Query 006065
Match_columns 662
No_of_seqs 247 out of 1501
Neff 7.9
Searched_HMMs 46136
Date Thu Mar 28 17:51:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006065.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006065hhsearch_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 1.3E-81 2.8E-86 707.1 47.0 473 4-521 9-516 (584)
2 KOG2326 DNA-binding subunit of 100.0 1.2E-72 2.6E-77 594.5 41.0 611 4-640 3-632 (669)
3 cd00873 KU80 Ku-core domain, K 100.0 3.6E-57 7.7E-62 473.1 31.1 296 217-517 2-300 (300)
4 cd00788 KU70 Ku-core domain, K 100.0 1.3E-50 2.9E-55 421.0 29.7 276 216-511 1-287 (287)
5 cd00594 KU Ku-core domain; inc 100.0 2E-50 4.3E-55 418.6 29.4 272 216-511 1-272 (272)
6 KOG2327 DNA-binding subunit of 100.0 6.4E-47 1.4E-51 403.5 32.5 476 4-518 17-529 (602)
7 cd00789 KU_like Ku-core domain 100.0 6.3E-47 1.4E-51 382.5 26.7 252 216-512 1-253 (256)
8 TIGR02772 Ku_bact Ku protein, 100.0 7E-46 1.5E-50 375.4 25.5 253 215-512 1-255 (258)
9 PF02735 Ku: Ku70/Ku80 beta-ba 100.0 4.4E-41 9.6E-46 332.4 18.5 199 223-433 1-200 (200)
10 COG1273 Ku-homolog [Replicatio 100.0 1.1E-34 2.4E-39 281.7 18.8 260 215-521 3-266 (278)
11 smart00559 Ku78 Ku70 and Ku80 100.0 1.6E-34 3.6E-39 267.8 13.5 136 279-417 2-138 (140)
12 PF03731 Ku_N: Ku70/Ku80 N-ter 100.0 1.3E-27 2.8E-32 240.8 18.6 201 7-217 1-223 (224)
13 PF08785 Ku_PK_bind: Ku C term 99.9 4.8E-27 1E-31 211.4 6.0 89 564-655 1-97 (120)
14 cd01458 vWA_ku Ku70/Ku80 N-ter 99.9 1.6E-24 3.4E-29 217.4 16.5 153 5-166 1-172 (218)
15 cd01453 vWA_transcription_fact 99.4 7.9E-12 1.7E-16 121.7 17.2 165 7-209 5-176 (183)
16 cd01452 VWA_26S_proteasome_sub 99.2 3.6E-10 7.7E-15 109.4 17.8 153 5-192 3-162 (187)
17 PRK13685 hypothetical protein; 99.2 5.6E-10 1.2E-14 118.8 19.3 178 6-204 89-279 (326)
18 cd01451 vWA_Magnesium_chelatas 99.2 9.5E-10 2.1E-14 106.7 18.5 163 7-201 2-167 (178)
19 cd01465 vWA_subgroup VWA subgr 99.2 3.3E-09 7.2E-14 101.7 19.6 161 8-204 3-166 (170)
20 cd01480 vWA_collagen_alpha_1-V 99.1 2.2E-09 4.7E-14 105.0 17.5 154 7-195 4-167 (186)
21 cd01467 vWA_BatA_type VWA BatA 99.1 3.5E-09 7.6E-14 102.7 18.2 164 7-202 4-178 (180)
22 cd01472 vWA_collagen von Wille 99.1 3.4E-09 7.3E-14 101.3 16.2 151 8-195 3-157 (164)
23 cd01474 vWA_ATR ATR (Anthrax T 99.1 6.8E-09 1.5E-13 101.4 17.8 155 5-195 4-161 (185)
24 cd01470 vWA_complement_factors 99.0 1.1E-08 2.5E-13 100.9 17.9 167 8-204 3-193 (198)
25 TIGR03436 acidobact_VWFA VWFA- 99.0 7.9E-09 1.7E-13 108.7 17.4 168 6-198 54-238 (296)
26 PRK13406 bchD magnesium chelat 99.0 1.3E-08 2.9E-13 115.2 19.2 165 6-201 402-570 (584)
27 cd01456 vWA_ywmD_type VWA ywmD 99.0 1.2E-08 2.7E-13 101.3 16.8 162 6-201 21-203 (206)
28 cd01482 vWA_collagen_alphaI-XI 99.0 1.5E-08 3.2E-13 97.0 16.1 147 8-191 3-153 (164)
29 PF13519 VWA_2: von Willebrand 99.0 4E-09 8.8E-14 100.6 11.1 147 8-198 2-158 (172)
30 cd01473 vWA_CTRP CTRP for CS 99.0 1.2E-08 2.5E-13 100.3 14.5 138 8-166 3-149 (192)
31 cd01471 vWA_micronemal_protein 99.0 1.8E-08 3.9E-13 98.4 15.8 148 8-189 3-159 (186)
32 cd01469 vWA_integrins_alpha_su 98.9 3.9E-08 8.5E-13 95.3 17.4 164 8-201 3-171 (177)
33 cd01450 vWFA_subfamily_ECM Von 98.9 3.2E-08 7E-13 93.4 16.1 149 8-191 3-155 (161)
34 cd01476 VWA_integrin_invertebr 98.9 2.4E-08 5.3E-13 95.1 15.1 152 8-191 3-157 (163)
35 PF03730 Ku_C: Ku70/Ku80 C-ter 98.9 4.4E-10 9.6E-15 97.4 2.5 65 450-516 4-68 (96)
36 COG1240 ChlD Mg-chelatase subu 98.9 6.5E-08 1.4E-12 96.0 17.7 167 6-202 79-248 (261)
37 cd01463 vWA_VGCC_like VWA Volt 98.9 5.6E-08 1.2E-12 95.3 17.4 167 5-200 13-188 (190)
38 cd01461 vWA_interalpha_trypsin 98.9 7.9E-08 1.7E-12 92.1 17.6 162 7-206 4-167 (171)
39 cd01475 vWA_Matrilin VWA_Matri 98.9 8.9E-08 1.9E-12 96.5 17.3 157 7-200 4-168 (224)
40 cd01455 vWA_F11C1-5a_type Von 98.9 5.8E-08 1.3E-12 93.6 14.9 158 8-204 3-178 (191)
41 TIGR02031 BchD-ChlD magnesium 98.9 8.6E-08 1.9E-12 109.5 18.8 164 8-201 410-583 (589)
42 TIGR00868 hCaCC calcium-activa 98.8 1.1E-07 2.3E-12 110.8 18.9 152 7-200 306-462 (863)
43 cd01466 vWA_C3HC4_type VWA C3H 98.8 8.7E-08 1.9E-12 90.8 14.6 147 8-198 3-154 (155)
44 cd01454 vWA_norD_type norD typ 98.8 2.2E-07 4.8E-12 89.7 17.4 144 7-166 2-152 (174)
45 cd01477 vWA_F09G8-8_type VWA F 98.8 2E-07 4.2E-12 91.6 16.1 137 8-166 22-171 (193)
46 TIGR02442 Cob-chelat-sub cobal 98.8 2.8E-07 6E-12 106.6 19.9 165 6-198 466-632 (633)
47 PTZ00441 sporozoite surface pr 98.7 4.8E-07 1E-11 100.1 18.6 138 5-166 42-188 (576)
48 smart00327 VWA von Willebrand 98.7 5.8E-07 1.3E-11 86.0 16.8 156 7-196 3-163 (177)
49 cd00198 vWFA Von Willebrand fa 98.7 4.7E-07 1E-11 84.5 15.2 150 7-191 2-155 (161)
50 cd01460 vWA_midasin VWA_Midasi 98.7 4.3E-07 9.3E-12 92.8 15.8 136 5-166 60-204 (266)
51 cd01464 vWA_subfamily VWA subf 98.7 4.5E-07 9.7E-12 87.8 14.6 149 5-190 3-160 (176)
52 PF13768 VWA_3: von Willebrand 98.6 8.7E-07 1.9E-11 83.7 15.5 150 8-195 3-153 (155)
53 PF00092 VWA: von Willebrand f 98.6 1.1E-06 2.5E-11 84.3 13.7 160 8-201 2-168 (178)
54 cd01481 vWA_collagen_alpha3-VI 98.5 2E-06 4.3E-11 82.4 14.6 133 8-165 3-142 (165)
55 cd01462 VWA_YIEM_type VWA YIEM 98.5 8.3E-06 1.8E-10 76.7 17.0 132 7-166 2-134 (152)
56 TIGR03788 marine_srt_targ mari 98.4 1E-05 2.2E-10 93.4 18.8 154 6-201 272-431 (596)
57 PF04056 Ssl1: Ssl1-like; Int 98.1 5E-05 1.1E-09 73.8 14.2 152 11-199 1-160 (193)
58 KOG2884 26S proteasome regulat 97.8 0.00086 1.9E-08 64.7 16.0 138 5-166 3-146 (259)
59 cd01457 vWA_ORF176_type VWA OR 97.7 0.001 2.2E-08 65.6 15.1 136 7-166 4-151 (199)
60 COG5148 RPN10 26S proteasome r 97.5 0.0056 1.2E-07 57.7 15.1 135 5-166 3-146 (243)
61 PRK10997 yieM hypothetical pro 97.1 0.014 3.1E-07 64.6 15.6 132 4-166 322-457 (487)
62 KOG2807 RNA polymerase II tran 96.8 0.028 6E-07 57.6 13.9 158 7-201 62-225 (378)
63 COG4867 Uncharacterized protei 96.8 0.034 7.4E-07 58.9 14.7 152 4-196 462-631 (652)
64 COG4245 TerY Uncharacterized p 96.6 0.026 5.7E-07 53.7 11.6 104 5-131 3-119 (207)
65 PF11265 Med25_VWA: Mediator c 96.6 0.052 1.1E-06 54.0 14.1 148 6-164 14-185 (226)
66 PF05762 VWA_CoxE: VWA domain 96.4 0.031 6.7E-07 56.2 11.6 126 7-163 59-186 (222)
67 COG2425 Uncharacterized protei 96.4 0.049 1.1E-06 59.4 13.4 129 7-166 274-406 (437)
68 cd01479 Sec24-like Sec24-like: 96.2 0.25 5.5E-06 50.4 16.7 172 7-197 5-217 (244)
69 TIGR00627 tfb4 transcription f 95.7 0.21 4.5E-06 51.7 13.5 183 6-205 3-214 (279)
70 PF10138 vWA-TerF-like: vWA fo 95.7 0.6 1.3E-05 45.7 15.9 133 6-166 2-143 (200)
71 cd01468 trunk_domain trunk dom 95.6 0.75 1.6E-05 46.7 17.2 175 7-199 5-222 (239)
72 PF04811 Sec23_trunk: Sec23/Se 95.1 0.21 4.5E-06 50.9 11.4 175 6-197 4-222 (243)
73 COG4548 NorD Nitric oxide redu 93.9 0.22 4.8E-06 54.7 8.5 152 6-166 447-600 (637)
74 COG5242 TFB4 RNA polymerase II 93.5 1.2 2.5E-05 43.7 11.8 173 7-202 22-216 (296)
75 cd01478 Sec23-like Sec23-like: 93.2 3.1 6.7E-05 43.0 15.4 88 97-198 142-253 (267)
76 PF12257 DUF3608: Protein of u 93.0 0.98 2.1E-05 46.6 11.1 153 8-166 73-270 (281)
77 PF03850 Tfb4: Transcription f 92.8 1 2.2E-05 46.7 11.2 181 7-205 3-212 (276)
78 TIGR01651 CobT cobaltochelatas 92.8 1.5 3.2E-05 49.6 13.0 150 6-166 393-567 (600)
79 KOG2487 RNA polymerase II tran 92.7 1.7 3.7E-05 43.9 11.9 175 7-202 25-229 (314)
80 PTZ00395 Sec24-related protein 92.4 4.6 9.9E-05 49.7 16.9 217 6-237 953-1223(1560)
81 PF11775 CobT_C: Cobalamin bio 92.3 1.7 3.6E-05 43.1 11.2 154 6-166 13-187 (219)
82 PLN00162 transport protein sec 92.1 3.2 6.9E-05 49.5 15.5 128 97-238 263-421 (761)
83 KOG2326 DNA-binding subunit of 91.8 0.0032 6.9E-08 69.2 -9.0 133 281-415 325-468 (669)
84 KOG1984 Vesicle coat complex C 91.7 5.3 0.00012 46.7 15.8 215 6-238 418-679 (1007)
85 smart00187 INB Integrin beta s 90.2 5 0.00011 43.8 13.3 149 8-160 102-294 (423)
86 PF09967 DUF2201: VWA-like dom 89.6 2.5 5.4E-05 38.4 9.1 41 8-53 1-42 (126)
87 KOG2353 L-type voltage-depende 89.6 3.9 8.5E-05 50.0 13.2 140 2-166 222-373 (1104)
88 cd01459 vWA_copine_like VWA Co 88.5 12 0.00026 38.4 14.1 139 6-166 32-195 (254)
89 COG5151 SSL1 RNA polymerase II 87.1 4.7 0.0001 41.4 9.8 155 7-198 89-253 (421)
90 COG2718 Uncharacterized conser 84.6 11 0.00023 40.4 11.4 102 5-135 245-351 (423)
91 KOG1986 Vesicle coat complex C 84.6 45 0.00097 38.5 16.8 169 8-196 124-359 (745)
92 KOG3768 DEAD box RNA helicase 80.2 11 0.00023 42.4 9.7 111 7-131 3-134 (888)
93 TIGR02877 spore_yhbH sporulati 80.2 16 0.00034 39.3 10.8 99 6-134 203-306 (371)
94 PF04285 DUF444: Protein of un 80.2 13 0.00029 40.7 10.6 102 7-134 248-350 (421)
95 PF07002 Copine: Copine; Inte 80.1 46 0.00099 31.1 12.8 128 20-165 11-146 (146)
96 PRK05325 hypothetical protein; 77.4 22 0.00048 38.8 11.2 99 6-134 223-326 (401)
97 COG3552 CoxE Protein containin 61.6 55 0.0012 35.1 9.6 46 5-56 218-263 (395)
98 PF00362 Integrin_beta: Integr 61.1 27 0.00059 38.6 7.8 149 8-160 105-297 (426)
99 COG1721 Uncharacterized conser 59.4 16 0.00034 40.4 5.7 47 5-53 224-276 (416)
100 PF06707 DUF1194: Protein of u 58.3 2E+02 0.0043 28.5 13.8 140 6-166 4-156 (205)
101 COG5028 Vesicle coat complex C 56.6 1.6E+02 0.0034 34.7 12.7 150 7-165 278-461 (861)
102 KOG1985 Vesicle coat complex C 51.3 3E+02 0.0065 32.8 13.9 151 7-166 296-486 (887)
103 PF11443 DUF2828: Domain of un 46.6 3E+02 0.0064 31.5 12.9 134 6-159 341-477 (534)
104 COG2304 Uncharacterized protei 44.7 3.3E+02 0.0071 29.3 13.1 138 5-166 37-177 (399)
105 PF08064 UME: UME (NUC010) dom 40.6 47 0.001 29.1 4.5 68 571-640 15-86 (107)
106 COG5047 SEC23 Vesicle coat com 38.5 1.8E+02 0.0038 33.2 9.2 58 74-134 227-292 (755)
107 KOG1327 Copine [Signal transdu 37.9 3.8E+02 0.0083 30.4 11.9 144 5-166 285-452 (529)
108 cd03364 TOPRIM_DnaG_primases T 37.8 56 0.0012 26.6 4.3 35 120-162 43-77 (79)
109 COG4547 CobT Cobalamin biosynt 35.3 1.9E+02 0.0042 31.9 8.7 63 99-166 520-588 (620)
110 smart00802 UME Domain in UVSB 34.8 87 0.0019 27.6 5.2 53 586-640 33-86 (107)
111 PF13662 Toprim_4: Toprim doma 32.5 29 0.00064 28.5 1.8 35 120-162 46-80 (81)
112 COG4902 Uncharacterized protei 25.9 2E+02 0.0043 26.7 6.0 43 427-471 88-130 (189)
113 PF13344 Hydrolase_6: Haloacid 24.6 1E+02 0.0022 26.6 3.8 43 99-159 16-58 (101)
114 PF07744 SPOC: SPOC domain; I 22.6 1.3E+02 0.0029 26.3 4.4 41 344-385 79-119 (119)
115 PF01882 DUF58: Protein of unk 22.4 1.1E+02 0.0023 25.2 3.5 40 5-46 40-85 (86)
116 PF00102 Y_phosphatase: Protei 20.3 52 0.0011 32.5 1.3 20 641-660 56-75 (235)
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=1.3e-81 Score=707.11 Aligned_cols=473 Identities=19% Similarity=0.267 Sum_probs=400.0
Q ss_pred CCeEEEEEEeCCCCcCCc---------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEec
Q 006065 4 TREALLLLLDVSPSMHSV---------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (662)
Q Consensus 4 ~Kea~vflIDvs~sM~~~---------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~ 74 (662)
.|||+|||||||++|+++ +..|++|+.+++++|||++++|+||||||||++|+|++ +|+||+|+++
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 699999999999999962 67899999999999999999999999999999999987 6999999999
Q ss_pred cCCCCHHHHHHhhcCCCCCC------------CCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCch
Q 006065 75 IKVVDGHLVQSLKHLPQGTC------------AGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKE 142 (662)
Q Consensus 75 l~~~~~~~l~~L~~l~~~~~------------~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~ 142 (662)
|+.|+++.++.|++|..+.+ .+++.||||+|++||.+ ++ +++.+||||||||+++|+.. +....
T Consensus 84 L~~p~a~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~-~~-~k~~~kRI~lfTd~D~P~~~--~~~~~ 159 (584)
T TIGR00578 84 LDNPGAKRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSD-VQ-FRMSHKRIMLFTNEDNPHGN--DSAKA 159 (584)
T ss_pred CCCCCHHHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHh-cc-hhhcCcEEEEECCCCCCCCC--chhHH
Confidence 99999999999998754311 24779999999999986 33 46789999999999999985 23344
Q ss_pred hhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCC----eeeehh-chHHhhcccccccCCcce
Q 006065 143 DQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSA----KTLFVD-STTSLRGARKTRDISPVT 217 (662)
Q Consensus 143 ~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g----~~~~~~-~a~~ll~~~~~k~~~~~~ 217 (662)
+++..+|++|++.||.|++|+++. +++++. ..|+..+....++ ...... ...+++..++.|.+++|+
T Consensus 160 ~~a~~~a~dl~~~gi~ielf~l~~--~~~Fd~------s~Fy~dii~~~~~~~~~~~~~~~~~l~~l~~~l~~k~~~kR~ 231 (584)
T TIGR00578 160 SRARTKAGDLRDTGIFLDLMHLKK--PGGFDI------SLFYRDIITDAEDEDLGVHPEESSKLEDLLRKVRAKETRKRA 231 (584)
T ss_pred HHHHHHHHHHHhcCeEEEEEecCC--CCCCCh------hhhhHhhhccccccccccCcchhHHHHHHHHHHhhcccceee
Confidence 566889999999999999999853 333332 2344444321111 111111 234667889999999999
Q ss_pred eeeeeeeecCCeEEEEEEEeecccccCCC-ceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCCee
Q 006065 218 IFRGDLELSEKMKIKVWVYKKTGEEKFPT-LKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQV 296 (662)
Q Consensus 218 ~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~-~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~~~ 296 (662)
.|+|+|+||++++|+|++|.+++++++|. .+.+..+ ...|+.+|+|+ +.+++++|+++|++|||+||+++
T Consensus 232 ~~~~~L~lg~~~~I~V~~Y~~~~~~~~~~~~~l~~~~--------~~~v~~~~~~~-~~dtg~~V~~~~i~Kgy~yGg~~ 302 (584)
T TIGR00578 232 LSRLKLKLNKDVVMSVGIYNLVQKAGKPAPVKLYRET--------NEPVKTKTRTF-NMDTGSLLLPSDTKRSQTYGGRQ 302 (584)
T ss_pred EEeccEEECCCCEEEEEEEEEEEeecCCceEEEecCC--------ceeeEEEEEEE-ecCCccccCHHHceeeeeECCEE
Confidence 99999999999999999999999987665 4666543 36799999898 47788899999999999999999
Q ss_pred EeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCC-hhhHHHHHHHHHHHHhcCceeEEEEEecCCC
Q 006065 297 VPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGN-SRATVAVSALARAMKEMNKVAIVRCVWRQGQ 375 (662)
Q Consensus 297 Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~-~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~ 375 (662)
|+|+++|++++|..++|+|+||||+|.+.|+++|++++++||+|+++. .+|.+||+||+++|.++++|||||||+|+|+
T Consensus 303 V~~t~ee~~~lk~~~~~~l~ilGF~~~s~l~~~~~~~~s~fi~Pde~~~~gs~~afsaL~~~l~~~~kvAI~~~v~r~~~ 382 (584)
T TIGR00578 303 IYLEKEETEELKRFDPPGLQLMGFKPLSMLKKHHHLRPSLFVYPEESLVRGSTTLFSALLQKCLEKEVAALCRYISRRNQ 382 (584)
T ss_pred EecCHHHHHHHhccCCCceEEEeeccHHHCCchhhcCCceEEecCCcccccHHHHHHHHHHHHHhcCcEEEEEEEecCCC
Confidence 999999999999999999999999999999999999999999999854 4799999999999999999999999999998
Q ss_pred CceEEEEeeccccCC-----CCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCcc
Q 006065 376 QSVVVGVLTPNVSEK-----INIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEI 450 (662)
Q Consensus 376 ~p~~v~~L~P~~~~~-----~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~e~ 450 (662)
.|. +++|+|+.++. +..|+||++++|||+||||+++|++ ...++++|+++|++||++|+++
T Consensus 383 ~P~-lvaL~P~~~~~d~~~~q~~p~G~~l~~LPfadDIR~~~~~~------~~~~~~e~~~~a~~LI~~l~~~------- 448 (584)
T TIGR00578 383 PPY-FVALVPQEEELDDQKIQVTPPGFHLVFLPFADDKRKVPFTE------KVKATPEQVDKMKAIVEKLRFT------- 448 (584)
T ss_pred CCE-EEEEeCCcccccccCCccCCCeEEEEecCchhhccCCCCcc------cCCCCHHHHHHHHHHHHhcCCC-------
Confidence 755 55788997532 2357899999999999999998742 2469999999999999999997
Q ss_pred CCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHH-HHHHHHHHHHHh-hcCCccCCCccc
Q 006065 451 LQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLL-AESQSAIDAFCG-QFVIKENPKLKK 521 (662)
Q Consensus 451 ~~p~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~-~~~~~~l~~~k~-~f~~~~~~~k~~ 521 (662)
|+|+.|+||+|||||++|+++||+++.|.++.|.++ |+...+ +++++.+++|++ +|+.+++++++.
T Consensus 449 y~P~~~~NP~LQ~hY~~LealAL~~~~~~~~~D~tl-----p~~~~i~~r~~~~i~~~~~~~~~~~~~~~~~~ 516 (584)
T TIGR00578 449 YRSDSFENPVLQQHFRNLEALALDMMEPEQAVDLTL-----PKVEAMKKRLGSLVDEFKELVYPPDYNPEGKV 516 (584)
T ss_pred CCcccCCChHHHHHHHHHHHHhCCCCCCCCCccccc-----CCHHHHHHHHHHHHHHHHHHhcccccCccccc
Confidence 999999999999999999999999999988888654 554445 478999999999 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=1.2e-72 Score=594.52 Aligned_cols=611 Identities=18% Similarity=0.191 Sum_probs=498.3
Q ss_pred CCeEEEEEEeCCCCcCCc-------hhHHHHHHHHHHHHHHhcc-CccEEEEEEEcCCCcCccccccCCCcccEEEEecc
Q 006065 4 TREALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIYG-KNHEVGVILFGTEETENELTKEVGGYEHVKVLQDI 75 (662)
Q Consensus 4 ~Kea~vflIDvs~sM~~~-------l~~a~~~~~~l~~~ki~~~-~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l 75 (662)
+++|++|++|+|++|... ++.|..++...+++|.+.. ++|.||||+|||+.|+|++. +...|+||+++.|+
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 789999999999999763 6889999999999999976 99999999999999999985 55699999999999
Q ss_pred CCCCHH-HHHHhhc-CCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHh
Q 006065 76 KVVDGH-LVQSLKH-LPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMV 153 (662)
Q Consensus 76 ~~~~~~-~l~~L~~-l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~ 153 (662)
..|... +++.++. +++++..+|+.+||.|.++++.+++..++...+|+||++++-.. + ..++.. |+++|.
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 888765 5666664 68888999999999999998888777666677777777766442 1 122333 999999
Q ss_pred hCCcEEEEEeeccC-----CCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhhcccccccCCcceeeeeeeeec-C
Q 006065 154 AFGLRMKNIVVRAS-----LSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGARKTRDISPVTIFRGDLELS-E 227 (662)
Q Consensus 154 ~~gI~l~vi~i~~~-----~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll~~~~~k~~~~~~~~~g~L~ig-~ 227 (662)
+.+|.|-++|++.. .+++.+.+.+..|+-+++....-+.++++++++....+..++++.++|..+|+|.|+|| +
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 99999999999741 12233445566787888887777889999999998888999999999988999999999 6
Q ss_pred CeEEEEEEEeecccccCCCceEecc-CCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCCeeEeCChhhHHh
Q 006065 228 KMKIKVWVYKKTGEEKFPTLKKYSD-KAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQVVPISSAEWEA 306 (662)
Q Consensus 228 ~l~I~V~~Y~~~~~~k~p~~~~~~~-~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~~~Vp~s~~e~~~ 306 (662)
.++|.+..|..+...|++..+.... ..++. +..+...++.|...++.+.+|-+|+++.||.||.++||++..|.+.
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 ILSIQTANYSGSMQDRNECLCIKVEAFPETK---AKEGLNRKTVVEVEDSDKLEVLKEDYVSGYSYGEYIIPNSGNDENV 310 (669)
T ss_pred eeEEeccCCCccccccccceeEEeecchhhc---cchhcccceeEEeecCCchhhHHHhhhhhcccceeEeccCCcchhh
Confidence 7999999999999999987655443 21111 1223334455554455557899999999999999999999999999
Q ss_pred hccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecCCCCceEEEEeecc
Q 006065 307 VKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVGVLTPN 386 (662)
Q Consensus 307 ~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~v~~L~P~ 386 (662)
+++.+.+|+.||||+++++|+++|++|..+.|+|.-.+.++..|+++|++||...+++|||||++.+++. |.+++|+||
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 9999999999999999999999999999999999866778999999999999999999999999999986 568899999
Q ss_pred ccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCC--CCccCCCCCCCCchhHHH
Q 006065 387 VSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSG--KGEILQPELTPNPALERF 464 (662)
Q Consensus 387 ~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~--~~e~~~p~~~~NP~lqr~ 464 (662)
...+-. ..||+.++|||+||+|.|.|+++++. ....|+..|+-|+++|||.|+|.++. -.+.|.|.. +||..||+
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 987632 36899999999999999999999875 45789999999999999999997542 344566655 89999999
Q ss_pred HHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcCCccCCCcccchhhhccCCCCCCCCCCCCCCCC
Q 006065 465 YHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENPKLKKSTRRFLREKPSGSDEPNGDGSVS 544 (662)
Q Consensus 465 ~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~~~~~~~k~~~~~~~~~~~~~~~d~~~~~~~~~ 544 (662)
.++|-|+|.+|+.++|+.+.+|.++++||..+.+.+...+.+++..|++. +|+|. +.+... .++ ..+.+.... -.
T Consensus 467 ~qlllh~a~spe~~lp~tnq~l~~~lnPp~~V~~~~~~~l~kIk~~f~lq-ipkke-~vT~qe-~~~-dt~~pt~kK-q~ 541 (669)
T KOG2326|consen 467 PQLLLHTATSPEPLLPETNQHLIDELNPPRFVDSMDTDELPKIKLGFYLQ-IPKKE-VVTDQE-LPL-DTSLPTLKK-QQ 541 (669)
T ss_pred HHHhccccCCCCCCCCccchHHHHhhCcchhccccCchhhhhhcccceee-ccccc-eecccc-ccc-ccCCcchhh-HH
Confidence 99999999999999999999999999999999999999999999999998 54322 211111 111 111111100 00
Q ss_pred chhhccccCCCCCcceeeecCCChHhHHHHHHhCCCCchHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHhh
Q 006065 545 DAQAVNSMESKPVVTVDKIGDLTPIQDFEAMMSRRDCPDWVDKAIEDMKNKIFGLLENSNEGINYPKAVELLVALRKGCI 624 (662)
Q Consensus 545 ~~~~~~~~~~~~~~~~~~ig~~~pv~dF~~~l~~~~~~~~~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~~l~~~R~~~i 624 (662)
......-++... +++..|+.++|-+.|...+.+...++.++.|+.+|.+.|++++.. .+|+++++||+++|..+|
T Consensus 542 eeq~~sg~s~~e-g~kp~v~~v~~ke~v~~~i~qlk~~~~~e~ai~Emi~~iknfid~----~yf~k~~dsl~~~R~~~I 616 (669)
T KOG2326|consen 542 EEQVKSGASQDE-GRKPTVFVVRQKEVVLEWIHQLKINDSREFAIPELIDSIKNFIDP----EYFHKKFDSLKLVRVLGI 616 (669)
T ss_pred HHhhhccccccc-ccccceeEechhhhHHHHHHHhccchhHhHHHHHHHHHHHhcCCc----HHHHHHHHHHHHHHHHHh
Confidence 001011122222 235778888888888888877666778999999999999999986 489999999999999999
Q ss_pred hhhchhHHHHHHHHHH
Q 006065 625 LEQVYLSVSFFLLWFA 640 (662)
Q Consensus 625 ~~~e~~~~N~fl~~lk 640 (662)
+++|...||+||+.||
T Consensus 617 k~se~~rFNe~Lk~Lk 632 (669)
T KOG2326|consen 617 KKSEKLRFNEELKTLK 632 (669)
T ss_pred hhhHHHHHHHHHHHHH
Confidence 9999999999999998
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=3.6e-57 Score=473.12 Aligned_cols=296 Identities=39% Similarity=0.620 Sum_probs=264.8
Q ss_pred eeeeeeeeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCCee
Q 006065 217 TIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQV 296 (662)
Q Consensus 217 ~~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~~~ 296 (662)
+.|+|.|+||.+++|+|++|++|+++++|+.+++....... ......|+.++.|..+++++.+|+++|++|||+||+++
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 58999999999999999999999999988766665411000 00125699999998667888899999999999999999
Q ss_pred EeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecCCCC
Q 006065 297 VPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQGQQ 376 (662)
Q Consensus 297 Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~ 376 (662)
|+|+++|++.+++.+++||+|+||+++++|+++|+|+++|||+|++++.++..||+||++||.+++++||||||+|+++.
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 99999999999999999999999999999999999999999999998889999999999999999999999999999985
Q ss_pred ceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCC---CCccCCC
Q 006065 377 SVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSG---KGEILQP 453 (662)
Q Consensus 377 p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~---~~e~~~p 453 (662)
|.+|+|+|+++.. ++||++++|||+||||.+.||+|....+...++++|+++|++||++|++++.+ ..++|+|
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 5678999998765 57999999999999999999998653222579999999999999999997532 3567999
Q ss_pred CCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcCCccCC
Q 006065 454 ELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENP 517 (662)
Q Consensus 454 ~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~~~~~~ 517 (662)
+.++||++||+|++|+++|++|+.++|+.++.|.+|++|+..+.+++++.++++++.|++++++
T Consensus 237 ~~~~nP~~q~~~~~i~~~al~~~~~lp~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~f~l~~~~ 300 (300)
T cd00873 237 DETPNPVLQRIYQALRHRALHPDEPLPPLLQVLLRYLEPPEEVLEKSKEALKKIKEKFPLKEVP 300 (300)
T ss_pred ccCCChHHHHHHHHHHHHhcCCCCCCCCccHHHHHhcCCCHHHHHHHHHHHHHHHHhcCcccCC
Confidence 9999999999999999999999999999999999999999999999999999999999998763
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=1.3e-50 Score=420.97 Aligned_cols=276 Identities=25% Similarity=0.365 Sum_probs=238.3
Q ss_pred ceeeeeeeeecCC--eEEEEEEEeecccccCCC-ceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceee
Q 006065 216 VTIFRGDLELSEK--MKIKVWVYKKTGEEKFPT-LKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRY 292 (662)
Q Consensus 216 ~~~~~g~L~ig~~--l~I~V~~Y~~~~~~k~p~-~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~y 292 (662)
|+.|+|+|+||++ ++|+|++|.++++++.|. .+.+..++.. ...|+.+++|++ .+++++|+++|++|||+|
T Consensus 1 R~~~~~~l~ig~~~~v~I~V~~Y~~~~~~~~~~~~~l~~~~~~~-----~~~v~~~~~~v~-~~~~~~v~~~di~kgy~~ 74 (287)
T cd00788 1 RALFRLPLELGPGNKLVISVKGYSLVSHAKKPRKYKLDREKNEE-----RREVKSKRKFFD-VESGKTLEKADIKKGYKI 74 (287)
T ss_pred CccEeeeEEECCCCCeEEEEEEEEEeecccCCceEEEecCCCcc-----ceeeEEEEEEEe-cCCCcccChhheEEeEEe
Confidence 4679999999998 999999999999988665 5665544311 114888899984 667889999999999999
Q ss_pred CCeeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCC-hhhHHHHHHHHHHHHhcCceeEEEEEe
Q 006065 293 GPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGN-SRATVAVSALARAMKEMNKVAIVRCVW 371 (662)
Q Consensus 293 G~~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~-~~s~~afsaL~~Am~e~~~vaI~r~v~ 371 (662)
|+++|+|+++|++.++..+++||+||||+++++|+++|+++++|||+|++++ .+|.+||+||++||.++++|||||||+
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 9999999999999999999999999999999999999999999999999853 578999999999999999999999999
Q ss_pred cCCCCceEEEEeeccccCCCC-----CCCeEEEecCCChhcccCCCCCCCCCCC-CCCCCCHHHHHHHHHHHHHcCCCCC
Q 006065 372 RQGQQSVVVGVLTPNVSEKIN-----IPDSFYFNVLPFAEDVREFQFPSFSKFP-VSWQPNEQQQEAADNLVKMLDLAPS 445 (662)
Q Consensus 372 r~~~~p~~v~~L~P~~~~~~~-----~~~~l~~v~LPfaeDvR~~~fp~l~~~~-~~~~p~~eq~~a~~~lI~~m~l~~~ 445 (662)
|.++.| .+|+|+|+.+...+ .+.||++++|||+||||++ |++.... +...++++|+++|++||++|++.+
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 999875 57789999765422 3689999999999999996 3332211 245799999999999999999942
Q ss_pred CCCccCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHH-HHHHHHHHHHHhhc
Q 006065 446 GKGEILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLL-AESQSAIDAFCGQF 511 (662)
Q Consensus 446 ~~~e~~~p~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~-~~~~~~l~~~k~~f 511 (662)
|+|+.++||++||||++|+++|++++.+.|+.|. +.|+.+.+ +|+++.++.|+..+
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 67888887 89999999998753
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=2e-50 Score=418.57 Aligned_cols=272 Identities=33% Similarity=0.519 Sum_probs=238.1
Q ss_pred ceeeeeeeeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCCe
Q 006065 216 VTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQ 295 (662)
Q Consensus 216 ~~~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~~ 295 (662)
|+.|+|.|.||++++|+|++|+++++++++..++..... ...++.++.+... .+.+|+++|++|||+||++
T Consensus 1 r~~~~~~l~lg~~~~i~V~~y~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~--~~~~v~~~~i~kgy~~G~~ 71 (272)
T cd00594 1 RAIWKGALSLGLDVSIPVKLYSAATEEKPPSFKQLDRKT-------GERVKVKRVCKYT--GGKEVEKEDIVKGYEYGGD 71 (272)
T ss_pred CcceeeeEEECCCCEEEEEEEeeeccccCCccEEeccCC-------CceeeEEEEEEee--cCcEeCHHHhhhheeeCCe
Confidence 468999999999999999999999999888654444311 2336655555421 1478999999999999999
Q ss_pred eEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecCCC
Q 006065 296 VVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQGQ 375 (662)
Q Consensus 296 ~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~ 375 (662)
+|+|+++|+++++..+++||+||||+++++|+++|++++++||+|++++.+|.+||+||++||.+++++||||||+|+|+
T Consensus 72 ~V~~~~~e~~~~~~~~~~~l~ilgF~~~~~i~~~~~~~~s~~l~P~~~~~~s~~af~aL~~am~~~~kvai~r~v~r~~~ 151 (272)
T cd00594 72 YVPLTEEELEQLKLETSKGLDILGFVPASEIPPYYFDKESYYLVPDDSDKGSEKAFSALRRALLEKDKVAIARYVLRRNS 151 (272)
T ss_pred EEecCHHHHHHhhcCCCCeEEEEeEechHhCCcceecCCcEEEEcCCCCcccHHHHHHHHHHHHHcCcEEEEEEEEcCCC
Confidence 99999999999999999999999999999999999999999999998878899999999999999999999999999997
Q ss_pred CceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCCCCC
Q 006065 376 QSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQPEL 455 (662)
Q Consensus 376 ~p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~e~~~p~~ 455 (662)
. |.+|+|+|+.++. +.||++++|||+||||.++|+++... ....++++|+++|++||++|+++ .|+|+.
T Consensus 152 ~-p~l~aL~P~~~~~---~~gl~l~~LPfadDvR~~~~~~~~~~-~~~~~~~~~~~~a~~lI~~~~~~------~~~p~~ 220 (272)
T cd00594 152 R-PRLVALRPQEEED---PEGLVLVTLPFADDVRSYPFPLLLDI-KTEKPTDEELELAKQLIDSLDLD------DFDPEK 220 (272)
T ss_pred C-cEEEEEeccccCC---CCEEEEEccCCchhhhccCCcccccc-cccCCCHHHHHHHHHHHHhccCC------CCCccc
Confidence 6 5677999997663 68999999999999999999887643 22579999999999999999994 299999
Q ss_pred CCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhc
Q 006065 456 TPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQF 511 (662)
Q Consensus 456 ~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f 511 (662)
++||++|++|++|+++|++++.+.++.++ +..++..+.+++++++++|+++|
T Consensus 221 ~~NP~lq~~~~~l~~~al~~~~~~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~ 272 (272)
T cd00594 221 FPNPYLQRLYALLEAKALGEEIPEPPEDL----TLPPPEEIPKRVIDLLEALKKSL 272 (272)
T ss_pred CCCHHHHHHHHHHHHHhcCCCCCCCCCCc----cCCCcHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999988777664 56677888999999999999875
No 6
>KOG2327 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku70 autoantigen) [Replication, recombination and repair]
Probab=100.00 E-value=6.4e-47 Score=403.51 Aligned_cols=476 Identities=20% Similarity=0.238 Sum_probs=341.5
Q ss_pred CCeEEEEEEeCCCCcCC---------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEec
Q 006065 4 TREALLLLLDVSPSMHS---------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (662)
Q Consensus 4 ~Kea~vflIDvs~sM~~---------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~ 74 (662)
+|+++.||||++++|.. +|..++.|+..++.+++|+++.|.+|++.+||.++.+. .|.+.+++
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 79999999999999865 25678999999999999999999999999999976654 34444555
Q ss_pred cCCCCHHHHHHhhc-CCCC------------CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCc
Q 006065 75 IKVVDGHLVQSLKH-LPQG------------TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTK 141 (662)
Q Consensus 75 l~~~~~~~l~~L~~-l~~~------------~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~ 141 (662)
+..+...-+.++.+ ...+ ...+++...|+.|..|+.. +.++..++||++|||+++|+.. ++..
T Consensus 89 l~d~~~~~~~k~~~~~e~~~q~~~~~~~~~~~~~s~ls~vl~~c~~~~~~--~~~~~~~krv~l~Td~d~P~~~--~~~~ 164 (602)
T KOG2327|consen 89 LGDLGQEEVKKILELFEEENQLSAVNFYGGMHQKSDLSNVLNYCKRMVFA--SQKKLSNKRVFLFTDNDNPHER--DDFL 164 (602)
T ss_pred ccccChHHHHHHHHHhhhhhhhhhhhccCcccccccHHHHHHHHHHHHHH--HhhhcccceEEEEecCCCcccc--cchH
Confidence 54444333333333 2111 1234789999999999876 3456889999999999999964 2222
Q ss_pred hhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehh--chHHhhcccccccCCcceee
Q 006065 142 EDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD--STTSLRGARKTRDISPVTIF 219 (662)
Q Consensus 142 ~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~--~a~~ll~~~~~k~~~~~~~~ 219 (662)
.....+.+.++....|.+...+++.+++.......... ...-.-+...++.+.+-. .+..++..++.+...+|..|
T Consensus 165 ~~a~l~r~k~~~~~~i~~~~~~l~~~~~~~~~~~~y~~--f~~i~~~~~~d~~~~~~~~~~~e~~~~ri~~k~~~kR~~f 242 (602)
T KOG2327|consen 165 ESAHLQRAKDLVTKDIGFHHKTLDEPSDIFLYEDFYKP--FDKISKAKELDSDLDTEVQSTLEDLLARILAKITAKRAHF 242 (602)
T ss_pred HHhhhhhhhhcccceeeeeecccCcccccccccccccc--cchheeeccccccccChhhhhHHHHHHHHHHHHHHHHhhh
Confidence 22233444444444444443233211111111000000 000000111222222211 34466677888888889999
Q ss_pred eeeeeecCCeEEEEEEEeecccccCC-CceEeccCCCCCccccccceEEEEE---EEecCCCCCCCCccccccceeeCCe
Q 006065 220 RGDLELSEKMKIKVWVYKKTGEEKFP-TLKKYSDKAPSTDKFATHEVKVDYE---YKSVEDPSKVVPPEQRIKGYRYGPQ 295 (662)
Q Consensus 220 ~g~L~ig~~l~I~V~~Y~~~~~~k~p-~~~~~~~~~~~~~~~~~~~v~~~~~---y~~~~d~~~~v~~ed~~kgy~yG~~ 295 (662)
++.|.+|+++.|+|++|.++++++++ ..+++...+ ..|+..++ .+ +-+++.+.-+.+..+-|.||+.
T Consensus 243 ~l~l~lg~~v~i~V~~y~~~~~~~~~~~~~~y~~~~--------~~v~tk~~~~~~f-~~~tg~~~~~~~~~~s~~yG~~ 313 (602)
T KOG2327|consen 243 HLKLNLGPDVTIGVSVYNMVQRAKPADHSQLYRRDE--------EEVITKPSGYKFF-SCETGEELKRRDTKKSYEYGGE 313 (602)
T ss_pred eeeeccCCCeEEEEEEeeeeeccccCccceeEeccc--------ceeeeecccceEe-ccccCCccccccceEEeccCCc
Confidence 99999999999999999999998765 567776654 23333333 34 4566767888899999999999
Q ss_pred eEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCC-ChhhHHHHHHHHHHHHhcCceeEEEEEecCC
Q 006065 296 VVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPG-NSRATVAVSALARAMKEMNKVAIVRCVWRQG 374 (662)
Q Consensus 296 ~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~-~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~ 374 (662)
-|+|+.++.+.++...+|+|.|+||++.+.+++|+++.++.||+|++. ..||.+.|+||+..|.+++++|||||+.|.|
T Consensus 314 ~i~l~~dq~e~v~~~~~p~L~liGFk~~ssl~~~~~i~ps~fi~Pddq~~iGS~~~f~all~rcl~rdkiaic~~~~r~n 393 (602)
T KOG2327|consen 314 DIILSMDQLEYVREFNKPGLMLIGFKSMSSLKREHYIKPSKFIYPDDQTIIGSTRLFRALLKRCLARDKIAICWFQSRSN 393 (602)
T ss_pred ccccChhHHHHhhccCCcceEEEeeccccccCcccccCchhccCcchhhccchHHHHHHHHHHHHhhhhhhheeeccccc
Confidence 999999999999999999999999999999999999999999999986 7899999999999999999999999999999
Q ss_pred CCceEEEEeeccccC-----CCCCCCeEEEe-cCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCC
Q 006065 375 QQSVVVGVLTPNVSE-----KINIPDSFYFN-VLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKG 448 (662)
Q Consensus 375 ~~p~~v~~L~P~~~~-----~~~~~~~l~~v-~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~ 448 (662)
+.|+.| +|+++-.. ....++||+++ +||||||+|.++|+. ....+++|.+.|..++.+|.+.- .
T Consensus 394 ~~p~~v-Alv~~p~~~~d~~~~~l~~GF~LV~flp~aDdirk~p~~~------~v~~~p~~~eqmk~i~Qki~f~~---r 463 (602)
T KOG2327|consen 394 QKPRFV-ALVLQPQRGQDDSSESLPCGFQLVGFLPFADDIRKFPLQD------KVSTEPEQEEQMKAIVQKIRFKL---R 463 (602)
T ss_pred CCccee-eeecCccccccCcccccccceEEEEeecccchhccCCCcc------cccCCcchHHHHHHHHHHHHHHh---h
Confidence 988777 56665332 23467899999 699999999998632 22334455566666666655431 0
Q ss_pred ccCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHH-HHHHHHHHHHhhcCCc-cCCC
Q 006065 449 EILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLA-ESQSAIDAFCGQFVIK-ENPK 518 (662)
Q Consensus 449 e~~~p~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~-~~~~~l~~~k~~f~~~-~~~~ 518 (662)
..+.| .|.||+||+||..|++.||+.+.|....+.+ .|+.+.+. |.+.+++++++.|... +.++
T Consensus 464 sd~~p-~feNP~Lq~h~knL~alaLd~e~p~~~vd~t-----lp~~~a~~KRvg~lvd~~~el~y~~d~ikE 529 (602)
T KOG2327|consen 464 SDYPP-FFENPSLQQHYKNLEALALDEETPEQAVDET-----LPKVEAMDKRVGELVDKYRELFYPPDYIKE 529 (602)
T ss_pred cCCcc-cccChHHHHHHHHHHHHhcccccchhhhccc-----CcchHHHHHHHHHHHHHHHHhcCCCcCCcc
Confidence 12666 8999999999999999999998876555553 45544454 4488999999977764 4443
No 7
>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=6.3e-47 Score=382.53 Aligned_cols=252 Identities=19% Similarity=0.309 Sum_probs=219.1
Q ss_pred ceeeeeeeeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeC-C
Q 006065 216 VTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYG-P 294 (662)
Q Consensus 216 ~~~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG-~ 294 (662)
|++|+|.|+|| .++|||++|+++...++++++.+..++ ..|+ +.|. +++++++|+++|++|||+|| +
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 699999999998888988888777643 3444 5565 68999999999999999999 8
Q ss_pred eeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecCC
Q 006065 295 QVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQG 374 (662)
Q Consensus 295 ~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~ 374 (662)
++|+|+++|+++++..+.++|+|+||++.++|+++|+. ++|||+|++ ++..||++|++||.++++|||||||+|++
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 99999999999999999999999999999999998884 579999998 46779999999999999999999999986
Q ss_pred CCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCCCC
Q 006065 375 QQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQPE 454 (662)
Q Consensus 375 ~~p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~e~~~p~ 454 (662)
. .+|+|.|+. +||++++|||+||||+++|+++.. +...++++|+++|++||++|+.. |+|+
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 477999983 699999999999999999987753 35679999999999999999986 9999
Q ss_pred CCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcC
Q 006065 455 LTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFV 512 (662)
Q Consensus 455 ~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~ 512 (662)
.|.||+.++++++|++++.+.+...++..+ .+..+++ ++|++|+++..
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 999999999999999999987764433221 1124555 99999999865
No 8
>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=7e-46 Score=375.35 Aligned_cols=253 Identities=19% Similarity=0.292 Sum_probs=216.2
Q ss_pred cceeeeeeeeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeC-
Q 006065 215 PVTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYG- 293 (662)
Q Consensus 215 ~~~~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG- 293 (662)
+|++|+|.|+|| .++|||++|++|..+++++.+.+..++ ..|+ +.|. +++++++|+++|++|||+||
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 478999999999 699999999999988888887777653 3455 4455 68999999999999999999
Q ss_pred CeeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecC
Q 006065 294 PQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQ 373 (662)
Q Consensus 294 ~~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~ 373 (662)
+++|+|+++|+++++..++++|+|+||++.++|+++|+ +.+|||+|++ ++..||++|++||.+++++||||||+|.
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-DTPYYLAPDK---GGEKAYALLREALEDTGKVGIAKVVLRG 144 (258)
T ss_pred CCEEEcCHHHHHhhcccCCCeEEEEEEeCHHHCChhee-CCCEEEccCC---CchHHHHHHHHHHHHcCCEEEEEEEEcC
Confidence 59999999999999999999999999999999999876 5679999973 5778999999999999999999999998
Q ss_pred CCCceEEEEeeccccCCCCCCCeEEEecCCChhcccCC-CCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccCC
Q 006065 374 GQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREF-QFPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEILQ 452 (662)
Q Consensus 374 ~~~p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~-~fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~e~~~ 452 (662)
+. .+|+|.|+. +||++++|||+||||++ .|+++. ....++++|+++|.+||++|+.. |+
T Consensus 145 r~---~l~aL~P~~-------~gL~l~~LpfadEvR~~~~~~~~~---~~~~~~~~el~~A~~LI~~mt~~-------fd 204 (258)
T TIGR02772 145 RE---RLAALRPVG-------KGLVLTTLRYPDEVRSPDEFFGPI---KDVEVDPEELELAGQLIDKMTGK-------FD 204 (258)
T ss_pred Cc---EEEEEEECC-------CeEEEEECCChhhccChhhccccc---ccCCCCHHHHHHHHHHHHHhccC-------CC
Confidence 63 377899982 59999999999999999 565542 34579999999999999999975 99
Q ss_pred CCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcC
Q 006065 453 PELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFV 512 (662)
Q Consensus 453 p~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~ 512 (662)
|+.|.||+.++++++|++|+.+++...|...+ ..++.+++ ++|++|+++..
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 99999999999999999999998754332110 01234555 99999999865
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=4.4e-41 Score=332.36 Aligned_cols=199 Identities=39% Similarity=0.602 Sum_probs=146.5
Q ss_pred eeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCCeeEeCChh
Q 006065 223 LELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGPQVVPISSA 302 (662)
Q Consensus 223 L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~~~Vp~s~~ 302 (662)
|+||++++|+|++|++++++++|+++++.... ...++.++.|. +.+++.+|+++|++|||+||+++|||+++
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 68999999999999999999999887777541 34667777777 68888899999999999999999999999
Q ss_pred hHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCCh-hhHHHHHHHHHHHHhcCceeEEEEEecCCCCceEEE
Q 006065 303 EWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNS-RATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVG 381 (662)
Q Consensus 303 e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~-~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~v~ 381 (662)
|++.++..++++|+||||+++++|+++|++++++||+|+++.. +|..+|+||++||.+++++||||||+|.++. |.+|
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 9999999999999999999999999999999999999998655 8999999999999999999999999999876 5577
Q ss_pred EeeccccCCCCCCCeEEEecCCChhcccCCCCCCCCCCCCCCCCCHHHHHHH
Q 006065 382 VLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFSKFPVSWQPNEQQQEAA 433 (662)
Q Consensus 382 ~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~~~~~~~~p~~eq~~a~ 433 (662)
+|+|+.+.. ..+.||++++|||+||||.++||++... ...|+++|+++|
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 999998653 2258999999999999999999998763 447999999986
No 10
>COG1273 Ku-homolog [Replication, recombination, and repair]
Probab=100.00 E-value=1.1e-34 Score=281.74 Aligned_cols=260 Identities=22% Similarity=0.343 Sum_probs=221.0
Q ss_pred cceeeeeeeeecCCeEEEEEEEeecccccCCCceEeccCCCCCccccccceEEEEEEEecCCCCCCCCccccccceeeCC
Q 006065 215 PVTIFRGDLELSEKMKIKVWVYKKTGEEKFPTLKKYSDKAPSTDKFATHEVKVDYEYKSVEDPSKVVPPEQRIKGYRYGP 294 (662)
Q Consensus 215 ~~~~~~g~L~ig~~l~I~V~~Y~~~~~~k~p~~~~~~~~~~~~~~~~~~~v~~~~~y~~~~d~~~~v~~ed~~kgy~yG~ 294 (662)
+|+.|+|.|.||. ++|||++|++|+..-+.+++++..++ ..| .+.|+ +..+|++|+++|++|||+||.
T Consensus 3 ~Ra~WKG~ikfgL-V~~PV~ly~ATs~seI~F~~L~r~t~--------nrV--~~~~V-d~~tGk~Ve~~d~VKGYE~~~ 70 (278)
T COG1273 3 MRAIWKGYIKFGL-VNCPVKLYPATSESEIRFHTLHRKTG--------NRV--RYKYV-DSVTGKEVERDDIVKGYEYGK 70 (278)
T ss_pred ccccccceeEeee-EecceEeeecccccccchhhhhhhhC--------Cce--eeEEe-ccccCCccCccceeeeeEecC
Confidence 6889999999996 99999999999986688888887653 234 45566 578999999999999999995
Q ss_pred -eeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCCChhhHHHHHHHHHHHHhcCceeEEEEEecC
Q 006065 295 -QVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPGNSRATVAVSALARAMKEMNKVAIVRCVWRQ 373 (662)
Q Consensus 295 -~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~s~~afsaL~~Am~e~~~vaI~r~v~r~ 373 (662)
+||.++++|++.+...+.+.|+|..|+|.+.|++.||-.+ ||+.|++ .++.||+.|..||.+++++||+|.|.++
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 9999999999999999999999999999999999999885 9999985 5678899999999999999999999999
Q ss_pred CCCceEEEEeeccccCCCCCCCeEEEecCCChhcccCCC--CCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCccC
Q 006065 374 GQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQ--FPSFSKFPVSWQPNEQQQEAADNLVKMLDLAPSGKGEIL 451 (662)
Q Consensus 374 ~~~p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~--fp~l~~~~~~~~p~~eq~~a~~~lI~~m~l~~~~~~e~~ 451 (662)
+.. +++|.|+ ..|+++.+|.|.++||+.. ||.+.. ..+++++++++..||+.|.-. |
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 864 4578897 4689999999999999998 776643 348999999999999999876 9
Q ss_pred CCCCCCCchhHHHHHHHHHhhcCCCCC-CCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcCCccCCCccc
Q 006065 452 QPELTPNPALERFYHHLELKSEHQDAA-PPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKENPKLKK 521 (662)
Q Consensus 452 ~p~~~~NP~lqr~~~~l~~~al~~~~~-~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~~~~~~~k~~ 521 (662)
+|+.|.+++-+++.++|+++.-+.+.. .|...+ .++.+++ ++|++|+++....+-+.+++
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 999999999999999999999887631 111110 0134555 99999999988776554444
No 11
>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=1.6e-34 Score=267.81 Aligned_cols=136 Identities=35% Similarity=0.574 Sum_probs=126.7
Q ss_pred CCCCccccccceeeCCeeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcCCC-ChhhHHHHHHHHHH
Q 006065 279 KVVPPEQRIKGYRYGPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAEPG-NSRATVAVSALARA 357 (662)
Q Consensus 279 ~~v~~ed~~kgy~yG~~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~-~~~s~~afsaL~~A 357 (662)
.+|+++|++|||+||+++|+|+++|++++|+.++++|+|+||+++++|+++|+++++|||+|++. +.+|+.||+||++|
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 006065 358 MKEMNKVAIVRCVWRQGQQSVVVGVLTPNVSEKINIPDSFYFNVLPFAEDVREFQFPSFS 417 (662)
Q Consensus 358 m~e~~~vaI~r~v~r~~~~p~~v~~L~P~~~~~~~~~~~l~~v~LPfaeDvR~~~fp~l~ 417 (662)
|.+++++||||||+|+++. |.+++|+|+.++.. +.||++++|||+||||+++||+|.
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 56779999987542 469999999999999999999875
No 12
>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=99.95 E-value=1.3e-27 Score=240.82 Aligned_cols=201 Identities=28% Similarity=0.404 Sum_probs=139.5
Q ss_pred EEEEEEeCCCCcCCc-------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC
Q 006065 7 ALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (662)
Q Consensus 7 a~vflIDvs~sM~~~-------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~ 79 (662)
|||||||||++|+++ |+.|++++..++++||+++++|+||||+|||++|+|+ .+.++|+||+++++|++|+
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 4456999999999999999
Q ss_pred HHHHHHhhcCC-C---------CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHH-
Q 006065 80 GHLVQSLKHLP-Q---------GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTI- 148 (662)
Q Consensus 80 ~~~l~~L~~l~-~---------~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~i- 148 (662)
++.|+.|.++. . +...+++++|||+|++||.+++++++++.||||||||+++|+.. ....+.+...
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 99999999963 3 46688999999999999987667777899999999999999962 1223444444
Q ss_pred -HHHHhhCCcEEEEEeecc--CC-CCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhhcccccccCCcce
Q 006065 149 -ARQMVAFGLRMKNIVVRA--SL-SGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGARKTRDISPVT 217 (662)
Q Consensus 149 -a~~l~~~gI~l~vi~i~~--~~-~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll~~~~~k~~~~~~ 217 (662)
+.++++.||.+.++++.. .| .+.++......+............|. ...+++..++.|..+.|+
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 778999999999999931 22 12233332223333344433333443 455677888888777664
No 13
>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=99.93 E-value=4.8e-27 Score=211.43 Aligned_cols=89 Identities=38% Similarity=0.562 Sum_probs=83.4
Q ss_pred cCCChHhHHHHHHhCCCCchHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHhhhhhchhHHHHHHHHHH---
Q 006065 564 GDLTPIQDFEAMMSRRDCPDWVDKAIEDMKNKIFGLLENSNEGINYPKAVELLVALRKGCILEQVYLSVSFFLLWFA--- 640 (662)
Q Consensus 564 g~~~pv~dF~~~l~~~~~~~~~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~~l~~~R~~~i~~~e~~~~N~fl~~lk--- 640 (662)
|++|||+||++||++++.+ |++|++||+++|++||.+| |+.+|+||++||++||++||.++||..||+||++||
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 999999999999999999999999999999999999
Q ss_pred -----HHHhhccccCCceeE
Q 006065 641 -----FAFWDNSCLNDMSSI 655 (662)
Q Consensus 641 -----~~fW~~~~~~~~~~~ 655 (662)
.+||+.++.+++|||
T Consensus 78 ~~~~~~~FW~~i~~~~l~LI 97 (120)
T PF08785_consen 78 LSKDRRDFWELIVSKKLGLI 97 (120)
T ss_dssp HCTTTCHHHHCCCCCT-SS-
T ss_pred HhccHHHHHHHHHHcCCCcc
Confidence 599999999999998
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=99.92 E-value=1.6e-24 Score=217.38 Aligned_cols=153 Identities=30% Similarity=0.470 Sum_probs=132.6
Q ss_pred CeEEEEEEeCCCCcCC--------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccC
Q 006065 5 REALLLLLDVSPSMHS--------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIK 76 (662)
Q Consensus 5 Kea~vflIDvs~sM~~--------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~ 76 (662)
||+++||||+|+||+. .|+.|++++..++++||+++++|+||||+|||+.++|+ ++|+||++++|+.
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 26789999999999999999999999999999999887 3899999999999
Q ss_pred CCCHHHHHHhhcC-CCC----------CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhH
Q 006065 77 VVDGHLVQSLKHL-PQG----------TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQV 145 (662)
Q Consensus 77 ~~~~~~l~~L~~l-~~~----------~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~ 145 (662)
.|+++.++.|.++ .++ ...+++.+|||+|+++|.. ++++++.|+||||||+++|++. +....+++
T Consensus 76 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~--~~~~~~~k~IvL~TDg~~p~~~--~~~~~~~~ 151 (218)
T cd01458 76 TPGAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSK--GKKKKSHKRIFLFTNNDDPHGG--DSIKDSQA 151 (218)
T ss_pred CCCHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHh--ccccccccEEEEECCCCCCCCC--CHHHHHHH
Confidence 9999999999985 232 2356899999999999876 3445789999999999999863 22345678
Q ss_pred HHHHHHHhhCCcEEEEEeecc
Q 006065 146 STIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 146 ~~ia~~l~~~gI~l~vi~i~~ 166 (662)
..++++|++.||.+++|+++.
T Consensus 152 ~~~a~~l~~~gI~i~~i~i~~ 172 (218)
T cd01458 152 AVKAEDLKDKGIELELFPLSS 172 (218)
T ss_pred HHHHHHHHhCCcEEEEEecCC
Confidence 899999999999999999964
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=99.41 E-value=7.9e-12 Score=121.73 Aligned_cols=165 Identities=16% Similarity=0.185 Sum_probs=117.0
Q ss_pred EEEEEEeCCCCcCC------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 7 ALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 7 a~vflIDvs~sM~~------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
.++|+||+|+||.+ .++.|+.++..+++++.-.++.|+||||.|+... . +++.|+..-..
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~----------a----~~~~PlT~D~~ 70 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGR----------A----EKLTDLTGNPR 70 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCc----------c----EEEECCCCCHH
Confidence 58999999999984 4788999999999877667899999999995432 1 24567754443
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccc-eEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEE
Q 006065 81 HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKK-HLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~k-rIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l 159 (662)
..+..|+.+....+..++.+||..|.++|.. ... ...| .|+|+||+.+. + ...+..+++.+++.||.+
T Consensus 71 ~~~~~L~~~~~~~G~t~l~~aL~~A~~~l~~--~~~-~~~~~iiil~sd~~~~-~-------~~~~~~~~~~l~~~~I~v 139 (183)
T cd01453 71 KHIQALKTARECSGEPSLQNGLEMALESLKH--MPS-HGSREVLIIFSSLSTC-D-------PGNIYETIDKLKKENIRV 139 (183)
T ss_pred HHHHHhhcccCCCCchhHHHHHHHHHHHHhc--CCc-cCceEEEEEEcCCCcC-C-------hhhHHHHHHHHHHcCcEE
Confidence 4566666652222334889999999999863 211 2234 46666665432 1 124567788999999999
Q ss_pred EEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhhcccc
Q 006065 160 KNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRGARK 209 (662)
Q Consensus 160 ~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll~~~~ 209 (662)
.+|+++. +...|+.+++.++|+++...+..++-..+.
T Consensus 140 ~~IgiG~-------------~~~~L~~ia~~tgG~~~~~~~~~~l~~~~~ 176 (183)
T cd01453 140 SVIGLSA-------------EMHICKEICKATNGTYKVILDETHLKELLL 176 (183)
T ss_pred EEEEech-------------HHHHHHHHHHHhCCeeEeeCCHHHHHHHHH
Confidence 9999953 135799999999999998888765544433
No 16
>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=99.25 E-value=3.6e-10 Score=109.42 Aligned_cols=153 Identities=15% Similarity=0.212 Sum_probs=111.9
Q ss_pred CeEEEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC
Q 006065 5 REALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~ 78 (662)
-||++||||+|.||.+. ++.+++++..++..++-.++.++||||.|++.. -+++.|++.-
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 69999999999999764 677889999998888889999999999999853 2355677655
Q ss_pred CHHHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccce-EEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCc
Q 006065 79 DGHLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKH-LCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGL 157 (662)
Q Consensus 79 ~~~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~kr-IvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI 157 (662)
-...+..|+.+..+ +..++..||.+|...|.. ...+...+| |+++++..... ..++..+++.|++.||
T Consensus 69 ~~~~~~~L~~i~~~-g~~~l~~AL~~A~~~L~~--~~~~~~~~rivi~v~S~~~~d--------~~~i~~~~~~lkk~~I 137 (187)
T cd01452 69 QGKILSKLHDVQPK-GKANFITGIQIAQLALKH--RQNKNQKQRIVAFVGSPIEED--------EKDLVKLAKRLKKNNV 137 (187)
T ss_pred HHHHHHHHHhCCCC-CcchHHHHHHHHHHHHhc--CCCcCCcceEEEEEecCCcCC--------HHHHHHHHHHHHHcCC
Confidence 45566777777543 345799999999999864 222222336 55555543322 2468889999999999
Q ss_pred EEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccC
Q 006065 158 RMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSS 192 (662)
Q Consensus 158 ~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~ 192 (662)
.+.+|++|+. .+|...|..|.+..+
T Consensus 138 ~v~vI~~G~~----------~~~~~~l~~~~~~~~ 162 (187)
T cd01452 138 SVDIINFGEI----------DDNTEKLTAFIDAVN 162 (187)
T ss_pred eEEEEEeCCC----------CCCHHHHHHHHHHhc
Confidence 9999999751 135567777776653
No 17
>PRK13685 hypothetical protein; Provisional
Probab=99.22 E-value=5.6e-10 Score=118.81 Aligned_cols=178 Identities=16% Similarity=0.182 Sum_probs=119.8
Q ss_pred eEEEEEEeCCCCcCC------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC
Q 006065 6 EALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (662)
Q Consensus 6 ea~vflIDvs~sM~~------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~ 79 (662)
-.+||+||+|.||.. .++.|+..+..++.+ .+++|+||+|.|+++. ++..|+..-.
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~---l~~~d~vglv~Fa~~a---------------~~~~p~t~d~ 150 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADE---LTPGINLGLIAFAGTA---------------TVLVSPTTNR 150 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHh---CCCCCeEEEEEEcCce---------------eecCCCCCCH
Confidence 469999999999985 478889999988883 2579999999999862 1345655422
Q ss_pred HHHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHh---cc-CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhC
Q 006065 80 GHLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKY---GE-TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 155 (662)
Q Consensus 80 ~~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~---~~-kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~ 155 (662)
......|+.+..+. ..+..++|..|++.+.+.. +. .....++|||||||.+..+.+. .........++.+++.
T Consensus 151 ~~l~~~l~~l~~~~-~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~--~~~~~~~~aa~~a~~~ 227 (326)
T PRK13685 151 EATKNAIDKLQLAD-RTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNP--DNPRGAYTAARTAKDQ 227 (326)
T ss_pred HHHHHHHHhCCCCC-CcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCC--CCcccHHHHHHHHHHc
Confidence 33555677776543 3356799999999876410 11 1123578999999988654210 0011234567888999
Q ss_pred CcEEEEEeeccCC---CCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHh
Q 006065 156 GLRMKNIVVRASL---SGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSL 204 (662)
Q Consensus 156 gI~l~vi~i~~~~---~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~l 204 (662)
||.+++|+++... ..++.......++..|+.+++.++|+++...++.++
T Consensus 228 gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~~L 279 (326)
T PRK13685 228 GVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAASLEEL 279 (326)
T ss_pred CCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCCHHHH
Confidence 9999999997410 001111122346789999999999999987775443
No 18
>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=99.20 E-value=9.5e-10 Score=106.73 Aligned_cols=163 Identities=15% Similarity=0.208 Sum_probs=112.1
Q ss_pred EEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHH
Q 006065 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (662)
Q Consensus 7 a~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~ 84 (662)
-++|+||+|.||.. .++.++.++..++... ....|++|||.|++... .+..|+...-....+
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 37899999999985 5777888888777532 35789999999986421 122344332233456
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhH-HHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQV-STIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~-~~ia~~l~~~gI~l~vi~ 163 (662)
.|+.++.+. ..++.+||..|.+.+... .......+.|||||||....+. ...... ...++.+++.||.+.+|+
T Consensus 66 ~l~~l~~~G-~T~l~~aL~~a~~~l~~~-~~~~~~~~~ivliTDG~~~~g~----~~~~~~~~~~~~~l~~~gi~v~~I~ 139 (178)
T cd01451 66 RLARLPTGG-GTPLAAGLLAAYELAAEQ-ARDPGQRPLIVVITDGRANVGP----DPTADRALAAARKLRARGISALVID 139 (178)
T ss_pred HHHhCCCCC-CCcHHHHHHHHHHHHHHH-hcCCCCceEEEEECCCCCCCCC----CchhHHHHHHHHHHHhcCCcEEEEe
Confidence 677775532 347889999999987322 2111235889999999876542 011223 677889999999998888
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 201 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a 201 (662)
++.. . .++.+|+.+++.++|+++.+.++
T Consensus 140 ~~~~-----~-----~~~~~l~~iA~~tgG~~~~~~d~ 167 (178)
T cd01451 140 TEGR-----P-----VRRGLAKDLARALGGQYVRLPDL 167 (178)
T ss_pred CCCC-----c-----cCccHHHHHHHHcCCeEEEcCcC
Confidence 7431 0 13578999999999999988775
No 19
>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=99.16 E-value=3.3e-09 Score=101.66 Aligned_cols=161 Identities=17% Similarity=0.278 Sum_probs=111.0
Q ss_pred EEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC-CCH-HHHH
Q 006065 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDG-HLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~-~~~-~~l~ 84 (662)
++|+||+|.||... ++.++.++..++.+ ..+.|.||||.|+++.. ++.+... .+. .+..
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 78999999999764 66677776666652 35789999999998621 1222221 122 2344
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEee
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVV 164 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i 164 (662)
.|.++..+ +..++..||..|.+.+.+... ....++|||||||....+. ...+.+...++.++..+|.+.+|++
T Consensus 65 ~l~~~~~~-g~T~~~~al~~a~~~~~~~~~--~~~~~~ivl~TDG~~~~~~----~~~~~~~~~~~~~~~~~v~i~~i~~ 137 (170)
T cd01465 65 AIDRLTAG-GSTAGGAGIQLGYQEAQKHFV--PGGVNRILLATDGDFNVGE----TDPDELARLVAQKRESGITLSTLGF 137 (170)
T ss_pred HHHcCCCC-CCCCHHHHHHHHHHHHHhhcC--CCCeeEEEEEeCCCCCCCC----CCHHHHHHHHHHhhcCCeEEEEEEe
Confidence 56666543 234788999999998765322 1234789999999875432 1234566667778889999999999
Q ss_pred ccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHh
Q 006065 165 RASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSL 204 (662)
Q Consensus 165 ~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~l 204 (662)
+.. .+...|+.+++..+|.++.++++.++
T Consensus 138 g~~-----------~~~~~l~~ia~~~~g~~~~~~~~~~~ 166 (170)
T cd01465 138 GDN-----------YNEDLMEAIADAGNGNTAYIDNLAEA 166 (170)
T ss_pred CCC-----------cCHHHHHHHHhcCCceEEEeCCHHHH
Confidence 531 24688999999999998888777554
No 20
>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=99.13 E-value=2.2e-09 Score=104.99 Aligned_cols=154 Identities=16% Similarity=0.181 Sum_probs=106.9
Q ss_pred EEEEEEeCCCCcC-CchhHHHHHHHHHHHHH------HhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC--
Q 006065 7 ALLLLLDVSPSMH-SVLPDVEKLCSRLIQKK------LIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-- 77 (662)
Q Consensus 7 a~vflIDvs~sM~-~~l~~a~~~~~~l~~~k------i~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~-- 77 (662)
-++|+||.|.||. ..++.++..+..++.+. -+....++||||.|+++.+ +..++..
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~---------------~~~~l~~~~ 68 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQE---------------VEAGFLRDI 68 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCce---------------eeEeccccc
Confidence 3799999999998 45666666666666654 2235679999999997621 2344442
Q ss_pred CC-HHHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCC
Q 006065 78 VD-GHLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFG 156 (662)
Q Consensus 78 ~~-~~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~g 156 (662)
.+ ....+.|+++....+.....+||..|.+++.. +.+....|.|+|||||.+.... ...+...++.+++.|
T Consensus 69 ~~~~~l~~~i~~l~~~gg~T~~~~AL~~a~~~l~~--~~~~~~~~~iillTDG~~~~~~------~~~~~~~~~~~~~~g 140 (186)
T cd01480 69 RNYTSLKEAVDNLEYIGGGTFTDCALKYATEQLLE--GSHQKENKFLLVITDGHSDGSP------DGGIEKAVNEADHLG 140 (186)
T ss_pred CCHHHHHHHHHhCccCCCCccHHHHHHHHHHHHhc--cCCCCCceEEEEEeCCCcCCCc------chhHHHHHHHHHHCC
Confidence 33 34566677775322334778999999998765 2334567899999999874221 135667788899999
Q ss_pred cEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCee
Q 006065 157 LRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKT 195 (662)
Q Consensus 157 I~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~ 195 (662)
|.+.+|+++. .|+..|..++....+.+
T Consensus 141 i~i~~vgig~------------~~~~~L~~IA~~~~~~~ 167 (186)
T cd01480 141 IKIFFVAVGS------------QNEEPLSRIACDGKSAL 167 (186)
T ss_pred CEEEEEecCc------------cchHHHHHHHcCCcchh
Confidence 9999999953 13466888888776653
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=99.12 E-value=3.5e-09 Score=102.67 Aligned_cols=164 Identities=21% Similarity=0.235 Sum_probs=103.6
Q ss_pred EEEEEEeCCCCcCCc-------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC
Q 006065 7 ALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (662)
Q Consensus 7 a~vflIDvs~sM~~~-------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~ 79 (662)
-++|+||+|.||... +..++.++..++. ..+.|+||||.|+++. .+..++.. +
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~----~~~~~~v~lv~f~~~~---------------~~~~~~~~-~ 63 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFID----RRENDRIGLVVFAGAA---------------FTQAPLTL-D 63 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHH----hCCCCeEEEEEEcCCe---------------eeccCCCc-c
Confidence 479999999999643 3455666655555 5689999999998752 12234432 2
Q ss_pred HH-HHHHhhcCCC--CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCC
Q 006065 80 GH-LVQSLKHLPQ--GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFG 156 (662)
Q Consensus 80 ~~-~l~~L~~l~~--~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~g 156 (662)
.. ..+.|..+.. .....++.+||..|++++.+. . ...+.|||||||....+. ......++.+++.|
T Consensus 64 ~~~~~~~l~~l~~~~~~g~T~l~~al~~a~~~l~~~-~---~~~~~iiliTDG~~~~g~-------~~~~~~~~~~~~~g 132 (180)
T cd01467 64 RESLKELLEDIKIGLAGQGTAIGDAIGLAIKRLKNS-E---AKERVIVLLTDGENNAGE-------IDPATAAELAKNKG 132 (180)
T ss_pred HHHHHHHHHHhhhcccCCCCcHHHHHHHHHHHHHhc-C---CCCCEEEEEeCCCCCCCC-------CCHHHHHHHHHHCC
Confidence 22 2233444431 122346788999999987652 1 235789999999765331 12334456677899
Q ss_pred cEEEEEeeccCCCCCCCc-chhhhhhHHHHHHhhccCCeeeehhchH
Q 006065 157 LRMKNIVVRASLSGEPHM-RVIIENDNLLNIFSKKSSAKTLFVDSTT 202 (662)
Q Consensus 157 I~l~vi~i~~~~~~~~~~-~~~~~ne~~L~~l~~~~~g~~~~~~~a~ 202 (662)
|.+.+|+++.... .... .....+...|+.+++.++|+++.+.+..
T Consensus 133 i~i~~i~ig~~~~-~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~~~ 178 (180)
T cd01467 133 VRIYTIGVGKSGS-GPKPDGSTILDEDSLVEIADKTGGRIFRALDGF 178 (180)
T ss_pred CEEEEEEecCCCC-CcCCCCcccCCHHHHHHHHHhcCCEEEEecCcc
Confidence 9999999975100 0000 0012345789999999999998876653
No 22
>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=99.09 E-value=3.4e-09 Score=101.31 Aligned_cols=151 Identities=17% Similarity=0.179 Sum_probs=104.4
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC-CC-HHHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VD-GHLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~-~~-~~~l~ 84 (662)
++|+||+|.||.. .++.+++++..++.+.......+++|||.|+++. .+..++.. .+ ....+
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 4677788888888765445678999999999752 12234442 22 34566
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHh-ccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKY-GETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~-~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
.|+.+....+..++.+||..|.+++.... ..+....+.|+|||||.++- .....+..+++.||.+.+|+
T Consensus 68 ~l~~l~~~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~~----------~~~~~~~~l~~~gv~i~~ig 137 (164)
T cd01472 68 AVKNLRYIGGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQD----------DVEEPAVELKQAGIEVFAVG 137 (164)
T ss_pred HHHhCcCCCCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCCc----------hHHHHHHHHHHCCCEEEEEE
Confidence 67777643223478899999999875421 11223467799999996532 23344567888999999999
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhccCCee
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKSSAKT 195 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~ 195 (662)
++. . +...|+.++...+|.+
T Consensus 138 ~g~-----~-------~~~~L~~ia~~~~~~~ 157 (164)
T cd01472 138 VKN-----A-------DEEELKQIASDPKELY 157 (164)
T ss_pred CCc-----C-------CHHHHHHHHCCCchhe
Confidence 853 1 4678889988776654
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=99.07 E-value=6.8e-09 Score=101.38 Aligned_cols=155 Identities=12% Similarity=0.106 Sum_probs=101.4
Q ss_pred CeEEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHH
Q 006065 5 REALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~ 84 (662)
+--++|+||.|.||......+.+.+..++.+. ..+.++||||.|+++. .+..|+........+
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 34589999999999876655666677777643 3577999999999762 134555544333333
Q ss_pred H---hhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEE
Q 006065 85 S---LKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 161 (662)
Q Consensus 85 ~---L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~v 161 (662)
. |..+..+ +..++.+||..|.+.+.+.........+.|||||||.+.-.. .......++.+++.||.+.+
T Consensus 67 ~l~~l~~~~~~-g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~------~~~~~~~a~~l~~~gv~i~~ 139 (185)
T cd01474 67 GLEVLKKVTPS-GQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNG------HKYPEHEAKLSRKLGAIVYC 139 (185)
T ss_pred HHHHHhccCCC-CCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCC------CcchHHHHHHHHHcCCEEEE
Confidence 3 4444333 234778999999987753212111234789999999873111 01244556788999999999
Q ss_pred EeeccCCCCCCCcchhhhhhHHHHHHhhccCCee
Q 006065 162 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKT 195 (662)
Q Consensus 162 i~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~ 195 (662)
||+++ .|+..|+.++...++.+
T Consensus 140 vgv~~------------~~~~~L~~iA~~~~~~f 161 (185)
T cd01474 140 VGVTD------------FLKSQLINIADSKEYVF 161 (185)
T ss_pred Eeech------------hhHHHHHHHhCCCCeeE
Confidence 99832 23567888887665433
No 24
>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=99.03 E-value=1.1e-08 Score=100.93 Aligned_cols=167 Identities=15% Similarity=0.148 Sum_probs=106.6
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC---C-HHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---D-GHL 82 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~---~-~~~ 82 (662)
++||||+|.||.. .++.++.++..++.+.-.....|++|||.|+++.. +..|+..+ + ...
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 7999999999974 57888888888887643345689999999999731 22344322 2 346
Q ss_pred HHHhhcCCCC---C-CCCchhhHHHHHHHHHHHHhcc----CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHH---
Q 006065 83 VQSLKHLPQG---T-CAGDFLDAIVVGVDMLIKKYGE----TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQ--- 151 (662)
Q Consensus 83 l~~L~~l~~~---~-~~gd~~daL~va~d~l~~~~~~----kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~--- 151 (662)
+..|+.+... . +..++.+||..+.+.+...... .....+.|||||||....+. ........+.+.
T Consensus 68 ~~~l~~~~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~----~~~~~~~~~~~~~~~ 143 (198)
T cd01470 68 IKRLEDFNYDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGG----SPLPTVDKIKNLVYK 143 (198)
T ss_pred HHHHHhCCcccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCC----ChhHHHHHHHHHHhc
Confidence 6777776421 1 1236778888887765321111 01235679999999875431 111122222221
Q ss_pred ------HhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCC--eeeehhchHHh
Q 006065 152 ------MVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSA--KTLFVDSTTSL 204 (662)
Q Consensus 152 ------l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g--~~~~~~~a~~l 204 (662)
+++.+|.+.+||++.. .|...|+.++..++| .++.+.+..++
T Consensus 144 ~~~~~~~~~~~v~i~~iGvG~~-----------~~~~~L~~iA~~~~g~~~~f~~~~~~~l 193 (198)
T cd01470 144 NNKSDNPREDYLDVYVFGVGDD-----------VNKEELNDLASKKDNERHFFKLKDYEDL 193 (198)
T ss_pred ccccccchhcceeEEEEecCcc-----------cCHHHHHHHhcCCCCCceEEEeCCHHHH
Confidence 2556899999999641 246889999999888 46777665443
No 25
>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=99.03 E-value=7.9e-09 Score=108.67 Aligned_cols=168 Identities=20% Similarity=0.232 Sum_probs=112.9
Q ss_pred eEEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHHH
Q 006065 6 EALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQS 85 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~~ 85 (662)
=.++||||+|.||...+..+++++..++...+ +++|+||||.|++.. .+++++..-...+.+.
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 689999999999752 1234544333345666
Q ss_pred hhcCCCC--------------CCCCchhhHHHHHH-HHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHH
Q 006065 86 LKHLPQG--------------TCAGDFLDAIVVGV-DMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIAR 150 (662)
Q Consensus 86 L~~l~~~--------------~~~gd~~daL~va~-d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~ 150 (662)
|.++... .+..++.+||..|. +++.+..+. ....|.|||||||.+... ...+..+++
T Consensus 117 l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~-~p~rk~iIllTDG~~~~~-------~~~~~~~~~ 188 (296)
T TIGR03436 117 LNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAG-IPGRKALIVISDGGDNRS-------RDTLERAID 188 (296)
T ss_pred HHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcC-CCCCeEEEEEecCCCcch-------HHHHHHHHH
Confidence 7776441 12336788886664 555442211 124678999999976532 356778888
Q ss_pred HHhhCCcEEEEEeeccCCC-CCC-CcchhhhhhHHHHHHhhccCCeeeeh
Q 006065 151 QMVAFGLRMKNIVVRASLS-GEP-HMRVIIENDNLLNIFSKKSSAKTLFV 198 (662)
Q Consensus 151 ~l~~~gI~l~vi~i~~~~~-~~~-~~~~~~~ne~~L~~l~~~~~g~~~~~ 198 (662)
.++..+|.+.+|++++... +.. .......++..|+.++..++|+++..
T Consensus 189 ~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~ 238 (296)
T TIGR03436 189 AAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGRAFYV 238 (296)
T ss_pred HHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCeEecc
Confidence 8999999999999863100 000 00000024688999999999998765
No 26
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=99.01 E-value=1.3e-08 Score=115.18 Aligned_cols=165 Identities=16% Similarity=0.186 Sum_probs=118.5
Q ss_pred eEEEEEEeCCCCcC-CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHH
Q 006065 6 EALLLLLDVSPSMH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (662)
Q Consensus 6 ea~vflIDvs~sM~-~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~ 84 (662)
-.++||||+|.||. ..+..++.++..++.+. +++.|+||||.|+++.. .++.|....-....+
T Consensus 402 ~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~a--y~~rD~v~lI~F~g~~a--------------~~~lppT~~~~~~~~ 465 (584)
T PRK13406 402 TTTIFVVDASGSAALHRLAEAKGAVELLLAEA--YVRRDQVALVAFRGRGA--------------ELLLPPTRSLVRAKR 465 (584)
T ss_pred ccEEEEEECCCCCcHhHHHHHHHHHHHHHHhh--cCCCCEEEEEEECCCce--------------eEEcCCCcCHHHHHH
Confidence 57899999999995 35788899988888652 57899999999987632 134455442234566
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCC---CCchhhHHHHHHHHhhCCcEEEE
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDV---GTKEDQVSTIARQMVAFGLRMKN 161 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~---~~~~~~~~~ia~~l~~~gI~l~v 161 (662)
.|..++.+. ...+.+||..|.+++... .. +...++|||||||..+.+.... .....+....+..+...||.+.+
T Consensus 466 ~L~~l~~gG-gTpL~~gL~~A~~~l~~~-~~-~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~v 542 (584)
T PRK13406 466 SLAGLPGGG-GTPLAAGLDAAAALALQV-RR-KGMTPTVVLLTDGRANIARDGTAGRAQAEEDALAAARALRAAGLPALV 542 (584)
T ss_pred HHhcCCCCC-CChHHHHHHHHHHHHHHh-cc-CCCceEEEEEeCCCCCCCccccccccchhhHHHHHHHHHHhcCCeEEE
Confidence 677787653 347899999999987763 22 2346899999999988753100 01123456778899999999988
Q ss_pred EeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch
Q 006065 162 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 201 (662)
Q Consensus 162 i~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a 201 (662)
|.++. . ...++..+++.++|+|+.+..+
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 87742 1 1356888999999999988765
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=99.00 E-value=1.2e-08 Score=101.30 Aligned_cols=162 Identities=14% Similarity=0.107 Sum_probs=104.1
Q ss_pred eEEEEEEeCCCCcCC-------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEec----
Q 006065 6 EALLLLLDVSPSMHS-------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD---- 74 (662)
Q Consensus 6 ea~vflIDvs~sM~~-------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~---- 74 (662)
-.++|+||+|.||.. .++.++.++..++.. ..++|+||||.|++..+... .|.-+....+
T Consensus 21 ~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~~------~~~~~~p~~~~~~~ 91 (206)
T cd01456 21 PNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNPL------DVRVLVPKGCLTAP 91 (206)
T ss_pred CcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCCc------cccccccccccccc
Confidence 468999999999982 467788888888874 35799999999999642110 1211110011
Q ss_pred cCC---CCHH-HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHH
Q 006065 75 IKV---VDGH-LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIAR 150 (662)
Q Consensus 75 l~~---~~~~-~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~ 150 (662)
+.. .+.. +.+.|..+....+..++.+||..|.+++. . ...+.|||||||....+. +.. ..+.
T Consensus 92 ~~~~~~~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~---~---~~~~~iillTDG~~~~~~-------~~~-~~~~ 157 (206)
T cd01456 92 VNGFPSAQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD---P---GRVNVVVLITDGEDTCGP-------DPC-EVAR 157 (206)
T ss_pred cCCCCcccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC---C---CCcceEEEEcCCCccCCC-------CHH-HHHH
Confidence 111 1223 34456666512223478899999988863 1 124899999999876431 112 2233
Q ss_pred HHhh-----CCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCee-eehhch
Q 006065 151 QMVA-----FGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKT-LFVDST 201 (662)
Q Consensus 151 ~l~~-----~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~-~~~~~a 201 (662)
.+.. .+|.+.+|+++.. .+...|+.++..++|.+ +...++
T Consensus 158 ~~~~~~~~~~~i~i~~igiG~~-----------~~~~~l~~iA~~tgG~~~~~~~~~ 203 (206)
T cd01456 158 ELAKRRTPAPPIKVNVIDFGGD-----------ADRAELEAIAEATGGTYAYNQSDL 203 (206)
T ss_pred HHHHhcCCCCCceEEEEEecCc-----------ccHHHHHHHHHhcCCeEecccccc
Confidence 3333 4999999999641 23688999999999998 766554
No 28
>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=98.99 E-value=1.5e-08 Score=96.97 Aligned_cols=147 Identities=19% Similarity=0.223 Sum_probs=101.8
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC-CCH-HHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VDG-HLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~-~~~-~~l~ 84 (662)
++|+||.|.||.. .+..++..+..++.+.-+..++++||||.|+++.. +..++.. .+. .+++
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 57888888888888754566899999999999731 1123321 222 4566
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHH-hccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKK-YGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~-~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
.|.++....+..++..||..+.+.+.+. .+.+.-..|.|+|||||.+. +++..++..+++.||.+.+|+
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 6777653222346789998887654331 12222346779999999753 245678899999999999999
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhcc
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKS 191 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~ 191 (662)
++. .+...|..++...
T Consensus 138 ~g~------------~~~~~L~~ia~~~ 153 (164)
T cd01482 138 VKD------------ADESELKMIASKP 153 (164)
T ss_pred cCc------------CCHHHHHHHhCCC
Confidence 843 1246677887654
No 29
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.96 E-value=4e-09 Score=100.59 Aligned_cols=147 Identities=18% Similarity=0.307 Sum_probs=102.9
Q ss_pred EEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHH
Q 006065 8 LLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH 81 (662)
Q Consensus 8 ~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~ 81 (662)
+|||||.|.||... +..++..+..++.+ .+.|+|||+.|+... .+..++. .+..
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 67778888888884 578999999999852 1234554 3444
Q ss_pred -HHHHhhcCCC---CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCc
Q 006065 82 -LVQSLKHLPQ---GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGL 157 (662)
Q Consensus 82 -~l~~L~~l~~---~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI 157 (662)
....|.++.. .....++.+||..|.+++... ....+.|||||||... ......++.+++.||
T Consensus 62 ~~~~~l~~~~~~~~~~~~t~~~~al~~a~~~~~~~----~~~~~~iv~iTDG~~~----------~~~~~~~~~~~~~~i 127 (172)
T PF13519_consen 62 ELKNALNKLSPQGMPGGGTNLYDALQEAAKMLASS----DNRRRAIVLITDGEDN----------SSDIEAAKALKQQGI 127 (172)
T ss_dssp HHHHHHHTHHHHG--SSS--HHHHHHHHHHHHHC-----SSEEEEEEEEES-TTH----------CHHHHHHHHHHCTTE
T ss_pred HHHHHhhcccccccCccCCcHHHHHHHHHHHHHhC----CCCceEEEEecCCCCC----------cchhHHHHHHHHcCC
Confidence 4445555532 133457889999999997542 2457889999998553 123358888999999
Q ss_pred EEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeeh
Q 006065 158 RMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 198 (662)
Q Consensus 158 ~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~ 198 (662)
.+.+|+++.. .. ....|+.++..++|.++..
T Consensus 128 ~i~~v~~~~~----~~------~~~~l~~la~~tgG~~~~~ 158 (172)
T PF13519_consen 128 TIYTVGIGSD----SD------ANEFLQRLAEATGGRYFHV 158 (172)
T ss_dssp EEEEEEES-T----T-------EHHHHHHHHHHTEEEEEEE
T ss_pred eEEEEEECCC----cc------HHHHHHHHHHhcCCEEEEe
Confidence 9999999641 11 1368899999999999887
No 30
>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=98.96 E-value=1.2e-08 Score=100.28 Aligned_cols=138 Identities=20% Similarity=0.225 Sum_probs=98.1
Q ss_pred EEEEEeCCCCcCCc-hh-HHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC---C-HH
Q 006065 8 LLLLLDVSPSMHSV-LP-DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---D-GH 81 (662)
Q Consensus 8 ~vflIDvs~sM~~~-l~-~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~---~-~~ 81 (662)
++|+||.|.||... +. .++..+..++++-.++..+++||||.|++... +..|+... + ..
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 55 47888889999888889999999999998631 23344332 2 23
Q ss_pred HHHHhhcCCCC---CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcE
Q 006065 82 LVQSLKHLPQG---TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 158 (662)
Q Consensus 82 ~l~~L~~l~~~---~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~ 158 (662)
.++.+.++... .+.....+||..|.+.+...-+.+....|-+||||||.+.-.. ...+...++.|++.||+
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 55556655321 1233678999999887654212222236789999999886431 23577889999999999
Q ss_pred EEEEeecc
Q 006065 159 MKNIVVRA 166 (662)
Q Consensus 159 l~vi~i~~ 166 (662)
+.+||++.
T Consensus 142 i~~vGiG~ 149 (192)
T cd01473 142 LLVVGVGA 149 (192)
T ss_pred EEEEEecc
Confidence 99999964
No 31
>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=98.96 E-value=1.8e-08 Score=98.39 Aligned_cols=148 Identities=18% Similarity=0.155 Sum_probs=100.3
Q ss_pred EEEEEeCCCCcCCc--hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC---CHH-
Q 006065 8 LLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---DGH- 81 (662)
Q Consensus 8 ~vflIDvs~sM~~~--l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~---~~~- 81 (662)
++|+||.|.||... +..++..+..++++.-+...+.+||||.|++... +..++... +..
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 68999999999865 6778888888888654556788999999997521 22333322 222
Q ss_pred ---HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcE
Q 006065 82 ---LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 158 (662)
Q Consensus 82 ---~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~ 158 (662)
.++.|.......+..++.+||..|.+.+...-+.+....+.|||||||..... ......++.+++.||.
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 34555554333334578999999998876521222345678999999975322 2234567889999999
Q ss_pred EEEEeeccCCCCCCCcchhhhhhHHHHHHhh
Q 006065 159 MKNIVVRASLSGEPHMRVIIENDNLLNIFSK 189 (662)
Q Consensus 159 l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~ 189 (662)
+.+|+++.+ .|...|+.++.
T Consensus 140 v~~igiG~~-----------~d~~~l~~ia~ 159 (186)
T cd01471 140 IAVLGVGQG-----------VNHEENRSLVG 159 (186)
T ss_pred EEEEEeehh-----------hCHHHHHHhcC
Confidence 999999641 13466777665
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=98.94 E-value=3.9e-08 Score=95.32 Aligned_cols=164 Identities=18% Similarity=0.149 Sum_probs=111.5
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC--CHHHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV--DGHLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~--~~~~l~ 84 (662)
++|+||.|.||.. .++.++..+..++.+.-++..+++||||.|++..+ +..++... ..+.++
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 57888999999998777777899999999998631 12233211 124556
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHH-hccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKK-YGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~-~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
.++.+....+.....+||..|.+++... .+.+....|.+||||||.+.-+. .....++.+++.||.+.+||
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 6666643222357789999999876421 12333457789999999886331 12556778999999999999
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhccCC-eeeehhch
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKSSA-KTLFVDST 201 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g-~~~~~~~a 201 (662)
++..+.. ..+.+.|+.+++...+ .++.+.+.
T Consensus 140 vg~~~~~-------~~~~~~L~~ias~p~~~h~f~~~~~ 171 (177)
T cd01469 140 VGGHFQR-------ENSREELKTIASKPPEEHFFNVTDF 171 (177)
T ss_pred ecccccc-------cccHHHHHHHhcCCcHHhEEEecCH
Confidence 9652110 1234678888877543 45665554
No 33
>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=98.93 E-value=3.2e-08 Score=93.42 Aligned_cols=149 Identities=16% Similarity=0.190 Sum_probs=104.8
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-C-HHHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D-GHLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~-~~~l~ 84 (662)
++|+||+|.||.. .+..+...+..++.......+++++||+.|++... ...++... + ....+
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 57777888888877655566899999999998521 11233222 2 34566
Q ss_pred HhhcCCCCC-CCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGT-CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~-~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
.|..+.... ...++.+||..|.+++.+....+....+.|||||||..... .+....++.+++.||.+.+|+
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 676664322 24578999999999876532112245678999999976532 157788899999999999999
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhcc
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKS 191 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~ 191 (662)
++. .+...|..++..+
T Consensus 140 ~g~------------~~~~~l~~la~~~ 155 (161)
T cd01450 140 VGP------------ADEEELREIASCP 155 (161)
T ss_pred ccc------------cCHHHHHHHhCCC
Confidence 843 1246777777665
No 34
>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=98.93 E-value=2.4e-08 Score=95.14 Aligned_cols=152 Identities=18% Similarity=0.148 Sum_probs=102.0
Q ss_pred EEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-CH-HHHHH
Q 006065 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLVQS 85 (662)
Q Consensus 8 ~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~~-~~l~~ 85 (662)
++|+||+|.||...++..++.+..++.+-....++++||||.|+++. +..+..++... +. ..++.
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 68999999999887777888888888765556779999999998852 12223344332 22 46667
Q ss_pred hhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh-CCcEEEEEee
Q 006065 86 LKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA-FGLRMKNIVV 164 (662)
Q Consensus 86 L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~-~gI~l~vi~i 164 (662)
+..+........+.+||..|.+++.+....+....+.|+|+|||.+.. .....++.|+. .||.+.+|++
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 777753222347889999999987532222223457899999997642 13344667777 8999999998
Q ss_pred ccCCCCCCCcchhhhhhHHHHHHhhcc
Q 006065 165 RASLSGEPHMRVIIENDNLLNIFSKKS 191 (662)
Q Consensus 165 ~~~~~~~~~~~~~~~ne~~L~~l~~~~ 191 (662)
++.. ..|...|..++...
T Consensus 140 g~~~---------~~~~~~L~~ia~~~ 157 (163)
T cd01476 140 GDPG---------TVDTEELHSITGNE 157 (163)
T ss_pred CCcc---------ccCHHHHHHHhCCC
Confidence 5410 12456677776543
No 35
>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=98.92 E-value=4.4e-10 Score=97.38 Aligned_cols=65 Identities=29% Similarity=0.511 Sum_probs=45.9
Q ss_pred cCCCCCCCCchhHHHHHHHHHhhcCCCCCCCCCchhhhhhcCCChHHHHHHHHHHHHHHhhcCCccC
Q 006065 450 ILQPELTPNPALERFYHHLELKSEHQDAAPPPLDDSLKKITEPDPTLLAESQSAIDAFCGQFVIKEN 516 (662)
Q Consensus 450 ~~~p~~~~NP~lqr~~~~l~~~al~~~~~~p~~~~~l~~~~~p~~~~~~~~~~~l~~~k~~f~~~~~ 516 (662)
.|+|+.|+||+|||||++|+++||+++.|+|+.|.++.++..++..+ +++..|++|+++|.+...
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 39999999999999999999999999999999998888877766432 466789999999998776
No 36
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=98.91 E-value=6.5e-08 Score=96.02 Aligned_cols=167 Identities=19% Similarity=0.247 Sum_probs=122.6
Q ss_pred eEEEEEEeCCCCcCCc--hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHH
Q 006065 6 EALLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLV 83 (662)
Q Consensus 6 ea~vflIDvs~sM~~~--l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l 83 (662)
.-+||+||.|.||... +..|+-++..|+..= ++..|+||||.|++++.. ++.|.+.--...-
T Consensus 79 ~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dA--Yq~RdkvavI~F~G~~A~--------------lll~pT~sv~~~~ 142 (261)
T COG1240 79 NLIVFVVDASGSMAARRRMAAAKGAALSLLRDA--YQRRDKVAVIAFRGEKAE--------------LLLPPTSSVELAE 142 (261)
T ss_pred CcEEEEEeCcccchhHHHHHHHHHHHHHHHHHH--HHccceEEEEEecCCcce--------------EEeCCcccHHHHH
Confidence 3489999999999876 778888999888854 689999999999987532 2344444333456
Q ss_pred HHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCC-cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 84 QSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETY-KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 84 ~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk-~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
+.|+.++.|. ..++.+||..|.+.+.+. ..++ -..-.+|+||||..+...+ ..........+..+...|+.+.+|
T Consensus 143 ~~L~~l~~GG-~TPL~~aL~~a~ev~~r~-~r~~p~~~~~~vviTDGr~n~~~~--~~~~~e~~~~a~~~~~~g~~~lvi 218 (261)
T COG1240 143 RALERLPTGG-KTPLADALRQAYEVLARE-KRRGPDRRPVMVVITDGRANVPIP--LGPKAETLEAASKLRLRGIQLLVI 218 (261)
T ss_pred HHHHhCCCCC-CCchHHHHHHHHHHHHHh-hccCCCcceEEEEEeCCccCCCCC--CchHHHHHHHHHHHhhcCCcEEEE
Confidence 7788898864 348899999999998874 3221 2456799999999765542 112456778889999999999988
Q ss_pred eeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchH
Q 006065 163 VVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTT 202 (662)
Q Consensus 163 ~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~ 202 (662)
..-.++ ..-.+...++...+|.++.+++..
T Consensus 219 d~e~~~----------~~~g~~~~iA~~~Gg~~~~L~~l~ 248 (261)
T COG1240 219 DTEGSE----------VRLGLAEEIARASGGEYYHLDDLS 248 (261)
T ss_pred ecCCcc----------ccccHHHHHHHHhCCeEEeccccc
Confidence 763210 113567778889999999888763
No 37
>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=98.91 E-value=5.6e-08 Score=95.34 Aligned_cols=167 Identities=16% Similarity=0.208 Sum_probs=101.7
Q ss_pred CeEEEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCc-cccccCCCcccEEEEeccCCCCH-H
Q 006065 5 REALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN-ELTKEVGGYEHVKVLQDIKVVDG-H 81 (662)
Q Consensus 5 Kea~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n-~l~~~~~~y~nI~v~~~l~~~~~-~ 81 (662)
.--++||||+|.||.. .++.++.++..++.+ ..++|+||||.|+++.+.- +. . ... +.....-+. .
T Consensus 13 p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~---l~~~d~v~lv~F~~~~~~~~~~------~-~~~-~~~~~~~~~~~ 81 (190)
T cd01463 13 PKDIVILLDVSGSMTGQRLHLAKQTVSSILDT---LSDNDFFNIITFSNEVNPVVPC------F-NDT-LVQATTSNKKV 81 (190)
T ss_pred CceEEEEEECCCCCCcHHHHHHHHHHHHHHHh---CCCCCEEEEEEeCCCeeEEeee------c-ccc-eEecCHHHHHH
Confidence 3468999999999974 477788888888763 3678999999999973211 00 0 000 000111122 2
Q ss_pred HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHh---c--cCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHH-HHhhC
Q 006065 82 LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKY---G--ETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIAR-QMVAF 155 (662)
Q Consensus 82 ~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~---~--~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~-~l~~~ 155 (662)
....|..+..+ +..++..||..|++++.+.. . ......+.|||||||...... +-+..... .-.+.
T Consensus 82 ~~~~l~~l~~~-G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~-------~~~~~~~~~~~~~~ 153 (190)
T cd01463 82 LKEALDMLEAK-GIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK-------EIFDKYNWDKNSEI 153 (190)
T ss_pred HHHHHhhCCCC-CcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh-------HHHHHhcccccCCC
Confidence 44556666543 23477899999999876511 0 111235789999999875321 11111110 11123
Q ss_pred CcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhc
Q 006065 156 GLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDS 200 (662)
Q Consensus 156 gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~ 200 (662)
+|.+.+||++.. . .|...|+.++...+|.|+.+.+
T Consensus 154 ~v~i~tigiG~~----~------~d~~~L~~lA~~~~G~~~~i~~ 188 (190)
T cd01463 154 PVRVFTYLIGRE----V------TDRREIQWMACENKGYYSHIQS 188 (190)
T ss_pred cEEEEEEecCCc----c------ccchHHHHHHhhcCCeEEEccc
Confidence 688889988641 0 1357899999999999887654
No 38
>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=98.90 E-value=7.9e-08 Score=92.09 Aligned_cols=162 Identities=14% Similarity=0.173 Sum_probs=106.0
Q ss_pred EEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC-HHHHH
Q 006065 7 ALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLVQ 84 (662)
Q Consensus 7 a~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~-~~~l~ 84 (662)
-++|+||+|.||... ++.+...+..++.. ..+.|.++|+.|+++.... +.. ..+....+ ...+.
T Consensus 4 ~v~~vlD~S~SM~~~~~~~~~~al~~~l~~---l~~~~~~~l~~Fs~~~~~~--------~~~---~~~~~~~~~~~~~~ 69 (171)
T cd01461 4 EVVFVIDTSGSMSGTKIEQTKEALLTALKD---LPPGDYFNIIGFSDTVEEF--------SPS---SVSATAENVAAAIE 69 (171)
T ss_pred eEEEEEECCCCCCChhHHHHHHHHHHHHHh---CCCCCEEEEEEeCCCceee--------cCc---ceeCCHHHHHHHHH
Confidence 478999999999754 66777777766653 3467899999999863110 000 00111111 12345
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEee
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVV 164 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i 164 (662)
.|..+..+ +..++..||-.|.+.+.. .....+.||+||||.... ...+...++.+.+.+|.+.+|++
T Consensus 70 ~l~~~~~~-g~T~l~~al~~a~~~l~~----~~~~~~~iillTDG~~~~--------~~~~~~~~~~~~~~~i~i~~i~~ 136 (171)
T cd01461 70 YVNRLQAL-GGTNMNDALEAALELLNS----SPGSVPQIILLTDGEVTN--------ESQILKNVREALSGRIRLFTFGI 136 (171)
T ss_pred HHHhcCCC-CCcCHHHHHHHHHHhhcc----CCCCccEEEEEeCCCCCC--------HHHHHHHHHHhcCCCceEEEEEe
Confidence 55666542 245788899999888643 123468899999998421 13455555666667999999999
Q ss_pred ccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhhc
Q 006065 165 RASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLRG 206 (662)
Q Consensus 165 ~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll~ 206 (662)
+.. .|..+|+.++..++|.+..+.+..++.+
T Consensus 137 g~~-----------~~~~~l~~ia~~~gG~~~~~~~~~~~~~ 167 (171)
T cd01461 137 GSD-----------VNTYLLERLAREGRGIARRIYETDDIES 167 (171)
T ss_pred CCc-----------cCHHHHHHHHHcCCCeEEEecChHHHHH
Confidence 641 1347899999999999988877755543
No 39
>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=98.87 E-value=8.9e-08 Score=96.50 Aligned_cols=157 Identities=17% Similarity=0.198 Sum_probs=104.7
Q ss_pred EEEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-CH-HHH
Q 006065 7 ALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLV 83 (662)
Q Consensus 7 a~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~~-~~l 83 (662)
-++|+||.|.||.. .++.++..+..++.+.-++...++||||.|+++. .+..++... +. +..
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 4788888898888875556678999999999873 123455432 22 345
Q ss_pred HHhhcCCCCCCCCchhhHHHHHHHHHHHHh-ccCCc---ccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEE
Q 006065 84 QSLKHLPQGTCAGDFLDAIVVGVDMLIKKY-GETYK---GKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 84 ~~L~~l~~~~~~gd~~daL~va~d~l~~~~-~~kk~---~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l 159 (662)
+.|..+...........||-.+++.+.... +.+.. +.|.|||||||.+. +++...+..+++.||.+
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 556666432222344578888876543211 22211 25678999999763 23667788999999999
Q ss_pred EEEeeccCCCCCCCcchhhhhhHHHHHHhhccCC-eeeehhc
Q 006065 160 KNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSA-KTLFVDS 200 (662)
Q Consensus 160 ~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g-~~~~~~~ 200 (662)
.+||++. .+...|+.++...++ .++..++
T Consensus 139 ~~VgvG~------------~~~~~L~~ias~~~~~~~f~~~~ 168 (224)
T cd01475 139 FAVGVGR------------ADEEELREIASEPLADHVFYVED 168 (224)
T ss_pred EEEeCCc------------CCHHHHHHHhCCCcHhcEEEeCC
Confidence 9999853 124678888876543 4444433
No 40
>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=98.86 E-value=5.8e-08 Score=93.64 Aligned_cols=158 Identities=15% Similarity=0.039 Sum_probs=95.9
Q ss_pred EEEEEeCCCCcCCc----------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCC-cCccccccCCCcccEEEEeccC
Q 006065 8 LLLLLDVSPSMHSV----------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEE-TENELTKEVGGYEHVKVLQDIK 76 (662)
Q Consensus 8 ~vflIDvs~sM~~~----------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~-t~n~l~~~~~~y~nI~v~~~l~ 76 (662)
++++||+|.||... |+.++.++..+. +-+-.++.|+|| |+++. .-.++ +.-.|+.
T Consensus 3 l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f~-~f~~~r~~DriG---~~g~~~~~~~l----------t~d~p~t 68 (191)
T cd01455 3 LKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAFD-GFEDKIQYDIIG---HSGDGPCVPFV----------KTNHPPK 68 (191)
T ss_pred eEEEEECcHhHHHHhccCCccccHHHHHHHHHHHHH-HHHHhCccceee---ecCcccccCcc----------ccccCcc
Confidence 78999999999431 233344444443 112378999999 33332 11111 1111221
Q ss_pred CCCH---HHHHH-hhcCCCC-CCCCchhhHHHHHHHHHH-HHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHH-HH
Q 006065 77 VVDG---HLVQS-LKHLPQG-TCAGDFLDAIVVGVDMLI-KKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVST-IA 149 (662)
Q Consensus 77 ~~~~---~~l~~-L~~l~~~-~~~gd~~daL~va~d~l~-~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~-ia 149 (662)
. +. +.+.. |.+.+.+ .+++.. |||..|++.|. + . ....|-|||||||++.... -.... .+
T Consensus 69 ~-d~~~~~~l~~~l~~~q~g~ag~~Ta-dAi~~av~rl~~~--~--~a~~kvvILLTDG~n~~~~-------i~P~~aAa 135 (191)
T cd01455 69 N-NKERLETLKMMHAHSQFCWSGDHTV-EATEFAIKELAAK--E--DFDEAIVIVLSDANLERYG-------IQPKKLAD 135 (191)
T ss_pred c-chhHHHHHHHHHHhcccCccCccHH-HHHHHHHHHHHhc--C--cCCCcEEEEEeCCCcCCCC-------CChHHHHH
Confidence 1 12 23332 3334433 223444 99999999986 4 2 1337899999999986442 12334 34
Q ss_pred HHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHh
Q 006065 150 RQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSL 204 (662)
Q Consensus 150 ~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~l 204 (662)
.-.++.||++++|+|+.+ ++..|+.+++.++|++|...+..+|
T Consensus 136 ~lA~~~gV~iytIgiG~~------------d~~~l~~iA~~tgG~~F~A~d~~~L 178 (191)
T cd01455 136 ALAREPNVNAFVIFIGSL------------SDEADQLQRELPAGKAFVCMDTSEL 178 (191)
T ss_pred HHHHhCCCEEEEEEecCC------------CHHHHHHHHhCCCCcEEEeCCHHHH
Confidence 556789999999999641 2567888999999999987776443
No 41
>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=98.86 E-value=8.6e-08 Score=109.53 Aligned_cols=164 Identities=16% Similarity=0.237 Sum_probs=115.4
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHH-HHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH-LVQS 85 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~-~l~~ 85 (662)
++|+||+|.||.. .+..++.++..++.. ...+.|+||||.|++.... ++.+... +.. ..+.
T Consensus 410 v~fvvD~SGSM~~~rl~~aK~av~~Ll~~--~~~~~D~v~Li~F~~~~a~--------------~~lp~t~-~~~~~~~~ 472 (589)
T TIGR02031 410 LIFVVDASGSAAVARMSEAKGAVELLLGE--AYVHRDQVSLIAFRGTAAE--------------VLLPPSR-SVEQAKRR 472 (589)
T ss_pred EEEEEECCCCCChHHHHHHHHHHHHHHHh--hccCCCEEEEEEECCCCce--------------EECCCCC-CHHHHHHH
Confidence 7899999999964 578888888888763 2457899999999875311 2233322 333 3456
Q ss_pred hhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCC----C----CchhhHHHHHHHHhhCCc
Q 006065 86 LKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDV----G----TKEDQVSTIARQMVAFGL 157 (662)
Q Consensus 86 L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~----~----~~~~~~~~ia~~l~~~gI 157 (662)
|..++.+. ..++.+||..|.+.+.+. .. +...+.|||||||..+++.... . ...+.+..++..+++.||
T Consensus 473 L~~l~~gG-gTpL~~gL~~A~~~~~~~-~~-~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi 549 (589)
T TIGR02031 473 LDVLPGGG-GTPLAAGLAAAFQTALQA-RS-SGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGM 549 (589)
T ss_pred HhcCCCCC-CCcHHHHHHHHHHHHHHh-cc-cCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCC
Confidence 77776543 347889999999998753 22 2346789999999987653110 0 113456777899999999
Q ss_pred EEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch
Q 006065 158 RMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 201 (662)
Q Consensus 158 ~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a 201 (662)
.+.+|+++..+ ....++..+++..+|.|+.+.++
T Consensus 550 ~~~vid~~~~~----------~~~~~~~~lA~~~~g~y~~l~~~ 583 (589)
T TIGR02031 550 PALVIDTAMRF----------VSTGFAQKLARKMGAHYIYLPNA 583 (589)
T ss_pred eEEEEeCCCCC----------ccchHHHHHHHhcCCcEEeCCCC
Confidence 99999884321 11357889999999999988775
No 42
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.84 E-value=1.1e-07 Score=110.80 Aligned_cols=152 Identities=15% Similarity=0.221 Sum_probs=104.4
Q ss_pred EEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC-HHHH
Q 006065 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLV 83 (662)
Q Consensus 7 a~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~-~~~l 83 (662)
-++|+||+|.||.. .+..+..++..++.+. ..+.|+||||.|++..+ ++.+|.+.+ ....
T Consensus 306 ~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~--l~~~DrVGLVtFsssA~---------------vl~pLt~Its~~dr 368 (863)
T TIGR00868 306 IVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQT--VEKGSWVGMVTFDSAAY---------------IKNELIQITSSAER 368 (863)
T ss_pred eEEEEEECCccccccCHHHHHHHHHHHHHHHh--CCCCCEEEEEEECCcee---------------EeeccccCCcHHHH
Confidence 38899999999974 3666667777666543 35799999999998631 345554432 2334
Q ss_pred HHhhc-CCC-CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEE
Q 006065 84 QSLKH-LPQ-GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 161 (662)
Q Consensus 84 ~~L~~-l~~-~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~v 161 (662)
+.|.. +.. ..+..++.+||..|+++|.+. .. +...+.|||||||+... ....+..+++.||.+..
T Consensus 369 ~aL~~~L~~~A~GGT~I~~GL~~Alq~L~~~-~~-~~~~~~IILLTDGedn~-----------~~~~l~~lk~~gVtI~T 435 (863)
T TIGR00868 369 DALTANLPTAASGGTSICSGLKAAFQVIKKS-YQ-STDGSEIVLLTDGEDNT-----------ISSCFEEVKQSGAIIHT 435 (863)
T ss_pred HHHHHhhccccCCCCcHHHHHHHHHHHHHhc-cc-ccCCCEEEEEeCCCCCC-----------HHHHHHHHHHcCCEEEE
Confidence 44443 221 122347899999999998763 21 23468999999998642 23456678889999999
Q ss_pred EeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhc
Q 006065 162 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDS 200 (662)
Q Consensus 162 i~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~ 200 (662)
|+++. . .+..|+.++..++|+++.+.+
T Consensus 436 Ig~G~-----d-------ad~~L~~IA~~TGG~~f~asd 462 (863)
T TIGR00868 436 IALGP-----S-------AAKELEELSDMTGGLRFYASD 462 (863)
T ss_pred EEeCC-----C-------hHHHHHHHHHhcCCEEEEeCC
Confidence 99964 1 134589999999999876654
No 43
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.82 E-value=8.7e-08 Score=90.79 Aligned_cols=147 Identities=16% Similarity=0.222 Sum_probs=97.7
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH---H-H
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG---H-L 82 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~---~-~ 82 (662)
++|+||.|+||.. .++.++.++..++.. -.+.|++|||.|+++.. ++.|+...+. + .
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 6899999999986 367777777766652 24679999999998621 1234433222 2 2
Q ss_pred HHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 83 VQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 83 l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
...+..+.++ +..++..||..|.+++... ......++|+|||||....+ .. .....+.+|.+++|
T Consensus 65 ~~~i~~~~~~-g~T~~~~al~~a~~~~~~~--~~~~~~~~iillTDG~~~~~--------~~----~~~~~~~~v~v~~i 129 (155)
T cd01466 65 KRVVDGLQAG-GGTNVVGGLKKALKVLGDR--RQKNPVASIMLLSDGQDNHG--------AV----VLRADNAPIPIHTF 129 (155)
T ss_pred HHHHHhccCC-CCccHHHHHHHHHHHHhhc--ccCCCceEEEEEcCCCCCcc--------hh----hhcccCCCceEEEE
Confidence 3335555443 2347889999999987542 11234578999999976421 01 11245679999999
Q ss_pred eeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeeh
Q 006065 163 VVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 198 (662)
Q Consensus 163 ~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~ 198 (662)
+++.. .+...|+.+++.++|+++.+
T Consensus 130 gig~~-----------~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 130 GLGAS-----------HDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred ecCCC-----------CCHHHHHHHHhccCceEEEe
Confidence 99531 13477999999999987643
No 44
>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=98.81 E-value=2.2e-07 Score=89.69 Aligned_cols=144 Identities=22% Similarity=0.205 Sum_probs=93.5
Q ss_pred EEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEe--ccCCCC-HH
Q 006065 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQ--DIKVVD-GH 81 (662)
Q Consensus 7 a~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~--~l~~~~-~~ 81 (662)
+++|+||+|.||.. .++.|++++..++.. +....|.+||+.|+++.. ...++..+. +..... ..
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~--l~~~~d~~~l~~F~~~~~---------~~~~~~~~~~~~~~~~~~~~ 70 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEA--LEACGVPHAILGFTTDAG---------GRERVRWIKIKDFDESLHER 70 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHH--HHHcCCcEEEEEecCCCC---------CccceEEEEecCcccccchh
Confidence 68999999999988 688888888877663 233689999999998730 011111122 222221 23
Q ss_pred HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCC--chhhHHHHHHHHhhCCcEE
Q 006065 82 LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGT--KEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 82 ~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~--~~~~~~~ia~~l~~~gI~l 159 (662)
..+.|..+..+. ..++.+||..|.+.+.+. ....+.|||||||.........+. ..++....+..+.+.||.+
T Consensus 71 ~~~~l~~~~~~g-~T~~~~al~~a~~~l~~~----~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v 145 (174)
T cd01454 71 ARKRLAALSPGG-NTRDGAAIRHAAERLLAR----PEKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEV 145 (174)
T ss_pred HHHHHHccCCCC-CCcHHHHHHHHHHHHhcC----CCcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEE
Confidence 455677765532 347789999999987642 234678999999987543211111 1112222377888999999
Q ss_pred EEEeecc
Q 006065 160 KNIVVRA 166 (662)
Q Consensus 160 ~vi~i~~ 166 (662)
.+||++.
T Consensus 146 ~~igig~ 152 (174)
T cd01454 146 FGITIDR 152 (174)
T ss_pred EEEEecC
Confidence 9999965
No 45
>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=98.78 E-value=2e-07 Score=91.56 Aligned_cols=137 Identities=16% Similarity=0.202 Sum_probs=91.9
Q ss_pred EEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhc------cCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-C
Q 006065 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIY------GKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D 79 (662)
Q Consensus 8 ~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~------~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~ 79 (662)
+||+||.|.||... ++.++..+..++...-+. ...++||||.|++.. ++..+|... +
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 79999999999753 777877777766644432 345899999999863 133456432 2
Q ss_pred H-HHHHHhhc-CCC--CCCCCchhhHHHHHHHHHHHH-hccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh
Q 006065 80 G-HLVQSLKH-LPQ--GTCAGDFLDAIVVGVDMLIKK-YGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA 154 (662)
Q Consensus 80 ~-~~l~~L~~-l~~--~~~~gd~~daL~va~d~l~~~-~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~ 154 (662)
. +.+..|+. +.. ..+......||..|.++|... .+.+.-..|.||||||+.+.-.. .+....++.|++
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 2 34455664 111 112336788999999998642 12222346779999998554221 246678999999
Q ss_pred CCcEEEEEeecc
Q 006065 155 FGLRMKNIVVRA 166 (662)
Q Consensus 155 ~gI~l~vi~i~~ 166 (662)
.||.+..||++.
T Consensus 160 ~GI~i~tVGiG~ 171 (193)
T cd01477 160 TGIAIITVAFTQ 171 (193)
T ss_pred CCCEEEEEEeCC
Confidence 999999999964
No 46
>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=98.78 E-value=2.8e-07 Score=106.57 Aligned_cols=165 Identities=20% Similarity=0.269 Sum_probs=112.8
Q ss_pred eEEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHH
Q 006065 6 EALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLV 83 (662)
Q Consensus 6 ea~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l 83 (662)
-.++|+||+|.||.. .+..++.++..++.. .....|+||||.|+++.. .++.|+...-....
T Consensus 466 ~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~--a~~~~D~v~lI~F~g~~a--------------~~~~p~t~~~~~~~ 529 (633)
T TIGR02442 466 NLVIFVVDASGSMAARGRMAAAKGAVLSLLRD--AYQKRDKVALITFRGEEA--------------EVLLPPTSSVELAA 529 (633)
T ss_pred ceEEEEEECCccCCCccHHHHHHHHHHHHHHH--hhcCCCEEEEEEECCCCc--------------eEEcCCCCCHHHHH
Confidence 478999999999975 467778887777653 246789999999986521 12345443222334
Q ss_pred HHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 84 QSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 84 ~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
+.|..++.+ +..++.+||..|.+++.....+.......|||||||..+... ......+++..++..+.+.||.+.+|.
T Consensus 530 ~~L~~l~~g-G~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~-~~~~~~~~~~~~a~~l~~~~i~~~vId 607 (633)
T TIGR02442 530 RRLEELPTG-GRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVAD-GGEPPTDDARTIAAKLAARGILFVVID 607 (633)
T ss_pred HHHHhCCCC-CCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCC-CCCChHHHHHHHHHHHHhcCCeEEEEe
Confidence 567777654 234788999999999874322222346789999999887630 001123457778899999999998887
Q ss_pred eccCCCCCCCcchhhhhhHHHHHHhhccCCeeeeh
Q 006065 164 VRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 198 (662)
Q Consensus 164 i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~ 198 (662)
....+ ....++..|++.++|+|+.+
T Consensus 608 t~~~~----------~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 608 TESGF----------VRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred CCCCC----------cchhHHHHHHHhhCCeEEec
Confidence 63210 12467889999999999865
No 47
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.73 E-value=4.8e-07 Score=100.12 Aligned_cols=138 Identities=19% Similarity=0.153 Sum_probs=93.7
Q ss_pred CeEEEEEEeCCCCcCCc--hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC---C
Q 006065 5 REALLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV---D 79 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~--l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~---~ 79 (662)
+-=++||||.|.||... +.+|+..+..|+....++...-+||+++|.+... .+.++... +
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 34589999999999865 4678888888888766666666777799987621 12344322 2
Q ss_pred H-HHHHHhhcCCC---CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhC
Q 006065 80 G-HLVQSLKHLPQ---GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 155 (662)
Q Consensus 80 ~-~~l~~L~~l~~---~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~ 155 (662)
. ..+..|.++.. ..+..++..||..+.+++.++ ..+....+.|||||||.+... .+....++.|++.
T Consensus 107 k~~aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr-~~R~nvpKVVILLTDG~sns~--------~dvleaAq~LR~~ 177 (576)
T PTZ00441 107 KEQALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDR-VNRENAIQLVILMTDGIPNSK--------YRALEESRKLKDR 177 (576)
T ss_pred HHHHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhc-ccccCCceEEEEEecCCCCCc--------ccHHHHHHHHHHC
Confidence 1 34455554422 122347788999888887642 233345688999999986321 2344567889999
Q ss_pred CcEEEEEeecc
Q 006065 156 GLRMKNIVVRA 166 (662)
Q Consensus 156 gI~l~vi~i~~ 166 (662)
||+|.+|+|+.
T Consensus 178 GVeI~vIGVG~ 188 (576)
T PTZ00441 178 NVKLAVIGIGQ 188 (576)
T ss_pred CCEEEEEEeCC
Confidence 99999999964
No 48
>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=98.72 E-value=5.8e-07 Score=86.03 Aligned_cols=156 Identities=19% Similarity=0.234 Sum_probs=107.0
Q ss_pred EEEEEEeCCCCc-CCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEecc-CCCCHH-HH
Q 006065 7 ALLLLLDVSPSM-HSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDI-KVVDGH-LV 83 (662)
Q Consensus 7 a~vflIDvs~sM-~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l-~~~~~~-~l 83 (662)
.++|+||+|.|| ...+..+..++..+++......++++||++.|++... ...++ ...+.+ ..
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 5557777888887777654455699999999998421 11222 233444 44
Q ss_pred HHhhcCCC-CCCCCchhhHHHHHHHHHHHHhccC-CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEE
Q 006065 84 QSLKHLPQ-GTCAGDFLDAIVVGVDMLIKKYGET-YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 161 (662)
Q Consensus 84 ~~L~~l~~-~~~~gd~~daL~va~d~l~~~~~~k-k~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~v 161 (662)
..++.+.. ..+..++.+||..+.+.+....... .-..+.|++|||+..... +.+...++.+++.+|.+..
T Consensus 68 ~~i~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~--------~~~~~~~~~~~~~~i~i~~ 139 (177)
T smart00327 68 EALASLSYKLGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDG--------GDLLKAAKELKRSGVKVFV 139 (177)
T ss_pred HHHHhcCCCCCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCC--------ccHHHHHHHHHHCCCEEEE
Confidence 55666654 3445688999999998875321111 112578999999977532 3577888889999999999
Q ss_pred EeeccCCCCCCCcchhhhhhHHHHHHhhccCCeee
Q 006065 162 IVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTL 196 (662)
Q Consensus 162 i~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~ 196 (662)
|+++.. . +...++.++...+|.+.
T Consensus 140 i~~~~~-----~------~~~~l~~~~~~~~~~~~ 163 (177)
T smart00327 140 VGVGND-----V------DEEELKKLASAPGGVYV 163 (177)
T ss_pred EEccCc-----c------CHHHHHHHhCCCcceEE
Confidence 998531 0 34778888887777653
No 49
>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=98.70 E-value=4.7e-07 Score=84.48 Aligned_cols=150 Identities=19% Similarity=0.300 Sum_probs=104.0
Q ss_pred EEEEEEeCCCCc-CCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC-CC-HHHH
Q 006065 7 ALLLLLDVSPSM-HSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV-VD-GHLV 83 (662)
Q Consensus 7 a~vflIDvs~sM-~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~-~~-~~~l 83 (662)
.++|+||.|.|| ...+..+...+..++....-..+.+++||+.|++... +..++.. .+ ....
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~---------------~~~~~~~~~~~~~~~ 66 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNAR---------------VVLPLTTDTDKADLL 66 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccc---------------eeecccccCCHHHHH
Confidence 479999999999 5567778888888888665566899999999997321 1122222 12 3355
Q ss_pred HHhhcCCC-CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 84 QSLKHLPQ-GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 84 ~~L~~l~~-~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
+.+..+.. .....++..||..+.+.+.... .....+.|++|||+...... ......++.++..+|++.++
T Consensus 67 ~~~~~~~~~~~~~t~~~~al~~~~~~~~~~~--~~~~~~~lvvitDg~~~~~~-------~~~~~~~~~~~~~~v~v~~v 137 (161)
T cd00198 67 EAIDALKKGLGGGTNIGAALRLALELLKSAK--RPNARRVIILLTDGEPNDGP-------ELLAEAARELRKLGITVYTI 137 (161)
T ss_pred HHHHhcccCCCCCccHHHHHHHHHHHhcccC--CCCCceEEEEEeCCCCCCCc-------chhHHHHHHHHHcCCEEEEE
Confidence 55666653 3345688999999999876521 23457889999999765331 35677788899999999999
Q ss_pred eeccCCCCCCCcchhhhhhHHHHHHhhcc
Q 006065 163 VVRASLSGEPHMRVIIENDNLLNIFSKKS 191 (662)
Q Consensus 163 ~i~~~~~~~~~~~~~~~ne~~L~~l~~~~ 191 (662)
+++. . .+...++.++...
T Consensus 138 ~~g~-----~------~~~~~l~~l~~~~ 155 (161)
T cd00198 138 GIGD-----D------ANEDELKEIADKT 155 (161)
T ss_pred EcCC-----C------CCHHHHHHHhccc
Confidence 9853 0 1345666666554
No 50
>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=98.69 E-value=4.3e-07 Score=92.79 Aligned_cols=136 Identities=15% Similarity=0.162 Sum_probs=92.2
Q ss_pred CeEEEEEEeCCCCcCCch--h---HHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC
Q 006065 5 REALLLLLDVSPSMHSVL--P---DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD 79 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~l--~---~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~ 79 (662)
.--++|+||.|.||.+.. . +++..+..++. ....|++|||.||++ +.++.|++.+-
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 356899999999998752 1 25555555555 678999999999986 23556776643
Q ss_pred H--HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcc--cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhC
Q 006065 80 G--HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKG--KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 155 (662)
Q Consensus 80 ~--~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~--~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~ 155 (662)
. ..++.+..+.-+....++..+|-.|.+++.......... .+-|+|||||.+-... .....+++.+.+.
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 2 234444433223334588999999999986532111111 3889999999853221 2344558889999
Q ss_pred CcEEEEEeecc
Q 006065 156 GLRMKNIVVRA 166 (662)
Q Consensus 156 gI~l~vi~i~~ 166 (662)
||.+.+|+++.
T Consensus 194 ~i~l~~I~ld~ 204 (266)
T cd01460 194 NVFVVFIIIDN 204 (266)
T ss_pred CCeEEEEEEcC
Confidence 99999999986
No 51
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.67 E-value=4.5e-07 Score=87.75 Aligned_cols=149 Identities=15% Similarity=0.123 Sum_probs=91.4
Q ss_pred CeEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHH---hccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 5 REALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKL---IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki---~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
+=-++||||+|.||... +..+...+..++.... ..+++++||||.|+++.. +..|+.....
T Consensus 3 ~~~v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~---------------~~~~l~~~~~ 67 (176)
T cd01464 3 RLPIYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAAR---------------VIVPLTPLES 67 (176)
T ss_pred CCCEEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce---------------EecCCccHHh
Confidence 33589999999999754 5556666666655422 123678999999998631 1233322110
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhcc-----CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhC
Q 006065 81 HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGE-----TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 155 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~-----kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~ 155 (662)
..+..+..+ +..++.+||..|++++...... +....+.|||||||...-+ .......++.+...
T Consensus 68 ---~~~~~l~~~-GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~-------~~~~~~~~~~~~~~ 136 (176)
T cd01464 68 ---FQPPRLTAS-GGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDD-------LTAAIERIKEARDS 136 (176)
T ss_pred ---cCCCcccCC-CCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCch-------HHHHHHHHHhhccc
Confidence 012223332 2347899999999998653211 1123468999999975321 12233455666667
Q ss_pred CcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhc
Q 006065 156 GLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKK 190 (662)
Q Consensus 156 gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~ 190 (662)
++.+.+||++.. .|...|+.++..
T Consensus 137 ~~~i~~igiG~~-----------~~~~~L~~ia~~ 160 (176)
T cd01464 137 KGRIVACAVGPK-----------ADLDTLKQITEG 160 (176)
T ss_pred CCcEEEEEeccc-----------cCHHHHHHHHCC
Confidence 899999999641 246788888753
No 52
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.65 E-value=8.7e-07 Score=83.74 Aligned_cols=150 Identities=17% Similarity=0.267 Sum_probs=99.9
Q ss_pred EEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH-HHHHHh
Q 006065 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG-HLVQSL 86 (662)
Q Consensus 8 ~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~-~~l~~L 86 (662)
+||+||+|.||....+.+++++..++++ -.++|++.||.||+... .+ +++ +.+....+. ..++.|
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~---L~~~d~fnii~f~~~~~--~~------~~~---~~~~~~~~~~~a~~~I 68 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRS---LPPGDRFNIIAFGSSVR--PL------FPG---LVPATEENRQEALQWI 68 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHh---CCCCCEEEEEEeCCEee--Ec------chh---HHHHhHHHHHHHHHHH
Confidence 7999999999998776667777777775 46899999999998521 11 111 112221111 245556
Q ss_pred hcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEeecc
Q 006065 87 KHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 87 ~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i~~ 166 (662)
+++....+..++..||..|+..+ ......+.|+|||||.. ... .+.+...++.-. ..+.+.+++++.
T Consensus 69 ~~~~~~~G~t~l~~aL~~a~~~~-----~~~~~~~~IilltDG~~-~~~------~~~i~~~v~~~~-~~~~i~~~~~g~ 135 (155)
T PF13768_consen 69 KSLEANSGGTDLLAALRAALALL-----QRPGCVRAIILLTDGQP-VSG------EEEILDLVRRAR-GHIRIFTFGIGS 135 (155)
T ss_pred HHhcccCCCccHHHHHHHHHHhc-----ccCCCccEEEEEEeccC-CCC------HHHHHHHHHhcC-CCceEEEEEECC
Confidence 66655345568899999888775 12245899999999975 221 123334443322 569999999854
Q ss_pred CCCCCCCcchhhhhhHHHHHHhhccCCee
Q 006065 167 SLSGEPHMRVIIENDNLLNIFSKKSSAKT 195 (662)
Q Consensus 167 ~~~~~~~~~~~~~ne~~L~~l~~~~~g~~ 195 (662)
. .+..+|+.++..++|.+
T Consensus 136 ~-----------~~~~~L~~LA~~~~G~~ 153 (155)
T PF13768_consen 136 D-----------ADADFLRELARATGGSF 153 (155)
T ss_pred h-----------hHHHHHHHHHHcCCCEE
Confidence 1 23589999999998875
No 53
>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=98.55 E-value=1.1e-06 Score=84.31 Aligned_cols=160 Identities=17% Similarity=0.273 Sum_probs=103.3
Q ss_pred EEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-CH-HHHH
Q 006065 8 LLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-DG-HLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~~-~~l~ 84 (662)
++|+||.|.||.. .+..++..+..++.+--+...+++||+|.|++... ++.++... +. +.+.
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 7999999999996 57788999999998555788999999999998731 23444332 32 3455
Q ss_pred Hh-hcCCCCCCCCchhhHHHHHHHHHHHH-hccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 85 SL-KHLPQGTCAGDFLDAIVVGVDMLIKK-YGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 85 ~L-~~l~~~~~~gd~~daL~va~d~l~~~-~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
.+ ..+....+..++..||..|.+++... .+.+....+-|||||||...-.. ..........+..||.+..|
T Consensus 67 ~i~~~~~~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~-------~~~~~~~~~~~~~~i~~~~i 139 (178)
T PF00092_consen 67 AINDSIPSSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSD-------SPSEEAANLKKSNGIKVIAI 139 (178)
T ss_dssp HHHTTGGCCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHS-------GHHHHHHHHHHHCTEEEEEE
T ss_pred cccccccccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCCc-------chHHHHHHHHHhcCcEEEEE
Confidence 55 45555445568899999999987642 11223456779999999775321 22333333333468888888
Q ss_pred eeccCCCCCCCcchhhhhhHHHHHHhhcc--CCeeeehhch
Q 006065 163 VVRASLSGEPHMRVIIENDNLLNIFSKKS--SAKTLFVDST 201 (662)
Q Consensus 163 ~i~~~~~~~~~~~~~~~ne~~L~~l~~~~--~g~~~~~~~a 201 (662)
|++. .+...|+.++... .+.++...+.
T Consensus 140 g~~~------------~~~~~l~~la~~~~~~~~~~~~~~~ 168 (178)
T PF00092_consen 140 GIDN------------ADNEELRELASCPTSEGHVFYLADF 168 (178)
T ss_dssp EESC------------CHHHHHHHHSHSSTCHHHEEEESSH
T ss_pred ecCc------------CCHHHHHHHhCCCCCCCcEEEcCCH
Confidence 8721 2357788888543 2344444433
No 54
>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=98.54 E-value=2e-06 Score=82.42 Aligned_cols=133 Identities=19% Similarity=0.184 Sum_probs=94.1
Q ss_pred EEEEEeCCCCcC-CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC--CHHHHH
Q 006065 8 LLLLLDVSPSMH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV--DGHLVQ 84 (662)
Q Consensus 8 ~vflIDvs~sM~-~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~--~~~~l~ 84 (662)
++|+||.|.||. ..++.+++.+..++.+--++..+.+||||.|+++.. +..+|... ..+.++
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 458889999999998877788899999999998631 11222211 235677
Q ss_pred HhhcCCCCCCC-CchhhHHHHHHHHHHHHh-ccC--CcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEE
Q 006065 85 SLKHLPQGTCA-GDFLDAIVVGVDMLIKKY-GET--YKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 160 (662)
Q Consensus 85 ~L~~l~~~~~~-gd~~daL~va~d~l~~~~-~~k--k~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~ 160 (662)
.+.+++...+. .+...||-.+.+.+.... +.+ .-..|.+||||||.+. +++...++.|++.||.+.
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 77777543222 356789988876544311 111 1134678999999764 347778899999999998
Q ss_pred EEeec
Q 006065 161 NIVVR 165 (662)
Q Consensus 161 vi~i~ 165 (662)
.+|++
T Consensus 138 ~vG~~ 142 (165)
T cd01481 138 AIGAR 142 (165)
T ss_pred EEeCC
Confidence 88874
No 55
>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=98.47 E-value=8.3e-06 Score=76.72 Aligned_cols=132 Identities=19% Similarity=0.180 Sum_probs=82.6
Q ss_pred EEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHHH
Q 006065 7 ALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQS 85 (662)
Q Consensus 7 a~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~~ 85 (662)
.++|+||+|+||... +..+..++..++..- ...+|+++||.|+++... ...+...--...++.
T Consensus 2 ~v~illD~SgSM~~~k~~~a~~~~~~l~~~~--~~~~~~v~li~F~~~~~~--------------~~~~~~~~~~~~~~~ 65 (152)
T cd01462 2 PVILLVDQSGSMYGAPEEVAKAVALALLRIA--LAENRDTYLILFDSEFQT--------------KIVDKTDDLEEPVEF 65 (152)
T ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHHHHH--HHcCCcEEEEEeCCCceE--------------EecCCcccHHHHHHH
Confidence 479999999999853 455666665555422 226899999999986210 011111111234555
Q ss_pred hhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEeec
Q 006065 86 LKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVR 165 (662)
Q Consensus 86 L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i~ 165 (662)
|..+..+ +..++.+||..+..++.+. ......|++||||..+... ..+...+...+..++.+++|+++
T Consensus 66 l~~~~~~-ggT~l~~al~~a~~~l~~~----~~~~~~ivliTDG~~~~~~-------~~~~~~~~~~~~~~~~v~~~~~g 133 (152)
T cd01462 66 LSGVQLG-GGTDINKALRYALELIERR----DPRKADIVLITDGYEGGVS-------DELLREVELKRSRVARFVALALG 133 (152)
T ss_pred HhcCCCC-CCcCHHHHHHHHHHHHHhc----CCCCceEEEECCCCCCCCC-------HHHHHHHHHHHhcCcEEEEEEec
Confidence 6555443 2348899999999887642 1235789999999543211 23323355556778999999996
Q ss_pred c
Q 006065 166 A 166 (662)
Q Consensus 166 ~ 166 (662)
.
T Consensus 134 ~ 134 (152)
T cd01462 134 D 134 (152)
T ss_pred C
Confidence 5
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=98.41 E-value=1e-05 Score=93.41 Aligned_cols=154 Identities=16% Similarity=0.197 Sum_probs=100.3
Q ss_pred eEEEEEEeCCCCcCC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEecc-CCCCHH--
Q 006065 6 EALLLLLDVSPSMHS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDI-KVVDGH-- 81 (662)
Q Consensus 6 ea~vflIDvs~sM~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l-~~~~~~-- 81 (662)
.-++||||+|.||.. .++.|+.++..++.+ -+++|+++||.|+++.. .+.+. ...+..
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 458999999999975 467788777776663 36899999999998631 12222 223333
Q ss_pred --HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEE
Q 006065 82 --LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 82 --~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l 159 (662)
..+.|.++..+ +..++..||..|+++... ......++|||||||... + .+.+...++. +..++.+
T Consensus 334 ~~a~~~i~~l~a~-GgT~l~~aL~~a~~~~~~---~~~~~~~~iillTDG~~~-~-------~~~~~~~~~~-~~~~~ri 400 (596)
T TIGR03788 334 ARARQFVAGLQAD-GGTEMAGALSAALRDDGP---ESSGALRQVVFLTDGAVG-N-------EDALFQLIRT-KLGDSRL 400 (596)
T ss_pred HHHHHHHhhCCCC-CCccHHHHHHHHHHhhcc---cCCCceeEEEEEeCCCCC-C-------HHHHHHHHHH-hcCCceE
Confidence 33446666554 334788999998876321 112346899999999742 1 1233333322 2346889
Q ss_pred EEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch
Q 006065 160 KNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 201 (662)
Q Consensus 160 ~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a 201 (662)
.+||++.. .|..+|+.+++.++|.+..+.+.
T Consensus 401 ~tvGiG~~-----------~n~~lL~~lA~~g~G~~~~i~~~ 431 (596)
T TIGR03788 401 FTVGIGSA-----------PNSYFMRKAAQFGRGSFTFIGST 431 (596)
T ss_pred EEEEeCCC-----------cCHHHHHHHHHcCCCEEEECCCH
Confidence 99999641 24688999999998987665544
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=98.15 E-value=5e-05 Score=73.77 Aligned_cols=152 Identities=13% Similarity=0.177 Sum_probs=111.1
Q ss_pred EEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHH
Q 006065 11 LLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQ 84 (662)
Q Consensus 11 lIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~ 84 (662)
+||+|.+|.+. +..+.+++..+++...-.+|--++|||..+.... ..+.++..--.+.++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a--------------~~ls~lsgn~~~h~~ 66 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRA--------------ERLSELSGNPQEHIE 66 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeeccee--------------EEeeecCCCHHHHHH
Confidence 58999999764 4556788888888887799999999999986421 134555543345677
Q ss_pred HhhcCCCC--CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 85 SLKHLPQG--TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 85 ~L~~l~~~--~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
.|+++... .++..+..||-.|...|.. . .....|.|++|.-.-...+ ..++...++.|++.+|++.+|
T Consensus 67 ~L~~~~~~~~~G~~SLqN~Le~A~~~L~~--~-p~~~srEIlvi~gSl~t~D-------p~di~~ti~~l~~~~IrvsvI 136 (193)
T PF04056_consen 67 ALKKLRKLEPSGEPSLQNGLEMARSSLKH--M-PSHGSREILVIFGSLTTCD-------PGDIHETIESLKKENIRVSVI 136 (193)
T ss_pred HHHHhccCCCCCChhHHHHHHHHHHHHhh--C-ccccceEEEEEEeecccCC-------chhHHHHHHHHHHcCCEEEEE
Confidence 77766422 2344678999999999864 2 2356889998876555443 246888999999999999999
Q ss_pred eeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehh
Q 006065 163 VVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD 199 (662)
Q Consensus 163 ~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~ 199 (662)
++.. .-..++.+++.++|.|.-+-
T Consensus 137 ~laa-------------Ev~I~k~i~~~T~G~y~V~l 160 (193)
T PF04056_consen 137 SLAA-------------EVYICKKICKETGGTYGVIL 160 (193)
T ss_pred EEhH-------------HHHHHHHHHHhhCCEEEEec
Confidence 9953 12688999999999886443
No 58
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=0.00086 Score=64.65 Aligned_cols=138 Identities=17% Similarity=0.294 Sum_probs=102.4
Q ss_pred CeEEEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC
Q 006065 5 REALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~ 78 (662)
-|+||+|||=|.-|..- |+.=.+.+..+.+.|+-++|-..||++...... +.|+..+..-
T Consensus 3 lEatmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~--------------~~vLsT~T~d 68 (259)
T KOG2884|consen 3 LEATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANAS--------------VQVLSTLTSD 68 (259)
T ss_pred cceEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCC--------------ceeeeecccc
Confidence 58999999999888652 344478888999999999999999999887642 2344444444
Q ss_pred CHHHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcE
Q 006065 79 DGHLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLR 158 (662)
Q Consensus 79 ~~~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~ 158 (662)
--..+-.+..++.. +..++..+|-.|...|..+ . .|..+.|||+|-. +|+.. .+..+-.+++.|+..+|.
T Consensus 69 ~gkils~lh~i~~~-g~~~~~~~i~iA~lalkhR-q-nk~~~~riVvFvG--Spi~e-----~ekeLv~~akrlkk~~Va 138 (259)
T KOG2884|consen 69 RGKILSKLHGIQPH-GKANFMTGIQIAQLALKHR-Q-NKNQKQRIVVFVG--SPIEE-----SEKELVKLAKRLKKNKVA 138 (259)
T ss_pred chHHHHHhcCCCcC-CcccHHHHHHHHHHHHHhh-c-CCCcceEEEEEec--Ccchh-----hHHHHHHHHHHHHhcCee
Confidence 44456666666653 2458999999998887653 2 2345688999954 56653 345788999999999999
Q ss_pred EEEEeecc
Q 006065 159 MKNIVVRA 166 (662)
Q Consensus 159 l~vi~i~~ 166 (662)
+.+|.+++
T Consensus 139 idii~FGE 146 (259)
T KOG2884|consen 139 IDIINFGE 146 (259)
T ss_pred EEEEEecc
Confidence 99999864
No 59
>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=97.70 E-value=0.001 Score=65.63 Aligned_cols=136 Identities=15% Similarity=0.175 Sum_probs=79.3
Q ss_pred EEEEEEeCCCCcCCc--------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC
Q 006065 7 ALLLLLDVSPSMHSV--------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (662)
Q Consensus 7 a~vflIDvs~sM~~~--------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~ 78 (662)
-++|+||+|.||... +..|..++..++. .+.....|.+++++|.+... .+ .++
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~-~~~~~D~d~i~l~~f~~~~~---------~~------~~~--- 64 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALAR-KCEEYDSDGITVYLFSGDFR---------RY------DNV--- 64 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHH-HHHhcCCCCeEEEEecCCcc---------cc------CCc---
Confidence 468999999999864 4667777776665 22246789999999976521 11 122
Q ss_pred CHHHH-HHhhcCCCCCCCCchhhHHHHHHHHHHHHhcc--CCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh-
Q 006065 79 DGHLV-QSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGE--TYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA- 154 (662)
Q Consensus 79 ~~~~l-~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~--kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~- 154 (662)
+...+ +.+.++.++ +..++..+|..+++.+...... .+...+.|++||||... +. ....+.+...++.+.+
T Consensus 65 ~~~~v~~~~~~~~p~-G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~-d~---~~~~~~i~~a~~~l~~~ 139 (199)
T cd01457 65 NSSKVDQLFAENSPD-GGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPD-DK---DAVERVIIKASDELDAD 139 (199)
T ss_pred CHHHHHHHHhcCCCC-CcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCC-cH---HHHHHHHHHHHHhhccc
Confidence 23333 334455433 2347788888887544332111 11125779999999863 21 0001122233333443
Q ss_pred CCcEEEEEeecc
Q 006065 155 FGLRMKNIVVRA 166 (662)
Q Consensus 155 ~gI~l~vi~i~~ 166 (662)
.+|.+.+++|+.
T Consensus 140 ~~i~i~~v~vG~ 151 (199)
T cd01457 140 NELAISFLQIGR 151 (199)
T ss_pred cCceEEEEEeCC
Confidence 379999999964
No 60
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=0.0056 Score=57.73 Aligned_cols=135 Identities=14% Similarity=0.255 Sum_probs=98.4
Q ss_pred CeEEEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC
Q 006065 5 REALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~ 78 (662)
-|+||++||=|.-|... ++.-++.+..++++|+=.++-..||++-.+.... | .|..|
T Consensus 3 lEatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p-~----------------vlsT~ 65 (243)
T COG5148 3 LEATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQP-N----------------VLSTP 65 (243)
T ss_pred cceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCc-c----------------hhccc
Confidence 58999999999877542 4445889999999999899999999998886531 1 23334
Q ss_pred CHH---HHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhC
Q 006065 79 DGH---LVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAF 155 (662)
Q Consensus 79 ~~~---~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~ 155 (662)
+.+ .+..|..++-. +..++.++|-.|...|..+ . .|-...|||.|-. +|+.. +.+.+-.+|..|+..
T Consensus 66 T~~~gkilt~lhd~~~~-g~a~~~~~lqiaql~lkhR-~-nk~q~qriVaFvg--Spi~e-----sedeLirlak~lkkn 135 (243)
T COG5148 66 TKQRGKILTFLHDIRLH-GGADIMRCLQIAQLILKHR-D-NKGQRQRIVAFVG--SPIQE-----SEDELIRLAKQLKKN 135 (243)
T ss_pred hhhhhHHHHHhcccccc-CcchHHHHHHHHHHHHhcc-c-CCccceEEEEEec--Ccccc-----cHHHHHHHHHHHHhc
Confidence 443 34445555432 2458999999998887653 3 3345788998854 56653 347888999999999
Q ss_pred CcEEEEEeecc
Q 006065 156 GLRMKNIVVRA 166 (662)
Q Consensus 156 gI~l~vi~i~~ 166 (662)
|+-+.+|.++.
T Consensus 136 nVAidii~fGE 146 (243)
T COG5148 136 NVAIDIIFFGE 146 (243)
T ss_pred CeeEEEEehhh
Confidence 99999999863
No 61
>PRK10997 yieM hypothetical protein; Provisional
Probab=97.05 E-value=0.014 Score=64.64 Aligned_cols=132 Identities=15% Similarity=0.230 Sum_probs=85.2
Q ss_pred CCeEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-C-H
Q 006065 4 TREALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-D-G 80 (662)
Q Consensus 4 ~Kea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-~-~ 80 (662)
.|.-+++|||.|.||... -..|+.++..++. +..+.+|.+|+++|+++... | ++... . .
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 467799999999999832 2344544444433 23578999999999985311 1 22222 1 2
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhh-CCcEE
Q 006065 81 HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVA-FGLRM 159 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~-~gI~l 159 (662)
+.++.|.... .+..|+..+|-.+++.+.+ +...+--||+|||+..+.. .+.+...++.|++ .|.++
T Consensus 384 ~ll~fL~~~f--~GGTDl~~aL~~al~~l~~----~~~r~adIVVISDF~~~~~-------~eel~~~L~~Lk~~~~~rf 450 (487)
T PRK10997 384 QAIRFLSQSF--RGGTDLAPCLRAIIEKMQG----REWFDADAVVISDFIAQRL-------PDELVAKVKELQRQHQHRF 450 (487)
T ss_pred HHHHHHHHhc--CCCCcHHHHHHHHHHHHcc----cccCCceEEEECCCCCCCC-------hHHHHHHHHHHHHhcCcEE
Confidence 3455555432 2345888899888888643 2122344999999976532 1456677778877 89999
Q ss_pred EEEeecc
Q 006065 160 KNIVVRA 166 (662)
Q Consensus 160 ~vi~i~~ 166 (662)
+.+.++.
T Consensus 451 ~~l~i~~ 457 (487)
T PRK10997 451 HAVAMSA 457 (487)
T ss_pred EEEEeCC
Confidence 9988853
No 62
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=96.81 E-value=0.028 Score=57.59 Aligned_cols=158 Identities=15% Similarity=0.193 Sum_probs=102.7
Q ss_pred EEEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 7 ALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 7 a~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
.++++||+|.+|.+. +....+.+..++..--=.+|--++|+|.......+- +..+..---
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 578999999999764 334466666666654447899999999988543211 111111111
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEE
Q 006065 81 HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 160 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~ 160 (662)
..+..|..+....+...+.+||-.|...|.. .. .-..|-|++|--.-+..+- .++-..++.|+...|++.
T Consensus 128 ~hI~aL~~~~~~~g~fSLqNaLe~a~~~Lk~-~p--~H~sREVLii~sslsT~DP-------gdi~~tI~~lk~~kIRvs 197 (378)
T KOG2807|consen 128 IHIHALKGLTECSGDFSLQNALELAREVLKH-MP--GHVSREVLIIFSSLSTCDP-------GDIYETIDKLKAYKIRVS 197 (378)
T ss_pred HHHHHHhcccccCCChHHHHHHHHHHHHhcC-CC--cccceEEEEEEeeecccCc-------ccHHHHHHHHHhhCeEEE
Confidence 3567777765333344567899999888754 11 2345776666554443331 356677889999999999
Q ss_pred EEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch
Q 006065 161 NIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST 201 (662)
Q Consensus 161 vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a 201 (662)
+||+.. + -.+.+.+++.++|.|.-+-+.
T Consensus 198 vIgLsa----E---------v~icK~l~kaT~G~Y~V~lDe 225 (378)
T KOG2807|consen 198 VIGLSA----E---------VFICKELCKATGGRYSVALDE 225 (378)
T ss_pred EEeech----h---------HHHHHHHHHhhCCeEEEEeCH
Confidence 999943 1 267788999999987654443
No 63
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=96.78 E-value=0.034 Score=58.88 Aligned_cols=152 Identities=14% Similarity=0.175 Sum_probs=97.5
Q ss_pred CCeEEEEEEeCCCCcCCc-----hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC
Q 006065 4 TREALLLLLDVSPSMHSV-----LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV 78 (662)
Q Consensus 4 ~Kea~vflIDvs~sM~~~-----l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~ 78 (662)
.--|+++++|+|-||... +....-++.+++.. .-+.|.+.+|+||-.. +++
T Consensus 462 t~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~T---rfrGD~l~~i~Fgr~A------------~~v--------- 517 (652)
T COG4867 462 TQAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVCT---RFRGDALQIIAFGRYA------------RTV--------- 517 (652)
T ss_pred cccceeeeeeccHHHHHhccCCchHHHHHHHHHHHHh---cCCCcceEEEeccchh------------ccc---------
Confidence 346899999999999542 33333444555551 2499999999999653 111
Q ss_pred CHHHHHHhhcCCC-CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCC-CCCCC--------CchhhHH--
Q 006065 79 DGHLVQSLKHLPQ-GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLK-DPDVG--------TKEDQVS-- 146 (662)
Q Consensus 79 ~~~~l~~L~~l~~-~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~-~~~~~--------~~~~~~~-- 146 (662)
.+.+|..+++ +....+..-||..|-.+|.++- +..+.|++||||....- .+.++ .+..-+-
T Consensus 518 ---~v~eLt~l~~v~eqgTNlhhaL~LA~r~l~Rh~----~~~~~il~vTDGePtAhle~~DG~~~~f~yp~DP~t~~~T 590 (652)
T COG4867 518 ---TAAELTGLAGVYEQGTNLHHALALAGRHLRRHA----GAQPVVLVVTDGEPTAHLEDGDGTSVFFDYPPDPRTIAHT 590 (652)
T ss_pred ---CHHHHhcCCCccccccchHHHHHHHHHHHHhCc----ccCceEEEEeCCCccccccCCCCceEecCCCCChhHHHHH
Confidence 1455555542 3334578899999999987742 44689999999965221 11122 1111111
Q ss_pred -HHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeee
Q 006065 147 -TIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTL 196 (662)
Q Consensus 147 -~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~ 196 (662)
.-..++...||.+++|-++.. + .=+.|++.+++.++|+++
T Consensus 591 vr~~d~~~r~G~q~t~FrLg~D------p----gL~~Fv~qva~rv~G~vv 631 (652)
T COG4867 591 VRGFDDMARLGAQVTIFRLGSD------P----GLARFIDQVARRVQGRVV 631 (652)
T ss_pred HHHHHHHHhccceeeEEeecCC------H----hHHHHHHHHHHHhCCeEE
Confidence 123567889999999988531 1 125889999999999865
No 64
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=96.64 E-value=0.026 Score=53.72 Aligned_cols=104 Identities=20% Similarity=0.194 Sum_probs=63.0
Q ss_pred CeEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHH---hccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 5 REALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKL---IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki---~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
|=-++|+||+|.||-.. .+..-.++..++.... ..-..-+++||.|++. +.+++|+..
T Consensus 3 RlP~~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~---------------a~~~~pf~~--- 64 (207)
T COG4245 3 RLPCYLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGP---------------ARVIQPFTD--- 64 (207)
T ss_pred CCCEEEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCc---------------ceEEechhh---
Confidence 33478999999999764 3333333333333221 2236789999999973 224455432
Q ss_pred HHHHHhhcCCC--C--CCCCchhhHHHHHHHHHHHHh----c-cCCcccceEEEEeCCCC
Q 006065 81 HLVQSLKHLPQ--G--TCAGDFLDAIVVGVDMLIKKY----G-ETYKGKKHLCLITDALC 131 (662)
Q Consensus 81 ~~l~~L~~l~~--~--~~~gd~~daL~va~d~l~~~~----~-~kk~~~krIvLiTD~~~ 131 (662)
+.++.. - .+...+..||-.|.+|+.++. . .++.|+--+||+|||+-
T Consensus 65 -----~~nF~~p~L~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~P 119 (207)
T COG4245 65 -----AANFNPPILTAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEP 119 (207)
T ss_pred -----HhhcCCCceecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCc
Confidence 222211 1 122256688999999987651 1 23467778999999965
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=96.63 E-value=0.052 Score=54.00 Aligned_cols=148 Identities=12% Similarity=0.164 Sum_probs=89.8
Q ss_pred eEEEEEEeCCCCcCCchh-----HHHHHHHHHHH-----HHH-hccCccEEEEEEEcCCCcCccccccCCCcccEEEEec
Q 006065 6 EALLLLLDVSPSMHSVLP-----DVEKLCSRLIQ-----KKL-IYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD 74 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~-----~a~~~~~~l~~-----~ki-~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~ 74 (662)
.=+||+||-+..|+..+. +...++..+-. +.. -...+-+.|||+|++-.. |....+-..
T Consensus 14 ~~vVfvvEgTAalgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~----------~~~~~v~~~ 83 (226)
T PF11265_consen 14 AQVVFVVEGTAALGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADC----------YPEPIVQRS 83 (226)
T ss_pred ceEEEEEecchhhhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCC----------Ccccceecc
Confidence 349999999999998654 34445544432 110 023678999999999743 322222111
Q ss_pred cCCCCH-HHHHHhhcCCC-C---CCCCchhhHHHHHHHHHHHHh--c---cCCcccceEEEEeCCCCCCCCCCCC---Cc
Q 006065 75 IKVVDG-HLVQSLKHLPQ-G---TCAGDFLDAIVVGVDMLIKKY--G---ETYKGKKHLCLITDALCPLKDPDVG---TK 141 (662)
Q Consensus 75 l~~~~~-~~l~~L~~l~~-~---~~~gd~~daL~va~d~l~~~~--~---~kk~~~krIvLiTD~~~p~~~~~~~---~~ 141 (662)
=-..+. ..++.|++++- | ...+.+.+||..|+.++.... . .+.-..|+.|||+|. .|...+-.. ..
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 112233 36777888753 2 123358899999999876321 0 111246899999996 344332111 11
Q ss_pred hhhHHHHHHHHhhCCcEEEEEee
Q 006065 142 EDQVSTIARQMVAFGLRMKNIVV 164 (662)
Q Consensus 142 ~~~~~~ia~~l~~~gI~l~vi~i 164 (662)
...+++.+..+.+.+|.|.+|..
T Consensus 163 ~~~~d~la~~~~~~~I~LSiisP 185 (226)
T PF11265_consen 163 GKTCDQLAVLISERNISLSIISP 185 (226)
T ss_pred CCCHHHHHHHHHhcCceEEEEcC
Confidence 23577888888899999999974
No 66
>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=96.43 E-value=0.031 Score=56.18 Aligned_cols=126 Identities=19% Similarity=0.131 Sum_probs=76.4
Q ss_pred EEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC-HHHHHH
Q 006065 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLVQS 85 (662)
Q Consensus 7 a~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~-~~~l~~ 85 (662)
-+|+|+|+|.||...-..+...+..+.. ..+ .+.+++|+++-+.- + ..+...+ .+.+..
T Consensus 59 ~lvvl~DvSGSM~~~s~~~l~~~~~l~~----~~~--~~~~f~F~~~l~~v------------T--~~l~~~~~~~~l~~ 118 (222)
T PF05762_consen 59 RLVVLCDVSGSMAGYSEFMLAFLYALQR----QFR--RVRVFVFSTRLTEV------------T--PLLRRRDPEEALAR 118 (222)
T ss_pred cEEEEEeCCCChHHHHHHHHHHHHHHHH----hCC--CEEEEEEeeehhhh------------h--hhhccCCHHHHHHH
Confidence 6999999999997532333444444333 222 89999999873211 1 1222112 234555
Q ss_pred hhcC-CCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEe
Q 006065 86 LKHL-PQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 86 L~~l-~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
+... ..-.+..|+..||-.+.+.+.. .......+++|||+..... .+.+......|+..+.++..+.
T Consensus 119 ~~~~~~~~~GgTdi~~aL~~~~~~~~~----~~~~~t~vvIiSDg~~~~~-------~~~~~~~l~~l~~r~~rviwLn 186 (222)
T PF05762_consen 119 LSALVQSFGGGTDIGQALREFLRQYAR----PDLRRTTVVIISDGWDTND-------PEPLAEELRRLRRRGRRVIWLN 186 (222)
T ss_pred HHhhccCCCCccHHHHHHHHHHHHhhc----ccccCcEEEEEecccccCC-------hHHHHHHHHHHHHhCCEEEEEC
Confidence 5432 2223345788888887776432 2223567899999933222 2567777889999999887664
No 67
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=96.38 E-value=0.049 Score=59.39 Aligned_cols=129 Identities=21% Similarity=0.255 Sum_probs=85.7
Q ss_pred EEEEEEeCCCCcCCchhH-HHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC---HHH
Q 006065 7 ALLLLLDVSPSMHSVLPD-VEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD---GHL 82 (662)
Q Consensus 7 a~vflIDvs~sM~~~l~~-a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~---~~~ 82 (662)
-+++|||-|.||+..... |+-+|..+++ +..+-+=.+.+++|.+.- -+ ..+..+. -+.
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 479999999999876544 3434444444 223455669999999831 11 1222222 346
Q ss_pred HHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 83 VQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 83 l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
++.|.....|. .|+..||..|++-+..+ +..+-.|++||||.+.+.. +-+..+-+..+.++.++..+
T Consensus 336 i~fL~~~f~GG--TD~~~~l~~al~~~k~~----~~~~adiv~ITDg~~~~~~-------~~~~~v~e~~k~~~~rl~aV 402 (437)
T COG2425 336 IEFLSYVFGGG--TDITKALRSALEDLKSR----ELFKADIVVITDGEDERLD-------DFLRKVKELKKRRNARLHAV 402 (437)
T ss_pred HHHHhhhcCCC--CChHHHHHHHHHHhhcc----cccCCCEEEEeccHhhhhh-------HHHHHHHHHHHHhhceEEEE
Confidence 77777766553 69999999999987642 2334889999999998641 23344444555889999999
Q ss_pred eecc
Q 006065 163 VVRA 166 (662)
Q Consensus 163 ~i~~ 166 (662)
.|++
T Consensus 403 ~I~~ 406 (437)
T COG2425 403 LIGG 406 (437)
T ss_pred EecC
Confidence 9964
No 68
>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=96.17 E-value=0.25 Score=50.36 Aligned_cols=172 Identities=15% Similarity=0.184 Sum_probs=95.9
Q ss_pred EEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhcc-CccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-----
Q 006065 7 ALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYG-KNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV----- 78 (662)
Q Consensus 7 a~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~-~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~----- 78 (662)
+.+|+||+|..--+ .++.+++.+...+.. +=.. ++-+||+|.|++.-.=-++.... ...+..+..+++.+
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-LPGDDPRTRVGFITFDSTLHFFNLKSSL-EQPQMMVVSDLDDPFLPLP 82 (244)
T ss_pred EEEEEEEccHHHHhhChHHHHHHHHHHHHHh-cCCCCCCeEEEEEEECCeEEEEECCCCC-CCCeEEEeeCcccccCCCC
Confidence 67999999864322 255667777766663 1122 56899999999864322221110 11122233333221
Q ss_pred C----------HHHHHHhhcCCC----CC-CCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC-----C
Q 006065 79 D----------GHLVQSLKHLPQ----GT-CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD-----V 138 (662)
Q Consensus 79 ~----------~~~l~~L~~l~~----~~-~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~-----~ 138 (662)
+ .....-|++|+. +. ...-+..||.+|..+|.. ++ =||++|+.+-...+... +
T Consensus 83 ~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~-~G------GkIi~f~s~~pt~GpG~l~~~~~ 155 (244)
T cd01479 83 DGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKE-TG------GKIIVFQSSLPTLGAGKLKSRED 155 (244)
T ss_pred cceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHh-cC------CEEEEEeCCCCCcCCcccccCcc
Confidence 1 111222333321 11 223578899999999864 23 36888887643332100 0
Q ss_pred ----C---------CchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeee
Q 006065 139 ----G---------TKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 197 (662)
Q Consensus 139 ----~---------~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~ 197 (662)
+ ...+-...++..+...||.+++|.....+ -+-..+..++..++|.++.
T Consensus 156 ~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~----------~dla~l~~l~~~TGG~v~~ 217 (244)
T cd01479 156 PKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQY----------VDVATLGCLSRLTGGQVYY 217 (244)
T ss_pred ccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcc----------cChhhhhhhhhhcCceEEE
Confidence 0 01234678999999999999999874211 1124466788888997543
No 69
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.68 E-value=0.21 Score=51.73 Aligned_cols=183 Identities=11% Similarity=0.166 Sum_probs=115.8
Q ss_pred eEEEEEEeCCCCcC---C------chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcC----ccccc---cCC-Cccc
Q 006065 6 EALLLLLDVSPSMH---S------VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETE----NELTK---EVG-GYEH 68 (662)
Q Consensus 6 ea~vflIDvs~sM~---~------~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~----n~l~~---~~~-~y~n 68 (662)
.-++++||++|--- . .+..+++.+..++.--+..+...+|+||..++.+.. ++... ..+ ....
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 356778888888888888899999999998876422 11000 000 1111
Q ss_pred E--EEEeccCCCCHHHHHHhhcCCCC-----C--CCCchhhHHHHHHHHHHHHhcc---CCcccceEEEEeCCCCCCCCC
Q 006065 69 V--KVLQDIKVVDGHLVQSLKHLPQG-----T--CAGDFLDAIVVGVDMLIKKYGE---TYKGKKHLCLITDALCPLKDP 136 (662)
Q Consensus 69 I--~v~~~l~~~~~~~l~~L~~l~~~-----~--~~gd~~daL~va~d~l~~~~~~---kk~~~krIvLiTD~~~p~~~~ 136 (662)
+ -.+.++...+...++.|.++... . ....+..||-.|+=.+.+.... ...-+.||++|+-..+..
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 12345555666677777664211 1 2334677888888776653221 124578999998753321
Q ss_pred CCCCchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhh
Q 006065 137 DVGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLR 205 (662)
Q Consensus 137 ~~~~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll 205 (662)
...-.+...+..+++.+|.+.+++++. + + .-.+|+++++.++|.|..+.+...++
T Consensus 160 ---~qYi~~mn~Ifaaqk~~I~Idv~~L~~----e-~------~~~~lqQa~~~TgG~Y~~~~~~~~L~ 214 (279)
T TIGR00627 160 ---LQYIPLMNCIFSAQKQNIPIDVVSIGG----D-F------TSGFLQQAADITGGSYLHVKKPQGLL 214 (279)
T ss_pred ---HHHHHHHHHHHHHHHcCceEEEEEeCC----c-c------ccHHHHHHHHHhCCEEeccCCHhHHH
Confidence 123345577888999999999999943 1 1 13789999999999988765544333
No 70
>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=95.67 E-value=0.6 Score=45.70 Aligned_cols=133 Identities=19% Similarity=0.252 Sum_probs=72.6
Q ss_pred eEEEEEEeCCCCcCCchh-----HHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 6 EALLLLLDVSPSMHSVLP-----DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~-----~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
-.+.+|||.|.||..... .+.+-+.-+..+ ..+.-.|=|++|+++-.. +. +++.-+.
T Consensus 2 ArV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~---~DdDG~i~v~~Fs~~~~~---------~~------~vt~~~~ 63 (200)
T PF10138_consen 2 ARVYLVLDISGSMRPLYKDGTVQRVVERILALAAQ---FDDDGEIDVWFFSTEFDR---------LP------DVTLDNY 63 (200)
T ss_pred cEEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhh---cCCCCceEEEEeCCCCCc---------CC------CcCHHHH
Confidence 368899999999987542 222212222221 345556999999997432 11 1111111
Q ss_pred -HHHHHhhc-CCC-C-CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCC
Q 006065 81 -HLVQSLKH-LPQ-G-TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFG 156 (662)
Q Consensus 81 -~~l~~L~~-l~~-~-~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~g 156 (662)
..++.+.. +.. + .+..+..-+|--.++...+. . ....---|+.||||... + ...+..++.......
T Consensus 64 ~~~v~~~~~~~~~~~~~G~t~y~~vm~~v~~~y~~~-~-~~~~P~~VlFiTDG~~~-~-------~~~~~~~i~~as~~p 133 (200)
T PF10138_consen 64 EGYVDELHAGLPDWGRMGGTNYAPVMEDVLDHYFKR-E-PSDAPALVLFITDGGPD-D-------RRAIEKLIREASDEP 133 (200)
T ss_pred HHHHHHHhccccccCCCCCcchHHHHHHHHHHHhhc-C-CCCCCeEEEEEecCCcc-c-------hHHHHHHHHhccCCC
Confidence 12333321 100 1 11235555665555554321 1 11112246777999753 2 356778888889999
Q ss_pred cEEEEEeecc
Q 006065 157 LRMKNIVVRA 166 (662)
Q Consensus 157 I~l~vi~i~~ 166 (662)
|..+.+|+++
T Consensus 134 ifwqFVgiG~ 143 (200)
T PF10138_consen 134 IFWQFVGIGD 143 (200)
T ss_pred eeEEEEEecC
Confidence 9999999975
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=95.57 E-value=0.75 Score=46.70 Aligned_cols=175 Identities=15% Similarity=0.192 Sum_probs=97.1
Q ss_pred EEEEEEeCCCCc-CC-chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-----C
Q 006065 7 ALLLLLDVSPSM-HS-VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV-----D 79 (662)
Q Consensus 7 a~vflIDvs~sM-~~-~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~-----~ 79 (662)
+.+|+||+|..- .+ .++.+...+...+... =..++-+||+|.|++.-+=-.+.... .-....++.+++.+ .
T Consensus 5 ~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~l-p~~~~~~igiITf~~~V~~~~~~~~~-~~~~~~v~~dl~d~f~p~~~ 82 (239)
T cd01468 5 VFVFVIDVSYEAIKEGLLQALKESLLASLDLL-PGDPRARVGLITYDSTVHFYNLSSDL-AQPKMYVVSDLKDVFLPLPD 82 (239)
T ss_pred EEEEEEEcchHhccccHHHHHHHHHHHHHHhC-CCCCCcEEEEEEeCCeEEEEECCCCC-CCCeEEEeCCCccCcCCCcC
Confidence 679999999642 22 2555666666666631 01278899999998653222221110 01223344444322 0
Q ss_pred ------HH----HHHHhhcCCC------C-CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCC----
Q 006065 80 ------GH----LVQSLKHLPQ------G-TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDV---- 138 (662)
Q Consensus 80 ------~~----~l~~L~~l~~------~-~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~---- 138 (662)
.+ ....|++|+. + ....-+..||.+|..++... . ..=||++|+.+-...+ +.-
T Consensus 83 ~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~-~----~gGkI~~f~sg~pt~G-pG~l~~~ 156 (239)
T cd01468 83 RFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGT-F----AGGRIIVFQGGLPTVG-PGKLKSR 156 (239)
T ss_pred ceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhc-C----CCceEEEEECCCCCCC-CCccccC
Confidence 11 1122333322 1 11235678999999997652 1 2457888887644322 110
Q ss_pred ---------------CCchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehh
Q 006065 139 ---------------GTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD 199 (662)
Q Consensus 139 ---------------~~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~ 199 (662)
....+-.+.++..+...||.+++|.....+ -+-..+..++..++|.++...
T Consensus 157 ~~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~----------~dl~~l~~l~~~TGG~v~~y~ 222 (239)
T cd01468 157 EDKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDY----------VDVATLKQLAKSTGGQVYLYD 222 (239)
T ss_pred cccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccc----------cCHHHhhhhhhcCCceEEEeC
Confidence 011234678999999999999999874311 112446677888899865433
No 72
>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=95.11 E-value=0.21 Score=50.91 Aligned_cols=175 Identities=13% Similarity=0.172 Sum_probs=92.7
Q ss_pred eEEEEEEeCCCC-cC-CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-----
Q 006065 6 EALLLLLDVSPS-MH-SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV----- 78 (662)
Q Consensus 6 ea~vflIDvs~s-M~-~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~----- 78 (662)
=+.+|+||+|.. .. ..++.+++.+...+.. +-..++.+||+|.|++.-+--++.... ......+..+++.+
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-LPGDERTRVGIITFDSSVHFYNLSSSL-SQPQMIVVSDLDDPFIPLP 81 (243)
T ss_dssp -EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCT-SSTSTT-EEEEEEESSSEEEEETTTTS-SSTEEEEEHHTTSHHSSTS
T ss_pred CEEEEEEECchhhhhccHHHHHHHHHHHHHHh-ccCCCCcEEEEEEeCCEEEEEECCCCc-CCCcccchHHHhhcccCCc
Confidence 367999999954 11 2245667777776642 224579999999998764222221111 11222333333221
Q ss_pred ---------CHH----HHHHhhcCCCCC----CCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC----
Q 006065 79 ---------DGH----LVQSLKHLPQGT----CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD---- 137 (662)
Q Consensus 79 ---------~~~----~l~~L~~l~~~~----~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~---- 137 (662)
+.+ .|+.|.++.... ...-+..||.+|..+|... . ..=||++|+.+-...+...
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 DGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSR-N----TGGKILVFTSGPPTYGPGGSLKK 156 (243)
T ss_dssp SSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHH-T----S-EEEEEEESS---SSSTTSS-S
T ss_pred ccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhcc-c----cCCEEEEEeccCCCCCCCceecc
Confidence 112 234444422211 2235788999999998742 1 2347888876633222100
Q ss_pred -C-----C----------CchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeee
Q 006065 138 -V-----G----------TKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 197 (662)
Q Consensus 138 -~-----~----------~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~ 197 (662)
+ + ...+-...++..+...||.+++|.....+ -+-..+..++..++|.++.
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~----------~~l~tl~~l~~~TGG~l~~ 222 (243)
T PF04811_consen 157 REDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDY----------VDLATLGPLARYTGGSLYY 222 (243)
T ss_dssp BTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS------------SHHHHTHHHHCTT-EEEE
T ss_pred cccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCC----------CCcHhHHHHHHhCceeEEE
Confidence 0 0 01124788999999999999999874311 1234567788889998653
No 73
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=93.89 E-value=0.22 Score=54.68 Aligned_cols=152 Identities=17% Similarity=0.170 Sum_probs=79.7
Q ss_pred eEEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHH-HH
Q 006065 6 EALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHL-VQ 84 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~-l~ 84 (662)
-++.++||||-||+..+.+.++.+..+......-. +|+=.+|-.+.-+..++..-.+.-|.++.+++....+. =.
T Consensus 447 la~TLLvD~S~St~a~mdetrRvidl~~eaL~~la----~~~qa~gd~~~~~~fts~rr~~vri~tvk~FDes~~~~~~~ 522 (637)
T COG4548 447 LAFTLLVDVSASTDAKMDETRRVIDLFHEALLVLA----HGHQALGDSEDILDFTSRRRPWVRINTVKDFDESMGETVGP 522 (637)
T ss_pred ceeEEEeecccchHHHhhhhhhhHHHHHHHHHHhh----chhhhhCCHHHhcCchhhcCcceeeeeeeccccccccccch
Confidence 36789999999999988775555543333221111 12222222222222211111222333444444332222 22
Q ss_pred HhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCC-CchhhHHHHHHHHhhCCcEEEEEe
Q 006065 85 SLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVG-TKEDQVSTIARQMVAFGLRMKNIV 163 (662)
Q Consensus 85 ~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~-~~~~~~~~ia~~l~~~gI~l~vi~ 163 (662)
.+..|.++... -..-||.+|..-|.. +....|=++|||||..+--+-++| ..-++....+...+..||++..+.
T Consensus 523 RImALePg~yt-R~G~AIR~As~kL~~----rpq~qklLivlSDGkPnd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vt 597 (637)
T COG4548 523 RIMALEPGYYT-RDGAAIRHASAKLME----RPQRQKLLIVLSDGKPNDFDHYEGRFGIEDTREAVIEARKSGIEVFNVT 597 (637)
T ss_pred hheecCccccc-cccHHHHHHHHHHhc----CcccceEEEEecCCCcccccccccccchhhHHHHHHHHHhcCceEEEEE
Confidence 34445444211 124678888776554 223356789999996543221332 223455667778899999999888
Q ss_pred ecc
Q 006065 164 VRA 166 (662)
Q Consensus 164 i~~ 166 (662)
++.
T Consensus 598 ld~ 600 (637)
T COG4548 598 LDR 600 (637)
T ss_pred ecc
Confidence 863
No 74
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=93.55 E-value=1.2 Score=43.69 Aligned_cols=173 Identities=16% Similarity=0.208 Sum_probs=99.9
Q ss_pred EEEEEEeCCCCcCCch------hHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCc-------cc-cccCCCcccEEEE
Q 006065 7 ALLLLLDVSPSMHSVL------PDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN-------EL-TKEVGGYEHVKVL 72 (662)
Q Consensus 7 a~vflIDvs~sM~~~l------~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n-------~l-~~~~~~y~nI~v~ 72 (662)
-++.+||+.|.--..+ ..++.-+.-++...+-.+.+.+|+||.-.++...- .+ ..|.+.-.|--.+
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 4677889988755443 23455556666666667889999998876553210 00 1111111222222
Q ss_pred eccCCCCHHHHHHhhc---CCCC-CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeC-CCCCCCCCCCCCchhhHHH
Q 006065 73 QDIKVVDGHLVQSLKH---LPQG-TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITD-ALCPLKDPDVGTKEDQVST 147 (662)
Q Consensus 73 ~~l~~~~~~~l~~L~~---l~~~-~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD-~~~p~~~~~~~~~~~~~~~ 147 (662)
+.+..++.-.+..+.. .+.+ +...++..||-.++...... .++..-+-||++||- |.+- .+|.--
T Consensus 102 rrfr~vde~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~-~~e~slkSriliftlsG~d~---------~~qYip 171 (296)
T COG5242 102 RRFRNVDETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHR-DEETSLKSRILIFTLSGRDR---------KDQYIP 171 (296)
T ss_pred hhhcccchHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhh-cccccccceEEEEEecCchh---------hhhhch
Confidence 3333444334444443 3322 34457777777777765542 333344678999987 2111 122222
Q ss_pred HHH---HHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchH
Q 006065 148 IAR---QMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTT 202 (662)
Q Consensus 148 ia~---~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~ 202 (662)
+.+ ..+..||.+.++.|.. |..+|.+-++.++|.|.++++..
T Consensus 172 ~mnCiF~Aqk~~ipI~v~~i~g-------------~s~fl~Q~~daTgG~Yl~ve~~e 216 (296)
T COG5242 172 YMNCIFAAQKFGIPISVFSIFG-------------NSKFLLQCCDATGGDYLTVEDTE 216 (296)
T ss_pred hhhheeehhhcCCceEEEEecC-------------ccHHHHHHhhccCCeeEeecCch
Confidence 222 3467899999998843 24788888888999998888853
No 75
>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=93.19 E-value=3.1 Score=43.03 Aligned_cols=88 Identities=9% Similarity=0.077 Sum_probs=53.8
Q ss_pred chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC-----------------CC-------CchhhHHHHHHHH
Q 006065 97 DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD-----------------VG-------TKEDQVSTIARQM 152 (662)
Q Consensus 97 d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~-----------------~~-------~~~~~~~~ia~~l 152 (662)
.+..||.+|..+|.. +. + ...=||++|+.+-...+. . +. ...+-...++..+
T Consensus 142 ~~G~Al~~A~~ll~~-~~-~-~~gGki~~F~sg~pT~Gp-G~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~ 217 (267)
T cd01478 142 CTGVALSIAVGLLEA-CF-P-NTGARIMLFAGGPCTVGP-GAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRL 217 (267)
T ss_pred chHHHHHHHHHHHHh-hc-C-CCCcEEEEEECCCCCCCC-ceeeccccccccccccccccchhhhhhhHHHHHHHHHHHH
Confidence 578899999999874 22 1 234578888887443221 0 00 0012345677888
Q ss_pred hhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeeh
Q 006065 153 VAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFV 198 (662)
Q Consensus 153 ~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~ 198 (662)
.+.||.+++|..... . -+-.-+..++..++|.++..
T Consensus 218 ~~~~vsvDlF~~s~d-----~-----vglaem~~l~~~TGG~v~~~ 253 (267)
T cd01478 218 AANGHAVDIFAGCLD-----Q-----VGLLEMKVLVNSTGGHVVLS 253 (267)
T ss_pred HhCCeEEEEEecccc-----c-----cCHHHHHHHHHhcCcEEEEe
Confidence 889999999876320 1 11244667788889986543
No 76
>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=92.98 E-value=0.98 Score=46.64 Aligned_cols=153 Identities=18% Similarity=0.310 Sum_probs=98.3
Q ss_pred EEEEEeCCCCcCCc-------hhHHHH-HHHHHHHHHHhccCccEEEEEEEcCCCcC----cccccc-----CCCcccEE
Q 006065 8 LLLLLDVSPSMHSV-------LPDVEK-LCSRLIQKKLIYGKNHEVGVILFGTEETE----NELTKE-----VGGYEHVK 70 (662)
Q Consensus 8 ~vflIDvs~sM~~~-------l~~a~~-~~~~l~~~ki~~~~~D~VGvVlfgt~~t~----n~l~~~-----~~~y~nI~ 70 (662)
+++.|.+|..|-+- ++.+.+ ....+.++---..-++.|.||||..-.-+ .++..+ ..+|-.|
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 56788889888653 334432 44455544334567899999999843221 112111 1245455
Q ss_pred EEeccCCCCHHH-HHHhhc--------C--C-C----------C----CCCCchhhHHHHHHHHHHHHhccCC--cccce
Q 006065 71 VLQDIKVVDGHL-VQSLKH--------L--P-Q----------G----TCAGDFLDAIVVGVDMLIKKYGETY--KGKKH 122 (662)
Q Consensus 71 v~~~l~~~~~~~-l~~L~~--------l--~-~----------~----~~~gd~~daL~va~d~l~~~~~~kk--~~~kr 122 (662)
|.+.....+|.. +..|+. + . . + ..+|++++||-+|++.+.+++-.+. .....
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 445555556653 333331 1 0 0 0 1367999999999999887765542 35677
Q ss_pred EEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEeecc
Q 006065 123 LCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 123 IvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i~~ 166 (662)
|++||-|.+-++- +.+-+....+.|-+.||.+.+|-++.
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 9999999887753 45667777889999999999999865
No 77
>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=92.83 E-value=1 Score=46.75 Aligned_cols=181 Identities=13% Similarity=0.127 Sum_probs=108.8
Q ss_pred EEEEEEeCCCCcC------CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCc----cccccCCCcccE-------
Q 006065 7 ALLLLLDVSPSMH------SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETEN----ELTKEVGGYEHV------- 69 (662)
Q Consensus 7 a~vflIDvs~sM~------~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n----~l~~~~~~y~nI------- 69 (662)
-++++||++|.-- ..+..+++.+..++..-+..+...+|+||..+...+.- +...+...-.++
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 5799999998521 13677888888888888888999999999999876431 110000000000
Q ss_pred EEEeccCCCCHHHHHHhhcCCCC-----C--CCCchhhHHHHHHHHHHHHhccC----CcccceEEE-EeCCCCCCCCCC
Q 006065 70 KVLQDIKVVDGHLVQSLKHLPQG-----T--CAGDFLDAIVVGVDMLIKKYGET----YKGKKHLCL-ITDALCPLKDPD 137 (662)
Q Consensus 70 ~v~~~l~~~~~~~l~~L~~l~~~-----~--~~gd~~daL~va~d~l~~~~~~k----k~~~krIvL-iTD~~~p~~~~~ 137 (662)
--+.++...+....+.|+++... . ...-+..||-.|+=.+.+..... ...+.||++ ++...+...
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 01112222233344555554211 1 12456778888887766542211 245778888 555433211
Q ss_pred CCCchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchHHhh
Q 006065 138 VGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTTSLR 205 (662)
Q Consensus 138 ~~~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~~ll 205 (662)
..-.+-..+=..++.+|.|++..++. ....+|++.++.++|.|..+.+...++
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 12233445556788999999999853 124789999999999998877754433
No 78
>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=92.79 E-value=1.5 Score=49.61 Aligned_cols=150 Identities=15% Similarity=0.162 Sum_probs=76.6
Q ss_pred eEEEEEEeCCCCcCCchhH-HHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccc----c--c----cCCC---cccEEE
Q 006065 6 EALLLLLDVSPSMHSVLPD-VEKLCSRLIQKKLIYGKNHEVGVILFGTEETENEL----T--K----EVGG---YEHVKV 71 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~~-a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l----~--~----~~~~---y~nI~v 71 (662)
-++-++||+|.||...... |..++..|.+.. .+-+=-+-|+.|-|..-+--. + . ..|. ..|| +
T Consensus 393 ~~V~LLID~SGSM~~r~~~vA~~~a~iLa~aL--~~~gIp~eVlGFtt~aw~gg~~re~w~~~g~p~~PgRlN~l~hi-i 469 (600)
T TIGR01651 393 TVVTLLIDNSGSMRGRPITVAATCADILARTL--ERCGVKVEILGFTTRAWKGGQSREKWLKAGKPAAPGRLNDLRHI-I 469 (600)
T ss_pred cEEEEEEECCccCCCCHHHHHHHHHHHHHHHH--HHCCCCeEEEeecccccccccchHHHHhcCCCCCCcccchhhhh-h
Confidence 4678999999999876544 333444333322 233444556777765211000 0 0 0011 1233 2
Q ss_pred EeccCCCCHHHHHHhhcC-----CCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC-----CCCc
Q 006065 72 LQDIKVVDGHLVQSLKHL-----PQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD-----VGTK 141 (662)
Q Consensus 72 ~~~l~~~~~~~l~~L~~l-----~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~-----~~~~ 141 (662)
+..-..|--..-+.|..+ ...+-+ ..||..|.+.|.++ . -..|-+++||||. |.+... ...-
T Consensus 470 yk~ad~~wr~~r~~l~~mm~~~~~~eN~D---GeAl~wa~~rL~~R-~---e~rKiL~ViSDG~-P~D~~TlsvN~~~~l 541 (600)
T TIGR01651 470 YKSADAPWRRARRNLGLMMREGLLKENID---GEALMWAHQRLIAR-P---EQRRILMMISDGA-PVDDSTLSVNPGNYL 541 (600)
T ss_pred hhccccchhhhccchhhhhhccccccCCc---hHHHHHHHHHHhcC-c---ccceEEEEEeCCC-cCCccccccCchhHH
Confidence 333333311111112111 111112 46787777776553 2 2356678888884 444211 0112
Q ss_pred hhhHHHHHHHHhhC-CcEEEEEeecc
Q 006065 142 EDQVSTIARQMVAF-GLRMKNIVVRA 166 (662)
Q Consensus 142 ~~~~~~ia~~l~~~-gI~l~vi~i~~ 166 (662)
...++.++..+... ||+|.-|||+.
T Consensus 542 ~~hLr~vi~~~e~~~~vel~aigIg~ 567 (600)
T TIGR01651 542 ERHLRAVIEEIETRSPVELLAIGIGH 567 (600)
T ss_pred HHHHHHHHHHHhccCCceEEEeeccc
Confidence 34577888888885 99999999964
No 79
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=92.71 E-value=1.7 Score=43.86 Aligned_cols=175 Identities=15% Similarity=0.160 Sum_probs=102.6
Q ss_pred EEEEEEeCCC---CcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCcccccc-CCCcccEEEE----
Q 006065 7 ALLLLLDVSP---SMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKE-VGGYEHVKVL---- 72 (662)
Q Consensus 7 a~vflIDvs~---sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~-~~~y~nI~v~---- 72 (662)
-++++||++| .|... ...+++.+--+....+..+.+.+|.|+..+.+..+--.-+. .+.-+|...+
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 55443 34456777777788888899999999999876532110000 0011222222
Q ss_pred ------eccCCCCHHHHHHhhcCCC---CC-------CCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCC
Q 006065 73 ------QDIKVVDGHLVQSLKHLPQ---GT-------CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDP 136 (662)
Q Consensus 73 ------~~l~~~~~~~l~~L~~l~~---~~-------~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~ 136 (662)
..+...+.-.++.+..+-. .. -.|.+.+||-....+-++. . .-+-+-||++||-...-..
T Consensus 105 ~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~~~rt~lagals~~L~yi~~~~ke~-~-~~~lkSRilV~t~t~d~~~-- 180 (314)
T KOG2487|consen 105 LVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDVGDRTVLAGALSDALGYINRLHKEE-A-SEKLKSRILVFTLTRDRAL-- 180 (314)
T ss_pred hhcchhhhhcccchHHHHHHHHHHhCccccccccceeeccchhhccchHhhhhhhh-h-hhhhhceEEEEEechHHHh--
Confidence 2233334444555555421 11 1244556666655553332 1 1245789999998543211
Q ss_pred CCCCchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhchH
Q 006065 137 DVGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDSTT 202 (662)
Q Consensus 137 ~~~~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a~ 202 (662)
..-.+...+=..++.+|-+.++.+++ +..+|.+-++.++|.|..++...
T Consensus 181 ----qyi~~MNciFaAqKq~I~Idv~~l~~-------------~s~~LqQa~D~TGG~YL~v~~~~ 229 (314)
T KOG2487|consen 181 ----QYIPYMNCIFAAQKQNIPIDVVSLGG-------------DSGFLQQACDITGGDYLHVEKPD 229 (314)
T ss_pred ----hhhhHHHHHHHHHhcCceeEEEEecC-------------CchHHHHHHhhcCCeeEecCCcc
Confidence 11122333445678999999999854 13788888899999988877553
No 80
>PTZ00395 Sec24-related protein; Provisional
Probab=92.40 E-value=4.6 Score=49.65 Aligned_cols=217 Identities=12% Similarity=0.097 Sum_probs=112.0
Q ss_pred eEEEEEEeCCCC-cCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCcccc----------ccCCCc--ccEEE
Q 006065 6 EALLLLLDVSPS-MHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELT----------KEVGGY--EHVKV 71 (662)
Q Consensus 6 ea~vflIDvs~s-M~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~----------~~~~~y--~nI~v 71 (662)
-+.+||||||.. +..- +..+.+.+...+.+. ..+..+||+|.|.+.=.-=.+. +..++. .++.|
T Consensus 953 P~YvFLIDVS~~AVkSGLl~tacesIK~sLDsL--~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qPQMLV 1030 (1560)
T PTZ00395 953 PYFVFVVECSYNAIYNNITYTILEGIRYAVQNV--KCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNHQVIV 1030 (1560)
T ss_pred CEEEEEEECCHHHHhhChHHHHHHHHHHHHhcC--CCCCcEEEEEEecCcEEEEecCcccccccccccccccCCCceEEe
Confidence 368999999964 2222 345566666666542 3577899999998753110010 001122 23334
Q ss_pred EeccCCCC---------------HH----HHHHhhcCCCC--CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCC
Q 006065 72 LQDIKVVD---------------GH----LVQSLKHLPQG--TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDAL 130 (662)
Q Consensus 72 ~~~l~~~~---------------~~----~l~~L~~l~~~--~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~ 130 (662)
+.+|+.|= .+ +|+.|.++-.. ....-+..||.+|+.+|.. .+. .=+|++|...-
T Consensus 1031 VSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t~~~esCLGSALqAA~~aLk~-~GG----GGKIiVF~SSL 1105 (1560)
T PTZ00395 1031 MSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTMQSYGSCGNSALKIAMDMLKE-RNG----LGSICMFYTTT 1105 (1560)
T ss_pred ecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhccCCCcccHHHHHHHHHHHHHh-cCC----CceEEEEEcCC
Confidence 44433211 11 22333332111 1234567899999999765 231 23455554422
Q ss_pred CCCCCC-------------CCCCchhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeee
Q 006065 131 CPLKDP-------------DVGTKEDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLF 197 (662)
Q Consensus 131 ~p~~~~-------------~~~~~~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~ 197 (662)
-.++.. ......+-+..++.++.+.+|.|++|.+...+.+ ..-..|-.++..++|+++.
T Consensus 1106 PniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvD--------VDVATLg~Lsr~TGGqlyy 1177 (1560)
T PTZ00395 1106 PNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVR--------VCVPSLQYVAQNTGGKILF 1177 (1560)
T ss_pred CCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccc--------cccccccchhcccceeEEE
Confidence 211100 0001224567899999999999999987431111 0012345567778887532
Q ss_pred hh------chHHhhcccccccCCcceeeeeeeeecCCeEEEEEEEe
Q 006065 198 VD------STTSLRGARKTRDISPVTIFRGDLELSEKMKIKVWVYK 237 (662)
Q Consensus 198 ~~------~a~~ll~~~~~k~~~~~~~~~g~L~ig~~l~I~V~~Y~ 237 (662)
.. +..++...+...-.+.-..|.+.|++...=-|.|..|.
T Consensus 1178 YPnFna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fy 1223 (1560)
T PTZ00395 1178 VENFLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLF 1223 (1560)
T ss_pred eCCCcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEe
Confidence 21 12233333332222222478998888755556666665
No 81
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=92.30 E-value=1.7 Score=43.08 Aligned_cols=154 Identities=17% Similarity=0.144 Sum_probs=73.2
Q ss_pred eEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCcc----ccccCC--CcccE------EEE
Q 006065 6 EALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENE----LTKEVG--GYEHV------KVL 72 (662)
Q Consensus 6 ea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~----l~~~~~--~y~nI------~v~ 72 (662)
-++-|+||+|.||... ...|..++..+.+-. .+-+=-+=|+.|.|..-+-. .+...| .|++- .++
T Consensus 13 ~~VtlLID~SGSMrgr~~~vA~~~adila~aL--~~~gvp~EVlGFtT~aw~gg~~~~~w~~~G~p~~pgrln~l~h~vy 90 (219)
T PF11775_consen 13 TVVTLLIDCSGSMRGRPIEVAALCADILARAL--ERCGVPVEVLGFTTRAWKGGRSREAWLAAGRPRYPGRLNDLRHIVY 90 (219)
T ss_pred eEEEEEEeCCcCCCCChHHHHHHHHHHHHHHH--HhCCCCeEEEeeecCCcCCcchHHHHHhcCCCCCChHHHHHHHHHH
Confidence 4678999999999874 455555555554432 23344455677777632110 001111 11110 011
Q ss_pred eccCCCCHHHHHHhhcCC-CC-CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC---CC--CchhhH
Q 006065 73 QDIKVVDGHLVQSLKHLP-QG-TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD---VG--TKEDQV 145 (662)
Q Consensus 73 ~~l~~~~~~~l~~L~~l~-~~-~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~---~~--~~~~~~ 145 (662)
.+.+.|.-..-+.|.-+. .+ ..++-=.+||..|...|.++ . -..|-+++|+|| .|.+..- +. .-...+
T Consensus 91 k~a~~~wrraR~~l~~m~~~~~~~eniDGeAl~~a~~rL~~r-~---e~rkiLiViSDG-~P~d~st~~~n~~~~L~~HL 165 (219)
T PF11775_consen 91 KDADTPWRRARRNLGLMMREGLLKENIDGEALRWAAERLLAR-P---EQRKILIVISDG-APADDSTLSANDGDYLDAHL 165 (219)
T ss_pred HhcCChhhhHHHhHHHHhhccccccCCcHHHHHHHHHHHHcC-C---ccceEEEEEeCC-CcCcccccccCChHHHHHHH
Confidence 112222111111111110 00 00111146666666665442 2 224567777887 4553210 11 112456
Q ss_pred HHHHHHHhh-CCcEEEEEeecc
Q 006065 146 STIARQMVA-FGLRMKNIVVRA 166 (662)
Q Consensus 146 ~~ia~~l~~-~gI~l~vi~i~~ 166 (662)
..+++.+.. .+|+|.-|||+.
T Consensus 166 r~vi~~ie~~~~Vel~aiGIg~ 187 (219)
T PF11775_consen 166 RQVIAEIETRSDVELIAIGIGH 187 (219)
T ss_pred HHHHHHHhccCCcEEEEEEcCC
Confidence 777888876 479998888864
No 82
>PLN00162 transport protein sec23; Provisional
Probab=92.13 E-value=3.2 Score=49.50 Aligned_cols=128 Identities=15% Similarity=0.092 Sum_probs=72.4
Q ss_pred chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCC------------------------CchhhHHHHHHHH
Q 006065 97 DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVG------------------------TKEDQVSTIARQM 152 (662)
Q Consensus 97 d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~------------------------~~~~~~~~ia~~l 152 (662)
-...||.+|..+|.. +. . ...=||++|+.|-...+ ++-- ...+-.+.++..+
T Consensus 263 ~tG~AL~vA~~lL~~-~~-~-~~gGrI~~F~sgppT~G-pG~v~~r~~~~~~rsh~di~k~~~~~~~~a~~fY~~la~~~ 338 (761)
T PLN00162 263 CTGAALSVAAGLLGA-CV-P-GTGARIMAFVGGPCTEG-PGAIVSKDLSEPIRSHKDLDKDAAPYYKKAVKFYEGLAKQL 338 (761)
T ss_pred cHHHHHHHHHHHHhh-cc-C-CCceEEEEEeCCCCCCC-CceeecccccccccCccccccchhhhcchHHHHHHHHHHHH
Confidence 467899999999864 22 1 23567888887643221 1100 0012345688889
Q ss_pred hhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehhch-----HHhhcccccccC--Ccceeeeeeeee
Q 006065 153 VAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVDST-----TSLRGARKTRDI--SPVTIFRGDLEL 225 (662)
Q Consensus 153 ~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~~a-----~~ll~~~~~k~~--~~~~~~~g~L~i 225 (662)
.+.||.+++|..... .. .-.-++.++..++|.++-.+.. .+.+.+.-.|.. .....|.+.|++
T Consensus 339 ~~~gisvDlF~~s~d-----qv-----glaem~~l~~~TGG~v~~~~sF~~~~f~~~l~r~~~r~~~~~~~~gf~a~~~V 408 (761)
T PLN00162 339 VAQGHVLDVFACSLD-----QV-----GVAEMKVAVERTGGLVVLAESFGHSVFKDSLRRVFERDGEGSLGLSFNGTFEV 408 (761)
T ss_pred HHcCceEEEEEcccc-----cc-----CHHHHhhhHhhcCcEEEEeCCcChHHHHHHHHHHhcccccccccccceeEEEE
Confidence 999999999976321 01 1244667788889976432221 111211111211 112478888888
Q ss_pred cCCeEEEEEEEee
Q 006065 226 SEKMKIKVWVYKK 238 (662)
Q Consensus 226 g~~l~I~V~~Y~~ 238 (662)
...-.|.|.+|.-
T Consensus 409 rtS~glkv~g~~G 421 (761)
T PLN00162 409 NCSKDVKVQGAIG 421 (761)
T ss_pred EecCCeEEeeeEc
Confidence 7666667766653
No 83
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=91.75 E-value=0.0032 Score=69.20 Aligned_cols=133 Identities=20% Similarity=0.270 Sum_probs=93.1
Q ss_pred CCccccccceeeCCeeEeCChhhHHhhccCCCccEEEEeEeeCCCCcchhccCCeEEEEcC--CCChhhHHHHHHHHHHH
Q 006065 281 VPPEQRIKGYRYGPQVVPISSAEWEAVKFKPEKSVKLLGFTDASNILRHYYMKDVNLFIAE--PGNSRATVAVSALARAM 358 (662)
Q Consensus 281 v~~ed~~kgy~yG~~~Vp~s~~e~~~~k~~~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~--~~~~~s~~afsaL~~Am 358 (662)
+.++.+.++|.||.+++.+..-+-.+.++.+.+.++.+||-.+..|+||.+-..+.+++.. +.. .+..||++|+.-+
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 5788999999999999999997667778889999999999999999999998776554433 332 3445889999888
Q ss_pred HhcCceeEEEEEecCCCCceEEEEeeccccCCCCCC------CeEEEecCCChh---cccCCCCCC
Q 006065 359 KEMNKVAIVRCVWRQGQQSVVVGVLTPNVSEKINIP------DSFYFNVLPFAE---DVREFQFPS 415 (662)
Q Consensus 359 ~e~~~vaI~r~v~r~~~~p~~v~~L~P~~~~~~~~~------~~l~~v~LPfae---DvR~~~fp~ 415 (662)
+.-..-+.++++.+-... ...+.+.|+...-.++- ...-++.+||++ |.|.-.++.
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 33445555544321111 112345677777 555544443
No 84
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.68 E-value=5.3 Score=46.72 Aligned_cols=215 Identities=14% Similarity=0.162 Sum_probs=110.2
Q ss_pred eEEEEEEeCCCCcCC--chhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC-----
Q 006065 6 EALLLLLDVSPSMHS--VLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV----- 78 (662)
Q Consensus 6 ea~vflIDvs~sM~~--~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~----- 78 (662)
-+.||.||||=.-.. ....+-+.+++++...-...++-+||+|+|...-.--++... =.=.++.+..+++.+
T Consensus 418 pafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~-L~qp~mliVsdv~dvfvPf~ 496 (1007)
T KOG1984|consen 418 PAFVFMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSN-LAQPQMLIVSDVDDVFVPFL 496 (1007)
T ss_pred ceEEEEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCcc-ccCceEEEeecccccccccc
Confidence 478999999943211 122334455555554444678899999999864211111000 011233333333221
Q ss_pred ---------CHHHHHHh-hcCC---CC--CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC------
Q 006065 79 ---------DGHLVQSL-KHLP---QG--TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD------ 137 (662)
Q Consensus 79 ---------~~~~l~~L-~~l~---~~--~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~------ 137 (662)
+...|+.| .+++ .+ ..+.-+.+||-+|+..|.. .. .-++++|++--.-.+.+.
T Consensus 497 ~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~--~~----gGKl~vF~s~Lpt~g~g~kl~~r~ 570 (1007)
T KOG1984|consen 497 DGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKA--AD----GGKLFVFHSVLPTAGAGGKLSNRD 570 (1007)
T ss_pred cCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhc--cC----CceEEEEecccccccCcccccccc
Confidence 11222222 2232 11 2244577888888888653 21 356778877544443210
Q ss_pred ----CCCchh---------hHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhhhHHHHHHhhccCCeeeehh-----
Q 006065 138 ----VGTKED---------QVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIENDNLLNIFSKKSSAKTLFVD----- 199 (662)
Q Consensus 138 ----~~~~~~---------~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~~g~~~~~~----- 199 (662)
.+++++ -..++|+++-+.||.+++|.....+- + -..+-.++.-++|+++...
T Consensus 571 D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayv-----D-----vAtlg~v~~~TgG~vy~Y~~F~a~ 640 (1007)
T KOG1984|consen 571 DRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYV-----D-----VATLGVVPALTGGQVYKYYPFQAL 640 (1007)
T ss_pred hhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEccccee-----e-----eeeecccccccCceeEEecchhhc
Confidence 011112 26689999999999999998743111 0 1122233445677654322
Q ss_pred -chHHhhcccccccCCcceeeeeeeeecCCeEEEEEEEee
Q 006065 200 -STTSLRGARKTRDISPVTIFRGDLELSEKMKIKVWVYKK 238 (662)
Q Consensus 200 -~a~~ll~~~~~k~~~~~~~~~g~L~ig~~l~I~V~~Y~~ 238 (662)
+...++..++.--.++. -|++.++....--|.|..|.-
T Consensus 641 ~D~~rl~nDL~~~vtk~~-gf~a~mrvRtStGirv~~f~G 679 (1007)
T KOG1984|consen 641 TDGPRLLNDLVRNVTKKQ-GFDAVMRVRTSTGIRVQDFYG 679 (1007)
T ss_pred ccHHHHHHHHHHhcccce-eeeeEEEEeecCceeeeeeec
Confidence 22244444444333333 567777766555666666653
No 85
>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=90.21 E-value=5 Score=43.81 Aligned_cols=149 Identities=18% Similarity=0.204 Sum_probs=80.6
Q ss_pred EEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCc-----------Ccccccc---C---CCcccEE
Q 006065 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEET-----------ENELTKE---V---GGYEHVK 70 (662)
Q Consensus 8 ~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t-----------~n~l~~~---~---~~y~nI~ 70 (662)
+.|++|+|.||...++..+.....|++.---..++=++|+=.|--+.. .|+-... . =+|+|+
T Consensus 102 LYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~f~f~~~- 180 (423)
T smart00187 102 LYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPPYGFKHV- 180 (423)
T ss_pred eEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCCcceeee-
Confidence 579999999999988877776666665433355788888866653311 1221110 0 178886
Q ss_pred EEeccCCCCHHHHHHhhcCC-CCCCC--CchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC----------
Q 006065 71 VLQDIKVVDGHLVQSLKHLP-QGTCA--GDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD---------- 137 (662)
Q Consensus 71 v~~~l~~~~~~~l~~L~~l~-~~~~~--gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~---------- 137 (662)
.+|..-.-..-+.+.+.. ++..+ -.=+|||..|.=- .++.+=++...|-+|+.||+..-+.++.
T Consensus 181 --L~LT~~~~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC-~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PND 257 (423)
T smart00187 181 --LSLTDDTDEFNEEVKKQRISGNLDAPEGGFDAIMQAAVC-TEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPND 257 (423)
T ss_pred --ccCCCCHHHHHHHHhhceeecCCcCCcccHHHHHHHHhh-ccccccCCCceEEEEEEcCCCccccCCcceeeEecCCC
Confidence 566664444555566642 22111 1127777655411 1111212223344555577654222110
Q ss_pred -----------C---CCchhhHHHHHHHHhhCCcEEE
Q 006065 138 -----------V---GTKEDQVSTIARQMVAFGLRMK 160 (662)
Q Consensus 138 -----------~---~~~~~~~~~ia~~l~~~gI~l~ 160 (662)
. ..+.=.+.++++.|.+++|.+.
T Consensus 258 g~CHL~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~I 294 (423)
T smart00187 258 GQCHLDNNGEYTMSTTQDYPSIGQLNQKLAENNINPI 294 (423)
T ss_pred CcceeCCCCCcCccCcCCCCCHHHHHHHHHhcCceEE
Confidence 0 0122257788999999998653
No 86
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=89.61 E-value=2.5 Score=38.40 Aligned_cols=41 Identities=24% Similarity=0.323 Sum_probs=27.5
Q ss_pred EEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCC
Q 006065 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (662)
Q Consensus 8 ~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~ 53 (662)
++++||.|.||.+. +..+..-+..++++ . ..+|-||-|-++
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 57999999999863 45555545555552 2 556888877665
No 87
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=89.59 E-value=3.9 Score=50.00 Aligned_cols=140 Identities=17% Similarity=0.246 Sum_probs=90.1
Q ss_pred CCCCeEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 2 ARTREALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 2 a~~Kea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
|++..-++|++|+|.||... +.-|+-.+..++.. -+.+|.|-++.|+.+. |++.. . -...|-+.++
T Consensus 222 At~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdt---Ls~~Dfvni~tf~~~~--~~v~p--c------~~~~lvqAt~ 288 (1104)
T KOG2353|consen 222 ATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDT---LSDNDFVNILTFNSEV--NPVSP--C------FNGTLVQATM 288 (1104)
T ss_pred cCCccceEEEEeccccccchhhHHHHHHHHHHHHh---cccCCeEEEEeecccc--Ccccc--c------ccCceeecch
Confidence 45677899999999999764 56677777777773 4789999999999864 22210 0 1223444555
Q ss_pred HHHHHhhcCCC---CCCCCchhhHHHHHHHHHHHHhccCC------cccceEEEEeCCCCCCCCCCCCCchhhHHHHHHH
Q 006065 81 HLVQSLKHLPQ---GTCAGDFLDAIVVGVDMLIKKYGETY------KGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQ 151 (662)
Q Consensus 81 ~~l~~L~~l~~---~~~~gd~~daL~va~d~l~~~~~~kk------~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~ 151 (662)
.-++.|.+... ..+.+++--|+-.|.++|.+ +.... --.+-|.|||||-.. ....|.+.
T Consensus 289 ~nk~~~~~~i~~l~~k~~a~~~~~~e~aF~lL~~-~n~s~~~~~~~~C~~~iml~tdG~~~-----------~~~~If~~ 356 (1104)
T KOG2353|consen 289 RNKKVFKEAIETLDAKGIANYTAALEYAFSLLRD-YNDSRANTQRSPCNQAIMLITDGVDE-----------NAKEIFEK 356 (1104)
T ss_pred HHHHHHHHHHhhhccccccchhhhHHHHHHHHHH-hccccccccccccceeeEEeecCCcc-----------cHHHHHHh
Confidence 55555554321 23455777889999998875 33221 146779999976432 34555555
Q ss_pred Hhh--CCcEEEEEeecc
Q 006065 152 MVA--FGLRMKNIVVRA 166 (662)
Q Consensus 152 l~~--~gI~l~vi~i~~ 166 (662)
.+. ..|++..+.+|+
T Consensus 357 yn~~~~~Vrvftflig~ 373 (1104)
T KOG2353|consen 357 YNWPDKKVRVFTFLIGD 373 (1104)
T ss_pred hccCCCceEEEEEEecc
Confidence 554 567777777764
No 88
>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=88.50 E-value=12 Score=38.35 Aligned_cols=139 Identities=13% Similarity=0.164 Sum_probs=79.0
Q ss_pred eEEEEEEeCCCCcCCc----------------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccE
Q 006065 6 EALLLLLDVSPSMHSV----------------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHV 69 (662)
Q Consensus 6 ea~vflIDvs~sM~~~----------------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI 69 (662)
--++++||.+.|=+.+ .+.|+..+-.+++. ....-.+-+.+||+..+.+. ...|.
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 3578999999874321 24556655555552 67888999999999754332 11111
Q ss_pred EEEeccCCCC---H-HHHHHhhc----CCCCCCCCchhhHHHHHHHHHHHHhccCCcccce-EEEEeCCCCCCCCCCCCC
Q 006065 70 KVLQDIKVVD---G-HLVQSLKH----LPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKH-LCLITDALCPLKDPDVGT 140 (662)
Q Consensus 70 ~v~~~l~~~~---~-~~l~~L~~----l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~kr-IvLiTD~~~p~~~~~~~~ 140 (662)
+- .....|. . ..++..++ +.- .+..++...|-.|+++..+. ... ..-. +++||||.-.
T Consensus 103 f~-~~~~~p~~~Gi~gvl~aY~~~l~~v~l-sGpT~fapvI~~a~~~a~~~-~~~--~~Y~VLLIiTDG~i~-------- 169 (254)
T cd01459 103 FP-GYSESPECQGFEGVLRAYREALPNVSL-SGPTNFAPVIRAAANIAKAS-NSQ--SKYHILLIITDGEIT-------- 169 (254)
T ss_pred cC-CCCCCCcccCHHHHHHHHHHHhceeee-cCcchHHHHHHHHHHHHHHh-cCC--CceEEEEEECCCCcc--------
Confidence 10 0001111 1 23333333 222 23456777777777764431 211 1244 6667999652
Q ss_pred chhhHHHHHHHHhhCCcEEEEEeecc
Q 006065 141 KEDQVSTIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 141 ~~~~~~~ia~~l~~~gI~l~vi~i~~ 166 (662)
+.++....+.+..+.-+.+.++|+|+
T Consensus 170 D~~~t~~aIv~AS~~PlSIiiVGVGd 195 (254)
T cd01459 170 DMNETIKAIVEASKYPLSIVIVGVGD 195 (254)
T ss_pred cHHHHHHHHHHHhcCCeEEEEEEeCC
Confidence 23556666667788899999999975
No 89
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=87.06 E-value=4.7 Score=41.42 Aligned_cols=155 Identities=16% Similarity=0.199 Sum_probs=86.3
Q ss_pred EEEEEEeCCCCcCCc------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 7 ALLLLLDVSPSMHSV------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 7 a~vflIDvs~sM~~~------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
.++++||+|.+|.+. ...+.+++..++-.-.-.+|-..+|+|.....-. .| + ..+.----
T Consensus 89 hl~l~lD~Seam~e~Df~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a---------~~--~---s~~~gnpq 154 (421)
T COG5151 89 HLHLILDVSEAMDESDFLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCA---------KY--T---SSMDGNPQ 154 (421)
T ss_pred eeEEEEEhhhhhhhhhccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHH---------HH--h---hhcCCCHH
Confidence 578999999999875 1223444444444332267888888887763210 01 0 11111112
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEE
Q 006065 81 HLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMK 160 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~ 160 (662)
..|.+|+++..-.+.-.+..||-.|.-.+... ..-..|-|++|-..-+..+ ..++-..++.|...+|++.
T Consensus 155 ~hi~~lkS~rd~~gnfSLqNaLEmar~~l~~~---~~H~trEvLiifgS~st~D-------Pgdi~~tid~Lv~~~IrV~ 224 (421)
T COG5151 155 AHIGQLKSKRDCSGNFSLQNALEMARIELMKN---TMHGTREVLIIFGSTSTRD-------PGDIAETIDKLVAYNIRVH 224 (421)
T ss_pred HHHHHhhcccccCCChhHHhHHHHhhhhhccc---ccccceEEEEEEeecccCC-------CccHHHHHHHHHhhceEEE
Confidence 35667777653222334567777774443321 1123566655543322211 1346667788999999999
Q ss_pred EEeeccCCCCCCCcchhhhhhHHHHHHhhcc----CCeeeeh
Q 006065 161 NIVVRASLSGEPHMRVIIENDNLLNIFSKKS----SAKTLFV 198 (662)
Q Consensus 161 vi~i~~~~~~~~~~~~~~~ne~~L~~l~~~~----~g~~~~~ 198 (662)
++|+.. .-.+.++++..+ .|.|+-+
T Consensus 225 ~igL~a-------------evaicKeickaTn~~~e~~y~v~ 253 (421)
T COG5151 225 FIGLCA-------------EVAICKEICKATNSSTEGRYYVP 253 (421)
T ss_pred EEeehh-------------HHHHHHHHHhhcCcCcCceeEee
Confidence 999843 125667777666 4666533
No 90
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=84.64 E-value=11 Score=40.37 Aligned_cols=102 Identities=16% Similarity=0.186 Sum_probs=59.8
Q ss_pred CeEEEEE-EeCCCCcCCchhH-HHH--HHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH
Q 006065 5 REALLLL-LDVSPSMHSVLPD-VEK--LCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG 80 (662)
Q Consensus 5 Kea~vfl-IDvs~sM~~~l~~-a~~--~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~ 80 (662)
..|+||| +|||.||.+.-.+ |+. +... +-+.++.+.|-||+..-....-.. +|. .|- .
T Consensus 245 s~AVmfclMDvSGSM~~~~KdlAkrFF~lL~----~FL~~kYenveivfIrHht~A~EV-dE~-dFF------~------ 306 (423)
T COG2718 245 SNAVMFCLMDVSGSMDQSEKDLAKRFFFLLY----LFLRRKYENVEIVFIRHHTEAKEV-DET-DFF------Y------ 306 (423)
T ss_pred cceEEEEEEecCCCcchHHHHHHHHHHHHHH----HHHhcccceeEEEEEeecCcceec-chh-hce------e------
Confidence 3455554 6999999875322 222 2222 223578888888777644211111 111 110 0
Q ss_pred HHHHHhhcCCCCCCCC-chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCC
Q 006065 81 HLVQSLKHLPQGTCAG-DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKD 135 (662)
Q Consensus 81 ~~l~~L~~l~~~~~~g-d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~ 135 (662)
.....| =.++||-.+++.|..+|.. .-|+.-.+-.+||++-+++
T Consensus 307 ----------~~esGGTivSSAl~~m~evi~ErYp~-aeWNIY~fqaSDGDN~~dD 351 (423)
T COG2718 307 ----------SQESGGTIVSSALKLMLEVIKERYPP-AEWNIYAFQASDGDNWADD 351 (423)
T ss_pred ----------ecCCCCeEeHHHHHHHHHHHHhhCCh-hheeeeeeeecCCccccCC
Confidence 111123 3578999999999887764 4788888888999997764
No 91
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.55 E-value=45 Score=38.52 Aligned_cols=169 Identities=14% Similarity=0.141 Sum_probs=89.2
Q ss_pred EEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEe-------------
Q 006065 8 LLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQ------------- 73 (662)
Q Consensus 8 ~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~------------- 73 (662)
.+|+||.. |.++ |...+.++...+. +..++-.||+|.||+--.-..++.+ +-...+|+.
T Consensus 124 f~fVvDtc--~~eeeL~~LkssL~~~l~---lLP~~alvGlItfg~~v~v~el~~~--~~sk~~VF~G~ke~s~~q~~~~ 196 (745)
T KOG1986|consen 124 FVFVVDTC--MDEEELQALKSSLKQSLS---LLPENALVGLITFGTMVQVHELGFE--ECSKSYVFSGNKEYSAKQLLDL 196 (745)
T ss_pred EEEEEeec--cChHHHHHHHHHHHHHHh---hCCCcceEEEEEecceEEEEEcCCC--cccceeEEeccccccHHHHHHH
Confidence 47788875 5443 4444555554443 3578999999999986433333111 112222332
Q ss_pred ----------------------ccCCCCHHHHHHhhcCCCCC---CCC-----chhhHHHHHHHHHHHHhccCCcccceE
Q 006065 74 ----------------------DIKVVDGHLVQSLKHLPQGT---CAG-----DFLDAIVVGVDMLIKKYGETYKGKKHL 123 (662)
Q Consensus 74 ----------------------~l~~~~~~~l~~L~~l~~~~---~~g-----d~~daL~va~d~l~~~~~~kk~~~krI 123 (662)
|+......+...|++|++.. ..| --.-||-+|+.+|.. +.. ....||
T Consensus 197 L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~--c~p-~~g~rI 273 (745)
T KOG1986|consen 197 LGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEG--CFP-NTGARI 273 (745)
T ss_pred hcCCcccccCCcccccchhhhccHHHHHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcc--cCC-CCcceE
Confidence 33333333333344443321 001 235788999998865 322 457999
Q ss_pred EEEeCCCCCCC------------------CCCCCCc-----hhhHHHHHHHHhhCCcEEEEEeeccCCCCCCCcchhhhh
Q 006065 124 CLITDALCPLK------------------DPDVGTK-----EDQVSTIARQMVAFGLRMKNIVVRASLSGEPHMRVIIEN 180 (662)
Q Consensus 124 vLiTD~~~p~~------------------~~~~~~~-----~~~~~~ia~~l~~~gI~l~vi~i~~~~~~~~~~~~~~~n 180 (662)
++|+.|-+..+ ...++.. ..-.+.+++.+..+|.-++++.-.- + . -.
T Consensus 274 v~f~gGPcT~GpG~vv~~el~~piRshhdi~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~l--D-----Q---vG 343 (745)
T KOG1986|consen 274 VLFAGGPCTRGPGTVVSRELKEPIRSHHDIEKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAAL--D-----Q---VG 343 (745)
T ss_pred EEeccCCCCcCCceecchhhcCCCcCcccccCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeec--c-----c---cc
Confidence 99999933111 1000000 0124567888999998888774310 0 0 11
Q ss_pred hHHHHHHhhccCCeee
Q 006065 181 DNLLNIFSKKSSAKTL 196 (662)
Q Consensus 181 e~~L~~l~~~~~g~~~ 196 (662)
--.++.++..++|-+.
T Consensus 344 i~EMk~l~~~TGG~lv 359 (745)
T KOG1986|consen 344 ILEMKPLVESTGGVLV 359 (745)
T ss_pred hHHHHHHhhcCCcEEE
Confidence 2335566667777543
No 92
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=80.20 E-value=11 Score=42.41 Aligned_cols=111 Identities=23% Similarity=0.256 Sum_probs=64.9
Q ss_pred EEEEEEeCCCCcCCc-------hhHHHHHHHHHHHHHHhc--cCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCC
Q 006065 7 ALLLLLDVSPSMHSV-------LPDVEKLCSRLIQKKLIY--GKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKV 77 (662)
Q Consensus 7 a~vflIDvs~sM~~~-------l~~a~~~~~~l~~~ki~~--~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~ 77 (662)
+++|+||-|.||.+. |+.|+.++.++++++-.. ...|+.=++.|---. .||.+.. ..
T Consensus 3 i~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~R~r~~~~~gdryml~TfeepP------------~~vk~~~--~~ 68 (888)
T KOG3768|consen 3 IFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQRTRVGRETGDRYMLTTFEEPP------------KNVKVAC--EK 68 (888)
T ss_pred eEEEEEecccchhhhccCCchhhHHHHHHHHHHHHHHhccccccCceEEEEecccCc------------hhhhhHH--hh
Confidence 789999999999774 677899999999976432 145555555554221 1222211 11
Q ss_pred CCHHHHHHhhcCCCCCCCCchhhHHHHHHHHHHHH--------hcc-CC---cccceEEEEeCCCC
Q 006065 78 VDGHLVQSLKHLPQGTCAGDFLDAIVVGVDMLIKK--------YGE-TY---KGKKHLCLITDALC 131 (662)
Q Consensus 78 ~~~~~l~~L~~l~~~~~~gd~~daL~va~d~l~~~--------~~~-kk---~~~krIvLiTD~~~ 131 (662)
..+-.+++|++|...-..+-...++.-|.|+|.-. ++. +. .---.|++||||.-
T Consensus 69 ~~a~~~~eik~l~a~~~s~~~~~~~t~AFdlLnlnR~qtGID~yGqGR~pf~lEP~~iI~iTDG~r 134 (888)
T KOG3768|consen 69 LGAVVIEEIKKLHAPYGSCQLHHAITEAFDLLNLNRVQTGIDGYGQGRLPFNLEPVTIILITDGGR 134 (888)
T ss_pred cccHHHHHHHhhcCccchhhhhHHHHHHhhhhhhhhhhhcccccccccCccccCceEEEEEecCCc
Confidence 23446888888765433333345555577776421 111 00 11235999999943
No 93
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=80.18 E-value=16 Score=39.27 Aligned_cols=99 Identities=12% Similarity=0.213 Sum_probs=58.2
Q ss_pred eEEEEEEeCCCCcCCchhHHHH----HHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHH
Q 006065 6 EALLLLLDVSPSMHSVLPDVEK----LCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH 81 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~~a~~----~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~ 81 (662)
-.+++++|||.||.+...+..+ .+..+++ ++-..|=+|+..-+...-.. +| +.|
T Consensus 203 AV~fc~MDvSGSM~~~~K~lak~ff~~ly~FL~-----~~Y~~VeivFI~H~t~AkEV-dE-eeF--------------- 260 (371)
T TIGR02877 203 AVVIAMMDTSGSMGQFKKYIARSFFFWMVKFLR-----TKYENVEICFISHHTEAKEV-TE-EEF--------------- 260 (371)
T ss_pred EEEEEEEeCCCCCCHHHHHHHHHHHHHHHHHHH-----hccCceEEEEEeecCeeEEc-CH-HHh---------------
Confidence 3455667999999876433322 2233344 45566666665543211111 01 011
Q ss_pred HHHHhhcCCCCCCCC-chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCC
Q 006065 82 LVQSLKHLPQGTCAG-DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLK 134 (662)
Q Consensus 82 ~l~~L~~l~~~~~~g-d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~ 134 (662)
+-.....| -+++|+-.|.+++.+++.. .-|+-=.+-+||||+-.+
T Consensus 261 -------F~~~EsGGT~vSSA~~l~~eII~~rYpp-~~wNIY~f~aSDGDNw~~ 306 (371)
T TIGR02877 261 -------FHKGESGGTYCSSGYKKALEIIDERYNP-ARYNIYAFHFSDGDNLTS 306 (371)
T ss_pred -------cccCCCCCeEehHHHHHHHHHHHhhCCh-hhCeeEEEEcccCCCccC
Confidence 11111123 4578999999999988775 478888888899999654
No 94
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=80.15 E-value=13 Score=40.73 Aligned_cols=102 Identities=16% Similarity=0.187 Sum_probs=57.6
Q ss_pred EEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHHHHHHh
Q 006065 7 ALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGHLVQSL 86 (662)
Q Consensus 7 a~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~~l~~L 86 (662)
.+++++|||.||.+...+..+....++-. .+.++.+.|=+|+..-+...-.. +| +.|
T Consensus 248 Vv~~lmDvSGSM~~~~K~lak~ff~~l~~-fL~~~Y~~Ve~vfI~H~t~A~EV-dE-e~F-------------------- 304 (421)
T PF04285_consen 248 VVFCLMDVSGSMGEFKKDLAKRFFFWLYL-FLRRKYENVEIVFIRHHTEAKEV-DE-EEF-------------------- 304 (421)
T ss_pred EEEEEEeCCCCCchHHHHHHHHHHHHHHH-HHHhccCceEEEEEeecCceEEe-cH-HHh--------------------
Confidence 45556799999998654443333222221 12344555666655443211111 00 011
Q ss_pred hcCCCCCCCC-chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCC
Q 006065 87 KHLPQGTCAG-DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLK 134 (662)
Q Consensus 87 ~~l~~~~~~g-d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~ 134 (662)
+..+...| -+++|+-.|.+++.++|.. .-|+-=.+-+|||++-.+
T Consensus 305 --F~~~esGGT~vSSA~~l~~~ii~erypp-~~wNiY~~~~SDGDN~~~ 350 (421)
T PF04285_consen 305 --FHSRESGGTRVSSAYELALEIIEERYPP-SDWNIYVFHASDGDNWSS 350 (421)
T ss_pred --cccCCCCCeEehHHHHHHHHHHHhhCCh-hhceeeeEEcccCccccC
Confidence 11111223 4678999999999987774 478888888899999644
No 95
>PF07002 Copine: Copine; InterPro: IPR010734 This represents a conserved region approximately 180 residues long within eukaryotic copines. Copines are Ca2+-dependent phospholipid-binding proteins that are thought to be involved in membrane-trafficking, and may also be involved in cell division and growth [].
Probab=80.13 E-value=46 Score=31.08 Aligned_cols=128 Identities=10% Similarity=0.106 Sum_probs=71.6
Q ss_pred CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEec-cCCCC---H-HHHHHhhcCCCC--
Q 006065 20 SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD-IKVVD---G-HLVQSLKHLPQG-- 92 (662)
Q Consensus 20 ~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~-l~~~~---~-~~l~~L~~l~~~-- 92 (662)
...+.|+.++-.+++. +...-.+-+..||+.-+... ...|++-+.. ...|. . ..++..++....
T Consensus 11 N~Y~~ai~~vg~il~~---Yd~dk~~p~~GFGa~~~~~~------~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v~ 81 (146)
T PF07002_consen 11 NPYQQAIRAVGEILQD---YDSDKMIPAYGFGAKIPPDY------SVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKVQ 81 (146)
T ss_pred CHHHHHHHHHHHHHHh---hccCCccceeccCCcCCCCc------ccccceeeecCCCCCcccCHHHHHHHHHHHhhheE
Confidence 3467788888877773 56788899999999644211 1234433321 11122 1 234443332111
Q ss_pred -CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEEeec
Q 006065 93 -TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNIVVR 165 (662)
Q Consensus 93 -~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi~i~ 165 (662)
.+...|...|-.|+++-.+. .+....---+++||||.-. + .++..+.+.+..+.-+.+.++|+|
T Consensus 82 l~GPT~fapiI~~a~~~a~~~-~~~~~~Y~iLlIlTDG~i~-D-------~~~T~~aIv~AS~~PlSIIiVGVG 146 (146)
T PF07002_consen 82 LSGPTNFAPIINHAAKIAKQS-NQNGQQYFILLILTDGQIT-D-------MEETIDAIVEASKLPLSIIIVGVG 146 (146)
T ss_pred ECCCccHHHHHHHHHHHHhhh-ccCCceEEEEEEecccccc-c-------HHHHHHHHHHHccCCeEEEEEEeC
Confidence 23457777777777775431 2221223346677999743 2 244444555566788888888874
No 96
>PRK05325 hypothetical protein; Provisional
Probab=77.45 E-value=22 Score=38.76 Aligned_cols=99 Identities=18% Similarity=0.200 Sum_probs=58.7
Q ss_pred eEEEEEEeCCCCcCCchhHHHH----HHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCHH
Q 006065 6 EALLLLLDVSPSMHSVLPDVEK----LCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDGH 81 (662)
Q Consensus 6 ea~vflIDvs~sM~~~l~~a~~----~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~~ 81 (662)
-.+++++|||.||.+...+..+ .+..+++ ++-+.|-+|+..-+...-.. +| +.|=+
T Consensus 223 AVmfclMDvSGSM~~~~K~lakrff~lly~fL~-----r~Y~~vEvvFI~H~t~AkEV-dE-eeFF~------------- 282 (401)
T PRK05325 223 AVMFCLMDVSGSMDEAEKDLAKRFFFLLYLFLR-----RKYENVEVVFIRHHTEAKEV-DE-EEFFY------------- 282 (401)
T ss_pred EEEEEEEeCCCCCchHHHHHHHHHHHHHHHHHH-----hccCceEEEEEeecCceeEc-CH-HHccc-------------
Confidence 3455567999999986433322 2234444 55566666666543211111 01 01110
Q ss_pred HHHHhhcCCCCCCCC-chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCC
Q 006065 82 LVQSLKHLPQGTCAG-DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLK 134 (662)
Q Consensus 82 ~l~~L~~l~~~~~~g-d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~ 134 (662)
.....| -+++|+-.|.+++.+++.. .-|+-=.+-+||||+-.+
T Consensus 283 ---------~~esGGT~vSSA~~l~~eIi~~rYpp-~~wNIY~f~aSDGDNw~~ 326 (401)
T PRK05325 283 ---------SRESGGTIVSSAYKLALEIIEERYPP-AEWNIYAFQASDGDNWSS 326 (401)
T ss_pred ---------cCCCCCeEehHHHHHHHHHHHhhCCH-hHCeeEEEEcccCCCcCC
Confidence 111123 4678999999999988775 478888888899999654
No 97
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=61.63 E-value=55 Score=35.11 Aligned_cols=46 Identities=37% Similarity=0.362 Sum_probs=33.3
Q ss_pred CeEEEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcC
Q 006065 5 REALLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETE 56 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~ 56 (662)
|-=+|+++|||.||...-.-.+.++.-+.+ . -+++-+-+|||.-|.
T Consensus 218 ~~~lvvL~DVSGSm~~ys~~~L~l~hAl~q----~--~~R~~~F~F~TRLt~ 263 (395)
T COG3552 218 KPPLVVLCDVSGSMSGYSRIFLHLLHALRQ----Q--RSRVHVFLFGTRLTR 263 (395)
T ss_pred CCCeEEEEecccchhhhHHHHHHHHHHHHh----c--ccceeEEEeechHHH
Confidence 445899999999998755555777776666 2 344449999998543
No 98
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=61.12 E-value=27 Score=38.62 Aligned_cols=149 Identities=17% Similarity=0.178 Sum_probs=69.9
Q ss_pred EEEEEeCCCCcCCchhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCc-----------CccccccC------CCcccEE
Q 006065 8 LLLLLDVSPSMHSVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEET-----------ENELTKEV------GGYEHVK 70 (662)
Q Consensus 8 ~vflIDvs~sM~~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t-----------~n~l~~~~------~~y~nI~ 70 (662)
+-|++|+|.||...++..+.....|+++----.++=++|+=.|--+.. .|+..... =+|+|+
T Consensus 105 LYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~~~f~~~- 183 (426)
T PF00362_consen 105 LYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPPFSFRHV- 183 (426)
T ss_dssp EEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B---SEEEE-
T ss_pred EEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhcccccCCcccCChhhhcCcccccCCCCCCCeeeEEe-
Confidence 579999999999877666444333333211134666666665554421 11110000 167776
Q ss_pred EEeccCCCCHHHHHHhhcCC-CCC--CCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC----------
Q 006065 71 VLQDIKVVDGHLVQSLKHLP-QGT--CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD---------- 137 (662)
Q Consensus 71 v~~~l~~~~~~~l~~L~~l~-~~~--~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~---------- 137 (662)
.+|..-.....+.+++.. ++. ..-.-+|||..|+=- .++.+=+....|-|++.||+.--+.++.
T Consensus 184 --l~Lt~~~~~F~~~v~~~~is~n~D~PEgg~dal~Qa~vC-~~~igWr~~a~~llv~~TD~~fH~agDg~l~gi~~pnd 260 (426)
T PF00362_consen 184 --LSLTDDITEFNEEVNKQKISGNLDAPEGGLDALMQAAVC-QEEIGWRNEARRLLVFSTDAGFHFAGDGKLAGIVKPND 260 (426)
T ss_dssp --EEEES-HHHHHHHHHTS--B--SSSSBSHHHHHHHHHH--HHHHT--STSEEEEEEEESS-B--TTGGGGGT--S---
T ss_pred --ecccchHHHHHHhhhhccccCCCCCCccccchheeeeec-ccccCcccCceEEEEEEcCCccccccccccceeeecCC
Confidence 455543344566666643 221 111247888765422 1112322234455666688754332210
Q ss_pred -------C-------CCchhhHHHHHHHHhhCCcEEE
Q 006065 138 -------V-------GTKEDQVSTIARQMVAFGLRMK 160 (662)
Q Consensus 138 -------~-------~~~~~~~~~ia~~l~~~gI~l~ 160 (662)
+ ..+.-.+.++.+.|.+.+|...
T Consensus 261 ~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~I 297 (426)
T PF00362_consen 261 GKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINPI 297 (426)
T ss_dssp SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEEE
T ss_pred CceEECCCCcccccccccCCCHHHHHHHHHHcCCEEE
Confidence 0 0112245677888888888553
No 99
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=59.40 E-value=16 Score=40.38 Aligned_cols=47 Identities=26% Similarity=0.422 Sum_probs=37.1
Q ss_pred CeEEEEEEeCCCCcC------CchhHHHHHHHHHHHHHHhccCccEEEEEEEcCC
Q 006065 5 REALLLLLDVSPSMH------SVLPDVEKLCSRLIQKKLIYGKNHEVGVILFGTE 53 (662)
Q Consensus 5 Kea~vflIDvs~sM~------~~l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~ 53 (662)
..-+++++|.|.+|. ..+++|...+..+.. +....+|.||+.+||..
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 457899999999998 357777777766655 33578999999999965
No 100
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length. The function of this family is unknown.
Probab=58.26 E-value=2e+02 Score=28.51 Aligned_cols=140 Identities=16% Similarity=0.188 Sum_probs=75.6
Q ss_pred eEEEEEEeCCCCcCCc---hh---HHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEec---cC
Q 006065 6 EALLLLLDVSPSMHSV---LP---DVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQD---IK 76 (662)
Q Consensus 6 ea~vflIDvs~sM~~~---l~---~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~---l~ 76 (662)
-++|+++|+|.||-.. |+ +|.-.-.--+.+-|...+.-.|+|-+|-=.... .+. +..| |.
T Consensus 4 laLvLavDvS~SVD~~E~~lQ~~G~A~Al~dp~V~~Ai~~g~~g~Iav~~~eWsg~~---------~q~--~~v~Wt~i~ 72 (205)
T PF06707_consen 4 LALVLAVDVSGSVDADEYRLQREGYAAALRDPEVIAAILSGPIGRIAVAVVEWSGPG---------RQR--VVVPWTRID 72 (205)
T ss_pred ceeeeeeeccCCCCHHHHHHHHHHHHHHHCCHHHHHHHhcCCCCeEEEEEEEecCCC---------Cce--EEeCCEEeC
Confidence 4789999999999753 11 121122233334444677777777766533211 122 2223 22
Q ss_pred CC-CHH-HHHHhhcCCCCC-CCCchhhHHHHHHHHHHHHhccCCcccce-EEEEeCCCCCCCCCCCCCchhhHHHHHHHH
Q 006065 77 VV-DGH-LVQSLKHLPQGT-CAGDFLDAIVVGVDMLIKKYGETYKGKKH-LCLITDALCPLKDPDVGTKEDQVSTIARQM 152 (662)
Q Consensus 77 ~~-~~~-~l~~L~~l~~~~-~~gd~~daL~va~d~l~~~~~~kk~~~kr-IvLiTD~~~p~~~~~~~~~~~~~~~ia~~l 152 (662)
.+ ++. ....|...+... ....+..||..|..+|.+ .. -...|| |=+-.||-++.+. .-.......+
T Consensus 73 ~~~da~a~A~~l~~~~r~~~~~Taig~Al~~a~~ll~~--~~-~~~~RrVIDvSGDG~~N~G~-------~p~~~ard~~ 142 (205)
T PF06707_consen 73 SPADAEAFAARLRAAPRRFGGRTAIGSALDFAAALLAQ--NP-FECWRRVIDVSGDGPNNQGP-------RPVTSARDAA 142 (205)
T ss_pred CHHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHh--CC-CCCceEEEEECCCCCCCCCC-------CccHHHHHHH
Confidence 21 111 334455554332 224678999999999875 22 223445 4455666665441 1122444556
Q ss_pred hhCCcEEEEEeecc
Q 006065 153 VAFGLRMKNIVVRA 166 (662)
Q Consensus 153 ~~~gI~l~vi~i~~ 166 (662)
...||.+.-+.|..
T Consensus 143 ~~~GitINgL~I~~ 156 (205)
T PF06707_consen 143 VAAGITINGLAILD 156 (205)
T ss_pred HHCCeEEeeeEecC
Confidence 77899999888753
No 101
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=56.56 E-value=1.6e+02 Score=34.75 Aligned_cols=150 Identities=13% Similarity=0.171 Sum_probs=76.6
Q ss_pred EEEEEEeCCCC-cCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCc-ccEEEEeccCCC-----
Q 006065 7 ALLLLLDVSPS-MHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGY-EHVKVLQDIKVV----- 78 (662)
Q Consensus 7 a~vflIDvs~s-M~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y-~nI~v~~~l~~~----- 78 (662)
..||+||||-. |... +..+.+.+..-+.+.-=..++-+|++|+|...-.--.+ .++. +|+.+..++..|
T Consensus 278 ~yvFlIDVS~~a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~---s~d~~~~~~~vsdld~pFlPf~ 354 (861)
T COG5028 278 VYVFLIDVSFEAIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKL---SPDLDEQMLIVSDLDEPFLPFP 354 (861)
T ss_pred EEEEEEEeehHhhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEec---CCCCccceeeecccccccccCC
Confidence 67999999963 3332 23334444433332212348899999999764211111 0111 134444433322
Q ss_pred ------CHH--------HHHHhhcCCCCC--CCCchhhHHHHHHHHHHHHhccCCcccceEEEE-eC---CCCCCC--CC
Q 006065 79 ------DGH--------LVQSLKHLPQGT--CAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLI-TD---ALCPLK--DP 136 (662)
Q Consensus 79 ------~~~--------~l~~L~~l~~~~--~~gd~~daL~va~d~l~~~~~~kk~~~krIvLi-TD---~~~p~~--~~ 136 (662)
..+ +++.+..+..++ ....+.+||-+|..++.. .+.|.|+++ |= |-+... .+
T Consensus 355 s~~fv~pl~~~k~~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~------~GGkii~~~stlPn~G~Gkl~~r~d 428 (861)
T COG5028 355 SGLFVLPLKSCKQIIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGG------TGGKIIVFLSTLPNMGIGKLQLRED 428 (861)
T ss_pred cchhcccHHHHHHHHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhc------cCceEEEEeecCCCccccccccccc
Confidence 111 233333332222 233578999999887532 235677777 40 111111 00
Q ss_pred CC----CCchhhHHHHHHHHhhCCcEEEEEeec
Q 006065 137 DV----GTKEDQVSTIARQMVAFGLRMKNIVVR 165 (662)
Q Consensus 137 ~~----~~~~~~~~~ia~~l~~~gI~l~vi~i~ 165 (662)
.+ .....-...++.++.+.||.+++|...
T Consensus 429 ~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~ 461 (861)
T COG5028 429 KESSLLSCKDSFYKEFAIECSKVGISVDLFLTS 461 (861)
T ss_pred chhhhccccchHHHHHHHHHHHhcceEEEEecc
Confidence 00 011123467899999999999999874
No 102
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=51.29 E-value=3e+02 Score=32.80 Aligned_cols=151 Identities=15% Similarity=0.153 Sum_probs=74.4
Q ss_pred EEEEEEeCCCCcCCc--hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCC------
Q 006065 7 ALLLLLDVSPSMHSV--LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVV------ 78 (662)
Q Consensus 7 a~vflIDvs~sM~~~--l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~------ 78 (662)
-.+|+||||-+--+. ++.+...+..-+.. +=..+..+||+|.|...=--=.+. ++-.+.+-.++.++..+
T Consensus 296 vy~FliDVS~~a~ksG~L~~~~~slL~~LD~-lpgd~Rt~igfi~fDs~ihfy~~~-~~~~qp~mm~vsdl~d~flp~pd 373 (887)
T KOG1985|consen 296 VYVFLIDVSISAIKSGYLETVARSLLENLDA-LPGDPRTRIGFITFDSTIHFYSVQ-GDLNQPQMMIVSDLDDPFLPMPD 373 (887)
T ss_pred eEEEEEEeehHhhhhhHHHHHHHHHHHhhhc-CCCCCcceEEEEEeeceeeEEecC-CCcCCCceeeeccccccccCCch
Confidence 578999999753222 33333333333332 114578899999887541100000 00012222222222211
Q ss_pred ----CH--------HHHHHhhcCCC--CCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCC-----CCC-
Q 006065 79 ----DG--------HLVQSLKHLPQ--GTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKD-----PDV- 138 (662)
Q Consensus 79 ----~~--------~~l~~L~~l~~--~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~-----~~~- 138 (662)
+. .+++.|..+-. ......+..||-+|.+++.. ++. ||++|-..--..+. .++
T Consensus 374 ~lLv~L~~ck~~i~~lL~~lp~~F~~~~~t~~alGpALkaaf~li~~-~GG------ri~vf~s~lPnlG~G~L~~rEdp 446 (887)
T KOG1985|consen 374 SLLVPLKECKDLIETLLKTLPEMFQDTRSTGSALGPALKAAFNLIGS-TGG------RISVFQSTLPNLGAGKLKPREDP 446 (887)
T ss_pred hheeeHHHHHHHHHHHHHHHHHHHhhccCcccccCHHHHHHHHHHhh-cCC------eEEEEeccCCCCCcccccccccc
Confidence 11 23344444311 12334678999999999765 232 56666543322221 000
Q ss_pred ---CCch---------hhHHHHHHHHhhCCcEEEEEeecc
Q 006065 139 ---GTKE---------DQVSTIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 139 ---~~~~---------~~~~~ia~~l~~~gI~l~vi~i~~ 166 (662)
++++ +-....+-+....+|.+++|.+..
T Consensus 447 ~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~ 486 (887)
T KOG1985|consen 447 NVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSE 486 (887)
T ss_pred ccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecc
Confidence 0111 123456777888999999998853
No 103
>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins.
Probab=46.61 E-value=3e+02 Score=31.51 Aligned_cols=134 Identities=17% Similarity=0.148 Sum_probs=67.5
Q ss_pred eEEEEEEeCCCCcCCc-hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCC-HHHH
Q 006065 6 EALLLLLDVSPSMHSV-LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVD-GHLV 83 (662)
Q Consensus 6 ea~vflIDvs~sM~~~-l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~-~~~l 83 (662)
+-++-+.|||.||... ++-|.- +..++... +.+--.=.+|.|..+. .+ ..|...+ .+.+
T Consensus 341 ~n~iav~DvSGSM~~~pm~vaia-Lgll~ae~--~~~pf~~~~ITFs~~P----------~~------~~i~g~~l~ekv 401 (534)
T PF11443_consen 341 ENCIAVCDVSGSMSGPPMDVAIA-LGLLIAEL--NKGPFKGRFITFSENP----------QL------HKIKGDTLREKV 401 (534)
T ss_pred cceEEEEecCCccCccHHHHHHH-HHHHHHHh--cccccCCeEEeecCCc----------eE------EEecCCCHHHHH
Confidence 5677889999999876 222222 22333322 4555556788887653 22 2222222 2344
Q ss_pred HHhhcCCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCC-CchhhHHHHHHHHhhCCcEE
Q 006065 84 QSLKHLPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVG-TKEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 84 ~~L~~l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~-~~~~~~~~ia~~l~~~gI~l 159 (662)
+.+.+.+-+ ...|+-.++-.=+++-.+.--++----|+||+|||=+-........ .-....+.|.+..++.|.++
T Consensus 402 ~~~~~~~wg-~nTn~~aVFdlIL~~Av~~~l~~e~M~k~lfV~SDMeFD~a~~~~~~~w~T~~e~i~~~f~~aGY~~ 477 (534)
T PF11443_consen 402 RFIRRMDWG-MNTNFQAVFDLILETAVKNKLKQEDMPKRLFVFSDMEFDQASNSSDRPWETNFEAIKRKFEEAGYEL 477 (534)
T ss_pred HHHHhCCcc-cCCcHHHHHHHHHHHHHHcCCChHHCCceEEEEeccccccccccccCccccHHHHHHHHHHHhCCCC
Confidence 445544433 2335444432222222110000011258999999743222110000 01245788999999999875
No 104
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=44.66 E-value=3.3e+02 Score=29.27 Aligned_cols=138 Identities=16% Similarity=0.219 Sum_probs=80.2
Q ss_pred CeEEEEEEeCCCCcCCch-hHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCcccEEEEeccCCCCH-HH
Q 006065 5 REALLLLLDVSPSMHSVL-PDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEHVKVLQDIKVVDG-HL 82 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~l-~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~nI~v~~~l~~~~~-~~ 82 (662)
.....+++|.+.||.... ..+..+...++. .....|.+++++|.. .. +.. ..+....+. ..
T Consensus 37 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~v~---~~~~~~~~~~~~~~~-~~-~~~------------~~~~~~~~~~~~ 99 (399)
T COG2304 37 PANLTLAIDTSGSMTGALLELAKSAAIELVN---GLNPGDLLSIVTFAG-SA-DVL------------IPPTGATNKESI 99 (399)
T ss_pred CcceEEEeccCCCccchhHHHHHHHHHHHhc---ccCCCCceEEEEecC-Cc-cee------------cCcccccCHHHH
Confidence 456789999999997643 334444444444 367999999999998 32 111 111111222 24
Q ss_pred HHHhhc-CCCCCCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEE
Q 006065 83 VQSLKH-LPQGTCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKN 161 (662)
Q Consensus 83 l~~L~~-l~~~~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~v 161 (662)
...+.. ++... .....-++..+.+.+... . ......++.+.||+++.+.. .+...+....+.....+|.+..
T Consensus 100 ~~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~tdg~~~~~~----~d~~~~~~~~~~~~~~~i~~~~ 172 (399)
T COG2304 100 TAAIDQSLQAGG-ATAVEASLSLAVELAAKA-L-PRGTLNRILLLTDGENNLGL----VDPSRLSALAKLAAGKGIVLDT 172 (399)
T ss_pred HHHHhhhhcccc-ccHHHHHHHHHHHHhhhc-C-CccceeeEeeeccCccccCC----CCHHHHHHHhcccccCceEEEE
Confidence 444555 33321 122334455555554432 1 22457889999998776542 2334555666666667999999
Q ss_pred Eeecc
Q 006065 162 IVVRA 166 (662)
Q Consensus 162 i~i~~ 166 (662)
+|++.
T Consensus 173 ~g~~~ 177 (399)
T COG2304 173 LGLGD 177 (399)
T ss_pred Eeccc
Confidence 99854
No 105
>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=40.59 E-value=47 Score=29.11 Aligned_cols=68 Identities=12% Similarity=0.100 Sum_probs=43.3
Q ss_pred HHHHHHhC---CCCchHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHH-HHHhhhhhchhHHHHHHHHHH
Q 006065 571 DFEAMMSR---RDCPDWVDKAIEDMKNKIFGLLENSNEGINYPKAVELLVAL-RKGCILEQVYLSVSFFLLWFA 640 (662)
Q Consensus 571 dF~~~l~~---~~~~~~~~~a~~qm~~~I~~lv~~s~~~~~y~ka~~~l~~~-R~~~i~~~e~~~~N~fl~~lk 640 (662)
.|...+.. +.....=..|+.-|+.+|+ +...+. ...-.|.+.||++- +..-....-...|+.|++.|.
T Consensus 15 ~f~~~l~d~~~~~~~~ek~~~l~si~~lI~-~~~~~i-~~~~pQI~a~L~sal~~~~l~~~al~~W~~fi~~L~ 86 (107)
T PF08064_consen 15 RFSDVLNDLRGKKPIPEKKRALRSIEELIK-LGGSHI-SSARPQIMACLQSALEIPELREEALSCWNCFIKTLD 86 (107)
T ss_pred HHHHHHhccccCCCHHHHHHHHHHHHHHHH-HhHHHH-HHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHCC
Confidence 35555544 2222234568888888888 776655 34568999999832 333333344689999999886
No 106
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=38.49 E-value=1.8e+02 Score=33.21 Aligned_cols=58 Identities=14% Similarity=0.147 Sum_probs=36.1
Q ss_pred ccCCCCHHHHHHhhcCCCCC-----CCC---chhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCC
Q 006065 74 DIKVVDGHLVQSLKHLPQGT-----CAG---DFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLK 134 (662)
Q Consensus 74 ~l~~~~~~~l~~L~~l~~~~-----~~g---d~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~ 134 (662)
|+++.-..+++.|++|++.. +.- --..||-+|..++..- . + ...-||+||++|-+.++
T Consensus 227 p~q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~-~-p-~~~~~i~lF~~GPcTvG 292 (755)
T COG5047 227 PTQQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQC-F-P-NAGCHIVLFAGGPCTVG 292 (755)
T ss_pred cHHHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhh-c-c-CcceeEEEEcCCCcccc
Confidence 33444445556666665431 000 1257999999998762 2 2 45789999999977655
No 107
>KOG1327 consensus Copine [Signal transduction mechanisms]
Probab=37.93 E-value=3.8e+02 Score=30.44 Aligned_cols=144 Identities=13% Similarity=0.067 Sum_probs=77.8
Q ss_pred CeEEEEEEeCCCCcCCc----------------hhHHHHHHHHHHHHHHhccCccEEEEEEEcCCCcCccccccCCCccc
Q 006065 5 REALLLLLDVSPSMHSV----------------LPDVEKLCSRLIQKKLIYGKNHEVGVILFGTEETENELTKEVGGYEH 68 (662)
Q Consensus 5 Kea~vflIDvs~sM~~~----------------l~~a~~~~~~l~~~ki~~~~~D~VGvVlfgt~~t~n~l~~~~~~y~n 68 (662)
+--.++.||.+.|=+.+ .+.|+.++-.+++ .+.+..++...+||..-.... .-.|
T Consensus 285 ~lnf~vgIDfTaSNg~p~~~sSLHyi~p~~~N~Y~~Ai~~vG~~lq---~ydsdk~fpa~GFGakip~~~------~vs~ 355 (529)
T KOG1327|consen 285 QLNFTVGIDFTASNGDPRNPSSLHYIDPHQPNPYEQAIRSVGETLQ---DYDSDKLFPAFGFGAKIPPDG------QVSH 355 (529)
T ss_pred eeeeEEEEEEeccCCCCCCCCcceecCCCCCCHHHHHHHHHhhhhc---ccCCCCccccccccccCCCCc------cccc
Confidence 34578899998874332 3567777776666 367999999999998832210 0112
Q ss_pred EEEE--eccCCCC---HHHHHHhhcCCCC---CCCCchhhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCC
Q 006065 69 VKVL--QDIKVVD---GHLVQSLKHLPQG---TCAGDFLDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGT 140 (662)
Q Consensus 69 I~v~--~~l~~~~---~~~l~~L~~l~~~---~~~gd~~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~ 140 (662)
.+++ .|-.+.. -..++..+...+. .+..+|.--|-.++.+-.+... ....---+++||||.-.
T Consensus 356 ~f~ln~~~~~~~c~Gi~gVl~aY~~~lp~v~l~GPTnFaPII~~va~~a~~~~~-~~~qY~VLlIitDG~vT-------- 426 (529)
T KOG1327|consen 356 EFVLNFNPEDPECRGIEGVLEAYRKALPNVQLYGPTNFSPIINHVARIAQQSGN-TAGQYHVLLIITDGVVT-------- 426 (529)
T ss_pred ceeecCCCCCCccccHHHHHHHHHhhcccccccCCCccHHHHHHHHHHHHHhcc-CCcceEEEEEEeCCccc--------
Confidence 1111 1111111 1234444443221 2344666666666665444211 11112346777998542
Q ss_pred chhhHHHHHHHHhhCCcEEEEEeecc
Q 006065 141 KEDQVSTIARQMVAFGLRMKNIVVRA 166 (662)
Q Consensus 141 ~~~~~~~ia~~l~~~gI~l~vi~i~~ 166 (662)
+.....+.+....++=+.|.++|+|+
T Consensus 427 dm~~T~~AIV~AS~lPlSIIiVGVGd 452 (529)
T KOG1327|consen 427 DMKETRDAIVSASDLPLSIIIVGVGD 452 (529)
T ss_pred cHHHHHHHHHhhccCCeEEEEEEeCC
Confidence 23444555556677778888888874
No 108
>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=37.75 E-value=56 Score=26.62 Aligned_cols=35 Identities=14% Similarity=0.170 Sum_probs=28.5
Q ss_pred cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 120 KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 120 ~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
.++|++++|+|.+- ......+++.|...|+.+.++
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 58999999998752 356778889999999988765
No 109
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=35.31 E-value=1.9e+02 Score=31.93 Aligned_cols=63 Identities=13% Similarity=0.234 Sum_probs=36.0
Q ss_pred hhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCC----CC-CchhhHHHHHHHHhh-CCcEEEEEeecc
Q 006065 99 LDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPD----VG-TKEDQVSTIARQMVA-FGLRMKNIVVRA 166 (662)
Q Consensus 99 ~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~----~~-~~~~~~~~ia~~l~~-~gI~l~vi~i~~ 166 (662)
.+||.-|.+.|..+ --.|+|.++--...|++.+- .+ .-...++.+++.+.. ..|+|--|||+.
T Consensus 520 GEal~wah~rl~gR-----pEqrkIlmmiSDGAPvddstlsvnpGnylerHLRaVieeIEtrSpveLlAIGigh 588 (620)
T COG4547 520 GEALMWAHQRLIGR-----PEQRKILMMISDGAPVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGH 588 (620)
T ss_pred hHHHHHHHHHHhcC-----hhhceEEEEecCCCcccccccccCCchHHHHHHHHHHHHHhcCCchhheeeeccc
Confidence 35666666665432 22455555444445665311 01 123467788887775 568898899853
No 110
>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=34.76 E-value=87 Score=27.57 Aligned_cols=53 Identities=11% Similarity=0.086 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHhhccCCCCCchHHHHHHHHH-HHHHhhhhhchhHHHHHHHHHH
Q 006065 586 DKAIEDMKNKIFGLLENSNEGINYPKAVELLVA-LRKGCILEQVYLSVSFFLLWFA 640 (662)
Q Consensus 586 ~~a~~qm~~~I~~lv~~s~~~~~y~ka~~~l~~-~R~~~i~~~e~~~~N~fl~~lk 640 (662)
..|+.-|+.+|+ +...+. ...-+|.+.||+. |+..-....--..|+.|++.|.
T Consensus 33 ~~~i~ai~~lI~-~~g~~i-~~a~pQI~acL~saL~~~eL~~~al~~W~~~i~~L~ 86 (107)
T smart00802 33 KRALRSIGFLIK-LMGKHI-SSALPQIMACLQSALEIPELRSLALRCWHVLIKTLK 86 (107)
T ss_pred HHHHHHHHHHHH-HHHHHH-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHhCC
Confidence 346667777777 555443 3445899999985 2222333333578999999886
No 111
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=32.48 E-value=29 Score=28.47 Aligned_cols=35 Identities=20% Similarity=0.384 Sum_probs=20.2
Q ss_pred cceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEEEEE
Q 006065 120 KKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRMKNI 162 (662)
Q Consensus 120 ~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l~vi 162 (662)
.++|++.+|+|.+ .......+++.|...|+++..+
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 2356677888898999988754
No 112
>COG4902 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.93 E-value=2e+02 Score=26.66 Aligned_cols=43 Identities=16% Similarity=0.351 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHcCCCCCCCCccCCCCCCCCchhHHHHHHHHHh
Q 006065 427 EQQQEAADNLVKMLDLAPSGKGEILQPELTPNPALERFYHHLELK 471 (662)
Q Consensus 427 ~eq~~a~~~lI~~m~l~~~~~~e~~~p~~~~NP~lqr~~~~l~~~ 471 (662)
.+.++|+..|+.+-.+.+.. ..-...-|.||.+|.+|.-+...
T Consensus 88 Q~HmDAVk~LlekYnv~dP~--~~~siGvF~NpelqeLYn~Lve~ 130 (189)
T COG4902 88 QEHMDAVKSLLEKYNVQDPA--STTSIGVFTNPELQELYNQLVEQ 130 (189)
T ss_pred HHHHHHHHHHHHHcCCCCCC--ccCcceeecCHHHHHHHHHHHHc
Confidence 45689999999999986421 11233567899999999766544
No 113
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=24.63 E-value=1e+02 Score=26.62 Aligned_cols=43 Identities=16% Similarity=0.298 Sum_probs=27.4
Q ss_pred hhHHHHHHHHHHHHhccCCcccceEEEEeCCCCCCCCCCCCCchhhHHHHHHHHhhCCcEE
Q 006065 99 LDAIVVGVDMLIKKYGETYKGKKHLCLITDALCPLKDPDVGTKEDQVSTIARQMVAFGLRM 159 (662)
Q Consensus 99 ~daL~va~d~l~~~~~~kk~~~krIvLiTD~~~p~~~~~~~~~~~~~~~ia~~l~~~gI~l 159 (662)
+.+-.-+++.|++ . .++++++||+.+. .....++.|+..||.+
T Consensus 16 ipga~e~l~~L~~----~---g~~~~~lTNns~~-----------s~~~~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 16 IPGAVEALDALRE----R---GKPVVFLTNNSSR-----------SREEYAKKLKKLGIPV 58 (101)
T ss_dssp -TTHHHHHHHHHH----T---TSEEEEEES-SSS------------HHHHHHHHHHTTTT-
T ss_pred CcCHHHHHHHHHH----c---CCCEEEEeCCCCC-----------CHHHHHHHHHhcCcCC
Confidence 3444455555543 1 4899999998664 2467788899999875
No 114
>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=22.59 E-value=1.3e+02 Score=26.30 Aligned_cols=41 Identities=17% Similarity=0.112 Sum_probs=26.6
Q ss_pred ChhhHHHHHHHHHHHHhcCceeEEEEEecCCCCceEEEEeec
Q 006065 344 NSRATVAVSALARAMKEMNKVAIVRCVWRQGQQSVVVGVLTP 385 (662)
Q Consensus 344 ~~~s~~afsaL~~Am~e~~~vaI~r~v~r~~~~p~~v~~L~P 385 (662)
.......|..|++-|.+++++||+..-...... .....|+|
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 445677899999999999999999766543322 33335665
No 115
>PF01882 DUF58: Protein of unknown function DUF58; InterPro: IPR002881 This domain is found in a family of prokaryotic proteins that have no known function. Proteins belonging to this family include hypothetical proteins from eubacteria and archaebacteria. Some of these proteins also contain the Von Willebrand factor, type A domain (see IPR002035 from INTERPRO).
Probab=22.42 E-value=1.1e+02 Score=25.23 Aligned_cols=40 Identities=23% Similarity=0.353 Sum_probs=26.1
Q ss_pred CeEEEEEEeCCCCcCC------chhHHHHHHHHHHHHHHhccCccEEE
Q 006065 5 REALLLLLDVSPSMHS------VLPDVEKLCSRLIQKKLIYGKNHEVG 46 (662)
Q Consensus 5 Kea~vflIDvs~sM~~------~l~~a~~~~~~l~~~ki~~~~~D~VG 46 (662)
...+++++|.+++|.. .++.++.++..++..- .+.++.||
T Consensus 40 ~~~~~i~ld~~~~~~~~~~~~~~~e~~l~~a~~l~~~~--~~~g~~v~ 85 (86)
T PF01882_consen 40 SQPVWIVLDLSPSMYFGSNGRSKFERALSAAASLANQA--LRQGDPVG 85 (86)
T ss_pred CCcEEEEEECCCccccCcCCCCHHHHHHHHHHHHHHHH--HhcCCccc
Confidence 4568899999999964 3566666666655532 34555554
No 116
>PF00102 Y_phosphatase: Protein-tyrosine phosphatase; InterPro: IPR000242 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry repesents several receptor and non-receptor protein-tyrosine phosphatases. Structurally, all known receptor PTPases, are made up of a variable length extracellular domain, followed by a transmembrane region and a C-terminal catalytic cytoplasmic domain. Some of the receptor PTPases contain fibronectin type III (FN-III) repeats, immunoglobulin-like domains, MAM domains or carbonic anhydrase-like domains in their extracellular region. The cytoplasmic region generally contains two copies of the PTPase domain. The first seems to have enzymatic activity, while the second is inactive. The inactive domains of tandem phosphatases can be divided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre []. PTPase domains consist of about 300 amino acids. There are two conserved cysteines, the second one has been shown to be absolutely required for activity. Furthermore, a number of conserved residues in its immediate vicinity have also been shown to be important.; GO: 0004725 protein tyrosine phosphatase activity, 0006470 protein dephosphorylation; PDB: 3O4T_A 3O4S_A 3O4U_A 2A3K_A 2QDP_A 2QDC_A 2QDM_A 2HVL_A 1ZC0_A 3D44_A ....
Probab=20.29 E-value=52 Score=32.47 Aligned_cols=20 Identities=20% Similarity=0.320 Sum_probs=17.9
Q ss_pred HHHhhccccCCceeEEEEee
Q 006065 641 FAFWDNSCLNDMSSIVTFSY 660 (662)
Q Consensus 641 ~~fW~~~~~~~~~~~~~~~~ 660 (662)
.+||+++..++.++||.++.
T Consensus 56 ~~FW~mv~~~~~~~Iv~L~~ 75 (235)
T PF00102_consen 56 EDFWQMVWEQKVQIIVMLCS 75 (235)
T ss_dssp HHHHHHHHHTTBSEEEEESB
T ss_pred cceehheeeccccceecccc
Confidence 68999999999999998864
Done!