ss_pred CCEEEEeCHHHHHHHhccCCCceEEEeeccHHHCChhhccCCceeEecCcccccCcHHHHHHHHHHHHhcCcEEEEEEEe
Confidence 999999999999999999999999999999999999999999999999985 4578999999999999999999999999
Q ss_pred cCCCCceEEEEeeccccCCCC-----CCCeEEEecCCChhcccCCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHcCCCCC
Q 005694 363 RQGQQSVVVGVLTPNVSEKIN-----IPDSFYFNVLPFAEDVREFQFPSFSKFP-VSWQPNEQQQEAADNLVKMLDLAPS 436 (682)
Q Consensus 363 r~~~~p~~l~~L~P~~~~~~~-----~~~~l~~~~LPFaeDvR~~~fp~l~~~~-~~~~p~~eq~~a~~~lId~m~l~~~ 436 (682)
|.++.| .+++|+|+.+...+ .+.|||+++|||+||||++ |++...+ ....++++|+++|++||++|++.+
T Consensus 155 r~~~~p-~l~aL~P~~~~~~~~~~~~~~~gl~l~~LPfadDiR~~--p~~~~~~~~~~~~~~~~l~~a~~LI~~l~~~~- 230 (287)
T cd00788 155 RKNSPP-RLVALVPQEEELDEPDGQVLPPGFHLVPLPFADDIRKL--PSLLEENASAESASDELVDKAKQIIKKLRLLS- 230 (287)
T ss_pred cCCCCC-EEEEEeccccccCCCCCccCCCcEEEEecCchhhhccC--CcccccccCCCCCCHHHHHHHHHHHHHhcCCC-
Confidence 998765 57789999765422 3689999999999999995 3332211 245799999999999999999942
Q ss_pred CCCccCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHH-HHHHHHHHHHHhhc
Q 005694 437 GKGEILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLL-AESQSAIDAFCGQF 502 (682)
Q Consensus 437 ~~~e~~~p~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~-~~~~~~le~lk~~f 502 (682)
|+|+.++||++|+||++|+++|++++.+.|+.|. +.|+.+.+ +|+++.|+.|+..+
T Consensus 231 -----f~p~~~~NP~lq~~~~~l~a~al~~e~~~~~~d~-----~~pd~~~~~~r~~~~~~~~~~~~ 287 (287)
T cd00788 231 -----YDPDKFPNPSLQKHYKILEALALDEEDPEKPDDL-----TLPDTEGIDKRLGDLIEEFKKLL 287 (287)
T ss_pred -----CCcccCCChHHHHHHHHHHHHHhCCCCCCCcccc-----cCCchHHHHHHHHHHHHHHhhcC
Confidence 9999999999999999999999999998887664 67888888 88999999998753
No 5
>cd00594 KU Ku-core domain; includes the central DNA-binding beta-barrels, polypeptide rings, and the C-terminal arm of Ku proteins. The Ku protein consists of two tightly associated homologous subunits, Ku70 and Ku80, and was originally identified as an autoantigen recognized by the sera of patients with an autoimmunity disease. In eukaryotes, the Ku heterodimer contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by non-homologous end-joining. The bacterial Ku homologs does not contain the conserved N-terminal extension that is present in the eukaryotic Ku protein.
Probab=100.00 E-value=5.7e-50 Score=417.70 Aligned_cols=271 Identities=32% Similarity=0.518 Sum_probs=237.0
Q ss_pred ceeeeeeEeecCCeEEEEEEEeecccccCCcceEecc-CCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecCC
Q 005694 207 VTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSD-KAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGP 285 (682)
Q Consensus 207 ~~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~-~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~ 285 (682)
|+.|+|.|.||++++|+|++|+++++++++..++... ++ ..++.++.+... .+++|++++++|||+||+
T Consensus 1 r~~~~~~l~lg~~~~i~V~~y~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~--~~~~v~~~~i~kgy~~G~ 70 (272)
T cd00594 1 RAIWKGALSLGLDVSIPVKLYSAATEEKPPSFKQLDRKTG--------ERVKVKRVCKYT--GGKEVEKEDIVKGYEYGG 70 (272)
T ss_pred CcceeeeEEECCCCEEEEEEEeeeccccCCccEEeccCCC--------ceeeEEEEEEee--cCcEeCHHHhhhheeeCC
Confidence 4689999999988999999999999998875444433 22 235555555421 147999999999999999
Q ss_pred eeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecCC
Q 005694 286 QVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQG 365 (682)
Q Consensus 286 ~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~ 365 (682)
++|+|+++|+++++..+++||+|+||+++++|+++|+++++|||+|++++.+|.+||+||++||.++++|||||||+|++
T Consensus 71 ~~V~~~~~e~~~~~~~~~~~l~ilgF~~~~~i~~~~~~~~s~~l~P~~~~~~s~~af~aL~~am~~~~kvai~r~v~r~~ 150 (272)
T cd00594 71 DYVPLTEEELEQLKLETSKGLDILGFVPASEIPPYYFDKESYYLVPDDSDKGSEKAFSALRRALLEKDKVAIARYVLRRN 150 (272)
T ss_pred eEEecCHHHHHHhhcCCCCeEEEEeEechHhCCcceecCCcEEEEcCCCCcccHHHHHHHHHHHHHcCcEEEEEEEEcCC
Confidence 99999999999999999999999999999999999999999999999887899999999999999999999999999999
Q ss_pred CCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCCCC
Q 005694 366 QQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQPE 445 (682)
Q Consensus 366 ~~p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~~~e~~~p~ 445 (682)
+. |.+++|+|+.++. +.||++++|||+||||.++|+++... ....++++|+++|++||++|+++ .|+|+
T Consensus 151 ~~-p~l~aL~P~~~~~---~~gl~l~~LPfadDvR~~~~~~~~~~-~~~~~~~~~~~~a~~lI~~~~~~------~~~p~ 219 (272)
T cd00594 151 SR-PRLVALRPQEEED---PEGLVLVTLPFADDVRSYPFPLLLDI-KTEKPTDEELELAKQLIDSLDLD------DFDPE 219 (272)
T ss_pred CC-cEEEEEeccccCC---CCEEEEEccCCchhhhccCCcccccc-cccCCCHHHHHHHHHHHHhccCC------CCCcc
Confidence 75 5677899997663 68999999999999999999887543 22579999999999999999994 29999
Q ss_pred CCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhc
Q 005694 446 LTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQF 502 (682)
Q Consensus 446 ~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f 502 (682)
.++||++|++|++|+++|++++.+.++.+. ++.++..+.+++++++++|+++|
T Consensus 220 ~~~NP~lq~~~~~l~~~al~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~ 272 (272)
T cd00594 220 KFPNPYLQRLYALLEAKALGEEIPEPPEDL----TLPPPEEIPKRVIDLLEALKKSL 272 (272)
T ss_pred cCCCHHHHHHHHHHHHHhcCCCCCCCCCCc----cCCCcHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999999998777664 56677888899999999999875
No 6
>cd00789 KU_like Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku homologs are predicted to form homodimers. It is proposed that the Ku homologs are functionally associated with ATP-dependent DNA ligase and the eukaryotic-type primase, probably as components of a double-strand break repair system.
Probab=100.00 E-value=1.8e-47 Score=389.29 Aligned_cols=252 Identities=19% Similarity=0.309 Sum_probs=219.9
Q ss_pred ceeeeeeEeecCCeEEEEEEEeecccccCCcceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecC-C
Q 005694 207 VTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYG-P 285 (682)
Q Consensus 207 ~~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG-~ 285 (682)
|++|+|.|+|| .++|||++|+++...++++++.+..++ ..|+ +.|. ++++|++|+++|++|||+|| +
T Consensus 1 r~~wkG~l~fg-lV~ipV~ly~at~~~~i~f~~l~~~~~--------~~v~--~~~v-~~~~g~eV~~~divKgYeyg~~ 68 (256)
T cd00789 1 RAIWKGAISFG-LVNIPVKLYSATESEDISFHQLHKKDG--------ARIR--YQRV-CPETGKEVPRDDIVKGYEYEKG 68 (256)
T ss_pred CCceEEEEEEC-cEEEEEEEEEeeccCCcccEEEecCCC--------CEee--EEEE-CCCCCCCCCHHHceeeEEeCCC
Confidence 57999999999 999999999999989999888877653 3454 4565 68999999999999999999 8
Q ss_pred eeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecCC
Q 005694 286 QVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQG 365 (682)
Q Consensus 286 ~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~ 365 (682)
++|+|+++|+++++..+.++|+|+||++.++|+++|+. .+|||+|++ ++..||++|++||.++++|||||||+|.+
T Consensus 69 ~~V~~~~eel~~~~~~~~~~i~IlgFv~~~~I~~~y~~-~syyl~P~~---~~~kaf~~L~~Al~~~~kvaIar~V~r~~ 144 (256)
T cd00789 69 EYVILTDEELEALPPESTRTIEIVDFVPLDEIDPIYFD-KPYYLAPDK---GGEKAYALLREALRDTGKVAIAKVVLRTR 144 (256)
T ss_pred CEEEcCHHHHHhhccCCCCeEEEEeEeCHHHCCHhHcC-CCEEEecCC---CcchHHHHHHHHHHHcCCEEEEEEEEcCC
Confidence 99999999999999999999999999999999998885 579999997 46779999999999999999999999986
Q ss_pred CCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCCCC
Q 005694 366 QQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQPE 445 (682)
Q Consensus 366 ~~p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~~~e~~~p~ 445 (682)
. .+|+|.|+. .||++++|||+||||+++|+++.. ....++++|+++|.+||++|+.. |+|+
T Consensus 145 ~---~l~aL~P~~-------~gL~l~~LpfaddvR~~~~~~~~~--~~~~~~~~el~~A~~LI~~m~~~-------fdp~ 205 (256)
T cd00789 145 E---RLAALRPRG-------KGLVLNTLRYPDEVRSPEELFLPI--KAVKVDPKELEMAKQLIEQLTGD-------FDPE 205 (256)
T ss_pred c---eEEEEEECC-------CEEEEEECCChhhccCccccCccc--ccCCCCHHHHHHHHHHHHHccCC-------CCcc
Confidence 3 478899983 699999999999999999987653 35679999999999999999985 9999
Q ss_pred CCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcC
Q 005694 446 LTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFV 503 (682)
Q Consensus 446 ~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~ 503 (682)
.|.||+.++++++|++|+.|.+...++..+ .+...++ ++|++|++++.
T Consensus 206 ~~~d~y~~~l~~li~~K~~~~~~~~~~~~~------~~~~~v~----dlm~aL~~Sl~ 253 (256)
T cd00789 206 KYEDEYREALMELIEAKIEGKAIEAAEPAP------AASGNVV----DLMEALKKSLE 253 (256)
T ss_pred ccCCHHHHHHHHHHHHHHcCCCCCCCCCCC------CCCCCHH----HHHHHHHHHHh
Confidence 999999999999999999988765443221 1124555 99999999875
No 7
>TIGR02772 Ku_bact Ku protein, prokaryotic. Members of this protein family are Ku proteins of non-homologous end joining (NHEJ) DNA repair in bacteria and in at least one member of the archaea (Archaeoglobus fulgidus). Most members are encoded by a gene adjacent to the gene for the DNA ligase that completes the repair. The NHEJ system is broadly but rather sparsely distributed, being present in about one fifth of the first 250 completed prokarytotic genomes. A few species (e.g. Archaeoglobus fulgidus and Bradyrhizobium japonicum) have multiple copies that appear to represent recent paralogous family expansion.
Probab=100.00 E-value=1.4e-46 Score=383.06 Aligned_cols=253 Identities=19% Similarity=0.295 Sum_probs=217.0
Q ss_pred cceeeeeeEeecCCeEEEEEEEeecccccCCcceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecC-
Q 005694 206 PVTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYG- 284 (682)
Q Consensus 206 ~~~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG- 284 (682)
+|++|+|.|+|| .++|||++|++|...++++++.+..++ ..|+ +.|. ++++|++|+++|++|||+||
T Consensus 1 ~r~~wkG~l~fg-lV~ipV~lY~at~~~~i~f~~l~~~~~--------~~v~--~~~v-~~~~g~eV~~~divKgYeyg~ 68 (258)
T TIGR02772 1 ARAIWKGAISFG-LVNCPVKLYPATESEDISFHQLHREDG--------NRVR--YQKV-CSETGKEVEREEIVKGYEYDK 68 (258)
T ss_pred CCCceEEEEEEc-cEEEEEEEEEeeecCCCccEEEEcCCC--------Ceee--EEEE-cCCCCCCCCHHHeeeeEEeCC
Confidence 468999999999 999999999999988888888877653 3455 4455 68999999999999999999
Q ss_pred CeeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecC
Q 005694 285 PQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQ 364 (682)
Q Consensus 285 ~~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~ 364 (682)
+++|+|+++|+++++..++++|+|+||++.++|+++|+ +.+|||+|+ .++..||++|++||.++++|||||||+|.
T Consensus 69 g~~V~~~~eel~~~~~~~~~~i~I~gFv~~~~i~~~y~-~~syyl~P~---~~~~~a~~~L~~Al~~~~kvaIar~v~r~ 144 (258)
T TIGR02772 69 GKYVIIEDEDIESLPPESTKTIEIEAFVDADEIDPIYF-DTPYYLAPD---KGGEKAYALLREALEDTGKVGIAKVVLRG 144 (258)
T ss_pred CCEEEcCHHHHHhhcccCCCeEEEEEEeCHHHCChhee-CCCEEEccC---CCchHHHHHHHHHHHHcCCEEEEEEEEcC
Confidence 59999999999999999999999999999999999886 457999997 35778999999999999999999999998
Q ss_pred CCCceEEEEeeccccCCCCCCCeEEEecCCChhcccCC-CCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCC
Q 005694 365 GQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREF-QFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQ 443 (682)
Q Consensus 365 ~~~p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~-~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~~~e~~~ 443 (682)
+. .+++|.|+ .+||++++|||+||||++ .|+++. ....++++|+++|.+||++|+.. |+
T Consensus 145 r~---~l~aL~P~-------~~gL~l~~LpfadEvR~~~~~~~~~---~~~~~~~~el~~A~~LI~~mt~~-------fd 204 (258)
T TIGR02772 145 RE---RLAALRPV-------GKGLVLTTLRYPDEVRSPDEFFGPI---KDVEVDPEELELAGQLIDKMTGK-------FD 204 (258)
T ss_pred Cc---EEEEEEEC-------CCeEEEEECCChhhccChhhccccc---ccCCCCHHHHHHHHHHHHHhccC-------CC
Confidence 63 37789998 359999999999999999 565542 34579999999999999999975 99
Q ss_pred CCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcC
Q 005694 444 PELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFV 503 (682)
Q Consensus 444 p~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~ 503 (682)
|+.|.||+.++++++|++|+.+++...|...+ ..++.+++ ++|++|++++.
T Consensus 205 p~~y~d~y~~~l~~~i~~K~~~~~~~~~~~~~-----~~~~~~vi----dlm~aL~~S~~ 255 (258)
T TIGR02772 205 PEDYHDEYREALLELVDAKLEGGKPPKAEEPA-----APAPGNVV----DLMDALKASLR 255 (258)
T ss_pred hhhCCCHHHHHHHHHHHHHHhCCCCCCCcccC-----CCCCCcHH----HHHHHHHHHHh
Confidence 99999999999999999999998764332110 01234566 99999999865
No 8
>KOG2327 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku70 autoantigen) [Replication, recombination and repair]
Probab=100.00 E-value=3.5e-44 Score=385.34 Aligned_cols=460 Identities=21% Similarity=0.271 Sum_probs=327.0
Q ss_pred CCeEEEEEEeCCCCcCC---------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEec
Q 005694 4 TREALLLLLDVSPSMHS---------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (682)
Q Consensus 4 ~Kea~vf~iDv~~sM~~---------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~ 74 (682)
+|+++.||||++++|.. +|..++.|+..+..+++|+++.|.+||+.+||.++.+. .|.+.+++
T Consensus 17 ~~~~ilfvi~~~~s~~~~~~~e~~lspl~~~L~~~~~l~~~~vitn~~~~~~v~~y~~~~~~~~--------~~~~~l~~ 88 (602)
T KOG2327|consen 17 GKEAILFVIDVNPSMKAEEPDEFKLSPLKMILDCIDRLCIQLVITNPIDSVGVLFYGTEETEGL--------ENNTLLFP 88 (602)
T ss_pred cccceEEEEecCHHhhccCcccchhhhHHHHHHHHHHHHhheeecCCCCccceEeecccccccC--------ccceEEee
Confidence 79999999999999864 25678999999999999999999999999999887654 34555566
Q ss_pred cCCCCHHHHHHhhcC-CCC------------CCCChH-----HHHHH-H-cCCCcccceEEEEeCCCCCCCCCCCCCchh
Q 005694 75 IKVVDGHLVQSLKHL-PQG------------TCAGDY-----MLIKK-Y-GETYKGKKHLCLITDALCPLKDPDVGTKED 134 (682)
Q Consensus 75 l~~~~~~~l~~L~~l-~~~------------~~~gD~-----~li~~-~-~~~kk~~krI~L~Td~~~p~~~~~~~~~~~ 134 (682)
++.+...-+.++.++ ..+ .+.+++ +|... + +.++...+||++|||+++|+.. ++....
T Consensus 89 l~d~~~~~~~k~~~~~e~~~q~~~~~~~~~~~~~s~ls~vl~~c~~~~~~~~~~~~~krv~l~Td~d~P~~~--~~~~~~ 166 (602)
T KOG2327|consen 89 LGDLGQEEVKKILELFEEENQLSAVNFYGGMHQKSDLSNVLNYCKRMVFASQKKLSNKRVFLFTDNDNPHER--DDFLES 166 (602)
T ss_pred ccccChHHHHHHHHHhhhhhhhhhhhccCcccccccHHHHHHHHHHHHHHHhhhcccceEEEEecCCCcccc--cchHHH
Confidence 554444444444332 111 122333 45442 2 3355689999999999999964 121111
Q ss_pred hHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHH-----hhhcCCeeeehh--chHHhhcccccccCCcc
Q 005694 135 QVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIF-----SKKSSAKTLFVD--STTSLRGARKTRDISPV 207 (682)
Q Consensus 135 ~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~-----~~~~~g~~~~~~--~a~~ll~~~~~k~~~~~ 207 (682)
-..+.+.++....|.+.-.+++.+++..+.. .+++.+ ....++.+.+-. ....++..++.+....|
T Consensus 167 a~l~r~k~~~~~~i~~~~~~l~~~~~~~~~~-------~~y~~f~~i~~~~~~d~~~~~~~~~~~e~~~~ri~~k~~~kR 239 (602)
T KOG2327|consen 167 AHLQRAKDLVTKDIGFHHKTLDEPSDIFLYE-------DFYKPFDKISKAKELDSDLDTEVQSTLEDLLARILAKITAKR 239 (602)
T ss_pred hhhhhhhhcccceeeeeecccCccccccccc-------ccccccchheeeccccccccChhhhhHHHHHHHHHHHHHHHH
Confidence 1222333333333333311221111111111 111110 111223332221 33456677888888889
Q ss_pred eeeeeeEeecCCeEEEEEEEeecccccCC-cceEeccCCCCCcccccceeEEEEE---EeecCCCCCCCCccccccceec
Q 005694 208 TIFRGDLELSEKMKIKVWVYKKTGEEKFP-TLKKYSDKAPSTDKFATHEVKVDYE---YKSVEDPSKVVPPEQRIKGYRY 283 (682)
Q Consensus 208 ~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p-~~~~~~~~~~~~~~~~~~~V~~~~~---y~~~~d~~~~V~~edlvkgy~y 283 (682)
..|.+.|.+|+++.|+|++|.+++.++++ ..+++..+++ .|+..++ ++ +-++|.+.-+.++.+.|.|
T Consensus 240 ~~f~l~l~lg~~v~i~V~~y~~~~~~~~~~~~~~y~~~~~--------~v~tk~~~~~~f-~~~tg~~~~~~~~~~s~~y 310 (602)
T KOG2327|consen 240 AHFHLKLNLGPDVTIGVSVYNMVQRAKPADHSQLYRRDEE--------EVITKPSGYKFF-SCETGEELKRRDTKKSYEY 310 (602)
T ss_pred hhheeeeccCCCeEEEEEEeeeeeccccCccceeEecccc--------eeeeecccceEe-ccccCCccccccceEEecc
Confidence 99999999999999999999999998755 5677766542 2333332 44 4566767888899999999
Q ss_pred CCeeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCC-ChhhHHHHHHHHHHHHhcCceEEEEEEe
Q 005694 284 GPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPG-NSRATVAVSALARAMKEMNKVAIVRCVW 362 (682)
Q Consensus 284 G~~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~-~~~s~~afsaL~~Am~e~~~vaI~r~v~ 362 (682)
|+.-|+|+.++.+.++....|+|.|+||.+.+.+++|++++++.||+|++. ..||.+.|+||+..|.+++++|||||+.
T Consensus 311 G~~~i~l~~dq~e~v~~~~~p~L~liGFk~~ssl~~~~~i~ps~fi~Pddq~~iGS~~~f~all~rcl~rdkiaic~~~~ 390 (602)
T KOG2327|consen 311 GGEDIILSMDQLEYVREFNKPGLMLIGFKSMSSLKREHYIKPSKFIYPDDQTIIGSTRLFRALLKRCLARDKIAICWFQS 390 (602)
T ss_pred CCcccccChhHHHHhhccCCcceEEEeeccccccCcccccCchhccCcchhhccchHHHHHHHHHHHHhhhhhhheeecc
Confidence 999999999999999999999999999999999999999999999999986 7899999999999999999999999999
Q ss_pred cCCCCceEEEEeeccccC-----CCCCCCeEEEe-cCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCC
Q 005694 363 RQGQQSVVVGVLTPNVSE-----KINIPDSFYFN-VLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPS 436 (682)
Q Consensus 363 r~~~~p~~l~~L~P~~~~-----~~~~~~~l~~~-~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~ 436 (682)
|.|+.|+.|| |+++-.. ....++||+++ +||||||+|+++|+. ....+++|.+-|..++.+|.+.-
T Consensus 391 r~n~~p~~vA-lv~~p~~~~d~~~~~l~~GF~LV~flp~aDdirk~p~~~------~v~~~p~~~eqmk~i~Qki~f~~- 462 (602)
T KOG2327|consen 391 RSNQKPRFVA-LVLQPQRGQDDSSESLPCGFQLVGFLPFADDIRKFPLQD------KVSTEPEQEEQMKAIVQKIRFKL- 462 (602)
T ss_pred cccCCcceee-eecCccccccCcccccccceEEEEeecccchhccCCCcc------cccCCcchHHHHHHHHHHHHHHh-
Confidence 9999888775 6665332 12467899999 699999999998632 22344556666666666665531
Q ss_pred CCCccCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHH-HHHHHHHHHHhhcCCc
Q 005694 437 GKGEILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLA-ESQSAIDAFCGQFVIK 505 (682)
Q Consensus 437 ~~~e~~~p~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~-~~~~~le~lk~~f~~~ 505 (682)
...+.| .|.||.||.||..|++.||+.+.|....+.+ .|+...+. |.+.+++++++.|...
T Consensus 463 --rsd~~p-~feNP~Lq~h~knL~alaLd~e~p~~~vd~t-----lp~~~a~~KRvg~lvd~~~el~y~~ 524 (602)
T KOG2327|consen 463 --RSDYPP-FFENPSLQQHYKNLEALALDEETPEQAVDET-----LPKVEAMDKRVGELVDKYRELFYPP 524 (602)
T ss_pred --hcCCcc-cccChHHHHHHHHHHHHhcccccchhhhccc-----CcchHHHHHHHHHHHHHHHHhcCCC
Confidence 112666 8999999999999999999998875555543 45544554 4588999999987764
No 9
>PF02735 Ku: Ku70/Ku80 beta-barrel domain; InterPro: IPR006164 The Ku heterodimer is composed of Ku70 and Ku80 (or Ku86), 70 kDa and 80 kDa subunits of an ATP-dependent DNA helicase, which contributes to genomic integrity through its ability to bind DNA double-stranded breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-binding beta-barrel domain and is found in both the Ku70 and Ku80 proteins. Ku makes only a few contacts with the sugar-phosphate backbone, and none with the DNA bases, but it fits sterically to major and minor groove contours forming a ring that encircles duplex DNA, cradling two full turns of the DNA molecule. By forming a bridge between the broken DNA ends, Ku acts to structurally support and align the DNA ends, to protect them from degradation, and to prevent promiscuous binding to unbroken DNA. Ku effectively aligns the DNA, while still allowing access of polymerases, nucleases and ligases to the broken DNA ends to promote end joining [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0006303 double-strand break repair via nonhomologous end joining; PDB: 1JEY_B 1JEQ_B.
Probab=100.00 E-value=7.1e-41 Score=333.03 Aligned_cols=199 Identities=39% Similarity=0.602 Sum_probs=146.3
Q ss_pred EeecCCeEEEEEEEeecccccCCcceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecCCeeEecChh
Q 005694 214 LELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQVVPISSA 293 (682)
Q Consensus 214 L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~~~Vp~s~~ 293 (682)
|+||++++|+|++|++++++++++++++.... ...++.++.|. +.+++.+|+++|++|||+||+++|||+++
T Consensus 1 ~~ig~~v~I~V~~y~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~-~~~~~~~v~~~d~~kgy~~g~~~V~~~~~ 72 (200)
T PF02735_consen 1 LSIGPDVSIPVKLYKATKEAKPPFFKKLSRDT-------NEEVRSRTKYV-CPDTGEEVPPEDIIKGYRYGGEYVPFTDE 72 (200)
T ss_dssp EECTTTEEEEEEEEECE-----S--EEEETTT-------TTEEEEEEEEE-CTTT--EE-GGGEEEEEEECTEEEEE-HH
T ss_pred CEeCCCeEEEEEEEEeEeeccCCCcEEEEecC-------CcCceEEEEEE-cCCCCCccCHHHeEEEEEeCCEEEEeCHH
Confidence 68999999999999999999999888777541 24566666676 67888899999999999999999999999
Q ss_pred hHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCCh-hhHHHHHHHHHHHHhcCceEEEEEEecCCCCceEEE
Q 005694 294 EWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNS-RATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVG 372 (682)
Q Consensus 294 e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~-~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~l~ 372 (682)
|++.++..++++|+||||+++++|+++|+++++|||+|+++.. +|..+|+||++||.++++|||||||+|.++. |.++
T Consensus 73 e~~~~~~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~~s~~~f~aL~~am~~~~~vaI~r~v~r~~~~-p~l~ 151 (200)
T PF02735_consen 73 ELEAIKPETSPGLEILGFVPRSNIPPYYFMGESYFIVPDEKSGEGSAKAFSALVQAMLEKNKVAIARYVLRSNSR-PRLV 151 (200)
T ss_dssp HHHHCT--S-SEEEEEEEEEGGGS-CCG-ECEEEEEEEETTTECCHHHHHHHHHHHHHHCTEEEEEEEESSTTS---EEE
T ss_pred HHHhhhhcCCCeEEEEEEEcchhCCceEEeCCcEEEEECCCCcchhHHHHHHHHHHHHhcCcEEEEEEEEcCCCC-cEEE
Confidence 9999999999999999999999999999999999999998654 8999999999999999999999999999876 5577
Q ss_pred EeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHH
Q 005694 373 VLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAA 424 (682)
Q Consensus 373 ~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~~~~~~~~p~~eq~~a~ 424 (682)
+|+|+.+.. ..+.||++++|||+||||.++||++... ...|+++|+++|
T Consensus 152 aL~P~~~~~-~~~~gl~~~~Lpf~dDvR~~~~~~~~~~--~~~~~~eql~~a 200 (200)
T PF02735_consen 152 ALIPQIEES-DTPEGLVLIRLPFADDVRSFPFPSLSSA--KTKPTEEQLDAA 200 (200)
T ss_dssp EEEEEE-CE-EC-CEEEEEE---GGGB-------STT---TT---HHHHHH-
T ss_pred EEEEecccc-CCCCeEEEEEcCChhhccCccccCcCcC--CCCCCHHHhhcC
Confidence 899998653 1258999999999999999999998753 447999999987
No 10
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=100.00 E-value=2.5e-38 Score=286.79 Aligned_cols=120 Identities=43% Similarity=0.708 Sum_probs=109.1
Q ss_pred cCCChHHHHHHHHhCCCCchhHHHHHHHHHHHHHHHhcccCCCCChHHHHHHHHHHHHHhhhhcCchHHHHHHHHHHHHH
Q 005694 555 GDLTPIQDFEAMMSRRDCPDWVDKAIEDMKNKIFGLLENSNEGINYPKAVELLVALRKGCILEQEPKQFNDVLEKVCKIC 634 (682)
Q Consensus 555 g~~~pv~dF~~~l~~~~~~~~~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~cl~~~R~~~i~~~e~~~~N~fl~~lk~~~ 634 (682)
|++|||+||++||++++.+ |++|++||+++|++||.+| |+.+|+||++||++||++||.++||..||+||++||++|
T Consensus 1 Gsv~Pv~DFk~ll~~~d~~--~~~A~~qM~~vI~~Lv~~s-~~~~y~kalecl~~lR~~~i~~~ep~~yN~Fl~~LK~~~ 77 (120)
T PF08785_consen 1 GSVNPVQDFKALLAQRDSD--FQKAIQQMKNVIEQLVSDS-GDQNYDKALECLRALREECIEEEEPDEYNDFLRKLKKKL 77 (120)
T ss_dssp SSSSCCHHHHHHCCCCSSC--CCHHHHHHHHHHHHHHHCS-HCHHHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHH
T ss_pred CCCChHHHHHHHHHcCCcc--HHHHHHHHHHHHHHHHhcc-CcchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence 8999999999999998754 9999999999999999999 999999999999999999999999999999999999999
Q ss_pred hcCChhhHHHHHHhCCcccccccccCcCCCCHHHHhccccccC
Q 005694 635 RKRNFSTFFDFLMSKKLSLISKSEAVDSDITDDEAGSFIVKSQ 677 (682)
Q Consensus 635 ~~~~~~~fw~~i~~~~l~lI~~~E~~~s~vt~~ea~~F~~~~~ 677 (682)
+++++++||+.|++++|||||++|++.|+||++||++||.++|
T Consensus 78 ~~~~~~~FW~~i~~~~l~LI~~~E~~~S~vt~~eA~~Fl~~~~ 120 (120)
T PF08785_consen 78 LSKDRRDFWELIVSKKLGLISKDESESSDVTEEEAEEFLSQKE 120 (120)
T ss_dssp HCTTTCHHHHCCCCCT-SS-SSTTSSS-S--CHHHCCCT-SS-
T ss_pred HhccHHHHHHHHHHcCCCcccHhhcccCCCCHHHHHHHHhCCC
Confidence 9999999999999999999999999999999999999999876
No 11
>COG1273 Ku-homolog [Replication, recombination, and repair]
Probab=100.00 E-value=1.7e-35 Score=289.66 Aligned_cols=260 Identities=22% Similarity=0.348 Sum_probs=222.1
Q ss_pred cceeeeeeEeecCCeEEEEEEEeecccccCCcceEeccCCCCCcccccceeEEEEEEeecCCCCCCCCccccccceecCC
Q 005694 206 PVTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGP 285 (682)
Q Consensus 206 ~~~~~~g~L~lg~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~V~~~~~y~~~~d~~~~V~~edlvkgy~yG~ 285 (682)
+|+.|+|.|.|| .++|||++|++|+..-+.+++++..++ ..|+ +.|. +..+|++|+++|++|||+||.
T Consensus 3 ~Ra~WKG~ikfg-LV~~PV~ly~ATs~seI~F~~L~r~t~--------nrV~--~~~V-d~~tGk~Ve~~d~VKGYE~~~ 70 (278)
T COG1273 3 MRAIWKGYIKFG-LVNCPVKLYPATSESEIRFHTLHRKTG--------NRVR--YKYV-DSVTGKEVERDDIVKGYEYGK 70 (278)
T ss_pred ccccccceeEee-eEecceEeeecccccccchhhhhhhhC--------Ccee--eEEe-ccccCCccCccceeeeeEecC
Confidence 678999999999 999999999999987688888888764 2343 4566 578999999999999999985
Q ss_pred -eeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceEEEEEEecC
Q 005694 286 -QVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQ 364 (682)
Q Consensus 286 -~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~ 364 (682)
+||.++++|++.+...+.+.|+|..|+|.+.|++.||..+ ||+.|++ .+..||+.|..||.+++++||+|.|.++
T Consensus 71 ~~yViledeel~s~~~es~kti~I~~Fvp~~eId~iyfD~p-YYl~Pd~---~g~~af~lLReam~~~~~~aIar~vl~~ 146 (278)
T COG1273 71 GDYVILEDEELESVPLESTKTIEIEAFVPRDEIDPIYFDKP-YYLAPDK---VGEKAFALLREAMAETKKVAIARLVLRR 146 (278)
T ss_pred CcEEEecHHHHhhccccccceEeEEeecCHhhcCceeecCc-eeecCCC---CcchHHHHHHHHHHHcCcchhhhhhhhc
Confidence 9999999999999999999999999999999999999995 9999985 5677899999999999999999999999
Q ss_pred CCCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCC--CCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccC
Q 005694 365 GQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQ--FPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEIL 442 (682)
Q Consensus 365 ~~~p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~--fp~l~~~~~~~~p~~eq~~a~~~lId~m~l~~~~~~e~~ 442 (682)
+.+ +++|-|+ ..|+++.+|.|.++||+.. ||.+.. ..+++++++++..||+.|.-. |
T Consensus 147 Rer---~v~Lrp~-------~~glv~~TL~~~dEVRs~d~~f~~i~~----~~~d~eml~lA~~lI~~~~~~-------f 205 (278)
T COG1273 147 RER---LVLLRPR-------GKGLVLTTLRYPDEVRSPDEYFPGIPD----IKIDPEMLELAKQLIDKKTGT-------F 205 (278)
T ss_pred cce---eEEEEec-------CCcEEEEEecCchhccChhhhcCCCCc----ccCCHHHHHHHHHHHHHhcCC-------C
Confidence 865 4478897 4689999999999999998 776643 348999999999999999986 9
Q ss_pred CCCCCCCchhHHHHHHHHHhhcCCCCC-CCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcCCccCCcccc
Q 005694 443 QPELTPNPALERFYHHLELKSEHQDAA-PPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENPKLKK 512 (682)
Q Consensus 443 ~p~~~~NP~lqr~~~~i~~ral~~~~~-~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~~~~~~~k~k 512 (682)
+|+.|.+++-+++.++|+++.-+.... .|.-.+ .++.+++ +++++|++++...+-+.+++
T Consensus 206 dp~~y~D~y~~aL~elI~aK~~g~~~~~~~~~~~------p~~~nVi----dL~daLk~S~~~~~~~~k~~ 266 (278)
T COG1273 206 DPDEYEDRYQEALMELIEAKLEGRKTVAAPKKEP------PEPSNVI----DLMDALKASLEARKKAGKKK 266 (278)
T ss_pred ChHHccCHHHHHHHHHHHHHHhCCCccccccCCC------CCcccHH----HHHHHHHHHHhccCCCCCCC
Confidence 999999999999999999999887731 121110 0134555 99999999998876555444
No 12
>smart00559 Ku78 Ku70 and Ku80 are 70kDa and 80kDa subunits of the Lupus Ku autoantigen. This is a single stranded DNA- and ATP-depedent helicase that has a role in chromosome translocation. This is a domain of unknown function C-terminal to its von Willebrand factor A domain, that also occurs in bacterial hypothetical proteins.
Probab=100.00 E-value=2.7e-34 Score=268.30 Aligned_cols=136 Identities=35% Similarity=0.574 Sum_probs=126.6
Q ss_pred CCCCccccccceecCCeeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEcCCC-ChhhHHHHHHHHHH
Q 005694 270 KVVPPEQRIKGYRYGPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPG-NSRATVAVSALARA 348 (682)
Q Consensus 270 ~~V~~edlvkgy~yG~~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~-~~~s~~afsaL~~A 348 (682)
.+|++++++|||+||+++|+|+++|++.+|+.++++|+|+||+++++|+++|+++++|||+|++. ..+|++||+||++|
T Consensus 2 ~~v~~~~~~kgy~yG~~~V~~~~ee~~~~k~~~~~~l~ilgF~~~~~i~~~~~~~~s~~i~P~~~~~~~s~~a~~aL~~a 81 (140)
T smart00559 2 KEVKPEDIVKGYEYGGRYVPLSDEELEQLKYKSEPGLELLGFKPLSSLPPYYFLRPSYFLVPDDKSVIGSTKAFSALVEA 81 (140)
T ss_pred cccChHHceEeeEeCCEEeccCHHHHHHhhccCCCeEEEEeecChHHCCHhHccCCcEEEeeCCcccchhHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999985 77899999999999
Q ss_pred HHhcCceEEEEEEecCCCCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCC
Q 005694 349 MKEMNKVAIVRCVWRQGQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFS 408 (682)
Q Consensus 349 m~e~~~vaI~r~v~r~~~~p~~l~~L~P~~~~~~~~~~~l~~~~LPFaeDvR~~~fp~l~ 408 (682)
|.+++++||||||+|+++. |.+++|+|+..+.. +.||++++|||+||||+++||+|.
T Consensus 82 m~~~~~~aiar~v~r~~~~-p~l~aL~P~~~~~~--~~~l~~~~LpfaedvR~~~~~~l~ 138 (140)
T smart00559 82 LLETDKIAIARYTLRTKSN-PRLVALRPYDEEDD--GEGLVLVQLPFADDVRKLDFPELN 138 (140)
T ss_pred HHhcCCEEEEEEEEcCCCC-CEEEEEEeeecccC--CCcEEEEecCCchhccCCCCcCcc
Confidence 9999999999999999975 66778999987542 469999999999999999999875
No 13
>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=99.92 E-value=3.2e-24 Score=217.45 Aligned_cols=192 Identities=27% Similarity=0.394 Sum_probs=124.7
Q ss_pred EEEEEEeCCCCcCCC-------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC
Q 005694 7 ALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (682)
Q Consensus 7 a~vf~iDv~~sM~~~-------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~ 79 (682)
|||||||||++|+++ |+.|++++..++++||+++++|+||||+|||++|+|+ .+.++|+||+++++|++|+
T Consensus 1 ~~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~--~~~~~~~~i~~l~~l~~~~ 78 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNP--DEDSGYENIFVLQPLDPPS 78 (224)
T ss_dssp EEEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST---TTT-STTEEEEEECC--B
T ss_pred CEEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCc--ccccCCCceEEeecCCccC
Confidence 799999999999964 6789999999999999999999999999999999997 3456999999999999999
Q ss_pred HHHHHHhhcCCC----------CCCCChH-----HHHHHH----cCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHH-
Q 005694 80 GHLVQSLKHLPQ----------GTCAGDY-----MLIKKY----GETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTI- 139 (682)
Q Consensus 80 ~~~l~~L~~l~~----------~~~~gD~-----~li~~~----~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i- 139 (682)
++.|+.|.++.. +...+|+ .+++.+ ++++++.||||||||+++|+.+ ....+.+...
T Consensus 79 ~~~l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~---~~~~~~~~~~l 155 (224)
T PF03731_consen 79 AERLKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHED---DDELERIIQKL 155 (224)
T ss_dssp HHHHHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT----CCCHHHHHHHH
T ss_pred HHHHHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCC---HHHHHHHHHhh
Confidence 999999998633 4566775 333322 4566789999999999999952 1122333333
Q ss_pred -HHHHhhcCcEEEEEeecc--CC-CCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHhhcccccccCCcce
Q 005694 140 -ARQMVAFGLRMKNIVVRA--SL-SGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGARKTRDISPVT 208 (682)
Q Consensus 140 -~~~l~~~~I~l~vi~i~~--~~-~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ll~~~~~k~~~~~~ 208 (682)
+.++++.||.+.++++.. .| .+.++.+....+....+.......|. ...+++..++.|..+.|+
T Consensus 156 ~~~Dl~~~~i~~~~~~l~~~~~f~~~~fy~~~~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~kR~ 223 (224)
T PF03731_consen 156 KAKDLQDNGIEIELFFLPGSDKFDMDKFYKEILKLPEDEENEVMQSSSGE-----SVEDLLSRIRRKKFKKRA 223 (224)
T ss_dssp HHHHHHHHTEEEEEEECT-TT---CCCTCGHCCHHHHHHHHHHHHHHCSG-----CHHHHCCCCCCCHCG---
T ss_pred ccccchhcCcceeEeecCCCCCCChhhCcccccccchhhhcccccccccc-----cHHHHHHHHhhhcccccC
Confidence 667999999999999921 22 12333333222333333333333443 345677788888776664
No 14
>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=99.85 E-value=5e-21 Score=193.22 Aligned_cols=146 Identities=27% Similarity=0.440 Sum_probs=120.8
Q ss_pred CeEEEEEEeCCCCcCC--------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccC
Q 005694 5 REALLLLLDVSPSMHS--------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIK 76 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~--------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~ 76 (682)
||+++||||||+||+. .|+.|++++..++++||+++++|+||||+|||+.++|+ ++|+||++++|+.
T Consensus 1 ke~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~-----~~~~~i~v~~~l~ 75 (218)
T cd01458 1 KESVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP-----VGYENIYVLLDLD 75 (218)
T ss_pred CcEEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc-----CCCCceEEeecCC
Confidence 7999999999999973 36789999999999999999999999999999999987 3899999999999
Q ss_pred CCCHHHHHHhhcCC-CC----------CCCChH-----HHHHHHc--CCCcccceEEEEeCCCCCCCCCCCCCchhhHHH
Q 005694 77 VVDGHLVQSLKHLP-QG----------TCAGDY-----MLIKKYG--ETYKGKKHLCLITDALCPLKDPDVGTKEDQVST 138 (682)
Q Consensus 77 ~~~~~~l~~L~~l~-~~----------~~~gD~-----~li~~~~--~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~ 138 (682)
.|+++.++.|.++. ++ ...+++ .+++.+. .++++.||||||||+++|+++ +....+++..
T Consensus 76 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~--~~~~~~~~~~ 153 (218)
T cd01458 76 TPGAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGG--DSIKDSQAAV 153 (218)
T ss_pred CCCHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCC--CHHHHHHHHH
Confidence 99999999998853 22 123343 3444443 355689999999999999863 1233467889
Q ss_pred HHHHHhhcCcEEEEEeecc
Q 005694 139 IARQMVAFGLRMKNIVVRA 157 (682)
Q Consensus 139 i~~~l~~~~I~l~vi~i~~ 157 (682)
++++|++.||.+++|+++.
T Consensus 154 ~a~~l~~~gI~i~~i~i~~ 172 (218)
T cd01458 154 KAEDLKDKGIELELFPLSS 172 (218)
T ss_pred HHHHHHhCCcEEEEEecCC
Confidence 9999999999999999943
No 15
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.85 E-value=8.9e-08 Score=93.97 Aligned_cols=156 Identities=17% Similarity=0.214 Sum_probs=101.6
Q ss_pred EEEEEEeCCCCcCC------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCH
Q 005694 7 ALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (682)
Q Consensus 7 a~vf~iDv~~sM~~------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~ 80 (682)
.++|+||+|.||.. .++.|+.++..|++++.-.++.|+||||.|+... -+++.|+.. |.
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~--------------a~~~~PlT~-D~ 69 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGR--------------AEKLTDLTG-NP 69 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCc--------------cEEEECCCC-CH
Confidence 58999999999984 5788999999999877767899999999995432 123445522 22
Q ss_pred -HHHHHhhcC-CC-C-CCCChH--HHHHHHcC-CCcccce-EEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEE
Q 005694 81 -HLVQSLKHL-PQ-G-TCAGDY--MLIKKYGE-TYKGKKH-LCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 152 (682)
Q Consensus 81 -~~l~~L~~l-~~-~-~~~gD~--~li~~~~~-~kk~~kr-I~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~v 152 (682)
..+..|+.+ +. | +.-++. .....+.. .....++ |+|+||+... + ...+..+++.+++.||.+.+
T Consensus 70 ~~~~~~L~~~~~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~-~-------~~~~~~~~~~l~~~~I~v~~ 141 (183)
T cd01453 70 RKHIQALKTARECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTC-D-------PGNIYETIDKLKKENIRVSV 141 (183)
T ss_pred HHHHHHhhcccCCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcC-C-------hhhHHHHHHHHHHcCcEEEE
Confidence 345555554 22 2 222332 23344432 1222454 5555654331 1 12456788999999999999
Q ss_pred EeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHhhcc
Q 005694 153 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGA 198 (682)
Q Consensus 153 i~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ll~~ 198 (682)
|+++. +...|+.++..++|+++...+..++-..
T Consensus 142 IgiG~-------------~~~~L~~ia~~tgG~~~~~~~~~~l~~~ 174 (183)
T cd01453 142 IGLSA-------------EMHICKEICKATNGTYKVILDETHLKEL 174 (183)
T ss_pred EEech-------------HHHHHHHHHHHhCCeeEeeCCHHHHHHH
Confidence 99943 1257999999999999987776544433
No 16
>PF03730 Ku_C: Ku70/Ku80 C-terminal arm; InterPro: IPR005160 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 C-terminal arm. This alpha helical region embraces the beta-barrel domain IPR006164 from INTERPRO of the opposite subunit [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0006303 double-strand break repair via nonhomologous end joining; PDB: 1JEY_B 1JEQ_B 1RW2_A 3RZ9_B 3RZX_B.
Probab=98.84 E-value=1.3e-09 Score=95.12 Aligned_cols=65 Identities=29% Similarity=0.511 Sum_probs=45.7
Q ss_pred cCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCCHHHHHHHHHHHHHHHhhcCCccC
Q 005694 441 ILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKEN 507 (682)
Q Consensus 441 ~~~p~~~~NP~lqr~~~~i~~ral~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~le~lk~~f~~~~~ 507 (682)
.|+|+.|+||+|||||++|+++||+++.++|+.|.++.++..++..+ +++..|++|+++|.+...
T Consensus 4 ~y~P~~~~NP~LQ~hY~~L~a~AL~~d~p~~~~D~t~p~~~~~~~~~--~~~~~i~~~k~~~~~~~~ 68 (96)
T PF03730_consen 4 SYDPDKFPNPSLQRHYKCLQALALDEDEPEPPEDQTLPDYEEIDKEL--RVGEKIEEFKELFYLEDY 68 (96)
T ss_dssp S--CCCS--HHHHHHHHHHHHHHCTTTS------CCCHHHHCHHHHH--HHCCHHHHHHHHCS-CC-
T ss_pred CCCcCCcCCchHHHHHHHHHHHHcCCCCCCCcccccchhhhccCHHH--HHHHHHHHHHHHhchhhh
Confidence 49999999999999999999999999999999998888877765432 466779999999998776
No 17
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=98.65 E-value=1.2e-06 Score=85.59 Aligned_cols=146 Identities=14% Similarity=0.206 Sum_probs=95.4
Q ss_pred CeEEEEEEeCCCCcCC------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC
Q 005694 5 REALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~ 78 (682)
-||++||||+|.+|.. .++.+++++..++..++-.++.+.||||.|+... -+++.++..=
T Consensus 3 ~ea~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~--------------a~v~~plT~D 68 (187)
T cd01452 3 LEATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNS--------------PEVLVTLTND 68 (187)
T ss_pred ceEEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCc--------------eEEEECCCCC
Confidence 6999999999999965 3677888999998888889999999999999743 2344555321
Q ss_pred CHHHHHHhhcCCCCCCCChH-----HHHHHHcC-CCcc-cce-EEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEE
Q 005694 79 DGHLVQSLKHLPQGTCAGDY-----MLIKKYGE-TYKG-KKH-LCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 150 (682)
Q Consensus 79 ~~~~l~~L~~l~~~~~~gD~-----~li~~~~~-~kk~-~kr-I~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l 150 (682)
-...+..|+.+..+ +..++ .....+.. ..+. ++| |+++++..... ..++..+++.|++.||.+
T Consensus 69 ~~~~~~~L~~i~~~-g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d--------~~~i~~~~~~lkk~~I~v 139 (187)
T cd01452 69 QGKILSKLHDVQPK-GKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEED--------EKDLVKLAKRLKKNNVSV 139 (187)
T ss_pred HHHHHHHHHhCCCC-CcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCC--------HHHHHHHHHHHHHcCCeE
Confidence 12234455555432 12222 22233322 2233 347 44445443322 256888999999999999
Q ss_pred EEEeeccCCCCCCCcchhchhhHHHHHHhhhcC
Q 005694 151 KNIVVRASLSGEPHMRVIIENDNLLNIFSKKSS 183 (682)
Q Consensus 151 ~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~ 183 (682)
.+|++|.. .+|...|..|.+..+
T Consensus 140 ~vI~~G~~----------~~~~~~l~~~~~~~~ 162 (187)
T cd01452 140 DIINFGEI----------DDNTEKLTAFIDAVN 162 (187)
T ss_pred EEEEeCCC----------CCCHHHHHHHHHHhc
Confidence 99999651 245567777777663
No 18
>PRK13685 hypothetical protein; Provisional
Probab=98.61 E-value=1.7e-06 Score=92.71 Aligned_cols=167 Identities=16% Similarity=0.205 Sum_probs=105.5
Q ss_pred eEEEEEEeCCCCcCC------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC
Q 005694 6 EALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (682)
Q Consensus 6 ea~vf~iDv~~sM~~------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~ 79 (682)
-.+||+||+|.||.. .++.|+..+..++.+ -++.|.||||.|+++. ++..|+. .|
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~---l~~~d~vglv~Fa~~a---------------~~~~p~t-~d 149 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADE---LTPGINLGLIAFAGTA---------------TVLVSPT-TN 149 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHh---CCCCCeEEEEEEcCce---------------eecCCCC-CC
Confidence 369999999999974 477888889888874 1579999999999752 1234443 34
Q ss_pred HHH-HHHhhcCCC--CCCCChH--HHHHHHc-------C-CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhc
Q 005694 80 GHL-VQSLKHLPQ--GTCAGDY--MLIKKYG-------E-TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 146 (682)
Q Consensus 80 ~~~-l~~L~~l~~--~~~~gD~--~li~~~~-------~-~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~ 146 (682)
.+. ...|+.+.. ++..|+. ..++... . .....++|+|||||.+..... ..........++.+++.
T Consensus 150 ~~~l~~~l~~l~~~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~--~~~~~~~~~aa~~a~~~ 227 (326)
T PRK13685 150 REATKNAIDKLQLADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTN--PDNPRGAYTAARTAKDQ 227 (326)
T ss_pred HHHHHHHHHhCCCCCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCC--CCCcccHHHHHHHHHHc
Confidence 443 344666654 3444543 2222221 0 112357899999998754310 00011234567788999
Q ss_pred CcEEEEEeeccCC---CCCCCcchhchhhHHHHHHhhhcCCeeeehhchH
Q 005694 147 GLRMKNIVVRASL---SGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTT 193 (682)
Q Consensus 147 ~I~l~vi~i~~~~---~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~ 193 (682)
||.+.+|+++.+- ..++......-++..|+.++..++|.++...++.
T Consensus 228 gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~ 277 (326)
T PRK13685 228 GVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAASLE 277 (326)
T ss_pred CCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCCHH
Confidence 9999999996421 0011111112467889999999999998766653
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.59 E-value=2.8e-06 Score=82.97 Aligned_cols=156 Identities=17% Similarity=0.184 Sum_probs=98.0
Q ss_pred EEEEEEeCCCCcCC--ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHH
Q 005694 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (682)
Q Consensus 7 a~vf~iDv~~sM~~--~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~ 84 (682)
-++|+||+|.||.. .+..+..++..++... ....|.||||.|++... .+..++...-....+
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~--~~~~d~v~lv~F~~~~~--------------~~~~~~t~~~~~~~~ 65 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDA--YQRRDKVALIAFRGTEA--------------EVLLPPTRSVELAKR 65 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHh--hcCCCEEEEEEECCCCc--------------eEEeCCCCCHHHHHH
Confidence 37899999999975 5677888887777532 35789999999986421 112233222223345
Q ss_pred HhhcCCCC--CCCChH-----HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhH-HHHHHHHhhcCcEEEEEeec
Q 005694 85 SLKHLPQG--TCAGDY-----MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQV-STIARQMVAFGLRMKNIVVR 156 (682)
Q Consensus 85 ~L~~l~~~--~~~gD~-----~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~-~~i~~~l~~~~I~l~vi~i~ 156 (682)
.|+.++.+ |..++. ..+..........+.||||||+...... ...... ...+..+++.||.+.+|+++
T Consensus 66 ~l~~l~~~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~----~~~~~~~~~~~~~l~~~gi~v~~I~~~ 141 (178)
T cd01451 66 RLARLPTGGGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGP----DPTADRALAAARKLRARGISALVIDTE 141 (178)
T ss_pred HHHhCCCCCCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCC----CchhHHHHHHHHHHHhcCCcEEEEeCC
Confidence 66666543 333332 1221111111225889999999765432 011223 67788999999999888773
Q ss_pred cCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 157 ASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 157 ~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
... .+..+|+.+++.++|.++.+.++
T Consensus 142 ~~~----------~~~~~l~~iA~~tgG~~~~~~d~ 167 (178)
T cd01451 142 GRP----------VRRGLAKDLARALGGQYVRLPDL 167 (178)
T ss_pred CCc----------cCccHHHHHHHHcCCeEEEcCcC
Confidence 210 13568899999999999887665
No 20
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.56 E-value=4.6e-06 Score=80.27 Aligned_cols=155 Identities=17% Similarity=0.290 Sum_probs=95.6
Q ss_pred EEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC-CCHH-HHH
Q 005694 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDGH-LVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~-~~~~-~l~ 84 (682)
++|+||+|.||... ++.+..++..++.+ ..+.|.||||.|+++.. ++.+... .+.+ ...
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~---l~~~~~v~li~f~~~~~---------------~~~~~~~~~~~~~l~~ 64 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQ---LRPDDRLAIVTYDGAAE---------------TVLPATPVRDKAAILA 64 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHh---CCCCCEEEEEEecCCcc---------------EEecCcccchHHHHHH
Confidence 78999999999753 66667666666652 35789999999997521 1122221 1222 333
Q ss_pred HhhcCCCC--CCCChH--HHHHHHcC--CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeeccC
Q 005694 85 SLKHLPQG--TCAGDY--MLIKKYGE--TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRAS 158 (682)
Q Consensus 85 ~L~~l~~~--~~~gD~--~li~~~~~--~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~~ 158 (682)
.|.++..+ +..+.. ..+..... .....++||||||+...... ...+.+...+..++..+|.+.+|+++.
T Consensus 65 ~l~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~----~~~~~~~~~~~~~~~~~v~i~~i~~g~- 139 (170)
T cd01465 65 AIDRLTAGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGE----TDPDELARLVAQKRESGITLSTLGFGD- 139 (170)
T ss_pred HHHcCCCCCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCC----CCHHHHHHHHHHhhcCCeEEEEEEeCC-
Confidence 46666432 222221 11111111 11224789999999764321 122456666777888999999999942
Q ss_pred CCCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHh
Q 005694 159 LSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSL 195 (682)
Q Consensus 159 ~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~l 195 (682)
..+...|+.++...+|.++.++++.++
T Consensus 140 ----------~~~~~~l~~ia~~~~g~~~~~~~~~~~ 166 (170)
T cd01465 140 ----------NYNEDLMEAIADAGNGNTAYIDNLAEA 166 (170)
T ss_pred ----------CcCHHHHHHHHhcCCceEEEeCCHHHH
Confidence 123578999998888988877666443
No 21
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.56 E-value=2.7e-06 Score=82.84 Aligned_cols=158 Identities=22% Similarity=0.291 Sum_probs=91.1
Q ss_pred EEEEEEeCCCCcCCC-------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC
Q 005694 7 ALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (682)
Q Consensus 7 a~vf~iDv~~sM~~~-------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~ 79 (682)
-++||||+|.||... +..+..++..++. ..+.|.||||.|++.. .+..++. .+
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~----~~~~~~v~lv~f~~~~---------------~~~~~~~-~~ 63 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFID----RRENDRIGLVVFAGAA---------------FTQAPLT-LD 63 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHH----hCCCCeEEEEEEcCCe---------------eeccCCC-cc
Confidence 479999999999642 3455555555554 4689999999998642 1222332 23
Q ss_pred HHHHH-HhhcCC---C--CCCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEE
Q 005694 80 GHLVQ-SLKHLP---Q--GTCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 151 (682)
Q Consensus 80 ~~~l~-~L~~l~---~--~~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~ 151 (682)
...++ .|..+. . ++..++. .....+.......+.|+||||+...... ......++.+++.||.+.
T Consensus 64 ~~~~~~~l~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iiliTDG~~~~g~-------~~~~~~~~~~~~~gi~i~ 136 (180)
T cd01467 64 RESLKELLEDIKIGLAGQGTAIGDAIGLAIKRLKNSEAKERVIVLLTDGENNAGE-------IDPATAAELAKNKGVRIY 136 (180)
T ss_pred HHHHHHHHHHhhhcccCCCCcHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCCC-------CCHHHHHHHHHHCCCEEE
Confidence 33222 233332 2 1222222 2223333222335789999999654321 123445566778899999
Q ss_pred EEeeccCCCCCCCc-chhchhhHHHHHHhhhcCCeeeehhch
Q 005694 152 NIVVRASLSGEPHM-RVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 152 vi~i~~~~~~~~~~-~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
+|+++..-. .... .....+...|+.++..++|.++...+.
T Consensus 137 ~i~ig~~~~-~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~~ 177 (180)
T cd01467 137 TIGVGKSGS-GPKPDGSTILDEDSLVEIADKTGGRIFRALDG 177 (180)
T ss_pred EEEecCCCC-CcCCCCcccCCHHHHHHHHHhcCCEEEEecCc
Confidence 999964110 0000 001233567899999999998876554
No 22
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=98.46 E-value=3.8e-06 Score=83.46 Aligned_cols=157 Identities=16% Similarity=0.178 Sum_probs=94.1
Q ss_pred EEEEEeCCCCcC-CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC---CC-HHH
Q 005694 8 LLLLLDVSPSMH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV---VD-GHL 82 (682)
Q Consensus 8 ~vf~iDv~~sM~-~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~---~~-~~~ 82 (682)
++||||+|.||. +.++.+..++..++.+.-.....|++|||.|+++.+ +..++.. .+ ...
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~---------------~~~~~~~~~~~~~~~~ 67 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPK---------------EIVSIRDFNSNDADDV 67 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCce---------------EEEecccCCCCCHHHH
Confidence 799999999997 457888888888887654445789999999998631 1223332 22 245
Q ss_pred HHHhhcCCC-------CCCCChH--HHHHHH---cCC-----CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHH---
Q 005694 83 VQSLKHLPQ-------GTCAGDY--MLIKKY---GET-----YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQ--- 142 (682)
Q Consensus 83 l~~L~~l~~-------~~~~gD~--~li~~~---~~~-----kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~--- 142 (682)
+..|+.+.. +|..++. ...+.. ... ....+.|||||||...... ........+.+.
T Consensus 68 ~~~l~~~~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~----~~~~~~~~~~~~~~~ 143 (198)
T cd01470 68 IKRLEDFNYDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGG----SPLPTVDKIKNLVYK 143 (198)
T ss_pred HHHHHhCCcccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCC----ChhHHHHHHHHHHhc
Confidence 666776642 1222222 111111 111 1135679999999764321 111112222221
Q ss_pred ------HhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCC--eeeehhchHH
Q 005694 143 ------MVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSA--KTLFVDSTTS 194 (682)
Q Consensus 143 ------l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g--~~~~~~~a~~ 194 (682)
+++.+|.+.+||++.+ .|...|+.++...+| .++.+.+..+
T Consensus 144 ~~~~~~~~~~~v~i~~iGvG~~-----------~~~~~L~~iA~~~~g~~~~f~~~~~~~ 192 (198)
T cd01470 144 NNKSDNPREDYLDVYVFGVGDD-----------VNKEELNDLASKKDNERHFFKLKDYED 192 (198)
T ss_pred ccccccchhcceeEEEEecCcc-----------cCHHHHHHHhcCCCCCceEEEeCCHHH
Confidence 2455899999998531 235789999998888 3666665543
No 23
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.46 E-value=4.1e-06 Score=82.29 Aligned_cols=146 Identities=14% Similarity=0.100 Sum_probs=88.6
Q ss_pred CeEEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHH
Q 005694 5 REALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~ 84 (682)
+--++|+||.|.||...+..+.+.+..++++. .++.++||||.|+++. .+..++....-...+
T Consensus 4 ~~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~--~~~~~rvglv~Fs~~~---------------~~~~~l~~~~~~~~~ 66 (185)
T cd01474 4 HFDLYFVLDKSGSVAANWIEIYDFVEQLVDRF--NSPGLRFSFITFSTRA---------------TKILPLTDDSSAIIK 66 (185)
T ss_pred ceeEEEEEeCcCchhhhHHHHHHHHHHHHHHc--CCCCcEEEEEEecCCc---------------eEEEeccccHHHHHH
Confidence 34589999999999876666666677777643 3577999999999752 223455433323333
Q ss_pred H---hhcCCC--CCCCChH--HHHHHH----cCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEE
Q 005694 85 S---LKHLPQ--GTCAGDY--MLIKKY----GETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 153 (682)
Q Consensus 85 ~---L~~l~~--~~~~gD~--~li~~~----~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi 153 (682)
. |..+.. +|..++. ...+.. .......+.|||||||...-+. .......++.+++.||.+..|
T Consensus 67 ~l~~l~~~~~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~------~~~~~~~a~~l~~~gv~i~~v 140 (185)
T cd01474 67 GLEVLKKVTPSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNG------HKYPEHEAKLSRKLGAIVYCV 140 (185)
T ss_pred HHHHHhccCCCCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCC------CcchHHHHHHHHHcCCEEEEE
Confidence 3 455433 2444443 222221 1112234789999999863111 122445567889999999999
Q ss_pred eeccCCCCCCCcchhchhhHHHHHHhhhcCCe
Q 005694 154 VVRASLSGEPHMRVIIENDNLLNIFSKKSSAK 185 (682)
Q Consensus 154 ~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~ 185 (682)
|++. .|+..|+.++...++.
T Consensus 141 gv~~------------~~~~~L~~iA~~~~~~ 160 (185)
T cd01474 141 GVTD------------FLKSQLINIADSKEYV 160 (185)
T ss_pred eech------------hhHHHHHHHhCCCCee
Confidence 8821 2345688888765443
No 24
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.45 E-value=8e-06 Score=78.45 Aligned_cols=141 Identities=18% Similarity=0.243 Sum_probs=90.4
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC-CCH-HHHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDG-HLVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~-~~~-~~l~ 84 (682)
+||+||+|.||.. .+..+.+++..++.+....+..+++|||.|+++. .+..++.. .+. ...+
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~---------------~~~~~~~~~~~~~~~~~ 67 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDP---------------RTEFYLNTYRSKDDVLE 67 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCce---------------eEEEecCCCCCHHHHHH
Confidence 7899999999987 5677788888888765555678999999999642 12233432 222 3455
Q ss_pred HhhcCCC-C--CCCChH--HHHHHHcC-----CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 85 SLKHLPQ-G--TCAGDY--MLIKKYGE-----TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 85 ~L~~l~~-~--~~~gD~--~li~~~~~-----~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
.|+.+.. + +..++. ...+.+.. ..-..+.|+||||+.++ +.....+..+++.||.+..|+
T Consensus 68 ~l~~l~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~----------~~~~~~~~~l~~~gv~i~~ig 137 (164)
T cd01472 68 AVKNLRYIGGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQ----------DDVEEPAVELKQAGIEVFAVG 137 (164)
T ss_pred HHHhCcCCCCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCC----------chHHHHHHHHHHCCCEEEEEE
Confidence 5666653 2 233332 22333322 12246679999999543 123445567888999999998
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhcCCe
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKSSAK 185 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~ 185 (682)
++. . +...|+.++...+|.
T Consensus 138 ~g~-----~-------~~~~L~~ia~~~~~~ 156 (164)
T cd01472 138 VKN-----A-------DEEELKQIASDPKEL 156 (164)
T ss_pred CCc-----C-------CHHHHHHHHCCCchh
Confidence 843 1 457788888766543
No 25
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.44 E-value=6.9e-06 Score=80.80 Aligned_cols=146 Identities=16% Similarity=0.208 Sum_probs=92.6
Q ss_pred EEEEEEeCCCCcC-CChhHHHHHHHHHHHHh------HhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccC--C
Q 005694 7 ALLLLLDVSPSMH-SVLPDVEKLCSRLIQKK------LIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIK--V 77 (682)
Q Consensus 7 a~vf~iDv~~sM~-~~l~~a~~~~~~~~~~k------i~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~--~ 77 (682)
-++|+||.|.||. ..++.++..+..++.+- -+....++||||.|++.. .+..++. .
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~---------------~~~~~l~~~~ 68 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQ---------------EVEAGFLRDI 68 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCc---------------eeeEeccccc
Confidence 3799999999998 45776666666666654 234567999999999752 1233443 2
Q ss_pred CCH-HHHHHhhcCCC---CCCCChH--HHHHHHc--CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 78 VDG-HLVQSLKHLPQ---GTCAGDY--MLIKKYG--ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 78 ~~~-~~l~~L~~l~~---~~~~gD~--~li~~~~--~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
.+. ...+.|+++.. +|..++. ...+... ......|.|+|||||.+... ....+...++.+++.||.
T Consensus 69 ~~~~~l~~~i~~l~~~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~------~~~~~~~~~~~~~~~gi~ 142 (186)
T cd01480 69 RNYTSLKEAVDNLEYIGGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGS------PDGGIEKAVNEADHLGIK 142 (186)
T ss_pred CCHHHHHHHHHhCccCCCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCC------cchhHHHHHHHHHHCCCE
Confidence 333 34556777642 2333443 2222222 22345788999999976321 113567778889999999
Q ss_pred EEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCe
Q 005694 150 MKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAK 185 (682)
Q Consensus 150 l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~ 185 (682)
+..++++. .|+..|..++....+.
T Consensus 143 i~~vgig~------------~~~~~L~~IA~~~~~~ 166 (186)
T cd01480 143 IFFVAVGS------------QNEEPLSRIACDGKSA 166 (186)
T ss_pred EEEEecCc------------cchHHHHHHHcCCcch
Confidence 99999843 1245577777665554
No 26
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=98.43 E-value=4.6e-06 Score=88.27 Aligned_cols=159 Identities=19% Similarity=0.216 Sum_probs=100.8
Q ss_pred eEEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHHH
Q 005694 6 EALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQS 85 (682)
Q Consensus 6 ea~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~~ 85 (682)
=.++||||+|.||...+..+.+++..++...+ ++.|+||||.|++.- .+++++..-.....+.
T Consensus 54 ~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l--~~~d~v~lv~f~~~~---------------~~~~~~t~~~~~l~~~ 116 (296)
T TIGR03436 54 LTVGLVIDTSGSMRNDLDRARAAAIRFLKTVL--RPNDRVFVVTFNTRL---------------RLLQDFTSDPRLLEAA 116 (296)
T ss_pred ceEEEEEECCCCchHHHHHHHHHHHHHHHhhC--CCCCEEEEEEeCCce---------------eEeecCCCCHHHHHHH
Confidence 36899999999999888888999988887532 689999999999742 1223432212234556
Q ss_pred hhcCCCC-----------------CCCChH---HHHHHHcCCC---cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHH
Q 005694 86 LKHLPQG-----------------TCAGDY---MLIKKYGETY---KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQ 142 (682)
Q Consensus 86 L~~l~~~-----------------~~~gD~---~li~~~~~~k---k~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~ 142 (682)
|..+... +.-.|. ...+...... ...|.|+||||+.+.. ....+..+++.
T Consensus 117 l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~-------~~~~~~~~~~~ 189 (296)
T TIGR03436 117 LNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNR-------SRDTLERAIDA 189 (296)
T ss_pred HHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcc-------hHHHHHHHHHH
Confidence 6666431 111121 1111111111 1467899999996642 23567888889
Q ss_pred HhhcCcEEEEEeeccCCCCCCCcc-h--hchhhHHHHHHhhhcCCeeeeh
Q 005694 143 MVAFGLRMKNIVVRASLSGEPHMR-V--IIENDNLLNIFSKKSSAKTLFV 189 (682)
Q Consensus 143 l~~~~I~l~vi~i~~~~~~~~~~~-~--~~~ne~~l~~~~~~~~g~~~~~ 189 (682)
++..+|.+..|+++... ..+... . ...++..|+.++..++|.++..
T Consensus 190 ~~~~~v~vy~I~~~~~~-~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~ 238 (296)
T TIGR03436 190 AQRADVAIYSIDARGLR-APDLGAGAKAGLGGPEALERLAEETGGRAFYV 238 (296)
T ss_pred HHHcCCEEEEeccCccc-cCCcccccccCCCcHHHHHHHHHHhCCeEecc
Confidence 99999999999885310 000000 0 0124678999999999987664
No 27
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.43 E-value=5.2e-06 Score=82.99 Aligned_cols=158 Identities=13% Similarity=0.085 Sum_probs=93.6
Q ss_pred CeEEEEEEeCCCCcC-------CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEE----EEe
Q 005694 5 REALLLLLDVSPSMH-------SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVK----VLQ 73 (682)
Q Consensus 5 Kea~vf~iDv~~sM~-------~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~----v~~ 73 (682)
.-.++||||+|.||. ..+..++.++..++.. ..+.|.||||.|++..+... .|.-+. ...
T Consensus 20 ~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~~------~~~~~~p~~~~~~ 90 (206)
T cd01456 20 PPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNPL------DVRVLVPKGCLTA 90 (206)
T ss_pred CCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCCc------ccccccccccccc
Confidence 346899999999998 2467788888888774 35789999999999643211 121111 111
Q ss_pred ccCC-C--CHHH-HHHhhcCC-C--CCCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHh
Q 005694 74 DIKV-V--DGHL-VQSLKHLP-Q--GTCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMV 144 (682)
Q Consensus 74 ~l~~-~--~~~~-l~~L~~l~-~--~~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~ 144 (682)
++.. + +... .+.|..+. . +|..++. .....+. ....+.||||||+...... +.. ..+..+.
T Consensus 91 ~~~~~~~~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~--~~~~~~iillTDG~~~~~~-------~~~-~~~~~~~ 160 (206)
T cd01456 91 PVNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD--PGRVNVVVLITDGEDTCGP-------DPC-EVARELA 160 (206)
T ss_pred ccCCCCcccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC--CCCcceEEEEcCCCccCCC-------CHH-HHHHHHH
Confidence 1111 1 3333 34455664 3 2333332 1222222 1123899999999765431 112 2333333
Q ss_pred h-----cCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCee-eehhch
Q 005694 145 A-----FGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKT-LFVDST 192 (682)
Q Consensus 145 ~-----~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~-~~~~~a 192 (682)
. .+|.+.+|+++.+ .+...|+.++..++|.+ +...++
T Consensus 161 ~~~~~~~~i~i~~igiG~~-----------~~~~~l~~iA~~tgG~~~~~~~~~ 203 (206)
T cd01456 161 KRRTPAPPIKVNVIDFGGD-----------ADRAELEAIAEATGGTYAYNQSDL 203 (206)
T ss_pred HhcCCCCCceEEEEEecCc-----------ccHHHHHHHHHhcCCeEecccccc
Confidence 3 4899999999541 23578999999999987 665543
No 28
>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=98.38 E-value=4.8e-06 Score=82.34 Aligned_cols=129 Identities=22% Similarity=0.243 Sum_probs=88.8
Q ss_pred EEEEEeCCCCcCCC-hh-HHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC---C-HH
Q 005694 8 LLLLLDVSPSMHSV-LP-DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---D-GH 81 (682)
Q Consensus 8 ~vf~iDv~~sM~~~-l~-~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~---~-~~ 81 (682)
++|+||.|.||... +. .++..+..++++-.++....+||||.|++... +..++... + .+
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~---------------~~~~~~~~~~~~~~~ 67 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNR---------------DVVPFSDEERYDKNE 67 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCce---------------eEEecCcccccCHHH
Confidence 78999999999865 66 47888999999888899999999999998531 22333322 2 23
Q ss_pred HHHHhhcCC------CCCCCChH--HHHHHHcCC---Cc-ccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 82 LVQSLKHLP------QGTCAGDY--MLIKKYGET---YK-GKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 82 ~l~~L~~l~------~~~~~gD~--~li~~~~~~---kk-~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
.++.|.++. .+|..|+. ...+.+... .. ..|-++|||||.+.-.. ...+...++.|++.||.
T Consensus 68 l~~~i~~l~~~~~~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~------~~~~~~~a~~lk~~gV~ 141 (192)
T cd01473 68 LLKKINDLKNSYRSGGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSAS------KKELQDISLLYKEENVK 141 (192)
T ss_pred HHHHHHHHHhccCCCCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcc------hhhHHHHHHHHHHCCCE
Confidence 445555542 13444554 333444321 12 26779999999885321 24577889999999999
Q ss_pred EEEEeecc
Q 005694 150 MKNIVVRA 157 (682)
Q Consensus 150 l~vi~i~~ 157 (682)
+.++|++.
T Consensus 142 i~~vGiG~ 149 (192)
T cd01473 142 LLVVGVGA 149 (192)
T ss_pred EEEEEecc
Confidence 99999953
No 29
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.34 E-value=3.2e-06 Score=80.87 Aligned_cols=142 Identities=18% Similarity=0.282 Sum_probs=92.4
Q ss_pred EEEEEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHH
Q 005694 8 LLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH 81 (682)
Q Consensus 8 ~vf~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~ 81 (682)
+|||||.|.||... +..+...+..++.+ .+.|.|||+.|+... .+..++. .+..
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~----~~~~~v~l~~f~~~~---------------~~~~~~t-~~~~ 61 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLAN----LPGDRVGLVSFSDSS---------------RTLSPLT-SDKD 61 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHH----HTTSEEEEEEESTSC---------------EEEEEEE-SSHH
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHH----CCCCEEEEEEecccc---------------ccccccc-ccHH
Confidence 79999999999876 67778888888874 478899999999742 1233443 4555
Q ss_pred HHH-HhhcCCC-----C-CCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEE
Q 005694 82 LVQ-SLKHLPQ-----G-TCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 152 (682)
Q Consensus 82 ~l~-~L~~l~~-----~-~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~v 152 (682)
.++ .|.++.. + +.-++. ...+.+.......+.||||||+... ......++.++..||.+.+
T Consensus 62 ~~~~~l~~~~~~~~~~~~t~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~----------~~~~~~~~~~~~~~i~i~~ 131 (172)
T PF13519_consen 62 ELKNALNKLSPQGMPGGGTNLYDALQEAAKMLASSDNRRRAIVLITDGEDN----------SSDIEAAKALKQQGITIYT 131 (172)
T ss_dssp HHHHHHHTHHHHG--SSS--HHHHHHHHHHHHHC-SSEEEEEEEEES-TTH----------CHHHHHHHHHHCTTEEEEE
T ss_pred HHHHHhhcccccccCccCCcHHHHHHHHHHHHHhCCCCceEEEEecCCCCC----------cchhHHHHHHHHcCCeEEE
Confidence 433 4454432 1 111222 3444554433467889999998443 1233588899999999999
Q ss_pred EeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeeh
Q 005694 153 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 189 (682)
Q Consensus 153 i~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~ 189 (682)
++++.+. .. ...|+.++..++|.++..
T Consensus 132 v~~~~~~----~~------~~~l~~la~~tgG~~~~~ 158 (172)
T PF13519_consen 132 VGIGSDS----DA------NEFLQRLAEATGGRYFHV 158 (172)
T ss_dssp EEES-TT-----E------HHHHHHHHHHTEEEEEEE
T ss_pred EEECCCc----cH------HHHHHHHHHhcCCEEEEe
Confidence 9995411 11 357889999999998876
No 30
>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=98.34 E-value=1.5e-05 Score=76.72 Aligned_cols=138 Identities=21% Similarity=0.278 Sum_probs=90.4
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC-CCH-HHHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDG-HLVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~-~~~-~~l~ 84 (682)
++|+||.|.||.. .+..+...+..++.+.-++.++++||||.|+++.. +..++.. .+. ..++
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~---------------~~~~l~~~~~~~~l~~ 67 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPR---------------TEFDLNAYTSKEDVLA 67 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCee---------------EEEecCCCCCHHHHHH
Confidence 7999999999985 68888888888888765567899999999999631 1123321 222 3455
Q ss_pred HhhcCCC---CCCCChH--HHHHHH-cC----CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 85 SLKHLPQ---GTCAGDY--MLIKKY-GE----TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 85 ~L~~l~~---~~~~gD~--~li~~~-~~----~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
.|.++.. +|.-+.. .+.... .. ..-..|.|+||||+.+. +++..++..+++.||.+.+|+
T Consensus 68 ~l~~~~~~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~----------~~~~~~a~~lk~~gi~i~~ig 137 (164)
T cd01482 68 AIKNLPYKGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQ----------DDVELPARVLRNLGVNVFAVG 137 (164)
T ss_pred HHHhCcCCCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCC----------chHHHHHHHHHHCCCEEEEEe
Confidence 5666532 2333432 122222 11 11245679999999742 346778899999999999999
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhc
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKS 182 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~ 182 (682)
++. .+...|..++...
T Consensus 138 ~g~------------~~~~~L~~ia~~~ 153 (164)
T cd01482 138 VKD------------ADESELKMIASKP 153 (164)
T ss_pred cCc------------CCHHHHHHHhCCC
Confidence 832 1245577777653
No 31
>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=98.27 E-value=4.2e-05 Score=74.24 Aligned_cols=139 Identities=22% Similarity=0.204 Sum_probs=84.4
Q ss_pred EEEEEEeCCCCcCC--ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEe--ccCCC-CHH
Q 005694 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQ--DIKVV-DGH 81 (682)
Q Consensus 7 a~vf~iDv~~sM~~--~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~--~l~~~-~~~ 81 (682)
+++|+||+|.||.. .++.|.+++..++.. +....|.+||+.|+++. + ...+...+. +.... ...
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~--l~~~~d~~~l~~F~~~~---~------~~~~~~~~~~~~~~~~~~~~ 70 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEA--LEACGVPHAILGFTTDA---G------GRERVRWIKIKDFDESLHER 70 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHH--HHHcCCcEEEEEecCCC---C------CccceEEEEecCcccccchh
Confidence 58999999999987 678888888877653 23378999999999873 0 011111122 22222 123
Q ss_pred HHHHhhcCCCC--CCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHH---HHHHhhcCcEEEEEe
Q 005694 82 LVQSLKHLPQG--TCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTI---ARQMVAFGLRMKNIV 154 (682)
Q Consensus 82 ~l~~L~~l~~~--~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i---~~~l~~~~I~l~vi~ 154 (682)
..+.|..+.++ |..++. ...+.........+.||||||+........++. ...++.. +..+...||.+..|+
T Consensus 71 ~~~~l~~~~~~g~T~~~~al~~a~~~l~~~~~~~~~iiliTDG~~~~~~~~~~~-~~~~~~~~~~~~~~~~~gi~v~~ig 149 (174)
T cd01454 71 ARKRLAALSPGGNTRDGAAIRHAAERLLARPEKRKILLVISDGEPNDLDYYEGN-VFATEDALRAVIEARKLGIEVFGIT 149 (174)
T ss_pred HHHHHHccCCCCCCcHHHHHHHHHHHHhcCCCcCcEEEEEeCCCcCcccccCcc-hhHHHHHHHHHHHHHhCCcEEEEEE
Confidence 34566676543 444443 333444433334677999999976533211111 0023333 778889999999999
Q ss_pred ecc
Q 005694 155 VRA 157 (682)
Q Consensus 155 i~~ 157 (682)
++.
T Consensus 150 ig~ 152 (174)
T cd01454 150 IDR 152 (174)
T ss_pred ecC
Confidence 964
No 32
>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=98.27 E-value=3.4e-05 Score=75.21 Aligned_cols=154 Identities=16% Similarity=0.159 Sum_probs=97.7
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC-CC-HHHHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VD-GHLVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~-~~-~~~l~ 84 (682)
++|+||.|.||.. .++.++..+..++.+.-++..+++||||.|++..+ +..++.. .+ .+.++
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~---------------~~~~l~~~~~~~~~~~ 67 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFR---------------TEFTLNEYRTKEEPLS 67 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCcee---------------EEEecCccCCHHHHHH
Confidence 6899999999986 58888999999998877777899999999998521 1223321 11 23445
Q ss_pred HhhcCCC---CCCCChH--HHHHHH-c----CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 85 SLKHLPQ---GTCAGDY--MLIKKY-G----ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 85 ~L~~l~~---~~~~gD~--~li~~~-~----~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
.++.+.. ++..++. .+.+.. . .+....|-++||||+.+.-+. .....+..+++.||.+..+|
T Consensus 68 ~i~~~~~~~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~--------~~~~~~~~~k~~gv~v~~Vg 139 (177)
T cd01469 68 LVKHISQLLGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDP--------LLKDVIPQAEREGIIRYAIG 139 (177)
T ss_pred HHHhCccCCCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCcc--------ccHHHHHHHHHCCcEEEEEE
Confidence 5555532 2333443 233332 2 122346779999999875321 12557778999999999999
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhcCC-eeeehhc
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKSSA-KTLFVDS 191 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g-~~~~~~~ 191 (682)
++..+.. ..+.+.|+.+++...+ .++.+.+
T Consensus 140 vg~~~~~-------~~~~~~L~~ias~p~~~h~f~~~~ 170 (177)
T cd01469 140 VGGHFQR-------ENSREELKTIASKPPEEHFFNVTD 170 (177)
T ss_pred ecccccc-------cccHHHHHHHhcCCcHHhEEEecC
Confidence 9652211 1224667777776532 3444444
No 33
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=98.26 E-value=5.3e-05 Score=72.84 Aligned_cols=154 Identities=14% Similarity=0.181 Sum_probs=93.1
Q ss_pred EEEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccC-CCCH----
Q 005694 7 ALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIK-VVDG---- 80 (682)
Q Consensus 7 a~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~-~~~~---- 80 (682)
-++|+||+|.||... +..+...+..++.. -.+.|.++|+.|+++... +.+.. ..+.
T Consensus 4 ~v~~vlD~S~SM~~~~~~~~~~al~~~l~~---l~~~~~~~l~~Fs~~~~~---------------~~~~~~~~~~~~~~ 65 (171)
T cd01461 4 EVVFVIDTSGSMSGTKIEQTKEALLTALKD---LPPGDYFNIIGFSDTVEE---------------FSPSSVSATAENVA 65 (171)
T ss_pred eEEEEEECCCCCCChhHHHHHHHHHHHHHh---CCCCCEEEEEEeCCCcee---------------ecCcceeCCHHHHH
Confidence 478999999999754 66677777766653 346789999999876311 01110 1122
Q ss_pred HHHHHhhcCCCC--CCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeec
Q 005694 81 HLVQSLKHLPQG--TCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVR 156 (682)
Q Consensus 81 ~~l~~L~~l~~~--~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~ 156 (682)
..+..|..+..+ +..... ...+.........+.|++|||+... . ...+...++.+...+|.+..|+++
T Consensus 66 ~~~~~l~~~~~~g~T~l~~al~~a~~~l~~~~~~~~~iillTDG~~~-~-------~~~~~~~~~~~~~~~i~i~~i~~g 137 (171)
T cd01461 66 AAIEYVNRLQALGGTNMNDALEAALELLNSSPGSVPQIILLTDGEVT-N-------ESQILKNVREALSGRIRLFTFGIG 137 (171)
T ss_pred HHHHHHHhcCCCCCcCHHHHHHHHHHhhccCCCCccEEEEEeCCCCC-C-------HHHHHHHHHHhcCCCceEEEEEeC
Confidence 234445555432 221111 1222222212246889999999732 1 134555555666669999999985
Q ss_pred cCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHhhc
Q 005694 157 ASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRG 197 (682)
Q Consensus 157 ~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ll~ 197 (682)
.. .+..+|+.++...+|.+..+.+..++..
T Consensus 138 ~~-----------~~~~~l~~ia~~~gG~~~~~~~~~~~~~ 167 (171)
T cd01461 138 SD-----------VNTYLLERLAREGRGIARRIYETDDIES 167 (171)
T ss_pred Cc-----------cCHHHHHHHHHcCCCeEEEecChHHHHH
Confidence 31 1247899999999999887776655443
No 34
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.26 E-value=1.7e-05 Score=80.38 Aligned_cols=140 Identities=18% Similarity=0.242 Sum_probs=91.8
Q ss_pred EEEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-CH-HHH
Q 005694 7 ALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLV 83 (682)
Q Consensus 7 a~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~~-~~l 83 (682)
-++|+||.|.||.. .++.++..+..++.+.-++...++||||.|+++. .+..+|... +. +..
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~---------------~~~~~l~~~~~~~~l~ 68 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTV---------------KQEFPLGRFKSKADLK 68 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCce---------------eEEecccccCCHHHHH
Confidence 48999999999985 5888888898888876566678999999999862 223455432 22 244
Q ss_pred HHhhcCCC---CCCCChH--HHHHH-Hc----CCCc---ccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEE
Q 005694 84 QSLKHLPQ---GTCAGDY--MLIKK-YG----ETYK---GKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 150 (682)
Q Consensus 84 ~~L~~l~~---~~~~gD~--~li~~-~~----~~kk---~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l 150 (682)
+.|+.+.. ++..|.. .++.. |. .+.. ..|-||||||+.+. +++...+..++..||.+
T Consensus 69 ~~i~~i~~~~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~----------~~~~~~a~~lk~~gv~i 138 (224)
T cd01475 69 RAVRRMEYLETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQ----------DDVSEVAAKARALGIEM 138 (224)
T ss_pred HHHHhCcCCCCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCc----------ccHHHHHHHHHHCCcEE
Confidence 45665532 3333332 22222 21 1111 25668999999753 34677889999999999
Q ss_pred EEEeeccCCCCCCCcchhchhhHHHHHHhhhcC
Q 005694 151 KNIVVRASLSGEPHMRVIIENDNLLNIFSKKSS 183 (682)
Q Consensus 151 ~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~ 183 (682)
..+|++. .+...|+.++....
T Consensus 139 ~~VgvG~------------~~~~~L~~ias~~~ 159 (224)
T cd01475 139 FAVGVGR------------ADEEELREIASEPL 159 (224)
T ss_pred EEEeCCc------------CCHHHHHHHhCCCc
Confidence 9999843 12356777776543
No 35
>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=98.17 E-value=5.6e-05 Score=70.66 Aligned_cols=128 Identities=19% Similarity=0.299 Sum_probs=84.5
Q ss_pred EEEEEEeCCCCc-CCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC-CCHH-HH
Q 005694 7 ALLLLLDVSPSM-HSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDGH-LV 83 (682)
Q Consensus 7 a~vf~iDv~~sM-~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~-~~~~-~l 83 (682)
.++|+||.|.|| ...+..+...+..++.......+.+.+||+.|++.. .+..++.. .+.+ ..
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~---------------~~~~~~~~~~~~~~~~ 66 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNA---------------RVVLPLTTDTDKADLL 66 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCcc---------------ceeecccccCCHHHHH
Confidence 479999999999 556777888888888876666789999999999731 11122221 2333 34
Q ss_pred HHhhcCCC-CCCCChH-----HHHHHHcCC--CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEee
Q 005694 84 QSLKHLPQ-GTCAGDY-----MLIKKYGET--YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVV 155 (682)
Q Consensus 84 ~~L~~l~~-~~~~gD~-----~li~~~~~~--kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i 155 (682)
+.++.+.. .....++ ...+.+... ....+.|++|||+...... ..+...++.++..+|.+.++++
T Consensus 67 ~~~~~~~~~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~-------~~~~~~~~~~~~~~v~v~~v~~ 139 (161)
T cd00198 67 EAIDALKKGLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGP-------ELLAEAARELRKLGITVYTIGI 139 (161)
T ss_pred HHHHhcccCCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCc-------chhHHHHHHHHHcCCEEEEEEc
Confidence 44555543 2222333 233333321 3457889999999764321 3577788889999999999998
Q ss_pred c
Q 005694 156 R 156 (682)
Q Consensus 156 ~ 156 (682)
+
T Consensus 140 g 140 (161)
T cd00198 140 G 140 (161)
T ss_pred C
Confidence 4
No 36
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=98.17 E-value=4.8e-05 Score=71.99 Aligned_cols=140 Identities=18% Similarity=0.229 Sum_probs=90.3
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-CH-HHHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~~-~~l~ 84 (682)
++|+||+|.||.. .+..+...+..++.......+.+++||+.|++... +..++... +. ..++
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~---------------~~~~~~~~~~~~~~~~ 67 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVR---------------VEFSLNDYKSKDDLLK 67 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCce---------------EEEECCCCCCHHHHHH
Confidence 6899999999987 57777888888877666667899999999998421 11222222 33 3455
Q ss_pred HhhcCCC----CCCCChH--HHHHHHcCC----CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 85 SLKHLPQ----GTCAGDY--MLIKKYGET----YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 85 ~L~~l~~----~~~~gD~--~li~~~~~~----kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
.|..+.. ++..++. ...+..... ....+.|+||||+..... .+....++.+++.||.+.+|+
T Consensus 68 ~i~~~~~~~~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~--------~~~~~~~~~~~~~~v~v~~i~ 139 (161)
T cd01450 68 AVKNLKYLGGGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDG--------GDPKEAAAKLKDEGIKVFVVG 139 (161)
T ss_pred HHHhcccCCCCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCC--------cchHHHHHHHHHCCCEEEEEe
Confidence 5666532 1222222 222332222 134677999999965432 257888999999999999999
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhc
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKS 182 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~ 182 (682)
++. .+...|..|+..+
T Consensus 140 ~g~------------~~~~~l~~la~~~ 155 (161)
T cd01450 140 VGP------------ADEEELREIASCP 155 (161)
T ss_pred ccc------------cCHHHHHHHhCCC
Confidence 842 1235667776554
No 37
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=98.16 E-value=6.2e-05 Score=86.24 Aligned_cols=158 Identities=18% Similarity=0.181 Sum_probs=102.2
Q ss_pred CeEEEEEEeCCCCcC-CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHH-H
Q 005694 5 REALLLLLDVSPSMH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH-L 82 (682)
Q Consensus 5 Kea~vf~iDv~~sM~-~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~-~ 82 (682)
.-.++||||+|.||. +.+..++.++..++.+. +++.|.||||.|+.+.. .++.+... +.. .
T Consensus 401 ~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~a--y~~rD~v~lI~F~g~~a--------------~~~lppT~-~~~~~ 463 (584)
T PRK13406 401 ETTTIFVVDASGSAALHRLAEAKGAVELLLAEA--YVRRDQVALVAFRGRGA--------------ELLLPPTR-SLVRA 463 (584)
T ss_pred CccEEEEEECCCCCcHhHHHHHHHHHHHHHHhh--cCCCCEEEEEEECCCce--------------eEEcCCCc-CHHHH
Confidence 357899999999995 45778888888887642 57899999999987532 12334333 333 3
Q ss_pred HHHhhcCCCC--CCCChH-----HHHHHHcCCCcccceEEEEeCCCCCCCCCCC---CCchhhHHHHHHHHhhcCcEEEE
Q 005694 83 VQSLKHLPQG--TCAGDY-----MLIKKYGETYKGKKHLCLITDALCPLKDPDV---GTKEDQVSTIARQMVAFGLRMKN 152 (682)
Q Consensus 83 l~~L~~l~~~--~~~gD~-----~li~~~~~~kk~~krI~L~Td~~~p~~~~~~---~~~~~~~~~i~~~l~~~~I~l~v 152 (682)
.+.|..++.+ |.-++. .++.... .+-..++|||||||......... .....+....+..+...||.+.+
T Consensus 464 ~~~L~~l~~gGgTpL~~gL~~A~~~l~~~~-~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~v 542 (584)
T PRK13406 464 KRSLAGLPGGGGTPLAAGLDAAAALALQVR-RKGMTPTVVLLTDGRANIARDGTAGRAQAEEDALAAARALRAAGLPALV 542 (584)
T ss_pred HHHHhcCCCCCCChHHHHHHHHHHHHHHhc-cCCCceEEEEEeCCCCCCCccccccccchhhHHHHHHHHHHhcCCeEEE
Confidence 4567777654 322332 1222221 12236899999999987642100 01113456678889999998888
Q ss_pred EeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 153 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 153 i~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
|.++. . ....+..++..++|.++.+..+
T Consensus 543 Id~g~------~------~~~~~~~LA~~~gg~y~~l~~~ 570 (584)
T PRK13406 543 IDTSP------R------PQPQARALAEAMGARYLPLPRA 570 (584)
T ss_pred EecCC------C------CcHHHHHHHHhcCCeEEECCCC
Confidence 77632 1 1245788999999999987765
No 38
>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=98.15 E-value=3e-05 Score=74.19 Aligned_cols=127 Identities=19% Similarity=0.215 Sum_probs=81.6
Q ss_pred EEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-CH-HHHHH
Q 005694 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLVQS 85 (682)
Q Consensus 8 ~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~~-~~l~~ 85 (682)
++|+||+|.||...+......+..++.+-....+.++||||.|+++. +..+..++... +. ..++.
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~-------------~~~~~~~l~~~~~~~~l~~~ 69 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRG-------------RQRVRFNLPKHNDGEELLEK 69 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCC-------------ceEEEecCCCCCCHHHHHHH
Confidence 68999999999887777788888888766566789999999998752 12223344332 22 35566
Q ss_pred hhcCCC---CCCCChH--HHHHHHc----CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh-cCcEEEEEee
Q 005694 86 LKHLPQ---GTCAGDY--MLIKKYG----ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA-FGLRMKNIVV 155 (682)
Q Consensus 86 L~~l~~---~~~~gD~--~li~~~~----~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~-~~I~l~vi~i 155 (682)
|..+.. ++..++. ...+.+. .+....+.|+|+||+.+.. .....++.|+. .||.+..|++
T Consensus 70 i~~l~~~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~----------~~~~~~~~l~~~~~v~v~~vg~ 139 (163)
T cd01476 70 VDNLRFIGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSHD----------DPEKQARILRAVPNIETFAVGT 139 (163)
T ss_pred HHhCccCCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCCC----------chHHHHHHHhhcCCCEEEEEEC
Confidence 777642 2334443 2222221 1222347899999986531 13445667777 8888888888
Q ss_pred cc
Q 005694 156 RA 157 (682)
Q Consensus 156 ~~ 157 (682)
+.
T Consensus 140 g~ 141 (163)
T cd01476 140 GD 141 (163)
T ss_pred CC
Confidence 43
No 39
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=98.10 E-value=6.4e-05 Score=73.71 Aligned_cols=127 Identities=19% Similarity=0.185 Sum_probs=80.8
Q ss_pred EEEEEeCCCCcCCC--hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC---CHH-
Q 005694 8 LLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---DGH- 81 (682)
Q Consensus 8 ~vf~iDv~~sM~~~--l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~---~~~- 81 (682)
++|+||.|.||... +..++..+..++++.-+...+.+||||.|++... +..++... +.+
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~---------------~~~~l~~~~~~~~~~ 67 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAK---------------ELIRLSSPNSTNKDL 67 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCce---------------EEEECCCccccchHH
Confidence 78999999999865 6778888888888655566788999999997421 22333322 222
Q ss_pred ---HHHHhhcCC--CC-CCCChH--HHHHHHcC----CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 82 ---LVQSLKHLP--QG-TCAGDY--MLIKKYGE----TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 82 ---~l~~L~~l~--~~-~~~gD~--~li~~~~~----~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
.++.|.... .| |..++. ...+.... +....+.|+||||+..... ......++.+++.||.
T Consensus 68 ~~~~i~~l~~~~~~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~--------~~~~~~a~~l~~~gv~ 139 (186)
T cd01471 68 ALNAIRALLSLYYPNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSK--------FRTLKEARKLRERGVI 139 (186)
T ss_pred HHHHHHHHHhCcCCCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCC--------cchhHHHHHHHHCCCE
Confidence 345555432 22 333332 22222211 2234678999999975311 2233567889999999
Q ss_pred EEEEeecc
Q 005694 150 MKNIVVRA 157 (682)
Q Consensus 150 l~vi~i~~ 157 (682)
+.+|+++.
T Consensus 140 v~~igiG~ 147 (186)
T cd01471 140 IAVLGVGQ 147 (186)
T ss_pred EEEEEeeh
Confidence 99999954
No 40
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=98.08 E-value=0.00014 Score=71.78 Aligned_cols=155 Identities=15% Similarity=0.156 Sum_probs=86.6
Q ss_pred CeEEEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCc-cccccCCCcCcEEEEeccCCCCHH-
Q 005694 5 REALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN-ELTKEVGGYEHVKVLQDIKVVDGH- 81 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n-~l~~e~~~y~nI~v~~~l~~~~~~- 81 (682)
.--++||||+|.||.. .++.++.++..++.+ -.+.|.||||.|+++.+.- +.. .... .....-+.+
T Consensus 13 p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~---l~~~d~v~lv~F~~~~~~~~~~~-------~~~~-~~~~~~~~~~ 81 (190)
T cd01463 13 PKDIVILLDVSGSMTGQRLHLAKQTVSSILDT---LSDNDFFNIITFSNEVNPVVPCF-------NDTL-VQATTSNKKV 81 (190)
T ss_pred CceEEEEEECCCCCCcHHHHHHHHHHHHHHHh---CCCCCEEEEEEeCCCeeEEeeec-------ccce-EecCHHHHHH
Confidence 3468999999999974 467778888877763 2678999999999963211 000 0000 000011222
Q ss_pred HHHHhhcCCCC--CCCChH--HHHHHHcC---------CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHh----
Q 005694 82 LVQSLKHLPQG--TCAGDY--MLIKKYGE---------TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMV---- 144 (682)
Q Consensus 82 ~l~~L~~l~~~--~~~gD~--~li~~~~~---------~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~---- 144 (682)
.+..|..+..+ +..+.. ..+..... .....+.|+|||||..... ..++..++
T Consensus 82 ~~~~l~~l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~-----------~~~~~~~~~~~~ 150 (190)
T cd01463 82 LKEALDMLEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENY-----------KEIFDKYNWDKN 150 (190)
T ss_pred HHHHHhhCCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcH-----------hHHHHHhccccc
Confidence 33445555432 222221 11111111 1123578999999976421 12222222
Q ss_pred -hcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhc
Q 005694 145 -AFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDS 191 (682)
Q Consensus 145 -~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~ 191 (682)
..+|.+.+|+++.+. .|...|+.++...+|.++.+.+
T Consensus 151 ~~~~v~i~tigiG~~~----------~d~~~L~~lA~~~~G~~~~i~~ 188 (190)
T cd01463 151 SEIPVRVFTYLIGREV----------TDRREIQWMACENKGYYSHIQS 188 (190)
T ss_pred CCCcEEEEEEecCCcc----------ccchHHHHHHhhcCCeEEEccc
Confidence 235888888885310 1347789999999998876543
No 41
>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=98.07 E-value=0.00021 Score=68.59 Aligned_cols=146 Identities=18% Similarity=0.209 Sum_probs=93.4
Q ss_pred EEEEEEeCCCCc-CCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEecc-CCCCHHHH-
Q 005694 7 ALLLLLDVSPSM-HSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDI-KVVDGHLV- 83 (682)
Q Consensus 7 a~vf~iDv~~sM-~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l-~~~~~~~l- 83 (682)
.++||||+|.|| ...+..+..++..+++......+++.|||+.|++... ...++ ...+.+.+
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~---------------~~~~~~~~~~~~~~~ 67 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDAT---------------VLFPLNDSRSKDALL 67 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCce---------------EEEcccccCCHHHHH
Confidence 478999999999 5567777888888887665556799999999998321 11122 23455444
Q ss_pred HHhhcCCC-CCCCChH-----HHHHHHc---CCCcc--cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEE
Q 005694 84 QSLKHLPQ-GTCAGDY-----MLIKKYG---ETYKG--KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 152 (682)
Q Consensus 84 ~~L~~l~~-~~~~gD~-----~li~~~~---~~kk~--~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~v 152 (682)
..+..+.. .....+. ..+.... ..... .+.|++|||+..... +.+...++.+++.+|.+..
T Consensus 68 ~~i~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~--------~~~~~~~~~~~~~~i~i~~ 139 (177)
T smart00327 68 EALASLSYKLGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDG--------GDLLKAAKELKRSGVKVFV 139 (177)
T ss_pred HHHHhcCCCCCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCC--------ccHHHHHHHHHHCCCEEEE
Confidence 44566653 2222232 2333322 11122 568999999876521 3578888899999999999
Q ss_pred EeeccCCCCCCCcchhchhhHHHHHHhhhcCCee
Q 005694 153 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKT 186 (682)
Q Consensus 153 i~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~ 186 (682)
|+++.. .+...++.++....|.+
T Consensus 140 i~~~~~-----------~~~~~l~~~~~~~~~~~ 162 (177)
T smart00327 140 VGVGND-----------VDEEELKKLASAPGGVY 162 (177)
T ss_pred EEccCc-----------cCHHHHHHHhCCCcceE
Confidence 998431 03466777777666643
No 42
>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=98.03 E-value=0.0001 Score=72.84 Aligned_cols=128 Identities=13% Similarity=0.181 Sum_probs=80.1
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhc------CCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-C
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIY------GKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D 79 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~------~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~ 79 (682)
+||+||.|.||.. .|+.++..+..++...-+. ...++||||.|++.. .+..+|... +
T Consensus 22 ivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a---------------~~~~~L~d~~~ 86 (193)
T cd01477 22 IVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNA---------------TVVADLNDLQS 86 (193)
T ss_pred EEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCce---------------EEEEecccccC
Confidence 7999999999974 3777777777766644432 345899999999852 233455432 3
Q ss_pred H-HHHHHhhc----CCC--CCCCChH--HHHHHHc-----CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh
Q 005694 80 G-HLVQSLKH----LPQ--GTCAGDY--MLIKKYG-----ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA 145 (682)
Q Consensus 80 ~-~~l~~L~~----l~~--~~~~gD~--~li~~~~-----~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~ 145 (682)
. +.+..|+. +.. +|..+.. ...+.+. .+.-..|.||||||+.+.-.. .+....++.|++
T Consensus 87 ~~~~~~ai~~~~~~~~~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~-------~~~~~~a~~l~~ 159 (193)
T cd01477 87 FDDLYSQIQGSLTDVSSTNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGS-------NDPRPIAARLKS 159 (193)
T ss_pred HHHHHHHHHHHhhccccCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCC-------CCHHHHHHHHHH
Confidence 3 33445664 211 2333332 2222322 111235669999998553211 346778999999
Q ss_pred cCcEEEEEeecc
Q 005694 146 FGLRMKNIVVRA 157 (682)
Q Consensus 146 ~~I~l~vi~i~~ 157 (682)
.||.+..||++.
T Consensus 160 ~GI~i~tVGiG~ 171 (193)
T cd01477 160 TGIAIITVAFTQ 171 (193)
T ss_pred CCCEEEEEEeCC
Confidence 999999999954
No 43
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.01 E-value=0.00011 Score=82.32 Aligned_cols=130 Identities=20% Similarity=0.170 Sum_probs=81.2
Q ss_pred CeEEEEEEeCCCCcCCC--hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC---C
Q 005694 5 REALLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---D 79 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~--l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~---~ 79 (682)
+--++||||+|.||+.. +.+|+.++..|+....++...-.||+++|.+... .+.++..- +
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r---------------~vfpL~s~~s~D 106 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTT---------------ELIRLGSGASKD 106 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCce---------------EEEecCCCcccc
Confidence 33589999999999864 4678888898888776666677777799987521 12233221 2
Q ss_pred H-HHHHHhhcCCC------CCCCChH--HHHHHHcC---CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcC
Q 005694 80 G-HLVQSLKHLPQ------GTCAGDY--MLIKKYGE---TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFG 147 (682)
Q Consensus 80 ~-~~l~~L~~l~~------~~~~gD~--~li~~~~~---~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~ 147 (682)
. ..+..|.++.. +|..+.. .+...+.. +.-..+-||||||+..... .++...++.|++.|
T Consensus 107 k~~aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~--------~dvleaAq~LR~~G 178 (576)
T PTZ00441 107 KEQALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSK--------YRALEESRKLKDRN 178 (576)
T ss_pred HHHHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCc--------ccHHHHHHHHHHCC
Confidence 1 23444544321 2333332 11222211 1223578999999985311 23555678899999
Q ss_pred cEEEEEeecc
Q 005694 148 LRMKNIVVRA 157 (682)
Q Consensus 148 I~l~vi~i~~ 157 (682)
|++.+|+|+.
T Consensus 179 VeI~vIGVG~ 188 (576)
T PTZ00441 179 VKLAVIGIGQ 188 (576)
T ss_pred CEEEEEEeCC
Confidence 9999999953
No 44
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=98.00 E-value=0.00018 Score=83.02 Aligned_cols=158 Identities=18% Similarity=0.221 Sum_probs=100.5
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHH-HHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHL-VQS 85 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~-l~~ 85 (682)
++|+||+|.||.. .+..++.++..++.. ...+.|.||||.|+..... ++.+.. .+... .+.
T Consensus 410 v~fvvD~SGSM~~~rl~~aK~av~~Ll~~--~~~~~D~v~Li~F~~~~a~--------------~~lp~t-~~~~~~~~~ 472 (589)
T TIGR02031 410 LIFVVDASGSAAVARMSEAKGAVELLLGE--AYVHRDQVSLIAFRGTAAE--------------VLLPPS-RSVEQAKRR 472 (589)
T ss_pred EEEEEECCCCCChHHHHHHHHHHHHHHHh--hccCCCEEEEEEECCCCce--------------EECCCC-CCHHHHHHH
Confidence 7899999999964 578888888877763 2457899999999865311 122321 24433 345
Q ss_pred hhcCCCC--CCCChH--HHHHHHc--CCCcccceEEEEeCCCCCCCCCC--CC------CchhhHHHHHHHHhhcCcEEE
Q 005694 86 LKHLPQG--TCAGDY--MLIKKYG--ETYKGKKHLCLITDALCPLKDPD--VG------TKEDQVSTIARQMVAFGLRMK 151 (682)
Q Consensus 86 L~~l~~~--~~~gD~--~li~~~~--~~kk~~krI~L~Td~~~p~~~~~--~~------~~~~~~~~i~~~l~~~~I~l~ 151 (682)
|..++.+ |.-++. ...+... ..+-..+.|||||||...+.... ++ ...+++..++..+.+.||.+.
T Consensus 473 L~~l~~gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~ 552 (589)
T TIGR02031 473 LDVLPGGGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPAL 552 (589)
T ss_pred HhcCCCCCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEE
Confidence 6777553 333332 1112111 11234578999999988654210 00 112456677899999999999
Q ss_pred EEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 152 NIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 152 vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
+|+++..| . ...++..+++..+|.++.+.++
T Consensus 553 vid~~~~~----~------~~~~~~~lA~~~~g~y~~l~~~ 583 (589)
T TIGR02031 553 VIDTAMRF----V------STGFAQKLARKMGAHYIYLPNA 583 (589)
T ss_pred EEeCCCCC----c------cchHHHHHHHhcCCcEEeCCCC
Confidence 98874311 1 1256888999999999887765
No 45
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=97.96 E-value=0.00017 Score=85.07 Aligned_cols=144 Identities=17% Similarity=0.227 Sum_probs=89.9
Q ss_pred EEEEEEeCCCCcCC--ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC-HHHH
Q 005694 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLV 83 (682)
Q Consensus 7 a~vf~iDv~~sM~~--~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~-~~~l 83 (682)
-++|+||+|.||.. .+..+..++..++.+. -.+.|+||||.|++.. +++.+|.+.+ ....
T Consensus 306 ~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~--l~~~DrVGLVtFsssA---------------~vl~pLt~Its~~dr 368 (863)
T TIGR00868 306 IVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQT--VEKGSWVGMVTFDSAA---------------YIKNELIQITSSAER 368 (863)
T ss_pred eEEEEEECCccccccCHHHHHHHHHHHHHHHh--CCCCCEEEEEEECCce---------------eEeeccccCCcHHHH
Confidence 38899999999974 4655666666666543 3578999999999853 2344554332 2334
Q ss_pred HHhhc-CC---C-CCCCChH--HHHHHHcCC--CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 84 QSLKH-LP---Q-GTCAGDY--MLIKKYGET--YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 84 ~~L~~-l~---~-~~~~gD~--~li~~~~~~--kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
+.|.. +. . +|.-++. ..++..... +...+.|||+|||.... ....+..+++.||.+..|+
T Consensus 369 ~aL~~~L~~~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~-----------~~~~l~~lk~~gVtI~TIg 437 (863)
T TIGR00868 369 DALTANLPTAASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNT-----------ISSCFEEVKQSGAIIHTIA 437 (863)
T ss_pred HHHHHhhccccCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCC-----------HHHHHHHHHHcCCEEEEEE
Confidence 44433 21 1 2333332 122222211 12357899999997531 2345667888999999999
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehh
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD 190 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~ 190 (682)
++.+ ....|+.++..++|.++.+.
T Consensus 438 ~G~d------------ad~~L~~IA~~TGG~~f~as 461 (863)
T TIGR00868 438 LGPS------------AAKELEELSDMTGGLRFYAS 461 (863)
T ss_pred eCCC------------hHHHHHHHHHhcCCEEEEeC
Confidence 9531 12457889999999876554
No 46
>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=97.91 E-value=0.00014 Score=69.22 Aligned_cols=140 Identities=18% Similarity=0.225 Sum_probs=84.1
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC---HHHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD---GHLV 83 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~---~~~l 83 (682)
++|+||.|.||.. .+..+..++..++.. -.+.|++|||.|++... ++.++...+ .+.+
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~---l~~~~~~~li~F~~~~~---------------~~~~~~~~~~~~~~~~ 64 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISS---LGDADRLSIVTFSTSAK---------------RLSPLRRMTAKGKRSA 64 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHh---CCCcceEEEEEecCCcc---------------ccCCCcccCHHHHHHH
Confidence 6899999999975 467777777666652 24679999999998521 123333322 2233
Q ss_pred -HHhhcCCCC--CCCChH--HHHHHHcCC--CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeec
Q 005694 84 -QSLKHLPQG--TCAGDY--MLIKKYGET--YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVR 156 (682)
Q Consensus 84 -~~L~~l~~~--~~~gD~--~li~~~~~~--kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~ 156 (682)
..|..+.++ |..++. ...+.+... ....+.|+||||+..... .......+.+|.+.+|+++
T Consensus 65 ~~~i~~~~~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~------------~~~~~~~~~~v~v~~igig 132 (155)
T cd01466 65 KRVVDGLQAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHG------------AVVLRADNAPIPIHTFGLG 132 (155)
T ss_pred HHHHHhccCCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCcc------------hhhhcccCCCceEEEEecC
Confidence 335555432 333443 222222211 123578999999975321 1112245578999999985
Q ss_pred cCCCCCCCcchhchhhHHHHHHhhhcCCeeee
Q 005694 157 ASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 188 (682)
Q Consensus 157 ~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~ 188 (682)
.+ .+...|+.+++.++|+++-
T Consensus 133 ~~-----------~~~~~l~~iA~~t~G~~~~ 153 (155)
T cd01466 133 AS-----------HDPALLAFIAEITGGTFSY 153 (155)
T ss_pred CC-----------CCHHHHHHHHhccCceEEE
Confidence 31 1246788999998888654
No 47
>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=97.88 E-value=0.0002 Score=69.95 Aligned_cols=154 Identities=17% Similarity=0.056 Sum_probs=86.9
Q ss_pred EEEEEeCCCCcCC----------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCC
Q 005694 8 LLLLLDVSPSMHS----------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV 77 (682)
Q Consensus 8 ~vf~iDv~~sM~~----------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~ 77 (682)
++++||+|.||.. .|+.++.++..+. +-+-.++.|.||+ +|..-.-.+ ++.-.|+.
T Consensus 3 l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f~-~f~~~r~~DriG~--~g~~~~~~~----------lt~d~p~t- 68 (191)
T cd01455 3 LKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAFD-GFEDKIQYDIIGH--SGDGPCVPF----------VKTNHPPK- 68 (191)
T ss_pred eEEEEECcHhHHHHhccCCccccHHHHHHHHHHHHH-HHHHhCccceeee--cCcccccCc----------cccccCcc-
Confidence 7899999999943 1223344433332 1123789999993 332211111 11111111
Q ss_pred CCHHHHHHhhc----CCC---CCCCChH--HHHHHHc-CCCcccceEEEEeCCCCCCCCCCCCCchhhHHH-HHHHHhhc
Q 005694 78 VDGHLVQSLKH----LPQ---GTCAGDY--MLIKKYG-ETYKGKKHLCLITDALCPLKDPDVGTKEDQVST-IARQMVAF 146 (682)
Q Consensus 78 ~~~~~l~~L~~----l~~---~~~~gD~--~li~~~~-~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~-i~~~l~~~ 146 (682)
.+-+.++-|+. .+. |...+|. ..++++. ......|-||||||+++.-.. -.-.. .+.-.++.
T Consensus 69 ~d~~~~~~l~~~l~~~q~g~ag~~TadAi~~av~rl~~~~~a~~kvvILLTDG~n~~~~-------i~P~~aAa~lA~~~ 141 (191)
T cd01455 69 NNKERLETLKMMHAHSQFCWSGDHTVEATEFAIKELAAKEDFDEAIVIVLSDANLERYG-------IQPKKLADALAREP 141 (191)
T ss_pred cchhHHHHHHHHHHhcccCccCccHHHHHHHHHHHHHhcCcCCCcEEEEEeCCCcCCCC-------CChHHHHHHHHHhC
Confidence 12222333333 332 2222354 5667765 444458899999999875331 12233 24555688
Q ss_pred CcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhchHH
Q 005694 147 GLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTS 194 (682)
Q Consensus 147 ~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ 194 (682)
||.+.+|+|+.. ++..|+.++..++|+++-..+..+
T Consensus 142 gV~iytIgiG~~------------d~~~l~~iA~~tgG~~F~A~d~~~ 177 (191)
T cd01455 142 NVNAFVIFIGSL------------SDEADQLQRELPAGKAFVCMDTSE 177 (191)
T ss_pred CCEEEEEEecCC------------CHHHHHHHHhCCCCcEEEeCCHHH
Confidence 999999999541 246688888888999887666533
No 48
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.86 E-value=0.00042 Score=66.77 Aligned_cols=124 Identities=19% Similarity=0.257 Sum_probs=84.7
Q ss_pred EEEEEeCCCCcC-CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-C-HHHHH
Q 005694 8 LLLLLDVSPSMH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D-GHLVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~-~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~-~~~l~ 84 (682)
++|+||.|.||. ..|+.+++.+..++.+--++...-+||||.|+++.. +..+|... + .+.+.
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~---------------~~~~l~~~~~~~~l~~ 67 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPR---------------PEFYLNTHSTKADVLG 67 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCee---------------EEEeccccCCHHHHHH
Confidence 799999999998 468899999999999877888899999999998531 11222211 1 34566
Q ss_pred HhhcCCC--C--CCCChH--HHHH-HHcCCC-----c-ccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEE
Q 005694 85 SLKHLPQ--G--TCAGDY--MLIK-KYGETY-----K-GKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 151 (682)
Q Consensus 85 ~L~~l~~--~--~~~gD~--~li~-~~~~~k-----k-~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~ 151 (682)
.|.+++. + +..|.. .+.+ .|.... . ..|.++||||+.+. +++...+..|++.||.+.
T Consensus 68 ~i~~i~~~~g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~----------d~~~~~a~~lr~~gv~i~ 137 (165)
T cd01481 68 AVRRLRLRGGSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQ----------DDVERPAVALKRAGIVPF 137 (165)
T ss_pred HHHhcccCCCCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCc----------chHHHHHHHHHHCCcEEE
Confidence 6777642 2 233433 1222 232211 1 24668999999753 357788999999999988
Q ss_pred EEeec
Q 005694 152 NIVVR 156 (682)
Q Consensus 152 vi~i~ 156 (682)
.+|++
T Consensus 138 ~vG~~ 142 (165)
T cd01481 138 AIGAR 142 (165)
T ss_pred EEeCC
Confidence 88873
No 49
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=97.83 E-value=0.00049 Score=65.28 Aligned_cols=144 Identities=15% Similarity=0.237 Sum_probs=87.7
Q ss_pred EEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHH----
Q 005694 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHL---- 82 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~---- 82 (682)
-+||+||+|.||......+.+++..++++ -.++|.+.||.||+... .+ +++ +.+.+.+.
T Consensus 2 ~vvilvD~S~Sm~g~~~~~k~al~~~l~~---L~~~d~fnii~f~~~~~--~~------~~~------~~~~~~~~~~~a 64 (155)
T PF13768_consen 2 DVVILVDTSGSMSGEKELVKDALRAILRS---LPPGDRFNIIAFGSSVR--PL------FPG------LVPATEENRQEA 64 (155)
T ss_pred eEEEEEeCCCCCCCcHHHHHHHHHHHHHh---CCCCCEEEEEEeCCEee--Ec------chh------HHHHhHHHHHHH
Confidence 37999999999988776667777777775 46899999999998421 11 111 22334333
Q ss_pred HHHhhcCCCCCCCChH--HHHHHHc--CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeeccC
Q 005694 83 VQSLKHLPQGTCAGDY--MLIKKYG--ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRAS 158 (682)
Q Consensus 83 l~~L~~l~~~~~~gD~--~li~~~~--~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~~ 158 (682)
++.|+++.......|. .+-..+. ......+.|+||||+.. ... .+.+...++.- ...+.+..++++..
T Consensus 65 ~~~I~~~~~~~G~t~l~~aL~~a~~~~~~~~~~~~IilltDG~~-~~~------~~~i~~~v~~~-~~~~~i~~~~~g~~ 136 (155)
T PF13768_consen 65 LQWIKSLEANSGGTDLLAALRAALALLQRPGCVRAIILLTDGQP-VSG------EEEILDLVRRA-RGHIRIFTFGIGSD 136 (155)
T ss_pred HHHHHHhcccCCCccHHHHHHHHHHhcccCCCccEEEEEEeccC-CCC------HHHHHHHHHhc-CCCceEEEEEECCh
Confidence 3445555442233343 1111111 12346899999999875 221 12333333332 24688888888431
Q ss_pred CCCCCCcchhchhhHHHHHHhhhcCCee
Q 005694 159 LSGEPHMRVIIENDNLLNIFSKKSSAKT 186 (682)
Q Consensus 159 ~~~~~~~~~~~~ne~~l~~~~~~~~g~~ 186 (682)
.+..+|+.++..++|.+
T Consensus 137 -----------~~~~~L~~LA~~~~G~~ 153 (155)
T PF13768_consen 137 -----------ADADFLRELARATGGSF 153 (155)
T ss_pred -----------hHHHHHHHHHHcCCCEE
Confidence 23588999999888864
No 50
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=97.78 E-value=0.00096 Score=77.96 Aligned_cols=157 Identities=22% Similarity=0.271 Sum_probs=96.6
Q ss_pred CeEEEEEEeCCCCcCC--ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHH
Q 005694 5 REALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHL 82 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~--~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~ 82 (682)
.-.++|+||+|.||.. .+..+..++..++.. .....|.||||.|+.+.. .++.++.. +...
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~--a~~~~D~v~lI~F~g~~a--------------~~~~p~t~-~~~~ 527 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRD--AYQKRDKVALITFRGEEA--------------EVLLPPTS-SVEL 527 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHH--hhcCCCEEEEEEECCCCc--------------eEEcCCCC-CHHH
Confidence 3478999999999964 467777777766653 246789999999985421 12334332 2333
Q ss_pred -HHHhhcCCCC--CCCChH--H---HHHHH-cCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEE
Q 005694 83 -VQSLKHLPQG--TCAGDY--M---LIKKY-GETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 153 (682)
Q Consensus 83 -l~~L~~l~~~--~~~gD~--~---li~~~-~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi 153 (682)
.+.|..++.+ |.-++. . ++... .........||||||+.....+ ......++...++..+...||.+.+|
T Consensus 528 ~~~~L~~l~~gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~-~~~~~~~~~~~~a~~l~~~~i~~~vI 606 (633)
T TIGR02442 528 AARRLEELPTGGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVAD-GGEPPTDDARTIAAKLAARGILFVVI 606 (633)
T ss_pred HHHHHHhCCCCCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCC-CCCChHHHHHHHHHHHHhcCCeEEEE
Confidence 3456677654 322332 1 22211 1122246779999999875530 00112345677889999999998887
Q ss_pred eeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeeh
Q 005694 154 VVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 189 (682)
Q Consensus 154 ~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~ 189 (682)
..... .-...++..+++.++|.++.+
T Consensus 607 dt~~~----------~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 607 DTESG----------FVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred eCCCC----------CcchhHHHHHHHhhCCeEEec
Confidence 65221 012357888999999998764
No 51
>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=97.78 E-value=0.00038 Score=71.91 Aligned_cols=127 Identities=17% Similarity=0.191 Sum_probs=79.8
Q ss_pred CeEEEEEEeCCCCcCCCh--h---HHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC
Q 005694 5 REALLLLLDVSPSMHSVL--P---DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~l--~---~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~ 79 (682)
.--++|+||.|.||.+.. . +++..+..++. ....|++|||.||++ +.++.|+..+-
T Consensus 60 ~~qIvlaID~S~SM~~~~~~~~aleak~lIs~al~----~Le~g~vgVv~Fg~~---------------~~~v~Plt~d~ 120 (266)
T cd01460 60 DYQILIAIDDSKSMSENNSKKLALESLCLVSKALT----LLEVGQLGVCSFGED---------------VQILHPFDEQF 120 (266)
T ss_pred CceEEEEEecchhcccccccccHHHHHHHHHHHHH----hCcCCcEEEEEeCCC---------------ceEeCCCCCCc
Confidence 446899999999997742 1 24445555555 678899999999984 23456665432
Q ss_pred H--HHHHHhhcC---CCCCCCChH--HHHHHHcCCC----cc--cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhc
Q 005694 80 G--HLVQSLKHL---PQGTCAGDY--MLIKKYGETY----KG--KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 146 (682)
Q Consensus 80 ~--~~l~~L~~l---~~~~~~gD~--~li~~~~~~k----k~--~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~ 146 (682)
. ..++.+..+ +.+|.-+.. ..+..|.... .. .+-|+|||||.+-... .....+++.+.+.
T Consensus 121 ~~~a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e-------~~~~~~~r~a~e~ 193 (266)
T cd01460 121 SSQSGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSE-------GAQKVRLREAREQ 193 (266)
T ss_pred hhhHHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCc-------cHHHHHHHHHHHc
Confidence 1 234444432 234444443 2334443221 11 3789999999864321 2345668899999
Q ss_pred CcEEEEEeecc
Q 005694 147 GLRMKNIVVRA 157 (682)
Q Consensus 147 ~I~l~vi~i~~ 157 (682)
||.+.+|+++.
T Consensus 194 ~i~l~~I~ld~ 204 (266)
T cd01460 194 NVFVVFIIIDN 204 (266)
T ss_pred CCeEEEEEEcC
Confidence 99999999965
No 52
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.77 E-value=0.00034 Score=68.03 Aligned_cols=139 Identities=17% Similarity=0.154 Sum_probs=77.0
Q ss_pred eEEEEEEeCCCCcCCC-hhHHHHHHHHHHHHhH---hcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHH
Q 005694 6 EALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKL---IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH 81 (682)
Q Consensus 6 ea~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki---~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~ 81 (682)
=-++||||+|.||... +..+...+..++.... ..++.++||||.|++... +..++....
T Consensus 4 ~~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~---------------~~~~l~~~~-- 66 (176)
T cd01464 4 LPIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAAR---------------VIVPLTPLE-- 66 (176)
T ss_pred CCEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce---------------EecCCccHH--
Confidence 3479999999999753 5556666666655422 123688999999998531 112221111
Q ss_pred HHHHhhcCCC--CCCCChH--HHHHHHc-------C-CC-cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCc
Q 005694 82 LVQSLKHLPQ--GTCAGDY--MLIKKYG-------E-TY-KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGL 148 (682)
Q Consensus 82 ~l~~L~~l~~--~~~~gD~--~li~~~~-------~-~k-k~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I 148 (682)
. ..+..+.. +|.-++. ...+.+. . .+ ...+.|+|||||... +. .......++.+...++
T Consensus 67 ~-~~~~~l~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~-~~------~~~~~~~~~~~~~~~~ 138 (176)
T cd01464 67 S-FQPPRLTASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPT-DD------LTAAIERIKEARDSKG 138 (176)
T ss_pred h-cCCCcccCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCC-ch------HHHHHHHHHhhcccCC
Confidence 0 01222322 2444443 1222111 1 11 234679999999652 21 1222345556666689
Q ss_pred EEEEEeeccCCCCCCCcchhchhhHHHHHHhh
Q 005694 149 RMKNIVVRASLSGEPHMRVIIENDNLLNIFSK 180 (682)
Q Consensus 149 ~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~ 180 (682)
.+.+||++.+ .|...|+.++.
T Consensus 139 ~i~~igiG~~-----------~~~~~L~~ia~ 159 (176)
T cd01464 139 RIVACAVGPK-----------ADLDTLKQITE 159 (176)
T ss_pred cEEEEEeccc-----------cCHHHHHHHHC
Confidence 9999999542 23567777764
No 53
>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=97.70 E-value=0.0014 Score=62.00 Aligned_cols=127 Identities=20% Similarity=0.180 Sum_probs=70.5
Q ss_pred EEEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC-HHHHH
Q 005694 7 ALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLVQ 84 (682)
Q Consensus 7 a~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~-~~~l~ 84 (682)
.++|+||+|.||... +..+..++..++..- ....|.++||.|+++... ...+ ..-+ ...++
T Consensus 2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~--~~~~~~v~li~F~~~~~~--------------~~~~-~~~~~~~~~~ 64 (152)
T cd01462 2 PVILLVDQSGSMYGAPEEVAKAVALALLRIA--LAENRDTYLILFDSEFQT--------------KIVD-KTDDLEEPVE 64 (152)
T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHH--HHcCCcEEEEEeCCCceE--------------EecC-CcccHHHHHH
Confidence 479999999999853 455656655555421 226899999999986110 0011 1111 23445
Q ss_pred HhhcCCC--CCCCChH--HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeecc
Q 005694 85 SLKHLPQ--GTCAGDY--MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRA 157 (682)
Q Consensus 85 ~L~~l~~--~~~~gD~--~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~ 157 (682)
.|..+.. +|.-++. ...............|++|||+..+-.. ..+...+...+..++.+.+++++.
T Consensus 65 ~l~~~~~~ggT~l~~al~~a~~~l~~~~~~~~~ivliTDG~~~~~~-------~~~~~~~~~~~~~~~~v~~~~~g~ 134 (152)
T cd01462 65 FLSGVQLGGGTDINKALRYALELIERRDPRKADIVLITDGYEGGVS-------DELLREVELKRSRVARFVALALGD 134 (152)
T ss_pred HHhcCCCCCCcCHHHHHHHHHHHHHhcCCCCceEEEECCCCCCCCC-------HHHHHHHHHHHhcCcEEEEEEecC
Confidence 5555433 2333332 1222222112235689999999543211 233233445556689999999964
No 54
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.68 E-value=0.0018 Score=65.29 Aligned_cols=157 Identities=20% Similarity=0.255 Sum_probs=102.6
Q ss_pred EEEEEEeCCCCcCCC--hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHH-H
Q 005694 7 ALLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHL-V 83 (682)
Q Consensus 7 a~vf~iDv~~sM~~~--l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~-l 83 (682)
-+||+||.|.||... +..|+-++..|++.= ++.-|.||||.|+.++.. ++.+.. -+.++ -
T Consensus 80 lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dA--Yq~RdkvavI~F~G~~A~--------------lll~pT-~sv~~~~ 142 (261)
T COG1240 80 LIVFVVDASGSMAARRRMAAAKGAALSLLRDA--YQRRDKVAVIAFRGEKAE--------------LLLPPT-SSVELAE 142 (261)
T ss_pred cEEEEEeCcccchhHHHHHHHHHHHHHHHHHH--HHccceEEEEEecCCcce--------------EEeCCc-ccHHHHH
Confidence 489999999999875 677777888777742 679999999999976532 122332 23444 4
Q ss_pred HHhhcCCCC--CCCChH-----HHHHHHcCCC-cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEee
Q 005694 84 QSLKHLPQG--TCAGDY-----MLIKKYGETY-KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVV 155 (682)
Q Consensus 84 ~~L~~l~~~--~~~gD~-----~li~~~~~~k-k~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i 155 (682)
+.|++++.| |--++. .++.++.-++ -..-.+++|||+......+ .........++..+...|+.+.||..
T Consensus 143 ~~L~~l~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~--~~~~~e~~~~a~~~~~~g~~~lvid~ 220 (261)
T COG1240 143 RALERLPTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIP--LGPKAETLEAASKLRLRGIQLLVIDT 220 (261)
T ss_pred HHHHhCCCCCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCC--CchHHHHHHHHHHHhhcCCcEEEEec
Confidence 568888875 333443 2333333222 1356699999998544321 11235677888889999999888876
Q ss_pred ccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 156 RASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 156 ~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
-.. . ..-.+...++...+|.++.+++.
T Consensus 221 e~~------~----~~~g~~~~iA~~~Gg~~~~L~~l 247 (261)
T COG1240 221 EGS------E----VRLGLAEEIARASGGEYYHLDDL 247 (261)
T ss_pred CCc------c----ccccHHHHHHHHhCCeEEecccc
Confidence 210 0 11245667888889999888776
No 55
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.62 E-value=0.00096 Score=64.20 Aligned_cols=140 Identities=16% Similarity=0.257 Sum_probs=84.5
Q ss_pred EEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-CHH-HHH
Q 005694 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DGH-LVQ 84 (682)
Q Consensus 8 ~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~~~-~l~ 84 (682)
++|+||.|.||.. .+..+...+..++.+--+....+.||||.|++... ++.++... +.+ .+.
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~---------------~~~~~~~~~~~~~~~~ 66 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR---------------VLFSLTDYQSKNDLLN 66 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE---------------EEEETTSHSSHHHHHH
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeecccc---------------cccccccccccccccc
Confidence 7999999999986 67888999999998555788999999999998632 33444332 333 344
Q ss_pred Hh-hcCCCCCCCChH-----HHHHHHcCC-----CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEE
Q 005694 85 SL-KHLPQGTCAGDY-----MLIKKYGET-----YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 153 (682)
Q Consensus 85 ~L-~~l~~~~~~gD~-----~li~~~~~~-----kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi 153 (682)
.+ ..+.......+. .+..++... ....+-|+||||+..--. ...........+..||.+..+
T Consensus 67 ~i~~~~~~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~-------~~~~~~~~~~~~~~~i~~~~i 139 (178)
T PF00092_consen 67 AINDSIPSSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDS-------DSPSEEAANLKKSNGIKVIAI 139 (178)
T ss_dssp HHHTTGGCCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSH-------SGHHHHHHHHHHHCTEEEEEE
T ss_pred cccccccccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCC-------cchHHHHHHHHHhcCcEEEEE
Confidence 45 444333222232 233343222 234566999999976422 122333333333358888777
Q ss_pred eeccCCCCCCCcchhchhhHHHHHHhhh
Q 005694 154 VVRASLSGEPHMRVIIENDNLLNIFSKK 181 (682)
Q Consensus 154 ~i~~~~~~~~~~~~~~~ne~~l~~~~~~ 181 (682)
|++. .+...|+.++..
T Consensus 140 g~~~------------~~~~~l~~la~~ 155 (178)
T PF00092_consen 140 GIDN------------ADNEELRELASC 155 (178)
T ss_dssp EESC------------CHHHHHHHHSHS
T ss_pred ecCc------------CCHHHHHHHhCC
Confidence 7611 234567777744
No 56
>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=97.39 E-value=0.0053 Score=71.48 Aligned_cols=149 Identities=16% Similarity=0.209 Sum_probs=88.2
Q ss_pred eEEEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEec-cCCCCHHHH
Q 005694 6 EALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD-IKVVDGHLV 83 (682)
Q Consensus 6 ea~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~-l~~~~~~~l 83 (682)
..++||||+|.||.. .+..|+.++..++.+ -+++|.++||.|++.-. .+.+ ....+...+
T Consensus 272 ~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~---L~~~d~~~ii~F~~~~~---------------~~~~~~~~~~~~~~ 333 (596)
T TIGR03788 272 RELVFVIDTSGSMAGESIEQAKSALLLALDQ---LRPGDRFNIIQFDSDVT---------------LLFPVPVPATAHNL 333 (596)
T ss_pred ceEEEEEECCCCCCCccHHHHHHHHHHHHHh---CCCCCEEEEEEECCcce---------------EeccccccCCHHHH
Confidence 458999999999964 467777777766663 36899999999998632 1222 122343333
Q ss_pred ----HHhhcCCCC--CCCChH--HHHHHHcC-CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 84 ----QSLKHLPQG--TCAGDY--MLIKKYGE-TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 84 ----~~L~~l~~~--~~~gD~--~li~~~~~-~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
+.|.++..+ |.-.+. ..+..... .....++|||||||... + .+.+...++. ...++.+..||
T Consensus 334 ~~a~~~i~~l~a~GgT~l~~aL~~a~~~~~~~~~~~~~~iillTDG~~~-~-------~~~~~~~~~~-~~~~~ri~tvG 404 (596)
T TIGR03788 334 ARARQFVAGLQADGGTEMAGALSAALRDDGPESSGALRQVVFLTDGAVG-N-------EDALFQLIRT-KLGDSRLFTVG 404 (596)
T ss_pred HHHHHHHhhCCCCCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCCCC-C-------HHHHHHHHHH-hcCCceEEEEE
Confidence 345566443 222222 22222211 12346889999999631 1 1233222222 23467888889
Q ss_pred eccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 155 VRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 155 i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
++.+ .|..+|+.++...+|.+..+.+.
T Consensus 405 iG~~-----------~n~~lL~~lA~~g~G~~~~i~~~ 431 (596)
T TIGR03788 405 IGSA-----------PNSYFMRKAAQFGRGSFTFIGST 431 (596)
T ss_pred eCCC-----------cCHHHHHHHHHcCCCEEEECCCH
Confidence 8542 24578999998888876554443
No 57
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.35 E-value=0.0043 Score=60.92 Aligned_cols=144 Identities=15% Similarity=0.189 Sum_probs=99.0
Q ss_pred EEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHH
Q 005694 11 LLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (682)
Q Consensus 11 ~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~ 84 (682)
+||+|.+|.+. +..+++++..+++...-.+|--++|||..+-.. ...+.+|.----+.++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~--------------a~~ls~lsgn~~~h~~ 66 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGR--------------AERLSELSGNPQEHIE 66 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecce--------------eEEeeecCCCHHHHHH
Confidence 58999999763 456688888888888889999999999988532 1123455432234667
Q ss_pred HhhcCCCCCCCChH-------HHHHHHc-CCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeec
Q 005694 85 SLKHLPQGTCAGDY-------MLIKKYG-ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVR 156 (682)
Q Consensus 85 ~L~~l~~~~~~gD~-------~li~~~~-~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~ 156 (682)
.|+++......|++ +...... ......|.|++|.-.-.-++. .++...++.|++.+|++.+|++.
T Consensus 67 ~L~~~~~~~~~G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp-------~di~~ti~~l~~~~IrvsvI~la 139 (193)
T PF04056_consen 67 ALKKLRKLEPSGEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDP-------GDIHETIESLKKENIRVSVISLA 139 (193)
T ss_pred HHHHhccCCCCCChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCc-------hhHHHHHHHHHHcCCEEEEEEEh
Confidence 77776544445664 1111111 123457888888755444332 46889999999999999999994
Q ss_pred cCCCCCCCcchhchhhHHHHHHhhhcCCeeee
Q 005694 157 ASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 188 (682)
Q Consensus 157 ~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~ 188 (682)
+. -..++.++..++|.+.-
T Consensus 140 aE-------------v~I~k~i~~~T~G~y~V 158 (193)
T PF04056_consen 140 AE-------------VYICKKICKETGGTYGV 158 (193)
T ss_pred HH-------------HHHHHHHHHhhCCEEEE
Confidence 41 25788999999998753
No 58
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.043 Score=53.67 Aligned_cols=131 Identities=18% Similarity=0.280 Sum_probs=87.5
Q ss_pred CeEEEEEEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC
Q 005694 5 REALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~ 78 (682)
-|+|++|||=|.-|.+. |..=.+.+..+.+.|+-++|-..||++..... ++.|+..+..-
T Consensus 3 lEatmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a--------------~~~vLsT~T~d 68 (259)
T KOG2884|consen 3 LEATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANA--------------SVQVLSTLTSD 68 (259)
T ss_pred cceEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCC--------------Cceeeeecccc
Confidence 58999999999888652 33347788888899999999999999987753 23334444322
Q ss_pred CHHHHHHhhcCCCCCCCChH-------HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEE
Q 005694 79 DGHLVQSLKHLPQGTCAGDY-------MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 151 (682)
Q Consensus 79 ~~~~l~~L~~l~~~~~~gD~-------~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~ 151 (682)
-...+-.+..++..- ..++ +++-++...|-.+.||++|- .+|+.. ++..+-.+++.|+..+|.+.
T Consensus 69 ~gkils~lh~i~~~g-~~~~~~~i~iA~lalkhRqnk~~~~riVvFv--GSpi~e-----~ekeLv~~akrlkk~~Vaid 140 (259)
T KOG2884|consen 69 RGKILSKLHGIQPHG-KANFMTGIQIAQLALKHRQNKNQKQRIVVFV--GSPIEE-----SEKELVKLAKRLKKNKVAID 140 (259)
T ss_pred chHHHHHhcCCCcCC-cccHHHHHHHHHHHHHhhcCCCcceEEEEEe--cCcchh-----hHHHHHHHHHHHHhcCeeEE
Confidence 223455566654421 1222 22222222334578899994 467763 34578899999999999999
Q ss_pred EEeecc
Q 005694 152 NIVVRA 157 (682)
Q Consensus 152 vi~i~~ 157 (682)
+|.++.
T Consensus 141 ii~FGE 146 (259)
T KOG2884|consen 141 IINFGE 146 (259)
T ss_pred EEEecc
Confidence 998854
No 59
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.11 Score=49.76 Aligned_cols=129 Identities=16% Similarity=0.216 Sum_probs=86.2
Q ss_pred CeEEEEEEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC
Q 005694 5 REALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~ 78 (682)
-|+||++||-|.-|.+. |+.-+..+..++++|+=.++-..||++-.+.... +.|..|
T Consensus 3 lEatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p-----------------~vlsT~ 65 (243)
T COG5148 3 LEATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQP-----------------NVLSTP 65 (243)
T ss_pred cceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCc-----------------chhccc
Confidence 58999999999777542 4455788999999999999999999998876431 123344
Q ss_pred CHHH---HHHhhcCCC--CCCCChH----HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 79 DGHL---VQSLKHLPQ--GTCAGDY----MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 79 ~~~~---l~~L~~l~~--~~~~gD~----~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
+.+. +..|..++- +-.-++. .++-++...|-.+.||+.|- .+|+.. +.+.+-.++..|+..|+.
T Consensus 66 T~~~gkilt~lhd~~~~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFv--gSpi~e-----sedeLirlak~lkknnVA 138 (243)
T COG5148 66 TKQRGKILTFLHDIRLHGGADIMRCLQIAQLILKHRDNKGQRQRIVAFV--GSPIQE-----SEDELIRLAKQLKKNNVA 138 (243)
T ss_pred hhhhhHHHHHhccccccCcchHHHHHHHHHHHHhcccCCccceEEEEEe--cCcccc-----cHHHHHHHHHHHHhcCee
Confidence 4443 333444431 2222332 22222222334578898885 367763 457888999999999999
Q ss_pred EEEEeecc
Q 005694 150 MKNIVVRA 157 (682)
Q Consensus 150 l~vi~i~~ 157 (682)
+.+|.++.
T Consensus 139 idii~fGE 146 (243)
T COG5148 139 IDIIFFGE 146 (243)
T ss_pred EEEEehhh
Confidence 99998853
No 60
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=95.88 E-value=0.14 Score=50.74 Aligned_cols=46 Identities=24% Similarity=0.260 Sum_probs=34.0
Q ss_pred EEEEEEeCCCCcCCC--------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCC
Q 005694 7 ALLLLLDVSPSMHSV--------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (682)
Q Consensus 7 a~vf~iDv~~sM~~~--------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~ 53 (682)
-++|+||+|.||... +..+..++..+.. .+.....|.+++++|.+.
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~-~~~~~D~d~i~l~~f~~~ 57 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALAR-KCEEYDSDGITVYLFSGD 57 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHH-HHHhcCCCCeEEEEecCC
Confidence 478999999999853 4677777776664 222457889999999654
No 61
>PRK10997 yieM hypothetical protein; Provisional
Probab=95.01 E-value=0.43 Score=53.51 Aligned_cols=126 Identities=17% Similarity=0.256 Sum_probs=73.4
Q ss_pred CCeEEEEEEeCCCCcCC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-C-H
Q 005694 4 TREALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D-G 80 (682)
Q Consensus 4 ~Kea~vf~iDv~~sM~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~-~-~ 80 (682)
.|.-+|+|||.|.||.. .-..|..++..++. +..+.+|.|++++|++.... | ++... . .
T Consensus 322 ~kGpiII~VDtSGSM~G~ke~~AkalAaAL~~--iAl~q~dr~~li~Fs~~i~~---------~-------~l~~~~gl~ 383 (487)
T PRK10997 322 PRGPFIVCVDTSGSMGGFNEQCAKAFCLALMR--IALAENRRCYIMLFSTEVVT---------Y-------ELTGPDGLE 383 (487)
T ss_pred CCCcEEEEEECCCCCCCCHHHHHHHHHHHHHH--HHHhcCCCEEEEEecCCcee---------e-------ccCCccCHH
Confidence 56779999999999973 23344444444333 23578999999999985311 1 22211 1 2
Q ss_pred HHHHHhhcCCCCCCCChH-HHH----HHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh-cCcEEEEEe
Q 005694 81 HLVQSLKHLPQGTCAGDY-MLI----KKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA-FGLRMKNIV 154 (682)
Q Consensus 81 ~~l~~L~~l~~~~~~gD~-~li----~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~-~~I~l~vi~ 154 (682)
+.++.|.....| ..|. .++ .........+--||+|||+..+.. .+.+...++.|++ .|..+..+.
T Consensus 384 ~ll~fL~~~f~G--GTDl~~aL~~al~~l~~~~~r~adIVVISDF~~~~~-------~eel~~~L~~Lk~~~~~rf~~l~ 454 (487)
T PRK10997 384 QAIRFLSQSFRG--GTDLAPCLRAIIEKMQGREWFDADAVVISDFIAQRL-------PDELVAKVKELQRQHQHRFHAVA 454 (487)
T ss_pred HHHHHHHHhcCC--CCcHHHHHHHHHHHHcccccCCceEEEECCCCCCCC-------hHHHHHHHHHHHHhcCcEEEEEE
Confidence 334455443222 2233 222 222222222334999999976532 1457777778877 888898888
Q ss_pred ec
Q 005694 155 VR 156 (682)
Q Consensus 155 i~ 156 (682)
++
T Consensus 455 i~ 456 (487)
T PRK10997 455 MS 456 (487)
T ss_pred eC
Confidence 84
No 62
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=94.05 E-value=1 Score=48.57 Aligned_cols=149 Identities=16% Similarity=0.190 Sum_probs=85.3
Q ss_pred CCeEEEEEEeCCCCcCC-----ChhHHHHHHHHHHHHhHhcC-CccEEEEEEecCCccCccccccCCCcCcEEEEeccCC
Q 005694 4 TREALLLLLDVSPSMHS-----VLPDVEKLCSRLIQKKLIYG-KNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV 77 (682)
Q Consensus 4 ~Kea~vf~iDv~~sM~~-----~l~~a~~~~~~~~~~ki~~~-~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~ 77 (682)
.--|++++||+|-||.- ++.++.-++.+++. .+ +.|.+.+|+||-...+
T Consensus 462 t~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~----TrfrGD~l~~i~Fgr~A~~--------------------- 516 (652)
T COG4867 462 TQAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVC----TRFRGDALQIIAFGRYART--------------------- 516 (652)
T ss_pred cccceeeeeeccHHHHHhccCCchHHHHHHHHHHHH----hcCCCcceEEEeccchhcc---------------------
Confidence 45689999999999953 23333334455555 44 9999999999964311
Q ss_pred CCHHHHHHhhcC-CCCCCC-ChHHHHHHHcC-CCcccceEEEEeCCCCCCC-CCCCCC--------chhhHHH---HHHH
Q 005694 78 VDGHLVQSLKHL-PQGTCA-GDYMLIKKYGE-TYKGKKHLCLITDALCPLK-DPDVGT--------KEDQVST---IARQ 142 (682)
Q Consensus 78 ~~~~~l~~L~~l-~~~~~~-gD~~li~~~~~-~kk~~krI~L~Td~~~p~~-~~~~~~--------~~~~~~~---i~~~ 142 (682)
++..-|..+.-+ +.+|+. +-..+-.++-+ -.+..+.|++|||+.-..- .+.++. +..-+-. -..+
T Consensus 517 v~v~eLt~l~~v~eqgTNlhhaL~LA~r~l~Rh~~~~~~il~vTDGePtAhle~~DG~~~~f~yp~DP~t~~~Tvr~~d~ 596 (652)
T COG4867 517 VTAAELTGLAGVYEQGTNLHHALALAGRHLRRHAGAQPVVLVVTDGEPTAHLEDGDGTSVFFDYPPDPRTIAHTVRGFDD 596 (652)
T ss_pred cCHHHHhcCCCccccccchHHHHHHHHHHHHhCcccCceEEEEeCCCccccccCCCCceEecCCCCChhHHHHHHHHHHH
Confidence 222222222222 223332 22233334332 3456889999999853211 111121 1111211 2356
Q ss_pred HhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeee
Q 005694 143 MVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTL 187 (682)
Q Consensus 143 l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~ 187 (682)
+...||.+++|-++.++ +=+.|++.+++.+.|.++
T Consensus 597 ~~r~G~q~t~FrLg~Dp----------gL~~Fv~qva~rv~G~vv 631 (652)
T COG4867 597 MARLGAQVTIFRLGSDP----------GLARFIDQVARRVQGRVV 631 (652)
T ss_pred HHhccceeeEEeecCCH----------hHHHHHHHHHHHhCCeEE
Confidence 78899999999885421 125788888888888765
No 63
>PF05762 VWA_CoxE: VWA domain containing CoxE-like protein; InterPro: IPR008912 This group of proteins contains a VWA type domain and the function of this family is unknown. It is found as part of a CO oxidising (Cox) system operon in several bacteria [].
Probab=93.73 E-value=0.6 Score=47.20 Aligned_cols=120 Identities=23% Similarity=0.238 Sum_probs=68.2
Q ss_pred EEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC-HHHHHH
Q 005694 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLVQS 85 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~-~~~l~~ 85 (682)
-+|+|+|+|.||...-..++.++..+.. ..+ .+.+++|+|+-+.-. ..+...+ .+.+..
T Consensus 59 ~lvvl~DvSGSM~~~s~~~l~~~~~l~~----~~~--~~~~f~F~~~l~~vT--------------~~l~~~~~~~~l~~ 118 (222)
T PF05762_consen 59 RLVVLCDVSGSMAGYSEFMLAFLYALQR----QFR--RVRVFVFSTRLTEVT--------------PLLRRRDPEEALAR 118 (222)
T ss_pred cEEEEEeCCCChHHHHHHHHHHHHHHHH----hCC--CEEEEEEeeehhhhh--------------hhhccCCHHHHHHH
Confidence 6999999999997533334444444443 222 899999998642211 1222122 234555
Q ss_pred hhcCCC----CCCCChH--HHHHHHcCCCcccceEEEEeCC-CCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEe
Q 005694 86 LKHLPQ----GTCAGDY--MLIKKYGETYKGKKHLCLITDA-LCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 154 (682)
Q Consensus 86 L~~l~~----~~~~gD~--~li~~~~~~kk~~krI~L~Td~-~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~ 154 (682)
+..... ||.-|.. ...+.+........-+++|||+ ++. ..+.+......|...+..+..+.
T Consensus 119 ~~~~~~~~~GgTdi~~aL~~~~~~~~~~~~~~t~vvIiSDg~~~~--------~~~~~~~~l~~l~~r~~rviwLn 186 (222)
T PF05762_consen 119 LSALVQSFGGGTDIGQALREFLRQYARPDLRRTTVVIISDGWDTN--------DPEPLAEELRRLRRRGRRVIWLN 186 (222)
T ss_pred HHhhccCCCCccHHHHHHHHHHHHhhcccccCcEEEEEecccccC--------ChHHHHHHHHHHHHhCCEEEEEC
Confidence 543222 2322322 3334443222235568899998 332 22567788889999998886654
No 64
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=91.82 E-value=4 Score=42.65 Aligned_cols=145 Identities=17% Similarity=0.274 Sum_probs=89.6
Q ss_pred EEEEEEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccC-CCC
Q 005694 7 ALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIK-VVD 79 (682)
Q Consensus 7 a~vf~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~-~~~ 79 (682)
.++++||+|..|-+. +..+.|.+..++..-.=.+|=-++|+|.......+- +..+. .|.
T Consensus 62 hl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~--------------lt~ltgnp~ 127 (378)
T KOG2807|consen 62 HLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADR--------------LTDLTGNPR 127 (378)
T ss_pred eEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhH--------------HHHhcCCHH
Confidence 578999999999763 345577777777655447899999999987543211 11111 111
Q ss_pred HHHHHHhhcCCCCCCCChHH------HHHHHcC--CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEE
Q 005694 80 GHLVQSLKHLPQGTCAGDYM------LIKKYGE--TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 151 (682)
Q Consensus 80 ~~~l~~L~~l~~~~~~gD~~------li~~~~~--~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~ 151 (682)
..|..|..+. +..||+- +....-+ ..-..|-|++|-..-+-.+. .++-..++.|+...|++.
T Consensus 128 -~hI~aL~~~~--~~~g~fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DP-------gdi~~tI~~lk~~kIRvs 197 (378)
T KOG2807|consen 128 -IHIHALKGLT--ECSGDFSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDP-------GDIYETIDKLKAYKIRVS 197 (378)
T ss_pred -HHHHHHhccc--ccCCChHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCc-------ccHHHHHHHHHhhCeEEE
Confidence 2355565544 3456651 1122111 12235666666544443332 457788889999999999
Q ss_pred EEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeee
Q 005694 152 NIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 188 (682)
Q Consensus 152 vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~ 188 (682)
+||+.+. -.+-+.++..++|.+.-
T Consensus 198 vIgLsaE-------------v~icK~l~kaT~G~Y~V 221 (378)
T KOG2807|consen 198 VIGLSAE-------------VFICKELCKATGGRYSV 221 (378)
T ss_pred EEeechh-------------HHHHHHHHHhhCCeEEE
Confidence 9999431 25567888899987653
No 65
>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=91.32 E-value=4.4 Score=40.84 Aligned_cols=139 Identities=13% Similarity=0.175 Sum_probs=80.3
Q ss_pred eEEEEEEeCCCCcCCChh-----HHHHHHHHHHH-----HhH-hcCCccEEEEEEecCCccCccccccCCCcCcEEEEec
Q 005694 6 EALLLLLDVSPSMHSVLP-----DVEKLCSRLIQ-----KKL-IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (682)
Q Consensus 6 ea~vf~iDv~~sM~~~l~-----~a~~~~~~~~~-----~ki-~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~ 74 (682)
.-+||+||-+..|+..+. |...++..+-. +.. -...+-+.|||+|||-. .|....+-..
T Consensus 14 ~~vVfvvEgTAalgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d----------~~~~~~v~~~ 83 (226)
T PF11265_consen 14 AQVVFVVEGTAALGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTAD----------CYPEPIVQRS 83 (226)
T ss_pred ceEEEEEecchhhhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccC----------CCcccceecc
Confidence 349999999999998764 44555555543 111 02367899999999974 3333333222
Q ss_pred cCCCCHH-HHHHhhcCCC-CC--CC-ChH--------HHHHHHcC-----CC-cccceEEEEeCCCCCCCCCCCC---Cc
Q 005694 75 IKVVDGH-LVQSLKHLPQ-GT--CA-GDY--------MLIKKYGE-----TY-KGKKHLCLITDALCPLKDPDVG---TK 132 (682)
Q Consensus 75 l~~~~~~-~l~~L~~l~~-~~--~~-gD~--------~li~~~~~-----~k-k~~krI~L~Td~~~p~~~~~~~---~~ 132 (682)
=-..+++ .++.|.+++- |. .+ +.. +|+..+.. .+ -..|+.|||+|- .|..-+..+ ..
T Consensus 84 g~T~~~~~fl~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nS-pP~~~p~~~~~~~~ 162 (226)
T PF11265_consen 84 GPTSSPQKFLQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNS-PPYRLPVNECPQYS 162 (226)
T ss_pred CCcCCHHHHHHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCC-CCccccccCCCccc
Confidence 1224444 4666777642 21 11 111 23332221 11 146889999886 444432111 11
Q ss_pred hhhHHHHHHHHhhcCcEEEEEee
Q 005694 133 EDQVSTIARQMVAFGLRMKNIVV 155 (682)
Q Consensus 133 ~~~~~~i~~~l~~~~I~l~vi~i 155 (682)
...+++.+..+.+.+|.|.+|-.
T Consensus 163 ~~~~d~la~~~~~~~I~LSiisP 185 (226)
T PF11265_consen 163 GKTCDQLAVLISERNISLSIISP 185 (226)
T ss_pred CCCHHHHHHHHHhcCceEEEEcC
Confidence 23578888888999999999975
No 66
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=91.14 E-value=5.2 Score=39.60 Aligned_cols=124 Identities=21% Similarity=0.275 Sum_probs=69.2
Q ss_pred EEEEEEeCCCCcCCChh-----HH-HHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCH
Q 005694 7 ALLLLLDVSPSMHSVLP-----DV-EKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~-----~a-~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~ 80 (682)
.+.+|||.|.||...+. .+ .+++..-.+ -.+.-.|=|++|+++-..- ..| ..-+.
T Consensus 3 rV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~----~DdDG~i~v~~Fs~~~~~~---------~~v------t~~~~ 63 (200)
T PF10138_consen 3 RVYLVLDISGSMRPLYKDGTVQRVVERILALAAQ----FDDDGEIDVWFFSTEFDRL---------PDV------TLDNY 63 (200)
T ss_pred EEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhh----cCCCCceEEEEeCCCCCcC---------CCc------CHHHH
Confidence 58899999999987542 22 222222222 4566669999999964321 111 11111
Q ss_pred -HHHHHhhc-CCC-C-CCCChH-----HHHHHHcCCCcc--cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 81 -HLVQSLKH-LPQ-G-TCAGDY-----MLIKKYGETYKG--KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 81 -~~l~~L~~-l~~-~-~~~gD~-----~li~~~~~~kk~--~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
+.++.+.. +.. + -...+. ..+..|.+.... --=|++||||.. .+ ...+..++.......|.
T Consensus 64 ~~~v~~~~~~~~~~~~~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~-~~-------~~~~~~~i~~as~~pif 135 (200)
T PF10138_consen 64 EGYVDELHAGLPDWGRMGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGP-DD-------RRAIEKLIREASDEPIF 135 (200)
T ss_pred HHHHHHHhccccccCCCCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCc-cc-------hHHHHHHHHhccCCCee
Confidence 11233321 100 1 011222 456666533221 234777799864 32 35688888888999999
Q ss_pred EEEEeecc
Q 005694 150 MKNIVVRA 157 (682)
Q Consensus 150 l~vi~i~~ 157 (682)
..++|++.
T Consensus 136 wqFVgiG~ 143 (200)
T PF10138_consen 136 WQFVGIGD 143 (200)
T ss_pred EEEEEecC
Confidence 99999964
No 67
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=90.71 E-value=0.0047 Score=68.44 Aligned_cols=133 Identities=20% Similarity=0.297 Sum_probs=90.9
Q ss_pred CCccccccceecCCeeEecChhhHHhhhcCCCccEEEEEEeeCCCccchhccCCeEEEEc--CCCChhhHHHHHHHHHHH
Q 005694 272 VPPEQRIKGYRYGPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIA--EPGNSRATVAVSALARAM 349 (682)
Q Consensus 272 V~~edlvkgy~yG~~~Vp~s~~e~~~~k~~~~k~l~ilGF~~~~~i~~~~~~~~~~~i~p--~~~~~~s~~afsaL~~Am 349 (682)
+.++.+.++|.||.++|.+..-+-.+.++.+...++.+||-.+..|+||.+-+.+.+++. -+.. .+..||++|+.-+
T Consensus 325 ikkssv~~~Y~~g~~~~Vlpa~dd~~a~~a~ssli~al~~l~r~Al~Ry~~~~ks~pql~vl~Ph~-~~~~~~~yLvdVq 403 (669)
T KOG2326|consen 325 IKKSSVTKAYRYGADYVVLPAVDDDQAVYASSSLIDALGFLNREALPRYFLTSKSSPQLAVLRPHC-QSDLAFSYLVDVQ 403 (669)
T ss_pred eccccccceeeecCceEEecccCchHhHHhhhHHHHHHhhhhHHHhhhhhhccCCCceEeeecccc-ccccceeeEEEee
Confidence 578899999999999999998666667788899999999999999999999777544333 2332 3444789998888
Q ss_pred HhcCceEEEEEEecCCCCceEEEEeeccccCCCCCCCeE------EEecCCChh---cccCCCCCC
Q 005694 350 KEMNKVAIVRCVWRQGQQSVVVGVLTPNVSEKINIPDSF------YFNVLPFAE---DVREFQFPS 406 (682)
Q Consensus 350 ~e~~~vaI~r~v~r~~~~p~~l~~L~P~~~~~~~~~~~l------~~~~LPFae---DvR~~~fp~ 406 (682)
..--.-+.++++.+-... ..++-+.|+...-.++-+++ -+..+||++ +.|.-.+|.
T Consensus 404 LPF~eD~R~y~Fskf~~~-~n~~pt~aql~AVsnlID~M~L~ksdtl~~~pf~p~~~~mr~hrL~q 468 (669)
T KOG2326|consen 404 LPFREDARAYYFSKFDSE-VNMCPTCAQLIAVSNLIDEMKLVKSDTLCRLPFAPPKLDMRVHRLPQ 468 (669)
T ss_pred ccchhhhHHhhcccccch-hccCchHHHHHHHHHHhhhhhhhhhccccCCCCCCCCccchhhhHHH
Confidence 877777777777766543 33444445444322111221 344677776 555544433
No 68
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=90.12 E-value=2.9 Score=40.53 Aligned_cols=46 Identities=24% Similarity=0.252 Sum_probs=29.9
Q ss_pred EEEEEEeCCCCcCCC-hhHHHHHHHHHHHHh---HhcCCccEEEEEEecC
Q 005694 7 ALLLLLDVSPSMHSV-LPDVEKLCSRLIQKK---LIYGKNHEVGVILFGT 52 (682)
Q Consensus 7 a~vf~iDv~~sM~~~-l~~a~~~~~~~~~~k---i~~~~~D~vgvvlfgt 52 (682)
-++|+||+|.||-.. .+..-.++.+++... =..-..-+++||.||.
T Consensus 5 P~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~ 54 (207)
T COG4245 5 PCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGG 54 (207)
T ss_pred CEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecC
Confidence 478999999999654 443333444433322 2234678999999996
No 69
>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=89.93 E-value=11 Score=38.76 Aligned_cols=164 Identities=15% Similarity=0.181 Sum_probs=84.4
Q ss_pred EEEEEEeCCCCcCC--ChhHHHHHHHHHHHHhHhcC-CccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC----
Q 005694 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYG-KNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD---- 79 (682)
Q Consensus 7 a~vf~iDv~~sM~~--~l~~a~~~~~~~~~~ki~~~-~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~---- 79 (682)
+.+|+||+|..--+ .++.+.+.+...+.. +-.. +.-.||+|.|++.-+=-++... .......+..+++.|-
T Consensus 5 ~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~-lp~~~~~~~VgiITfd~~v~~y~l~~~-~~~~q~~vv~dl~d~f~P~~ 82 (244)
T cd01479 5 VYVFLIDVSYNAIKSGLLATACEALLSNLDN-LPGDDPRTRVGFITFDSTLHFFNLKSS-LEQPQMMVVSDLDDPFLPLP 82 (244)
T ss_pred EEEEEEEccHHHHhhChHHHHHHHHHHHHHh-cCCCCCCeEEEEEEECCeEEEEECCCC-CCCCeEEEeeCcccccCCCC
Confidence 67999999864322 245566666666653 2222 6689999999986432222111 0112233333333211
Q ss_pred ------H----H-HHHHhhcCCC----CCCC----ChH-----HHHHHHcCCCcccceEEEEeCCCCCCCCCC-----CC
Q 005694 80 ------G----H-LVQSLKHLPQ----GTCA----GDY-----MLIKKYGETYKGKKHLCLITDALCPLKDPD-----VG 130 (682)
Q Consensus 80 ------~----~-~l~~L~~l~~----~~~~----gD~-----~li~~~~~~kk~~krI~L~Td~~~p~~~~~-----~~ 130 (682)
. + ...-|++|+. +... |-. .++... .=||++|+.+-.-.+ +. +.
T Consensus 83 ~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~------GGkIi~f~s~~pt~G-pG~l~~~~~ 155 (244)
T cd01479 83 DGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKET------GGKIIVFQSSLPTLG-AGKLKSRED 155 (244)
T ss_pred cceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhc------CCEEEEEeCCCCCcC-CcccccCcc
Confidence 0 1 1112333321 1111 211 233322 237888877632221 11 00
Q ss_pred --------------CchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeeh
Q 005694 131 --------------TKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 189 (682)
Q Consensus 131 --------------~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~ 189 (682)
...+-++.++..+...||.+++|....++ . +-..+..++..++|.++..
T Consensus 156 ~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~-----~-----dla~l~~l~~~TGG~v~~y 218 (244)
T cd01479 156 PKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQY-----V-----DVATLGCLSRLTGGQVYYY 218 (244)
T ss_pred ccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcc-----c-----ChhhhhhhhhhcCceEEEE
Confidence 01234678999999999999999873211 1 1233566778888876543
No 70
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=87.08 E-value=7 Score=43.30 Aligned_cols=124 Identities=22% Similarity=0.248 Sum_probs=72.0
Q ss_pred EEEEEEeCCCCcCCChhHHHH-HHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC--C-HHH
Q 005694 7 ALLLLLDVSPSMHSVLPDVEK-LCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV--D-GHL 82 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~~a~~-~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~--~-~~~ 82 (682)
-+++|||-|.||+..-....| +|..+++ +.-.-+=.|.+++|-+.- -+ ..+..+ + -+.
T Consensus 274 pvilllD~SGSM~G~~e~~AKAvalAl~~--~alaenR~~~~~lF~s~~------------~~----~el~~k~~~~~e~ 335 (437)
T COG2425 274 PVILLLDKSGSMSGFKEQWAKAVALALMR--IALAENRDCYVILFDSEV------------IE----YELYEKKIDIEEL 335 (437)
T ss_pred CEEEEEeCCCCcCCcHHHHHHHHHHHHHH--HHHHhccceEEEEecccc------------ee----eeecCCccCHHHH
Confidence 478999999999876544333 3344443 112344458999998821 01 122222 2 245
Q ss_pred HHHhhcCCCCCCCChH-HHHHHH----cCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeecc
Q 005694 83 VQSLKHLPQGTCAGDY-MLIKKY----GETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRA 157 (682)
Q Consensus 83 l~~L~~l~~~~~~gD~-~li~~~----~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~ 157 (682)
|+.|.....|. .|+ .++..- ...+-..-.|++|||+.+++.+ +-+..+-+..+.++.+|.-+.|++
T Consensus 336 i~fL~~~f~GG--TD~~~~l~~al~~~k~~~~~~adiv~ITDg~~~~~~-------~~~~~v~e~~k~~~~rl~aV~I~~ 406 (437)
T COG2425 336 IEFLSYVFGGG--TDITKALRSALEDLKSRELFKADIVVITDGEDERLD-------DFLRKVKELKKRRNARLHAVLIGG 406 (437)
T ss_pred HHHHhhhcCCC--CChHHHHHHHHHHhhcccccCCCEEEEeccHhhhhh-------HHHHHHHHHHHHhhceEEEEEecC
Confidence 66666654432 454 333221 2222334789999999988641 224444444557899999998854
No 71
>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=86.60 E-value=32 Score=34.99 Aligned_cols=167 Identities=16% Similarity=0.226 Sum_probs=85.1
Q ss_pred EEEEEEeCCCCc-CC-ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC------
Q 005694 7 ALLLLLDVSPSM-HS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV------ 78 (682)
Q Consensus 7 a~vf~iDv~~sM-~~-~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~------ 78 (682)
+.+|+||++..- .+ .++.+...+...+... =..++-.||+|.|++.-+=-.+... ..-....++.+++.+
T Consensus 5 ~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~l-p~~~~~~igiITf~~~V~~~~~~~~-~~~~~~~v~~dl~d~f~p~~~ 82 (239)
T cd01468 5 VFVFVIDVSYEAIKEGLLQALKESLLASLDLL-PGDPRARVGLITYDSTVHFYNLSSD-LAQPKMYVVSDLKDVFLPLPD 82 (239)
T ss_pred EEEEEEEcchHhccccHHHHHHHHHHHHHHhC-CCCCCcEEEEEEeCCeEEEEECCCC-CCCCeEEEeCCCccCcCCCcC
Confidence 679999999642 22 2455566666666531 0127889999999865432222110 011234455554432
Q ss_pred ----C-HH---HHH-HhhcCCC---C--CCCCh-----H-----HHHHHHcCCCcccceEEEEeCCCCCCCCCCC-----
Q 005694 79 ----D-GH---LVQ-SLKHLPQ---G--TCAGD-----Y-----MLIKKYGETYKGKKHLCLITDALCPLKDPDV----- 129 (682)
Q Consensus 79 ----~-~~---~l~-~L~~l~~---~--~~~gD-----~-----~li~~~~~~kk~~krI~L~Td~~~p~~~~~~----- 129 (682)
+ ++ .|. -|++|++ . ....+ . .++.... ..=||++|+.+-.-. ++.-
T Consensus 83 ~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~----~gGkI~~f~sg~pt~-GpG~l~~~~ 157 (239)
T cd01468 83 RFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTF----AGGRIIVFQGGLPTV-GPGKLKSRE 157 (239)
T ss_pred ceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcC----CCceEEEEECCCCCC-CCCccccCc
Confidence 1 11 111 1233322 1 11111 1 1222211 245788888763321 1110
Q ss_pred --------------CCchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehh
Q 005694 130 --------------GTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD 190 (682)
Q Consensus 130 --------------~~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~ 190 (682)
....+-++.++..+...||.+++|....++ . +-..+..++..++|.++-..
T Consensus 158 ~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~-----~-----dl~~l~~l~~~TGG~v~~y~ 222 (239)
T cd01468 158 DKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDY-----V-----DVATLKQLAKSTGGQVYLYD 222 (239)
T ss_pred ccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccc-----c-----CHHHhhhhhhcCCceEEEeC
Confidence 011234678999999999999999873211 1 12335667778888765443
No 72
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.45 E-value=9.5 Score=39.91 Aligned_cols=170 Identities=13% Similarity=0.192 Sum_probs=102.0
Q ss_pred eEEEEEEeCCCCcC---C------ChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccC----ccccc---cCC-CcCc
Q 005694 6 EALLLLLDVSPSMH---S------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETE----NELTK---EVG-GYEH 68 (682)
Q Consensus 6 ea~vf~iDv~~sM~---~------~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~----n~l~~---e~~-~y~n 68 (682)
.-++++||++|.-- . .+..+++.+..++--.+..+...+|+||..++.+.. ++... ..+ ....
T Consensus 3 slL~vvlD~np~~W~~~~~~~~~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~~~ 82 (279)
T TIGR00627 3 SLLVVIIEANPCSWGMLALAHGKRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDPKR 82 (279)
T ss_pred cEEEEEEeCCHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCcccccccccccccc
Confidence 35789999998631 1 356778888888888888899999999998876432 11000 000 1111
Q ss_pred E--EEEeccCCCCHHHHHHhhcCC-C----CC------CCChH-H---HHHHHc----CCCcccceEEEEeCCCCCCCCC
Q 005694 69 V--KVLQDIKVVDGHLVQSLKHLP-Q----GT------CAGDY-M---LIKKYG----ETYKGKKHLCLITDALCPLKDP 127 (682)
Q Consensus 69 I--~v~~~l~~~~~~~l~~L~~l~-~----~~------~~gD~-~---li~~~~----~~kk~~krI~L~Td~~~p~~~~ 127 (682)
+ ..+..+..++...++.|.++. . +. ..|.. + .|++.. ....-+.||++|+-..+..
T Consensus 83 ~~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~~~--- 159 (279)
T TIGR00627 83 LRELLYRDFRTVDETIVEEIKPLMAHADKHMKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITPDMA--- 159 (279)
T ss_pred ccchhccchhHHHHHHHHHHHHHHhhchhcccccccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCCch---
Confidence 1 123445556666677776542 1 11 11211 1 123221 1123488999998643211
Q ss_pred CCCCchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 128 DVGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 128 ~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
..+-.+-..+..+++.+|.+.+++++. + + .-.+|+++++.++|.+..+.+.
T Consensus 160 ---~qYi~~mn~Ifaaqk~~I~Idv~~L~~----e-~------~~~~lqQa~~~TgG~Y~~~~~~ 210 (279)
T TIGR00627 160 ---LQYIPLMNCIFSAQKQNIPIDVVSIGG----D-F------TSGFLQQAADITGGSYLHVKKP 210 (279)
T ss_pred ---HHHHHHHHHHHHHHHcCceEEEEEeCC----c-c------ccHHHHHHHHHhCCEEeccCCH
Confidence 122345577888999999999999943 1 1 1378999999999988765444
No 73
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=80.01 E-value=6.1 Score=44.20 Aligned_cols=144 Identities=17% Similarity=0.181 Sum_probs=69.8
Q ss_pred EEEEEEeCCCCcCCChhHHHHHHHHHHHHhH-hcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHH-
Q 005694 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKL-IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ- 84 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki-~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~- 84 (682)
++.++||||.||+..+.+..+++..+..... ++.+ +=.+|-.+.-+..++..-.+.-|.++.+.+..-.+.+.
T Consensus 448 a~TLLvD~S~St~a~mdetrRvidl~~eaL~~la~~-----~qa~gd~~~~~~fts~rr~~vri~tvk~FDes~~~~~~~ 522 (637)
T COG4548 448 AFTLLVDVSASTDAKMDETRRVIDLFHEALLVLAHG-----HQALGDSEDILDFTSRRRPWVRINTVKDFDESMGETVGP 522 (637)
T ss_pred eeEEEeecccchHHHhhhhhhhHHHHHHHHHHhhch-----hhhhCCHHHhcCchhhcCcceeeeeeeccccccccccch
Confidence 6778999999999988776555554444322 1222 11222221111111111122233344444433222222
Q ss_pred HhhcCCCCCCCChHHHHHHHcC----CCcccceEEEEeCCCCCCCCC-CCC-CchhhHHHHHHHHhhcCcEEEEEeec
Q 005694 85 SLKHLPQGTCAGDYMLIKKYGE----TYKGKKHLCLITDALCPLKDP-DVG-TKEDQVSTIARQMVAFGLRMKNIVVR 156 (682)
Q Consensus 85 ~L~~l~~~~~~gD~~li~~~~~----~kk~~krI~L~Td~~~p~~~~-~~~-~~~~~~~~i~~~l~~~~I~l~vi~i~ 156 (682)
.|..|.++...-|-..|++-++ .....|=++|||||.- -+.. +++ ..-++....+...+..||++..+.++
T Consensus 523 RImALePg~ytR~G~AIR~As~kL~~rpq~qklLivlSDGkP-nd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld 599 (637)
T COG4548 523 RIMALEPGYYTRDGAAIRHASAKLMERPQRQKLLIVLSDGKP-NDFDHYEGRFGIEDTREAVIEARKSGIEVFNVTLD 599 (637)
T ss_pred hheecCccccccccHHHHHHHHHHhcCcccceEEEEecCCCc-ccccccccccchhhHHHHHHHHHhcCceEEEEEec
Confidence 2444444432222145544332 2223455888899853 2321 221 12234555667788999988877774
No 74
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=77.29 E-value=25 Score=35.24 Aligned_cols=47 Identities=23% Similarity=0.167 Sum_probs=30.1
Q ss_pred eEEEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCc
Q 005694 6 EALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEE 54 (682)
Q Consensus 6 ea~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~ 54 (682)
-++-|+||+|.||... ..-|..++..+.+-.- +-.=-+=|+.|.|..
T Consensus 13 ~~VtlLID~SGSMrgr~~~vA~~~adila~aL~--~~gvp~EVlGFtT~a 60 (219)
T PF11775_consen 13 TVVTLLIDCSGSMRGRPIEVAALCADILARALE--RCGVPVEVLGFTTRA 60 (219)
T ss_pred eEEEEEEeCCcCCCCChHHHHHHHHHHHHHHHH--hCCCCeEEEeeecCC
Confidence 3677999999999874 4556555555555332 333345567787763
No 75
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.33 E-value=73 Score=38.10 Aligned_cols=204 Identities=14% Similarity=0.189 Sum_probs=99.4
Q ss_pred eEEEEEEeCCCCcC--CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCcc----CccccccCCCcCcEEEEeccCCC-
Q 005694 6 EALLLLLDVSPSMH--SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEET----ENELTKEVGGYEHVKVLQDIKVV- 78 (682)
Q Consensus 6 ea~vf~iDv~~sM~--~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t----~n~l~~e~~~y~nI~v~~~l~~~- 78 (682)
-+.||.||||-.-. ..+..+-+.++.++..-..-.++-+||+|+|...-. +..| .=.++.+..+++.+
T Consensus 418 pafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~L-----~qp~mliVsdv~dvf 492 (1007)
T KOG1984|consen 418 PAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSNL-----AQPQMLIVSDVDDVF 492 (1007)
T ss_pred ceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCccc-----cCceEEEeecccccc
Confidence 47899999984321 122333444555555444467889999999986532 1112 11234444443322
Q ss_pred -------------CHHHHHHhh-cCCC---C-----CCCChH----HHHHHHcCCCcccceEEEEeCCCCCCCCCC----
Q 005694 79 -------------DGHLVQSLK-HLPQ---G-----TCAGDY----MLIKKYGETYKGKKHLCLITDALCPLKDPD---- 128 (682)
Q Consensus 79 -------------~~~~l~~L~-~l~~---~-----~~~gD~----~li~~~~~~kk~~krI~L~Td~~~p~~~~~---- 128 (682)
+...|+.|- +++. + +.-|+. +++-+.+ . .-++|+|++...-++.+.
T Consensus 493 vPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~---~-gGKl~vF~s~Lpt~g~g~kl~~ 568 (1007)
T KOG1984|consen 493 VPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAA---D-GGKLFVFHSVLPTAGAGGKLSN 568 (1007)
T ss_pred cccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhcc---C-CceEEEEecccccccCcccccc
Confidence 112222221 2221 1 112332 1111111 1 456788877644333210
Q ss_pred ------CCCchh---------hHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhc--
Q 005694 129 ------VGTKED---------QVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDS-- 191 (682)
Q Consensus 129 ------~~~~~~---------~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~-- 191 (682)
-+++++ -+..+++++-+.||.+++|.....| -+ -..+-.++.-++|+++....
T Consensus 569 r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ay-----vD-----vAtlg~v~~~TgG~vy~Y~~F~ 638 (1007)
T KOG1984|consen 569 RDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAY-----VD-----VATLGVVPALTGGQVYKYYPFQ 638 (1007)
T ss_pred cchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccce-----ee-----eeeecccccccCceeEEecchh
Confidence 011112 2668999999999999998763211 10 01122234445676543222
Q ss_pred ----hHHhhcccccccCCcceeeeeeEeecCCeEEEEEEEee
Q 005694 192 ----TTSLRGARKTRDISPVTIFRGDLELSEKMKIKVWVYKK 229 (682)
Q Consensus 192 ----a~~ll~~~~~k~~~~~~~~~g~L~lg~~l~I~V~~Y~~ 229 (682)
...++..++.--.++. -|++-++....--|.|..|.-
T Consensus 639 a~~D~~rl~nDL~~~vtk~~-gf~a~mrvRtStGirv~~f~G 679 (1007)
T KOG1984|consen 639 ALTDGPRLLNDLVRNVTKKQ-GFDAVMRVRTSTGIRVQDFYG 679 (1007)
T ss_pred hcccHHHHHHHHHHhcccce-eeeeEEEEeecCceeeeeeec
Confidence 2244444443333333 566666666555566665543
No 76
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=73.91 E-value=19 Score=32.83 Aligned_cols=41 Identities=24% Similarity=0.323 Sum_probs=26.0
Q ss_pred EEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCC
Q 005694 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (682)
Q Consensus 8 ~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~ 53 (682)
++++||.|.||... +...+.-+..++++ . ..+|-||-|-++
T Consensus 1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~----~-~~~v~vi~~D~~ 42 (126)
T PF09967_consen 1 IVVAIDTSGSISDEELRRFLSEVAGILRR----F-PAEVHVIQFDAE 42 (126)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHHHh----C-CCCEEEEEECCE
Confidence 57999999999763 44444444455552 2 445777766554
No 77
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=70.47 E-value=63 Score=37.26 Aligned_cols=46 Identities=15% Similarity=0.307 Sum_probs=29.5
Q ss_pred cce-EEEEeCCCCCCCCCC-----CCCchhhHHHHHHHHhhc-CcEEEEEeecc
Q 005694 111 KKH-LCLITDALCPLKDPD-----VGTKEDQVSTIARQMVAF-GLRMKNIVVRA 157 (682)
Q Consensus 111 ~kr-I~L~Td~~~p~~~~~-----~~~~~~~~~~i~~~l~~~-~I~l~vi~i~~ 157 (682)
.|| +++|||| .|.+... ...-...++.++..+... ||+|.-|||+.
T Consensus 515 ~rKiL~ViSDG-~P~D~~TlsvN~~~~l~~hLr~vi~~~e~~~~vel~aigIg~ 567 (600)
T TIGR01651 515 QRRILMMISDG-APVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGH 567 (600)
T ss_pred cceEEEEEeCC-CcCCccccccCchhHHHHHHHHHHHHHhccCCceEEEeeccc
Confidence 455 5555666 6765321 011223578888888885 99999999954
No 78
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=69.37 E-value=96 Score=31.09 Aligned_cols=166 Identities=16% Similarity=0.201 Sum_probs=87.5
Q ss_pred EEEEEEeCCCCcCCCh------hHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCc-------cc-cccCCCcCcEEEE
Q 005694 7 ALLLLLDVSPSMHSVL------PDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN-------EL-TKEVGGYEHVKVL 72 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l------~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n-------~l-~~e~~~y~nI~v~ 72 (682)
-++.+||+.|.--..+ ..++.-+.-++.-.+-.+.+..|+||.-.++...- .+ +.|.+.-.|--.+
T Consensus 22 lL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~tr~sd~y 101 (296)
T COG5242 22 LLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESENTRNSDMY 101 (296)
T ss_pred eEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccCccchhhh
Confidence 4678899988654433 23455556666666667889999998776654210 00 0111111222222
Q ss_pred eccCCCC---HHHHHHhhcCCCC-CCCChH--------HHHHHHcCCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHH
Q 005694 73 QDIKVVD---GHLVQSLKHLPQG-TCAGDY--------MLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIA 140 (682)
Q Consensus 73 ~~l~~~~---~~~l~~L~~l~~~-~~~gD~--------~li~~~~~~kk~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~ 140 (682)
+.+..++ ..-+.+|-+.+.+ .+..|. ..+++......-+-||++||-- +- + ..+|.--+.
T Consensus 102 rrfr~vde~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~~~e~slkSriliftls-G~-d------~~~qYip~m 173 (296)
T COG5242 102 RRFRNVDETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLS-GR-D------RKDQYIPYM 173 (296)
T ss_pred hhhcccchHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhhcccccccceEEEEEec-Cc-h------hhhhhchhh
Confidence 3333333 3334444443332 111121 2333433322336789999872 10 0 112222222
Q ss_pred H---HHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhchH
Q 005694 141 R---QMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTT 193 (682)
Q Consensus 141 ~---~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~ 193 (682)
+ ..+..||.+.++.|.+ |..+|.+-++.++|.+.+.++..
T Consensus 174 nCiF~Aqk~~ipI~v~~i~g-------------~s~fl~Q~~daTgG~Yl~ve~~e 216 (296)
T COG5242 174 NCIFAAQKFGIPISVFSIFG-------------NSKFLLQCCDATGGDYLTVEDTE 216 (296)
T ss_pred hheeehhhcCCceEEEEecC-------------ccHHHHHHhhccCCeeEeecCch
Confidence 2 2457899999988832 24777777888888888888753
No 79
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=68.24 E-value=84 Score=32.47 Aligned_cols=167 Identities=15% Similarity=0.170 Sum_probs=91.4
Q ss_pred EEEEEEeCCC---CcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCcccccc-CCCcCcEEEEe---
Q 005694 7 ALLLLLDVSP---SMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKE-VGGYEHVKVLQ--- 73 (682)
Q Consensus 7 a~vf~iDv~~---sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e-~~~y~nI~v~~--- 73 (682)
-++++||.+| .|... ...+++.+.-+.--.+..+.+..|+|+..+.+..+--.-+. .+.-+|.+.+-
T Consensus 25 lL~vlId~~p~~Wg~~as~~~~~ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~n~~~~~~t~ 104 (314)
T KOG2487|consen 25 LLVVLIDANPCSWGMLASAENWETISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDRNASELDPTR 104 (314)
T ss_pred eEEEEEecCcchhhhhhhhcCceeHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCccCccccCchh
Confidence 5789999999 45432 23456666677777788899999999999887533111000 01112332222
Q ss_pred -------ccCCCCHHHHHHhhcC---CCCCCCC------hH--------HHHHHHcCCCcccceEEEEeCCCCCCCCCCC
Q 005694 74 -------DIKVVDGHLVQSLKHL---PQGTCAG------DY--------MLIKKYGETYKGKKHLCLITDALCPLKDPDV 129 (682)
Q Consensus 74 -------~l~~~~~~~l~~L~~l---~~~~~~g------D~--------~li~~~~~~kk~~krI~L~Td~~~p~~~~~~ 129 (682)
.+...|.-.++.|..+ +.....+ +. ..+++-....+.+-||++||-...-..
T Consensus 105 ~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSRilV~t~t~d~~~---- 180 (314)
T KOG2487|consen 105 LVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSRILVFTLTRDRAL---- 180 (314)
T ss_pred hhcchhhhhcccchHHHHHHHHHHhCccccccccceeeccchhhccchHhhhhhhhhhhhhhceEEEEEechHHHh----
Confidence 2222333334444443 1111111 11 122221222345789999998433210
Q ss_pred CCchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhch
Q 005694 130 GTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 192 (682)
Q Consensus 130 ~~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a 192 (682)
.+-.+-..+=..+..+|-++++.++++ ..+|.+-++.++|.+...+..
T Consensus 181 --qyi~~MNciFaAqKq~I~Idv~~l~~~-------------s~~LqQa~D~TGG~YL~v~~~ 228 (314)
T KOG2487|consen 181 --QYIPYMNCIFAAQKQNIPIDVVSLGGD-------------SGFLQQACDITGGDYLHVEKP 228 (314)
T ss_pred --hhhhHHHHHHHHHhcCceeEEEEecCC-------------chHHHHHHhhcCCeeEecCCc
Confidence 011122333455788999999998441 267777778888887777654
No 80
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=66.11 E-value=43 Score=35.04 Aligned_cols=172 Identities=13% Similarity=0.124 Sum_probs=97.1
Q ss_pred EEEEEEeCCCCcC------CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCc----cc---cccCCCc-C---cE
Q 005694 7 ALLLLLDVSPSMH------SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN----EL---TKEVGGY-E---HV 69 (682)
Q Consensus 7 a~vf~iDv~~sM~------~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n----~l---~~e~~~y-~---nI 69 (682)
.++++||++|.-- ..+..+++.+..++.--+.-+...+|+||..+..++.- +. ....++. . +-
T Consensus 3 LLvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~~~ 82 (276)
T PF03850_consen 3 LLVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSSDS 82 (276)
T ss_pred EEEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCccccccccc
Confidence 5899999998521 24677888888888888888999999999999876431 11 0000000 0 00
Q ss_pred EEEeccCCCCHHHHHHhhcCCCCC----CC---ChH--------HHHHHHcC-----CCcccceEEE-EeCCCCCCCCCC
Q 005694 70 KVLQDIKVVDGHLVQSLKHLPQGT----CA---GDY--------MLIKKYGE-----TYKGKKHLCL-ITDALCPLKDPD 128 (682)
Q Consensus 70 ~v~~~l~~~~~~~l~~L~~l~~~~----~~---gD~--------~li~~~~~-----~kk~~krI~L-~Td~~~p~~~~~ 128 (682)
--+..+...+-..++.|+++...+ .. .-. -.|++... ....+.||++ ++.......
T Consensus 83 ~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~~~--- 159 (276)
T PF03850_consen 83 NKYRQFRNVDETVLEELKKLMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDSSS--- 159 (276)
T ss_pred chhHHHHHHHHHHHHHHHHHHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCccH---
Confidence 011122223333344455432211 11 111 12344321 1345789999 554332210
Q ss_pred CCCchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehhchHHhh
Q 005694 129 VGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLR 196 (682)
Q Consensus 129 ~~~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~~a~~ll 196 (682)
-+-.+-..+=..++.+|.+++..++. ....+|.+.+.-++|.+..+.....++
T Consensus 160 ---QYi~~MN~iFaAqk~~v~IDv~~L~~------------~~s~fLqQa~d~T~G~y~~~~~~~~l~ 212 (276)
T PF03850_consen 160 ---QYIPLMNCIFAAQKQKVPIDVCKLGG------------KDSTFLQQASDITGGIYLKVSKPEGLL 212 (276)
T ss_pred ---HHHHHHHHHHHHhcCCceeEEEEecC------------CchHHHHHHHHHhCceeeccCccccHH
Confidence 11223345556788999999998843 113788888888999888776643333
No 81
>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=64.02 E-value=51 Score=36.48 Aligned_cols=44 Identities=27% Similarity=0.293 Sum_probs=31.8
Q ss_pred EEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEec
Q 005694 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFG 51 (682)
Q Consensus 8 ~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfg 51 (682)
+.|++|+|-||...++........|++.----.++=.+|+=-|-
T Consensus 102 LYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFV 145 (423)
T smart00187 102 LYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFV 145 (423)
T ss_pred eEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEee
Confidence 57999999999998877766666665543334577788875544
No 82
>PTZ00395 Sec24-related protein; Provisional
Probab=62.29 E-value=1.9e+02 Score=36.78 Aligned_cols=87 Identities=14% Similarity=0.114 Sum_probs=49.7
Q ss_pred hhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeehh------chHHhhcccccccCCcc
Q 005694 134 DQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD------STTSLRGARKTRDISPV 207 (682)
Q Consensus 134 ~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~~------~a~~ll~~~~~k~~~~~ 207 (682)
+-++.++.++...+|.+++|.+...+.+ + .-..|-.++..++|.++-.. +..++...+...-++.-
T Consensus 1131 ~FYK~LA~ECsk~qISVDLFLfSsqYvD-----V---DVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~ 1202 (1560)
T PTZ00395 1131 IFYDSLLLDLYAFNISVDIFIISSNNVR-----V---CVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSED 1202 (1560)
T ss_pred HHHHHHHHHHHhcCCceEEEEccCcccc-----c---ccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccc
Confidence 3567899999999999999987321110 0 01224445666778754322 12233333333333322
Q ss_pred eeeeeeEeecCCeEEEEEEEe
Q 005694 208 TIFRGDLELSEKMKIKVWVYK 228 (682)
Q Consensus 208 ~~~~g~L~lg~~l~I~V~~Y~ 228 (682)
..|.+.|++...=-|.|..|.
T Consensus 1203 iGyEAVMRVRCS~GLrVs~fy 1223 (1560)
T PTZ00395 1203 IAYCCELKLRYSHHMSVKKLF 1223 (1560)
T ss_pred eeeEEEEEEECCCCeEEEEEe
Confidence 479998888855555566555
No 83
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=51.74 E-value=34 Score=30.24 Aligned_cols=59 Identities=14% Similarity=0.081 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHhcccCCCCChHHHHHHHHH-HHHHhhhhcCchHHHHHHHHHHHHHhc
Q 005694 576 VDKAIEDMKNKIFGLLENSNEGINYPKAVELLVA-LRKGCILEQEPKQFNDVLEKVCKICRK 636 (682)
Q Consensus 576 ~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~cl~~-~R~~~i~~~e~~~~N~fl~~lk~~~~~ 636 (682)
=..|+.-|+.+|+ +...+. ...-.|.+.||++ ++..-+...-...|+.|++.|...-++
T Consensus 32 k~~~l~si~~lI~-~~~~~i-~~~~pQI~a~L~sal~~~~l~~~al~~W~~fi~~L~~~~l~ 91 (107)
T PF08064_consen 32 KKRALRSIEELIK-LGGSHI-SSARPQIMACLQSALEIPELREEALSCWNCFIKTLDEEDLG 91 (107)
T ss_pred HHHHHHHHHHHHH-HhHHHH-HHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHCCHHHHH
Confidence 4457888888888 666554 3456899999992 222222233348999999999875444
No 84
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=48.75 E-value=28 Score=38.75 Aligned_cols=47 Identities=26% Similarity=0.422 Sum_probs=36.9
Q ss_pred CeEEEEEEeCCCCcC------CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCC
Q 005694 5 REALLLLLDVSPSMH------SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (682)
Q Consensus 5 Kea~vf~iDv~~sM~------~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~ 53 (682)
..-+++++|.|.+|. ..+++|...+..+.. +....+|.||+.+||..
T Consensus 224 ~~~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la~--~~l~~gd~vg~~~~~~~ 276 (416)
T COG1721 224 GRTVVLVLDASRSMLFGSGVASKFEEAVRAAASLAY--AALKNGDRVGLLIFGGG 276 (416)
T ss_pred CceEEEEEeCCccccCCCCCccHHHHHHHHHHHHHH--HHHhCCCeeEEEEECCC
Confidence 456899999999998 457888777766655 33578999999999864
No 85
>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. Phylogenetic distribution suggests that copines have been lost in some eukaryotes. No functional properties have been assigned to the VWA domains present in copines. The members of this subgroup contain a functional MIDAS motif based on their preferential binding to magnesium and manganese. However, the MIDAS motif is not totally conserved, in most cases the MIDAS consists of the sequence DxTxS instead of the motif DxSxS that is found in most cases. The C2 domains present in copines mediate phospholipid binding.
Probab=48.14 E-value=2.9e+02 Score=28.57 Aligned_cols=134 Identities=13% Similarity=0.159 Sum_probs=68.9
Q ss_pred eEEEEEEeCCCCcCC-----C-----------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcE
Q 005694 6 EALLLLLDVSPSMHS-----V-----------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHV 69 (682)
Q Consensus 6 ea~vf~iDv~~sM~~-----~-----------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI 69 (682)
--+++.||.+.|=+. . .+.|+..+..+++. ....-.+-+.+||+.-+.+. ...|.
T Consensus 32 ~nl~vaIDfT~SNg~p~~~~SLHy~~~~~~N~Yq~aI~~vg~il~~---yD~D~~ip~~GFGa~~~~~~------~v~~~ 102 (254)
T cd01459 32 SNLIVAIDFTKSNGWPGEKRSLHYISPGRLNPYQKAIRIVGEVLQP---YDSDKLIPAFGFGAIVTKDQ------SVFSF 102 (254)
T ss_pred eeEEEEEEeCCCCCCCCCCCCcccCCCCCccHHHHHHHHHHHHHHh---cCCCCceeeEeecccCCCCC------ccccc
Confidence 357899999877332 1 23455555544443 77889999999999654332 11111
Q ss_pred EEEeccCCCC---HH-HHHHhhcC-CCC--CCCChH-----HHHHHHcCCC-cccce-EEEEeCCCCCCCCCCCCCchhh
Q 005694 70 KVLQDIKVVD---GH-LVQSLKHL-PQG--TCAGDY-----MLIKKYGETY-KGKKH-LCLITDALCPLKDPDVGTKEDQ 135 (682)
Q Consensus 70 ~v~~~l~~~~---~~-~l~~L~~l-~~~--~~~gD~-----~li~~~~~~k-k~~kr-I~L~Td~~~p~~~~~~~~~~~~ 135 (682)
.- .....|. .+ .++..++. +.= .....+ .+++...... ..+-. +++||||.-- +.++
T Consensus 103 f~-~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i~--------D~~~ 173 (254)
T cd01459 103 FP-GYSESPECQGFEGVLRAYREALPNVSLSGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGEIT--------DMNE 173 (254)
T ss_pred cC-CCCCCCcccCHHHHHHHHHHHhceeeecCcchHHHHHHHHHHHHHHhcCCCceEEEEEECCCCcc--------cHHH
Confidence 10 0111111 12 23333321 110 112232 2222222111 11233 6667998542 2355
Q ss_pred HHHHHHHHhhcCcEEEEEeecc
Q 005694 136 VSTIARQMVAFGLRMKNIVVRA 157 (682)
Q Consensus 136 ~~~i~~~l~~~~I~l~vi~i~~ 157 (682)
....+......-+.+.++|++.
T Consensus 174 t~~aIv~AS~~PlSIiiVGVGd 195 (254)
T cd01459 174 TIKAIVEASKYPLSIVIVGVGD 195 (254)
T ss_pred HHHHHHHHhcCCeEEEEEEeCC
Confidence 6666667788899999999964
No 86
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=48.05 E-value=1.4e+02 Score=37.25 Aligned_cols=131 Identities=18% Similarity=0.272 Sum_probs=76.3
Q ss_pred CCCCeEEEEEEeCCCCcCCC-hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCH
Q 005694 2 ARTREALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (682)
Q Consensus 2 a~~Kea~vf~iDv~~sM~~~-l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~ 80 (682)
|++...+||++|+|.||... +.-|.-.+..++.. -+.+|.|-++.|+.....-.. . -...|-+.++
T Consensus 222 At~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdt---Ls~~Dfvni~tf~~~~~~v~p------c----~~~~lvqAt~ 288 (1104)
T KOG2353|consen 222 ATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDT---LSDNDFVNILTFNSEVNPVSP------C----FNGTLVQATM 288 (1104)
T ss_pred cCCccceEEEEeccccccchhhHHHHHHHHHHHHh---cccCCeEEEEeeccccCcccc------c----ccCceeecch
Confidence 45677899999999999764 45555566666663 479999999999976422110 0 2234555666
Q ss_pred HHHHHhhcC----C-CCCC---CCh---HHHHHHHcCCCc------ccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHH
Q 005694 81 HLVQSLKHL----P-QGTC---AGD---YMLIKKYGETYK------GKKHLCLITDALCPLKDPDVGTKEDQVSTIARQM 143 (682)
Q Consensus 81 ~~l~~L~~l----~-~~~~---~gD---~~li~~~~~~kk------~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l 143 (682)
.-++.|.+. . .+.. .|+ +.++..+..... -.+-|+||||+-. +....|.+..
T Consensus 289 ~nk~~~~~~i~~l~~k~~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~-----------~~~~~If~~y 357 (1104)
T KOG2353|consen 289 RNKKVFKEAIETLDAKGIANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGVD-----------ENAKEIFEKY 357 (1104)
T ss_pred HHHHHHHHHHhhhccccccchhhhHHHHHHHHHHhccccccccccccceeeEEeecCCc-----------ccHHHHHHhh
Confidence 666666553 2 1211 122 133334332221 3677999996532 3466666666
Q ss_pred hh--cCcEEEEEeec
Q 005694 144 VA--FGLRMKNIVVR 156 (682)
Q Consensus 144 ~~--~~I~l~vi~i~ 156 (682)
+. ..|.+-.+.+|
T Consensus 358 n~~~~~Vrvftflig 372 (1104)
T KOG2353|consen 358 NWPDKKVRVFTFLIG 372 (1104)
T ss_pred ccCCCceEEEEEEec
Confidence 65 34444444553
No 87
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=44.90 E-value=71 Score=33.26 Aligned_cols=73 Identities=21% Similarity=0.204 Sum_probs=42.9
Q ss_pred EEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHHH
Q 005694 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQS 85 (682)
Q Consensus 7 a~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~~ 85 (682)
..+|+||++.. ...+..+.+.+...+.. --.+..||+|.||+.-.=.+|.. +++...+|+..=..++.+.++.
T Consensus 5 ~~vFviDvs~~-~~el~~l~~sl~~~L~~---lP~~a~VGlITfd~~V~~~~L~~--~~~~~~~vf~g~~~~~~~~~~~ 77 (267)
T cd01478 5 VFLFVVDTCMD-EEELDALKESLIMSLSL---LPPNALVGLITFGTMVQVHELGF--EECSKSYVFRGNKDYTAKQIQD 77 (267)
T ss_pred EEEEEEECccC-HHHHHHHHHHHHHHHHh---CCCCCEEEEEEECCEEEEEEcCC--CcCceeeeccCCccCCHHHHHH
Confidence 57999999865 22345455555544432 23567899999999764444421 2455566666544444444443
No 88
>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=41.81 E-value=20 Score=36.59 Aligned_cols=167 Identities=14% Similarity=0.182 Sum_probs=83.0
Q ss_pred eEEEEEEeCCCC-cC-CChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCC-----
Q 005694 6 EALLLLLDVSPS-MH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV----- 78 (682)
Q Consensus 6 ea~vf~iDv~~s-M~-~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~----- 78 (682)
-+.+|+||+|.. .. ..++.+.+.+...+.. +-..++..||+|.|++.-+=-.+... .......+..+++.+
T Consensus 4 p~y~FvID~s~~av~~g~~~~~~~sl~~~l~~-l~~~~~~~vgiitfd~~V~~y~l~~~-~~~~~~~v~~dl~~~~~p~~ 81 (243)
T PF04811_consen 4 PVYVFVIDVSYEAVQSGLLQSLIESLKSALDS-LPGDERTRVGIITFDSSVHFYNLSSS-LSQPQMIVVSDLDDPFIPLP 81 (243)
T ss_dssp -EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCT-SSTSTT-EEEEEEESSSEEEEETTTT-SSSTEEEEEHHTTSHHSSTS
T ss_pred CEEEEEEECchhhhhccHHHHHHHHHHHHHHh-ccCCCCcEEEEEEeCCEEEEEECCCC-cCCCcccchHHHhhcccCCc
Confidence 368999999954 11 2345566777766642 22458999999999976432222111 122233344443321
Q ss_pred ---------CHHH----HHHhhcCCCCC--C-----CChH-----HHHHHHcCCCcccceEEEEeCCCCCCCCC-C----
Q 005694 79 ---------DGHL----VQSLKHLPQGT--C-----AGDY-----MLIKKYGETYKGKKHLCLITDALCPLKDP-D---- 128 (682)
Q Consensus 79 ---------~~~~----l~~L~~l~~~~--~-----~gD~-----~li~~~~~~kk~~krI~L~Td~~~p~~~~-~---- 128 (682)
..+. |+.|..+...+ . -|.. .++.... ..=||++|+.+-.-. ++ .
T Consensus 82 ~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~----~gGkI~~F~s~~pt~-G~Gg~l~~ 156 (243)
T PF04811_consen 82 DGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRN----TGGKILVFTSGPPTY-GPGGSLKK 156 (243)
T ss_dssp SSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHT----S-EEEEEEESS---S-SSTTSS-S
T ss_pred ccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhccc----cCCEEEEEeccCCCC-CCCceecc
Confidence 1122 33333321111 1 1111 2233211 244788887653211 11 0
Q ss_pred -C-----C----------CchhhHHHHHHHHhhcCcEEEEEeeccCCCCCCCcchhchhhHHHHHHhhhcCCeeeeh
Q 005694 129 -V-----G----------TKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 189 (682)
Q Consensus 129 -~-----~----------~~~~~~~~i~~~l~~~~I~l~vi~i~~~~~~~~~~~~~~~ne~~l~~~~~~~~g~~~~~ 189 (682)
+ + ...+-++.++..+...||.++++....++ . +-..+..++..++|.++-.
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~-----~-----~l~tl~~l~~~TGG~l~~y 223 (243)
T PF04811_consen 157 REDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDY-----V-----DLATLGPLARYTGGSLYYY 223 (243)
T ss_dssp BTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS------------SHHHHTHHHHCTT-EEEEE
T ss_pred cccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCC-----C-----CcHhHHHHHHhCceeEEEe
Confidence 0 0 01124789999999999999999873211 1 1244666788888886543
No 89
>smart00802 UME Domain in UVSB PI-3 kinase, MEI-41 and ESR-1. Characteristic domain in UVSP PI-3 kinase, MEI-41 and ESR-1. Found in nucleolar proteins. Associated with FAT, FATC, PI3_PI4_kinase modules.
Probab=36.01 E-value=43 Score=29.74 Aligned_cols=56 Identities=11% Similarity=0.090 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhcccCCCCChHHHHHHHHH-HHHHhhhhcCchHHHHHHHHHHHHHh
Q 005694 578 KAIEDMKNKIFGLLENSNEGINYPKAVELLVA-LRKGCILEQEPKQFNDVLEKVCKICR 635 (682)
Q Consensus 578 ~a~~qm~~~I~~lv~~s~~~~~y~ka~~cl~~-~R~~~i~~~e~~~~N~fl~~lk~~~~ 635 (682)
.|+.-|+.+|+ +...+. ...-+|...||++ |+..-....-...|+.|++.|...-+
T Consensus 34 ~~i~ai~~lI~-~~g~~i-~~a~pQI~acL~saL~~~eL~~~al~~W~~~i~~L~~~~l 90 (107)
T smart00802 34 RALRSIGFLIK-LMGKHI-SSALPQIMACLQSALEIPELRSLALRCWHVLIKTLKEEEL 90 (107)
T ss_pred HHHHHHHHHHH-HHHHHH-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhCCHHHH
Confidence 46666666666 454443 2446899999983 33333333334789999999987543
No 90
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=32.46 E-value=64 Score=28.38 Aligned_cols=61 Identities=20% Similarity=0.316 Sum_probs=32.1
Q ss_pred HHHHHHhcccCCCCChHHHHHHHHHHHHH-------------hhhhcCchHHHHHHHHHHHHHhcCCh-------hhHHH
Q 005694 585 NKIFGLLENSNEGINYPKAVELLVALRKG-------------CILEQEPKQFNDVLEKVCKICRKRNF-------STFFD 644 (682)
Q Consensus 585 ~~I~~lv~~s~~~~~y~ka~~cl~~~R~~-------------~i~~~e~~~~N~fl~~lk~~~~~~~~-------~~fw~ 644 (682)
..|+.+|.+.+....+..|++||..|.-- |+ ++-..||++.-.|=..+...+. ..||.
T Consensus 3 k~i~~~l~ey~~~~D~~ea~~~l~~L~~~~~~~~vv~~~i~~~l--e~~~~~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~ 80 (113)
T smart00544 3 KKIFLIIEEYLSSGDTDEAVHCLLELKLPEQHHEVVKVLLTCAL--EEKRTYREMYSVLLSRLCQANVISTKQFEKGFWR 80 (113)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHhCCCcchHHHHHHHHHHHH--cCCccHHHHHHHHHHHHHHcCCcCHHHHHHHHHH
Confidence 34455555555555667777777654321 33 2334677776665544442222 45666
Q ss_pred HHH
Q 005694 645 FLM 647 (682)
Q Consensus 645 ~i~ 647 (682)
.+.
T Consensus 81 ~~~ 83 (113)
T smart00544 81 LLE 83 (113)
T ss_pred HHh
Confidence 544
No 91
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=30.19 E-value=83 Score=25.80 Aligned_cols=35 Identities=14% Similarity=0.170 Sum_probs=28.1
Q ss_pred cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEE
Q 005694 111 KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 153 (682)
Q Consensus 111 ~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi 153 (682)
.++|++++|+|.+- ......+.+.|...|+.+.++
T Consensus 43 ~~~vii~~D~D~aG--------~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAG--------QKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHH--------HHHHHHHHHHHHHCCCeEEEE
Confidence 58999999998762 345778889999999988765
No 92
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=28.12 E-value=68 Score=34.71 Aligned_cols=46 Identities=37% Similarity=0.376 Sum_probs=34.0
Q ss_pred CeEEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccC
Q 005694 5 REALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETE 56 (682)
Q Consensus 5 Kea~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~ 56 (682)
|-=+|+++|||.||...-.-.+.++.-+.++ . +.+=+.+|||.-|+
T Consensus 218 ~~~lvvL~DVSGSm~~ys~~~L~l~hAl~q~----~--~R~~~F~F~TRLt~ 263 (395)
T COG3552 218 KPPLVVLCDVSGSMSGYSRIFLHLLHALRQQ----R--SRVHVFLFGTRLTR 263 (395)
T ss_pred CCCeEEEEecccchhhhHHHHHHHHHHHHhc----c--cceeEEEeechHHH
Confidence 4558999999999987656667777777773 2 33339999998654
No 93
>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]
Probab=27.99 E-value=2.1e+02 Score=30.93 Aligned_cols=69 Identities=17% Similarity=0.201 Sum_probs=44.8
Q ss_pred hHHHHHHHHhCCCCchhHHHH------HHHHHHHHHHHhcccCCCCChHHHHHHHHHHHHHhhhhcCchHHHHHHHHHHH
Q 005694 559 PIQDFEAMMSRRDCPDWVDKA------IEDMKNKIFGLLENSNEGINYPKAVELLVALRKGCILEQEPKQFNDVLEKVCK 632 (682)
Q Consensus 559 pv~dF~~~l~~~~~~~~~~~a------~~qm~~~I~~lv~~s~~~~~y~ka~~cl~~~R~~~i~~~e~~~~N~fl~~lk~ 632 (682)
+..||+++|...-+.....+| +++|...+.+|+.-+ |+..|.-|++.|..+=+.|+ |..=|+.++.
T Consensus 125 A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~-~~GD~~~ai~~i~~llEi~~-------Wda~l~~~Ra 196 (504)
T KOG0624|consen 125 AEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSAS-GSGDCQNAIEMITHLLEIQP-------WDASLRQARA 196 (504)
T ss_pred HHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHh-cCCchhhHHHHHHHHHhcCc-------chhHHHHHHH
Confidence 567999999765433344444 567777888888654 55668888888776655553 5555555555
Q ss_pred HHh
Q 005694 633 ICR 635 (682)
Q Consensus 633 ~~~ 635 (682)
+|.
T Consensus 197 kc~ 199 (504)
T KOG0624|consen 197 KCY 199 (504)
T ss_pred HHH
Confidence 544
No 94
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.44 E-value=3.7e+02 Score=28.34 Aligned_cols=124 Identities=17% Similarity=0.263 Sum_probs=66.6
Q ss_pred EEEEEEeCCCCcCCC------hhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCC-
Q 005694 7 ALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD- 79 (682)
Q Consensus 7 a~vf~iDv~~sM~~~------l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~- 79 (682)
.++++||||.+|-+. ...+.+++..++-.-.-.+|-..+|+|.....-. +-+.+++
T Consensus 89 hl~l~lD~Seam~e~Df~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a-----------------~~~s~~~g 151 (421)
T COG5151 89 HLHLILDVSEAMDESDFLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCA-----------------KYTSSMDG 151 (421)
T ss_pred eeEEEEEhhhhhhhhhccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHH-----------------HHhhhcCC
Confidence 578999999999764 2334555555544333367888889888763210 0111111
Q ss_pred --HHHHHHhhcCCCCCCCChHH------HHHHHcCCC--cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcE
Q 005694 80 --GHLVQSLKHLPQGTCAGDYM------LIKKYGETY--KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 149 (682)
Q Consensus 80 --~~~l~~L~~l~~~~~~gD~~------li~~~~~~k--k~~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~ 149 (682)
-..|.+|.++. .-.|++- |.+-...+. -..|-|.+|---.+--+ ..++-..++.|...+|+
T Consensus 152 npq~hi~~lkS~r--d~~gnfSLqNaLEmar~~l~~~~~H~trEvLiifgS~st~D-------Pgdi~~tid~Lv~~~Ir 222 (421)
T COG5151 152 NPQAHIGQLKSKR--DCSGNFSLQNALEMARIELMKNTMHGTREVLIIFGSTSTRD-------PGDIAETIDKLVAYNIR 222 (421)
T ss_pred CHHHHHHHhhccc--ccCCChhHHhHHHHhhhhhcccccccceEEEEEEeecccCC-------CccHHHHHHHHHhhceE
Confidence 12455555543 1234431 111111111 22455555532222111 13577788899999999
Q ss_pred EEEEeec
Q 005694 150 MKNIVVR 156 (682)
Q Consensus 150 l~vi~i~ 156 (682)
+.++|+.
T Consensus 223 V~~igL~ 229 (421)
T COG5151 223 VHFIGLC 229 (421)
T ss_pred EEEEeeh
Confidence 9999984
No 95
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=26.25 E-value=43 Score=27.69 Aligned_cols=35 Identities=20% Similarity=0.384 Sum_probs=19.9
Q ss_pred cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEE
Q 005694 111 KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 153 (682)
Q Consensus 111 ~krI~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi 153 (682)
.++|+|++|+|.| ...-...+.+.|...|+++..+
T Consensus 46 ~~~Vii~~D~D~~--------G~~~a~~i~~~l~~~gi~v~~v 80 (81)
T PF13662_consen 46 VKEVIIAFDNDKA--------GEKAAQKIAKKLLPLGIRVTRV 80 (81)
T ss_dssp -SEEEEEEESSHH--------HHHHHHHHHHHHG---------
T ss_pred CceEEEEeCcCHH--------HHHHHHHHHHHHHhhccccccC
Confidence 6899999999886 2345677778888888887654
No 96
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=25.11 E-value=6.2e+02 Score=26.59 Aligned_cols=144 Identities=16% Similarity=0.305 Sum_probs=83.8
Q ss_pred EEEEEeCCCCcCCC-------hhHHHH-HHHHHHHHhHhcCCccEEEEEEecCCccC----cccccc-----CCCcCcEE
Q 005694 8 LLLLLDVSPSMHSV-------LPDVEK-LCSRLIQKKLIYGKNHEVGVILFGTEETE----NELTKE-----VGGYEHVK 70 (682)
Q Consensus 8 ~vf~iDv~~sM~~~-------l~~a~~-~~~~~~~~ki~~~~~D~vgvvlfgt~~t~----n~l~~e-----~~~y~nI~ 70 (682)
++++|.+|.-|-+- ++.+++ ....++++=--..-++.|.+|||..=.-+ .++..+ ..+|-.|
T Consensus 73 ~~~~IQmS~EMW~fd~~Ge~~fek~vn~Fl~~lf~kWk~~~~~H~vTIVlfsRv~~~~~~~~~l~~~~~~~~y~DfYrV- 151 (281)
T PF12257_consen 73 VYIFIQMSSEMWDFDEDGEIYFEKAVNGFLPELFKKWKEIGTHHLVTIVLFSRVDYDDISFRDLPPGERGKNYKDFYRV- 151 (281)
T ss_pred eeehHhhhHHHhCcCccHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEEEEEEccccchhhcCCccccCCCCCcceEE-
Confidence 56778888888652 344443 44555554444568899999999853221 112111 1245455
Q ss_pred EEeccCCCCHHHH-HHhhc--------C--C-C----C----------CCCChH-----HHHHHHcC----C--Ccccce
Q 005694 71 VLQDIKVVDGHLV-QSLKH--------L--P-Q----G----------TCAGDY-----MLIKKYGE----T--YKGKKH 113 (682)
Q Consensus 71 v~~~l~~~~~~~l-~~L~~--------l--~-~----~----------~~~gD~-----~li~~~~~----~--kk~~kr 113 (682)
|.+.....+|..+ ..|+. + . . + ...|+. +..+.+.. + ......
T Consensus 152 Vv~~~~~~~W~~il~~Lk~eF~~f~rdi~~~~~~~~~~~~~i~g~~s~A~~gNiLEaINlaln~~~~~~idRdl~rTG~~ 231 (281)
T PF12257_consen 152 VVDEENSQDWTSILVTLKKEFNQFQRDILLYHQSDEDGTTRIKGRFSPAIKGNILEAINLALNQFDKHYIDRDLRRTGQS 231 (281)
T ss_pred EEeccccccHHHHHHHHHHHHHHHHHHhhcccccccCCCccccceEeecccccHHHHHHHHhhhcccccccCcccccCce
Confidence 4455555677543 44432 1 0 0 0 012333 22222221 1 134677
Q ss_pred EEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhcCcEEEEEeecc
Q 005694 114 LCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRA 157 (682)
Q Consensus 114 I~L~Td~~~p~~~~~~~~~~~~~~~i~~~l~~~~I~l~vi~i~~ 157 (682)
|++||-|.+=++- +++-+...-+.|-+.||.+++|-++.
T Consensus 232 iivITpG~Gvf~V-----d~~ll~~T~~rl~~~gi~~DlIcL~~ 270 (281)
T PF12257_consen 232 IIVITPGTGVFEV-----DYDLLRLTTQRLLDNGIGIDLICLSK 270 (281)
T ss_pred EEEEcCCCceEEE-----CHHHHHHHHHHHHhcCccEEEEEcCC
Confidence 9999999987763 55667777788999999999998865
No 97
>COG4902 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.66 E-value=2.4e+02 Score=26.42 Aligned_cols=44 Identities=16% Similarity=0.350 Sum_probs=31.5
Q ss_pred CHHHHHHHHHHHHHcCCCCCCCCccCCCCCCCCchhHHHHHHHHHh
Q 005694 417 NEQQQEAADNLVKMLDLAPSGKGEILQPELTPNPALERFYHHLELK 462 (682)
Q Consensus 417 ~~eq~~a~~~lId~m~l~~~~~~e~~~p~~~~NP~lqr~~~~i~~r 462 (682)
..+.++|+..|+....+.+.. ..-....+.||.+|.+|.-+..+
T Consensus 87 EQ~HmDAVk~LlekYnv~dP~--~~~siGvF~NpelqeLYn~Lve~ 130 (189)
T COG4902 87 EQEHMDAVKSLLEKYNVQDPA--STTSIGVFTNPELQELYNQLVEQ 130 (189)
T ss_pred HHHHHHHHHHHHHHcCCCCCC--ccCcceeecCHHHHHHHHHHHHc
Confidence 345689999999999995321 11233567899999999776554
No 98
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=22.68 E-value=1.8e+02 Score=31.67 Aligned_cols=49 Identities=22% Similarity=0.284 Sum_probs=27.2
Q ss_pred CCeEEEEE-EeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCC
Q 005694 4 TREALLLL-LDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (682)
Q Consensus 4 ~Kea~vf~-iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~ 53 (682)
+..|+||| +|||.||.+.-.+..+-.-.++ .+.+.++.+.|-||+..-.
T Consensus 244 es~AVmfclMDvSGSM~~~~KdlAkrFF~lL-~~FL~~kYenveivfIrHh 293 (423)
T COG2718 244 ESNAVMFCLMDVSGSMDQSEKDLAKRFFFLL-YLFLRRKYENVEIVFIRHH 293 (423)
T ss_pred ccceEEEEEEecCCCcchHHHHHHHHHHHHH-HHHHhcccceeEEEEEeec
Confidence 33455555 6999999875333222111111 1223577788888777654
No 99
>PLN00162 transport protein sec23; Provisional
Probab=22.47 E-value=2.4e+02 Score=34.14 Aligned_cols=75 Identities=20% Similarity=0.205 Sum_probs=44.1
Q ss_pred eEEEEEEeCCCCcCCChhHHHHHHHHHHHHhHhcCCccEEEEEEecCCccCccccccCCCcCcEEEEeccCCCCHHHHHH
Q 005694 6 EALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQS 85 (682)
Q Consensus 6 ea~vf~iDv~~sM~~~l~~a~~~~~~~~~~ki~~~~~D~vgvvlfgt~~t~n~l~~e~~~y~nI~v~~~l~~~~~~~l~~ 85 (682)
-+.+|+||++.. ...++.....+...+.. --++..||+|.||+.-.=.++.. ++....+|+..-...+.+.+..
T Consensus 125 p~fvFvID~s~~-~~~l~~lk~sl~~~L~~---LP~~a~VGlITF~s~V~~~~L~~--~~~~~~~Vf~g~k~~t~~~l~~ 198 (761)
T PLN00162 125 PVFVFVVDTCMI-EEELGALKSALLQAIAL---LPENALVGLITFGTHVHVHELGF--SECSKSYVFRGNKEVSKDQILE 198 (761)
T ss_pred cEEEEEEecchh-HHHHHHHHHHHHHHHHh---CCCCCEEEEEEECCEEEEEEcCC--CCCcceEEecCCccCCHHHHHH
Confidence 478999999843 22234444444443331 23678999999999765444421 2456677776544455544444
Q ss_pred h
Q 005694 86 L 86 (682)
Q Consensus 86 L 86 (682)
+
T Consensus 199 ~ 199 (761)
T PLN00162 199 Q 199 (761)
T ss_pred H
Confidence 3
No 100
>PF07744 SPOC: SPOC domain; InterPro: IPR012921 Spen (split end) proteins regulate the expression of key transcriptional effectors in diverse signalling pathways. They are large proteins characterised by N-terminal RNA-binding motifs and a highly conserved C-terminal SPOC (Spen paralog and ortholog C-terminal) domain. The function of the SPOC domain is unknown, but the SPOC domain of the SHARP Spen protein has been implicated in the interaction of SHARP with the SMRT/NcoR corepressor, where SHARP plays an essential role in the repressor complex []. The SPOC domain is folded into a single compact domain consisting of a beta-barrel with seven strands framed by six alpha helices. A number of deep grooves and clefts in the surface, plus two nonpolar loops, render the SPOC domain well suited to protein-protein interactions; most of the conserved residues occur on the protein surface rather than in the core. Other proteins containing a SPOC domain include drosophila Split ends, which promotes sclerite development in the head and restricts it in the thorax, and mouse MINT (homologue of SHARP), which is involved in skeletal and neuronal development via its repression of Msx2.; PDB: 1OW1_A.
Probab=20.03 E-value=1.5e+02 Score=26.16 Aligned_cols=41 Identities=17% Similarity=0.112 Sum_probs=26.5
Q ss_pred ChhhHHHHHHHHHHHHhcCceEEEEEEecCCCCceEEEEeec
Q 005694 335 NSRATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVGVLTP 376 (682)
Q Consensus 335 ~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~l~~L~P 376 (682)
.......|..|++-|.+++++||+..-...... .....|+|
T Consensus 79 ~~~~~~~~~~l~~Yl~~k~r~GVv~~~~~~~~~-~~dlYl~P 119 (119)
T PF07744_consen 79 SNSDRRPFQKLVDYLKSKQRAGVVSVGNSPSGQ-VKDLYLFP 119 (119)
T ss_dssp HHHHHHHHHHTHHHHHHHTEEEEEEE--TT--S--EEEEEE-
T ss_pred CHHHHHHHHHHHHHHhhCCEEEEEecCCCCCCc-eeEEEEcC
Confidence 445677899999999999999998766543322 33335555
Done!