Query 006975
Match_columns 623
No_of_seqs 209 out of 883
Neff 7.7
Searched_HMMs 46136
Date Thu Mar 28 17:09:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006975.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006975hhsearch_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 6E-122 1E-126 1028.2 58.2 572 23-622 4-584 (584)
2 KOG2327 DNA-binding subunit of 100.0 3.2E-82 7E-87 671.7 41.5 574 19-623 10-602 (602)
3 cd00788 KU70 Ku-core domain, K 100.0 1E-58 2.3E-63 479.2 29.0 277 264-541 1-286 (287)
4 cd00594 KU Ku-core domain; inc 100.0 3.2E-52 6.9E-57 429.3 27.3 269 264-541 1-271 (272)
5 cd00873 KU80 Ku-core domain, K 100.0 5.1E-48 1.1E-52 402.0 24.7 241 264-512 1-261 (300)
6 TIGR02772 Ku_bact Ku protein, 100.0 5.8E-45 1.3E-49 367.3 26.2 253 263-543 1-255 (258)
7 cd00789 KU_like Ku-core domain 100.0 6.6E-45 1.4E-49 366.5 26.4 250 264-542 1-252 (256)
8 KOG2326 DNA-binding subunit of 100.0 1.5E-41 3.3E-46 358.5 27.8 438 26-512 2-480 (669)
9 PF02735 Ku: Ku70/Ku80 beta-ba 100.0 4.8E-42 1E-46 337.4 18.4 197 271-473 1-200 (200)
10 PF03731 Ku_N: Ku70/Ku80 N-ter 100.0 3.3E-37 7.1E-42 308.7 11.1 215 30-265 1-223 (224)
11 COG1273 Ku-homolog [Replicatio 100.0 2.1E-33 4.6E-38 272.6 21.2 253 263-543 3-257 (278)
12 cd01458 vWA_ku Ku70/Ku80 N-ter 100.0 3.6E-32 7.8E-37 271.1 23.1 214 28-258 1-217 (218)
13 smart00559 Ku78 Ku70 and Ku80 100.0 2.9E-33 6.3E-38 258.6 13.8 132 319-456 3-136 (140)
14 PF03730 Ku_C: Ku70/Ku80 C-ter 99.4 1.3E-13 2.7E-18 119.2 2.8 63 484-547 4-68 (96)
15 PF02037 SAP: SAP domain; Int 98.9 2.3E-09 4.9E-14 74.3 4.3 35 587-621 1-35 (35)
16 cd01452 VWA_26S_proteasome_sub 98.8 1.4E-07 3E-12 91.2 16.9 144 28-217 3-147 (187)
17 smart00513 SAP Putative DNA-bi 98.6 4E-08 8.6E-13 68.2 4.6 35 587-621 1-35 (35)
18 cd01453 vWA_transcription_fact 98.6 1.8E-06 3.9E-11 83.8 15.0 140 30-216 5-146 (183)
19 cd01471 vWA_micronemal_protein 98.5 6.4E-06 1.4E-10 79.8 18.2 179 31-257 3-183 (186)
20 cd01480 vWA_collagen_alpha_1-V 98.3 1.5E-05 3.2E-10 77.4 15.8 140 31-216 5-150 (186)
21 cd01473 vWA_CTRP CTRP for CS 98.3 2.7E-05 5.8E-10 76.1 16.4 145 31-217 3-150 (192)
22 cd01465 vWA_subgroup VWA subgr 98.2 6.4E-05 1.4E-09 71.3 17.0 149 31-232 3-151 (170)
23 PRK13685 hypothetical protein; 98.2 3.9E-05 8.5E-10 81.3 16.6 145 29-217 89-239 (326)
24 cd00198 vWFA Von Willebrand fa 98.2 5.9E-05 1.3E-09 69.5 15.9 139 30-216 2-141 (161)
25 cd01454 vWA_norD_type norD typ 98.2 0.00014 3E-09 69.7 18.7 152 30-218 2-154 (174)
26 cd01472 vWA_collagen von Wille 98.2 4.5E-05 9.8E-10 72.3 14.4 135 31-216 3-140 (164)
27 cd01477 vWA_F09G8-8_type VWA F 98.2 8.7E-05 1.9E-09 72.6 16.4 140 30-216 21-171 (193)
28 cd01451 vWA_Magnesium_chelatas 98.1 7.9E-05 1.7E-09 71.8 15.8 152 31-232 3-155 (178)
29 cd01482 vWA_collagen_alphaI-XI 98.1 4.9E-05 1.1E-09 72.1 14.1 135 31-216 3-140 (164)
30 PF13519 VWA_2: von Willebrand 98.1 6.8E-05 1.5E-09 70.6 14.6 148 31-232 2-149 (172)
31 cd01474 vWA_ATR ATR (Anthrax T 98.1 0.0001 2.2E-09 71.5 15.5 135 30-214 6-142 (185)
32 cd01467 vWA_BatA_type VWA BatA 98.1 0.00018 3.8E-09 69.1 16.8 140 30-217 4-143 (180)
33 cd01456 vWA_ywmD_type VWA ywmD 98.1 0.00015 3.2E-09 71.6 16.4 159 27-216 19-178 (206)
34 cd01469 vWA_integrins_alpha_su 98.1 0.00011 2.4E-09 70.8 14.8 137 31-216 3-142 (177)
35 cd01470 vWA_complement_factors 98.0 0.00011 2.4E-09 72.0 14.7 146 31-216 3-164 (198)
36 cd01450 vWFA_subfamily_ECM Von 98.0 0.00013 2.8E-09 68.0 14.6 138 31-216 3-142 (161)
37 cd01476 VWA_integrin_invertebr 97.9 0.00037 8E-09 65.8 16.0 136 31-216 3-141 (163)
38 cd01466 vWA_C3HC4_type VWA C3H 97.9 0.00026 5.7E-09 66.6 14.7 131 31-216 3-133 (155)
39 cd01464 vWA_subfamily VWA subf 97.9 0.00015 3.3E-09 69.6 12.7 144 30-231 5-158 (176)
40 smart00327 VWA von Willebrand 97.9 0.00062 1.3E-08 64.3 16.0 138 30-216 3-144 (177)
41 PRK13406 bchD magnesium chelat 97.8 0.00049 1.1E-08 78.1 16.8 145 28-215 401-546 (584)
42 cd01460 vWA_midasin VWA_Midasi 97.8 0.00061 1.3E-08 69.6 15.4 140 30-217 62-205 (266)
43 cd01462 VWA_YIEM_type VWA YIEM 97.8 0.0018 3.9E-08 60.4 17.3 134 30-217 2-135 (152)
44 cd01463 vWA_VGCC_like VWA Volt 97.8 0.00075 1.6E-08 65.7 15.2 117 27-179 12-136 (190)
45 TIGR00868 hCaCC calcium-activa 97.8 0.00057 1.2E-08 79.9 16.2 134 30-216 306-440 (863)
46 PTZ00441 sporozoite surface pr 97.7 0.00096 2.1E-08 74.2 16.9 143 27-216 41-188 (576)
47 cd01461 vWA_interalpha_trypsin 97.6 0.0026 5.7E-08 60.1 16.5 147 30-233 4-151 (171)
48 COG5148 RPN10 26S proteasome r 97.6 0.0018 3.9E-08 61.0 14.5 144 28-216 3-146 (243)
49 PF12949 HeH: HeH/LEM domain; 97.6 3.4E-05 7.3E-10 53.0 2.3 33 587-619 1-35 (35)
50 TIGR02031 BchD-ChlD magnesium 97.6 0.0013 2.8E-08 75.2 15.8 154 21-216 399-558 (589)
51 PF13768 VWA_3: von Willebrand 97.6 0.0023 4.9E-08 59.9 14.6 133 31-216 3-135 (155)
52 cd01475 vWA_Matrilin VWA_Matri 97.5 0.0016 3.6E-08 65.1 13.8 134 31-216 5-145 (224)
53 TIGR03436 acidobact_VWFA VWFA- 97.5 0.0029 6.3E-08 66.0 15.5 147 28-215 53-203 (296)
54 PF00092 VWA: von Willebrand f 97.4 0.0012 2.6E-08 62.7 10.7 110 31-178 2-115 (178)
55 cd01481 vWA_collagen_alpha3-VI 97.4 0.0036 7.8E-08 59.6 13.8 135 31-215 3-142 (165)
56 COG1240 ChlD Mg-chelatase subu 97.4 0.0041 8.9E-08 62.2 14.3 141 30-216 80-222 (261)
57 PF04056 Ssl1: Ssl1-like; Int 97.3 0.0037 7.9E-08 60.7 13.1 140 34-216 1-140 (193)
58 TIGR02442 Cob-chelat-sub cobal 97.3 0.0062 1.3E-07 70.4 17.0 143 28-215 465-609 (633)
59 KOG2884 26S proteasome regulat 97.3 0.0069 1.5E-07 58.5 13.7 146 28-218 3-148 (259)
60 cd01457 vWA_ORF176_type VWA OR 97.2 0.014 3.1E-07 57.2 16.4 142 31-217 5-152 (199)
61 cd01455 vWA_F11C1-5a_type Von 97.2 0.01 2.2E-07 57.5 14.7 148 30-217 2-153 (191)
62 TIGR03788 marine_srt_targ mari 97.2 0.036 7.9E-07 63.7 21.7 148 28-232 271-419 (596)
63 PF12257 DUF3608: Protein of u 96.8 0.029 6.4E-07 57.5 14.0 169 30-217 72-271 (281)
64 PF07498 Rho_N: Rho terminatio 96.1 0.0058 1.3E-07 44.4 3.2 35 587-621 2-38 (43)
65 PRK10997 yieM hypothetical pro 96.1 0.17 3.7E-06 56.1 15.8 139 25-218 320-459 (487)
66 cd01468 trunk_domain trunk dom 95.8 0.51 1.1E-05 47.7 17.0 163 30-216 5-199 (239)
67 KOG1984 Vesicle coat complex C 95.5 0.32 6.9E-06 56.1 15.2 163 29-215 418-611 (1007)
68 cd01479 Sec24-like Sec24-like: 94.8 1.6 3.5E-05 44.2 17.0 160 30-216 5-196 (244)
69 PF10281 Ish1: Putative stress 94.7 0.065 1.4E-06 37.7 4.5 33 588-620 2-37 (38)
70 COG4867 Uncharacterized protei 94.7 0.51 1.1E-05 50.3 12.8 143 22-216 458-611 (652)
71 PF11265 Med25_VWA: Mediator c 93.0 3.7 8E-05 40.9 14.7 161 28-213 13-184 (226)
72 PTZ00395 Sec24-related protein 92.0 24 0.00052 43.6 22.1 162 29-216 953-1154(1560)
73 PF04811 Sec23_trunk: Sec23/Se 91.6 0.78 1.7E-05 46.4 8.6 163 30-216 5-201 (243)
74 KOG2807 RNA polymerase II tran 91.6 3.4 7.3E-05 42.8 12.7 140 29-216 61-203 (378)
75 PF10208 Armet: Degradation ar 91.2 0.18 3.8E-06 46.7 3.0 39 583-621 100-140 (154)
76 COG4245 TerY Uncharacterized p 90.7 3.2 6.9E-05 39.9 10.8 107 31-179 6-119 (207)
77 TIGR00627 tfb4 transcription f 90.2 3.8 8.3E-05 42.3 12.0 181 30-234 4-200 (279)
78 KOG2487 RNA polymerase II tran 86.8 17 0.00037 37.0 13.4 168 27-216 22-206 (314)
79 KOG2326 DNA-binding subunit of 86.7 0.015 3.2E-07 64.0 -8.5 130 322-451 327-463 (669)
80 PF05762 VWA_CoxE: VWA domain 86.6 12 0.00026 37.3 12.7 134 21-211 49-184 (222)
81 PF11775 CobT_C: Cobalamin bio 84.3 46 0.001 33.1 15.9 176 28-233 12-199 (219)
82 COG5028 Vesicle coat complex C 84.1 17 0.00036 42.1 13.3 167 29-215 277-461 (861)
83 PRK14537 50S ribosomal protein 83.1 1.1 2.4E-05 43.9 3.2 38 586-623 190-229 (230)
84 cd01478 Sec23-like Sec23-like: 80.3 23 0.00051 36.4 12.0 33 143-176 139-171 (267)
85 PF13867 SAP30_Sin3_bdg: Sin3 78.9 3.5 7.6E-05 31.3 4.1 33 590-622 1-35 (53)
86 PLN00162 transport protein sec 78.3 1.2E+02 0.0026 36.1 18.7 32 144-176 261-292 (761)
87 PF03850 Tfb4: Transcription f 76.0 20 0.00043 37.1 10.0 180 30-231 3-195 (276)
88 cd01459 vWA_copine_like VWA Co 75.7 99 0.0021 31.6 16.3 158 28-216 31-195 (254)
89 PF10138 vWA-TerF-like: vWA fo 75.6 85 0.0019 30.8 16.6 142 30-218 3-145 (200)
90 PF11116 DUF2624: Protein of u 74.0 2.7 5.7E-05 35.2 2.4 34 584-617 9-42 (85)
91 COG2425 Uncharacterized protei 71.1 86 0.0019 34.6 13.7 135 29-217 273-407 (437)
92 KOG3572 Uncharacterized conser 70.9 51 0.0011 40.5 12.6 171 30-216 293-496 (1701)
93 KOG2353 L-type voltage-depende 67.6 98 0.0021 38.2 14.5 148 24-218 221-375 (1104)
94 TIGR00599 rad18 DNA repair pro 65.7 7.6 0.00017 42.1 4.4 35 587-621 266-300 (397)
95 PF07766 LETM1: LETM1-like pro 64.6 7.5 0.00016 40.0 3.9 40 583-622 213-253 (268)
96 COG5151 SSL1 RNA polymerase II 64.5 65 0.0014 33.4 10.3 150 30-233 89-241 (421)
97 COG5242 TFB4 RNA polymerase II 59.4 1.7E+02 0.0037 29.1 11.8 55 28-88 20-74 (296)
98 TIGR01651 CobT cobaltochelatas 57.6 3.1E+02 0.0066 31.5 15.1 49 28-89 392-440 (600)
99 smart00187 INB Integrin beta s 54.2 3.3E+02 0.0073 29.9 17.8 42 31-84 102-143 (423)
100 KOG1986 Vesicle coat complex C 52.7 1.6E+02 0.0036 34.0 12.0 31 145-176 249-279 (745)
101 PF07002 Copine: Copine; Inte 49.0 2.2E+02 0.0049 26.4 14.0 137 53-215 9-146 (146)
102 PF00025 Arf: ADP-ribosylation 45.0 62 0.0013 30.6 6.5 52 19-87 73-124 (175)
103 KOG0287 Postreplication repair 44.3 27 0.0006 36.5 4.0 33 589-621 250-282 (442)
104 KOG1985 Vesicle coat complex C 43.9 1.6E+02 0.0034 34.9 10.2 127 28-176 294-431 (887)
105 KOG4661 Hsp27-ERE-TATA-binding 42.3 15 0.00033 40.7 2.0 37 586-622 29-65 (940)
106 COG1721 Uncharacterized conser 41.5 62 0.0013 35.5 6.7 53 28-88 224-276 (416)
107 COG4548 NorD Nitric oxide redu 41.4 46 0.00099 37.2 5.4 162 30-226 448-610 (637)
108 COG4902 Uncharacterized protei 38.7 50 0.0011 30.4 4.3 41 466-506 87-131 (189)
109 KOG4154 Arginine-rich protein 36.6 27 0.00059 31.6 2.3 37 585-621 132-170 (178)
110 KOG3768 DEAD box RNA helicase 36.6 73 0.0016 36.0 6.0 51 30-85 3-55 (888)
111 KOG0073 GTP-binding ADP-ribosy 35.3 55 0.0012 31.1 4.2 43 19-75 75-117 (185)
112 PF07131 DUF1382: Protein of u 34.7 52 0.0011 25.5 3.2 27 190-216 7-33 (61)
113 PF08766 DEK_C: DEK C terminal 34.0 55 0.0012 24.7 3.4 47 575-621 6-53 (54)
114 PF13362 Toprim_3: Toprim doma 33.5 87 0.0019 26.4 5.0 41 165-214 39-79 (96)
115 PF09968 DUF2202: Uncharacteri 30.8 94 0.002 29.4 5.0 41 468-508 40-84 (162)
116 PF07744 SPOC: SPOC domain; I 29.4 81 0.0017 27.6 4.2 37 386-422 81-119 (119)
117 PF08671 SinI: Anti-repressor 28.8 36 0.00079 22.7 1.4 26 576-601 3-28 (30)
118 KOG2266 Chromatin-associated p 28.8 38 0.00082 37.1 2.3 40 584-623 262-304 (594)
119 KOG4275 Predicted E3 ubiquitin 27.7 55 0.0012 33.7 3.1 36 586-621 248-285 (350)
120 PF06707 DUF1194: Protein of u 27.4 6.1E+02 0.013 25.0 15.4 193 29-261 4-199 (205)
121 KOG0071 GTP-binding ADP-ribosy 26.7 93 0.002 28.9 4.0 51 20-87 77-127 (180)
122 smart00275 G_alpha G protein a 26.6 1.1E+02 0.0025 32.5 5.5 58 20-88 200-260 (342)
123 cd03364 TOPRIM_DnaG_primases T 25.5 1.3E+02 0.0027 24.4 4.4 35 167-212 43-77 (79)
124 PF14584 DUF4446: Protein of u 24.7 1.8E+02 0.004 27.2 5.8 65 401-474 80-148 (151)
125 PF09967 DUF2201: VWA-like dom 24.3 99 0.0022 27.8 3.9 42 31-88 1-42 (126)
126 KOG2781 U3 small nucleolar rib 22.6 1E+02 0.0022 31.1 3.7 59 369-447 99-158 (290)
127 KOG4479 Transcription factor e 22.5 1.2E+02 0.0026 25.1 3.4 48 576-623 39-88 (92)
128 PF13101 DUF3945: Protein of u 22.3 2.5E+02 0.0054 21.7 5.2 56 291-362 2-57 (59)
129 PF15008 DUF4518: Domain of un 22.2 1.3E+02 0.0027 30.9 4.5 42 578-622 52-95 (262)
130 PF01882 DUF58: Protein of unk 21.6 1.9E+02 0.0042 23.5 4.9 40 27-72 39-78 (86)
131 PF13297 Telomere_Sde2_2: Telo 21.2 1.2E+02 0.0027 23.7 3.2 29 588-616 13-41 (60)
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=6.4e-122 Score=1028.16 Aligned_cols=572 Identities=33% Similarity=0.528 Sum_probs=513.7
Q ss_pred hhc-ccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEE
Q 006975 23 EHE-ATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFV 101 (623)
Q Consensus 23 ~~~-~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~ 101 (623)
+|+ .+|||||||||||++||.+.+. ++..|+|++|++||+++||+|||++|+|+||||||||++|+|+.+|+|||+
T Consensus 4 ~~~~~~keailflIDvs~sM~~~~~~---~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v 80 (584)
T TIGR00578 4 DYKYSGRDSLIFLVDASKAMFEESQG---EDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYV 80 (584)
T ss_pred cccccceeEEEEEEECCHHHcCCCcC---cCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEE
Confidence 454 6899999999999999997652 346899999999999999999999999999999999999999999999999
Q ss_pred ecccccccCCCCChHHHHHHHHHHHh-HhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCC
Q 006975 102 FNVAEREQLDRPTARFIKEFDHIEES-FEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPF 180 (623)
Q Consensus 102 l~~~~~~~l~~p~~~~ik~L~~l~~~-~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~ 180 (623)
+ ++|+.|+++.|++|++|.++ ....+...+|+ ...++|++|||+|++||+++++++++||||||||+|+||
T Consensus 81 ~-----~~L~~p~a~~i~~L~~l~~~~~~~~~~~~~~~---~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~ 152 (584)
T TIGR00578 81 L-----QELDNPGAKRILELDQFKGDQGPKKFRDTYGH---GSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPH 152 (584)
T ss_pred E-----eeCCCCCHHHHHHHHHHhhccCccchhhccCC---CCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCC
Confidence 9 99999999999999999876 23345456665 345799999999999999887899999999999999999
Q ss_pred CCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccCCccccccCCCccccHHHHHHHHHhhh
Q 006975 181 GSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLEGDDLALFMPSAGQKLEDMKDQLRKRM 260 (623)
Q Consensus 181 ~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~~~~~~~~~~~~~~~~~~L~~~i~~k~ 260 (623)
.+ +....++|.++|+||+++||+|++|+|+.+++ ||.++||++|+...+++..+..+...+.+++|++++++|+
T Consensus 153 ~~-----~~~~~~~a~~~a~dl~~~gi~ielf~l~~~~~-Fd~s~Fy~dii~~~~~~~~~~~~~~~~~l~~l~~~l~~k~ 226 (584)
T TIGR00578 153 GN-----DSAKASRARTKAGDLRDTGIFLDLMHLKKPGG-FDISLFYRDIITDAEDEDLGVHPEESSKLEDLLRKVRAKE 226 (584)
T ss_pred CC-----chhHHHHHHHHHHHHHhcCeEEEEEecCCCCC-CChhhhhHhhhccccccccccCcchhHHHHHHHHHHhhcc
Confidence 98 56677888999999999999999999999876 9999999999976554433444555567999999999999
Q ss_pred hcceeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCccc-cccceeeEecCCeeeecC
Q 006975 261 FSKRIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGALM-QEPAKRFQPYKGENIKFS 339 (623)
Q Consensus 261 ~~kR~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~-~~~~~k~y~yG~~~V~~~ 339 (623)
+++|++++++|+||++++|+|++|.+++++++++++|++++++++|+++|+|+|.+||+++ +++++|||+|||++|+|+
T Consensus 227 ~~kR~~~~~~L~lg~~~~I~V~~Y~~~~~~~~~~~~~l~~~~~~~v~~~~~~~~~dtg~~V~~~~i~Kgy~yGg~~V~~t 306 (584)
T TIGR00578 227 TRKRALSRLKLKLNKDVVMSVGIYNLVQKAGKPAPVKLYRETNEPVKTKTRTFNMDTGSLLLPSDTKRSQTYGGRQIYLE 306 (584)
T ss_pred cceeeEEeccEEECCCCEEEEEEEEEEEeecCCceEEEecCCceeeEEEEEEEecCCccccCHHHceeeeeECCEEEecC
Confidence 9999999999999999999999999999999899999999999999999999999999855 589999999999999999
Q ss_pred HHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--cCCCCceE
Q 006975 340 VQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY--GNPSNPRL 417 (623)
Q Consensus 340 ~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~--r~~s~P~l 417 (623)
++|+++|+.+++|+|+||||+|+++|++||++++|+||+|++..+.||+++|+||+++|++++||||||| |+|+.|+|
T Consensus 307 ~ee~~~lk~~~~~~l~ilGF~~~s~l~~~~~~~~s~fi~Pde~~~~gs~~afsaL~~~l~~~~kvAI~~~v~r~~~~P~l 386 (584)
T TIGR00578 307 KEETEELKRFDPPGLQLMGFKPLSMLKKHHHLRPSLFVYPEESLVRGSTTLFSALLQKCLEKEVAALCRYISRRNQPPYF 386 (584)
T ss_pred HHHHHHHhccCCCceEEEeeccHHHCCchhhcCCceEEecCCcccccHHHHHHHHHHHHHhcCcEEEEEEEecCCCCCEE
Confidence 9999999999999999999999999999999999999999999889999999999999999999999999 99999999
Q ss_pred EEEEeehhhccc-CCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChhHH
Q 006975 418 VALVAQDEIVRA-GGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPSLQ 496 (623)
Q Consensus 418 vaL~P~~~~~~~-~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~lq 496 (623)
|||+|+.+..++ +.|..|+|||+++|||+||||++++.. ...++++|+++|++||++|+++ |+|+.|+||+||
T Consensus 387 vaL~P~~~~~d~~~~q~~p~G~~l~~LPfadDIR~~~~~~-----~~~~~~e~~~~a~~LI~~l~~~-y~P~~~~NP~LQ 460 (584)
T TIGR00578 387 VALVPQEEELDDQKIQVTPPGFHLVFLPFADDKRKVPFTE-----KVKATPEQVDKMKAIVEKLRFT-YRSDSFENPVLQ 460 (584)
T ss_pred EEEeCCcccccccCCccCCCeEEEEecCchhhccCCCCcc-----cCCCCHHHHHHHHHHHHhcCCC-CCcccCCChHHH
Confidence 999999887776 458899999999999999999988642 3579999999999999999997 999999999999
Q ss_pred HHHHHHHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHhhcCCCCCCcccc-ccchh--hhchhhhhhhhhhcc
Q 006975 497 RHYAVLQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLSVYGDNYDEEGDV-KVSEA--SRKRKAATENAAKEC 573 (623)
Q Consensus 497 ~~y~~lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~~~~~~~~~~~~~-~~~~~--~~k~~~~~~~~~~~~ 573 (623)
|||++|+|+||+++.|+++.|.|+|++++|++|++ +.+++|++.+++..+++.... +++.+ ++.+++ +..+.
T Consensus 461 ~hY~~LealAL~~~~~~~~~D~tlp~~~~i~~r~~-~~i~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~k~----~~~~~ 535 (584)
T TIGR00578 461 QHFRNLEALALDMMEPEQAVDLTLPKVEAMKKRLG-SLVDEFKELVYPPDYNPEGKVAKRKQAGEGSQSKR----PKVEN 535 (584)
T ss_pred HHHHHHHHHhCCCCCCCCCcccccCCHHHHHHHHH-HHHHHHHHHhcccccCcccccccccCCCCCccccc----CCCCc
Confidence 99999999999999999999999999999999998 899999999998878776532 22111 111111 11124
Q ss_pred chHHHHHHHHcCCcccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhhc
Q 006975 574 ANYDWADLADKGKLKEMTVQELKLYLMAHNLSTTGRKETLISRILTHMG 622 (623)
Q Consensus 574 ~~~~~~~~~~~g~l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l~ 622 (623)
+..+|+.+|++|+|+||||+|||+||+++|++++||||||||||++||+
T Consensus 536 ~~~~~~~~~~~~~l~kltv~~Lk~~l~~~g~~~~~kKadLi~~i~~~~~ 584 (584)
T TIGR00578 536 SEEELREHAKKGTLGKLTVSVLKDFCRAYGLRSGSKKQELLDALTKHFK 584 (584)
T ss_pred CHHHHHHHHHcCChhhccHHHHHHHHHHcCCCccccHHHHHHHHHHHhC
Confidence 5778999999999999999999999999999999999999999999985
No 2
>KOG2327 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku70 autoantigen) [Replication, recombination and repair]
Probab=100.00 E-value=3.2e-82 Score=671.75 Aligned_cols=574 Identities=25% Similarity=0.410 Sum_probs=478.2
Q ss_pred hhhhhhcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCc
Q 006975 19 EFYQEHEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNA 98 (623)
Q Consensus 19 ~~~~~~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~ 98 (623)
+.+..|. +|++++|+||++++|+...+ ++...|+|..++.|+..++-++||+++.|.+|+++|||.++.+. ++
T Consensus 10 ~~~~~~~-~~~~ilfvi~~~~s~~~~~~---~e~~lspl~~~L~~~~~l~~~~vitn~~~~~~v~~y~~~~~~~~---~~ 82 (602)
T KOG2327|consen 10 EFERDYA-GKEAILFVIDVNPSMKAEEP---DEFKLSPLKMILDCIDRLCIQLVITNPIDSVGVLFYGTEETEGL---EN 82 (602)
T ss_pred hhccccc-cccceEEEEecCHHhhccCc---ccchhhhHHHHHHHHHHHHhheeecCCCCccceEeecccccccC---cc
Confidence 3355555 89999999999999988554 24568999999999999999999999999999999999998764 45
Q ss_pred EEEecccccccCCCCChHHHHHHHHHHHhH-hhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCC
Q 006975 99 VFVFNVAEREQLDRPTARFIKEFDHIEESF-EKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNED 177 (623)
Q Consensus 99 i~~l~~~~~~~l~~p~~~~ik~L~~l~~~~-~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d 177 (623)
.+.+ ++++.+....++++.++.+.. +..+..-+|. ....++|+.+||.|..|+..+.++..++|||+|||+|
T Consensus 83 ~~~l-----~~l~d~~~~~~~k~~~~~e~~~q~~~~~~~~~--~~~~s~ls~vl~~c~~~~~~~~~~~~~krv~l~Td~d 155 (602)
T KOG2327|consen 83 NTLL-----FPLGDLGQEEVKKILELFEEENQLSAVNFYGG--MHQKSDLSNVLNYCKRMVFASQKKLSNKRVFLFTDND 155 (602)
T ss_pred ceEE-----eeccccChHHHHHHHHHhhhhhhhhhhhccCc--ccccccHHHHHHHHHHHHHHHhhhcccceEEEEecCC
Confidence 5556 666677666666666665542 1111122232 1234479999999999888888999999999999999
Q ss_pred CCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccCC--ccccccCCCccccHHHHHHH
Q 006975 178 DPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLEG--DDLALFMPSAGQKLEDMKDQ 255 (623)
Q Consensus 178 ~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~~--~~~~~~~~~~~~~~~~L~~~ 255 (623)
+||.. +.......++|++++....|.+....++.+...|..+.||........ +....+++......++++++
T Consensus 156 ~P~~~-----~~~~~~a~l~r~k~~~~~~i~~~~~~l~~~~~~~~~~~~y~~f~~i~~~~~~d~~~~~~~~~~~e~~~~r 230 (602)
T KOG2327|consen 156 NPHER-----DDFLESAHLQRAKDLVTKDIGFHHKTLDEPSDIFLYEDFYKPFDKISKAKELDSDLDTEVQSTLEDLLAR 230 (602)
T ss_pred Ccccc-----cchHHHhhhhhhhhcccceeeeeecccCcccccccccccccccchheeeccccccccChhhhhHHHHHHH
Confidence 99977 445577788899988888676665566666667777777776554321 12234455555688999999
Q ss_pred HHhhhhcceeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeE---EeeCCcCc-cccccceeeEec
Q 006975 256 LRKRMFSKRIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERS---FICADTGA-LMQEPAKRFQPY 331 (623)
Q Consensus 256 i~~k~~~kR~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~---~~~~dt~~-~~~~~~~k~y~y 331 (623)
++.+.+.+|++|++.|.+|+++.|+|++|+++++++.+...|+..++++.|.+.++ +++.+||+ +...++.+.|.|
T Consensus 231 i~~k~~~kR~~f~l~l~lg~~v~i~V~~y~~~~~~~~~~~~~~y~~~~~~v~tk~~~~~~f~~~tg~~~~~~~~~~s~~y 310 (602)
T KOG2327|consen 231 ILAKITAKRAHFHLKLNLGPDVTIGVSVYNMVQRAKPADHSQLYRRDEEEVITKPSGYKFFSCETGEELKRRDTKKSYEY 310 (602)
T ss_pred HHHHHHHHHhhheeeeccCCCeEEEEEEeeeeeccccCccceeEecccceeeeecccceEeccccCCccccccceEEecc
Confidence 99999999999999999999999999999999999999888998999988888776 88999995 667899999999
Q ss_pred CCeeeecCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--
Q 006975 332 KGENIKFSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY-- 409 (623)
Q Consensus 332 G~~~V~~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~-- 409 (623)
||+.|+|+.++.+.++.+.+|+|.|+||++++.|++|+++++|.||||++..+.||++.|+||+..|++++|+|||||
T Consensus 311 G~~~i~l~~dq~e~v~~~~~p~L~liGFk~~ssl~~~~~i~ps~fi~Pddq~~iGS~~~f~all~rcl~rdkiaic~~~~ 390 (602)
T KOG2327|consen 311 GGEDIILSMDQLEYVREFNKPGLMLIGFKSMSSLKREHYIKPSKFIYPDDQTIIGSTRLFRALLKRCLARDKIAICWFQS 390 (602)
T ss_pred CCcccccChhHHHHhhccCCcceEEEeeccccccCcccccCchhccCcchhhccchHHHHHHHHHHHHhhhhhhheeecc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCceEEEEEeehhhccc-CCCCCCCcEEEE-ecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCC---C
Q 006975 410 GNPSNPRLVALVAQDEIVRA-GGQVEPPGMHMI-YLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLK---D 484 (623)
Q Consensus 410 r~~s~P~lvaL~P~~~~~~~-~~q~~p~g~~li-~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~---~ 484 (623)
|+|+.|++|||+++.....+ ..++.|.||.++ +||||||||.+|+.. ....+++|.+.|+.++++|.+. +
T Consensus 391 r~n~~p~~vAlv~~p~~~~d~~~~~l~~GF~LV~flp~aDdirk~p~~~-----~v~~~p~~~eqmk~i~Qki~f~~rsd 465 (602)
T KOG2327|consen 391 RSNQKPRFVALVLQPQRGQDDSSESLPCGFQLVGFLPFADDIRKFPLQD-----KVSTEPEQEEQMKAIVQKIRFKLRSD 465 (602)
T ss_pred cccCCcceeeeecCccccccCcccccccceEEEEeecccchhccCCCcc-----cccCCcchHHHHHHHHHHHHHHhhcC
Confidence 99999999999998766544 457789999999 699999999998543 4456677778888888888764 4
Q ss_pred CCCCCCCChhHHHHHHHHHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHhhcCCCCCCccccccchhhhchhh
Q 006975 485 FSVCQFANPSLQRHYAVLQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLSVYGDNYDEEGDVKVSEASRKRKA 564 (623)
Q Consensus 485 y~p~~~~NP~lq~~y~~lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~~~~~~~~~~~~~~~~~~~~k~~~ 564 (623)
|.| .|.||+||+||++|+|+||+++.|++..|.|+|++++|.+|.| .++++|++.+++.++..+..+ . .|++.
T Consensus 466 ~~p-~feNP~Lq~h~knL~alaLd~e~p~~~vd~tlp~~~a~~KRvg-~lvd~~~el~y~~d~ikE~g~-~----~k~k~ 538 (602)
T KOG2327|consen 466 YPP-FFENPSLQQHYKNLEALALDEETPEQAVDETLPKVEAMDKRVG-ELVDKYRELFYPPDYIKETGA-V----SKRKH 538 (602)
T ss_pred Ccc-cccChHHHHHHHHHHHHhcccccchhhhcccCcchHHHHHHHH-HHHHHHHHhcCCCcCCccccc-c----ccccc
Confidence 556 7999999999999999999999999999999999999999999 799999999999888777311 1 11111
Q ss_pred h-----hhhhhhccchHHHHHHHHcCCcccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhhcC
Q 006975 565 A-----TENAAKECANYDWADLADKGKLKEMTVQELKLYLMAHNLSTTGRKETLISRILTHMGK 623 (623)
Q Consensus 565 ~-----~~~~~~~~~~~~~~~~~~~g~l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l~~ 623 (623)
. +..+..+.....+.+.+.++.+++++|++||++|+++|+.++++|+||++.+++|+++
T Consensus 539 ~~~~~~sk~~k~~~~e~e~~~~i~~~~~~~~~v~mlke~c~~~g~~~s~~K~~i~~~l~~~~~e 602 (602)
T KOG2327|consen 539 DEDPPSSKRPKDEYIEEEFKKHINDDEIKKFLVSMLKEHCRASGLLVSKPKNDILAVLTAYLDE 602 (602)
T ss_pred cCCCccccccHHHHHHHHHHHhhchhhHhHHhHHHHHHHHHHhcccccCcHHHHHHHHHHhhcC
Confidence 0 0112344556788888899999999999999999999999999999999999999974
No 3
>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=1e-58 Score=479.17 Aligned_cols=277 Identities=39% Similarity=0.628 Sum_probs=254.6
Q ss_pred eeeeeeeEEecCC--ceEEEEEeeeecccCCCcEeEecCCCCCC---ceeeeEEeeCCcCccc-cccceeeEecCCeeee
Q 006975 264 RIVKRISFIIANG--LSIELNTYALIRPTVPGAITWLDSVTNHP---LKTERSFICADTGALM-QEPAKRFQPYKGENIK 337 (623)
Q Consensus 264 R~~~~~~l~lg~~--~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~---vk~~t~~~~~dt~~~~-~~~~~k~y~yG~~~V~ 337 (623)
|++|+++|+||++ ++|+|++|++++++++++++|++++++.+ |+.+++|+|+++|+.+ +++++|||+|||++|+
T Consensus 1 R~~~~~~l~ig~~~~v~I~V~~Y~~~~~~~~~~~~~l~~~~~~~~~~v~~~~~~v~~~~~~~v~~~di~kgy~~g~~~V~ 80 (287)
T cd00788 1 RALFRLPLELGPGNKLVISVKGYSLVSHAKKPRKYKLDREKNEERREVKSKRKFFDVESGKTLEKADIKKGYKIGGEKII 80 (287)
T ss_pred CccEeeeEEECCCCCeEEEEEEEEEeecccCCceEEEecCCCccceeeEEEEEEEecCCCcccChhheEEeEEeCCEEEE
Confidence 6789999999999 99999999999999999999999999998 9999999999999755 5999999999999999
Q ss_pred cCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--cCCCCc
Q 006975 338 FSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY--GNPSNP 415 (623)
Q Consensus 338 ~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~--r~~s~P 415 (623)
|+++|+++|+..++|||+||||+++++|+++|++++||||+|++..+.||+++|+||++||.++++|||||| |.|+.|
T Consensus 81 ~~~~e~~~i~~~~~~~l~ilgF~~~~~i~~~~~~~~s~fl~P~~~~~~gs~~af~aL~~am~~~~kvaIa~~v~r~~~~p 160 (287)
T cd00788 81 FTKEELKKIKSFGEPGLRLIGFKPRSTLKPYHNIKKSYFIYPDESDYKGSTRLFAALLRSCLKKNKVAICWYILRKNSPP 160 (287)
T ss_pred eCHHHHHHHhccCCCceEEEeeccHHHCChhhccCCceeEecCcccccCcHHHHHHHHHHHHhcCcEEEEEEEecCCCCC
Confidence 999999999999999999999999999999999999999999999889999999999999999999999998 999999
Q ss_pred eEEEEEeehhhccc-CCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChh
Q 006975 416 RLVALVAQDEIVRA-GGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPS 494 (623)
Q Consensus 416 ~lvaL~P~~~~~~~-~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~ 494 (623)
+||||+|+.+..++ +.+..++|||+++|||+||||+++...........++++|+++|++||++|++.+|+|+.|+||+
T Consensus 161 ~l~aL~P~~~~~~~~~~~~~~~gl~l~~LPfadDiR~~p~~~~~~~~~~~~~~~~l~~a~~LI~~l~~~~f~p~~~~NP~ 240 (287)
T cd00788 161 RLVALVPQEEELDEPDGQVLPPGFHLVPLPFADDIRKLPSLLEENASAESASDELVDKAKQIIKKLRLLSYDPDKFPNPS 240 (287)
T ss_pred EEEEEeccccccCCCCCccCCCcEEEEecCchhhhccCCcccccccCCCCCCHHHHHHHHHHHHHhcCCCCCcccCCChH
Confidence 99999999887765 34667899999999999999995432211112457999999999999999999449999999999
Q ss_pred HHHHHHHHHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHh
Q 006975 495 LQRHYAVLQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLS 541 (623)
Q Consensus 495 lq~~y~~lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~ 541 (623)
||+||++|+++||+++.++++.|.|+|++++|.+|++ +.+++|+..
T Consensus 241 lq~~~~~l~a~al~~e~~~~~~d~~~pd~~~~~~r~~-~~~~~~~~~ 286 (287)
T cd00788 241 LQKHYKILEALALDEEDPEKPDDLTLPDTEGIDKRLG-DLIEEFKKL 286 (287)
T ss_pred HHHHHHHHHHHHhCCCCCCCcccccCCchHHHHHHHH-HHHHHHhhc
Confidence 9999999999999999999999999999999988888 899999764
No 4
>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=3.2e-52 Score=429.29 Aligned_cols=269 Identities=29% Similarity=0.419 Sum_probs=242.4
Q ss_pred eeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCccccccceeeEecCCeeeecCHHHH
Q 006975 264 RIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGALMQEPAKRFQPYKGENIKFSVQEL 343 (623)
Q Consensus 264 R~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~~~~~~k~y~yG~~~V~~~~ee~ 343 (623)
|+.|+++|.||++++|+|++|+++++++++++++++.+++++++.++.+.+..+.++.+++++|||+||+++|+|+++|+
T Consensus 1 r~~~~~~l~lg~~~~i~V~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~i~kgy~~G~~~V~~~~~e~ 80 (272)
T cd00594 1 RAIWKGALSLGLDVSIPVKLYSAATEEKPPSFKQLDRKTGERVKVKRVCKYTGGKEVEKEDIVKGYEYGGDYVPLTEEEL 80 (272)
T ss_pred CcceeeeEEECCCCEEEEEEEeeeccccCCccEEeccCCCceeeEEEEEEeecCcEeCHHHhhhheeeCCeEEecCHHHH
Confidence 67899999999999999999999999999999999999999988766554433223556999999999999999999999
Q ss_pred HHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--cCCCCceEEEEE
Q 006975 344 SEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY--GNPSNPRLVALV 421 (623)
Q Consensus 344 ~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~--r~~s~P~lvaL~ 421 (623)
++++..++|||+|+||+++++|+++|++++++||+|+++ ..||+++|+||++||.+++++||||| |.|+.|+||||+
T Consensus 81 ~~~~~~~~~~l~ilgF~~~~~i~~~~~~~~s~~l~P~~~-~~~s~~af~aL~~am~~~~kvai~r~v~r~~~~p~l~aL~ 159 (272)
T cd00594 81 EQLKLETSKGLDILGFVPASEIPPYYFDKESYYLVPDDS-DKGSEKAFSALRRALLEKDKVAIARYVLRRNSRPRLVALR 159 (272)
T ss_pred HHhhcCCCCeEEEEeEechHhCCcceecCCcEEEEcCCC-CcccHHHHHHHHHHHHHcCcEEEEEEEEcCCCCcEEEEEe
Confidence 999999999999999999999999999999999999997 78999999999999999999999998 999999999999
Q ss_pred eehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChhHHHHHHH
Q 006975 422 AQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPSLQRHYAV 501 (623)
Q Consensus 422 P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~lq~~y~~ 501 (623)
|+.+.. ++||++++|||+||||.++++.+.......++++|+++|++||++|++..|+|+.|+||++|+||++
T Consensus 160 P~~~~~-------~~gl~l~~LPfadDvR~~~~~~~~~~~~~~~~~~~~~~a~~lI~~~~~~~~~p~~~~NP~lq~~~~~ 232 (272)
T cd00594 160 PQEEED-------PEGLVLVTLPFADDVRSYPFPLLLDIKTEKPTDEELELAKQLIDSLDLDDFDPEKFPNPYLQRLYAL 232 (272)
T ss_pred ccccCC-------CCEEEEEccCCchhhhccCCcccccccccCCCHHHHHHHHHHHHhccCCCCCcccCCCHHHHHHHHH
Confidence 998763 6899999999999999977654322223579999999999999999994499999999999999999
Q ss_pred HHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHh
Q 006975 502 LQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLS 541 (623)
Q Consensus 502 lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~ 541 (623)
|+++|++++.+....|.+++....+.++++ +++++|++.
T Consensus 233 l~~~al~~~~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~ 271 (272)
T cd00594 233 LEAKALGEEIPEPPEDLTLPPPEEIPKRVI-DLLEALKKS 271 (272)
T ss_pred HHHHhcCCCCCCCCCCccCCCcHHHHHHHH-HHHHHHHhh
Confidence 999999999988888888888888888877 899999875
No 5
>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=5.1e-48 Score=401.97 Aligned_cols=241 Identities=22% Similarity=0.306 Sum_probs=214.6
Q ss_pred eeeeeeeEEecCCceEEEEEeeeecccCCCc-EeEe----cCCCC-CCceeeeEEe-eCCcCc-cccccceeeEecCCee
Q 006975 264 RIVKRISFIIANGLSIELNTYALIRPTVPGA-ITWL----DSVTN-HPLKTERSFI-CADTGA-LMQEPAKRFQPYKGEN 335 (623)
Q Consensus 264 R~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~-~~~~----~~~~~-~~vk~~t~~~-~~dt~~-~~~~~~~k~y~yG~~~ 335 (623)
++.|+|+|+||++++|+|++|+++++++.++ +..+ +.+++ .+|+.++.|. +.++|. +.+++++|||+|||++
T Consensus 1 ~~~~~g~L~~g~~v~I~V~~y~at~~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~~~~~~~~~eV~~~~ivkgY~yg~~~ 80 (300)
T cd00873 1 VAAFKGQLTLGSPLSIAVELYKKTKEERPPKLKKVSDAEKTGEDAFEDVKSERSYDVNDDDKTEVEKEDLIKGYRYGRDI 80 (300)
T ss_pred CCcccceeEecCceEEEEEEEEeeeeccCCceEEEEecccCCccccccceEEEEEEccCCCCcccCHHHhhhheecCCcE
Confidence 3679999999988999999999999999754 4444 36666 8899988885 566776 4468999999999999
Q ss_pred eecCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--cCCC
Q 006975 336 IKFSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY--GNPS 413 (623)
Q Consensus 336 V~~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~--r~~s 413 (623)
|+|+++|++.++..+++||+|+||+++++|+++|+|+++|||+|++ +..||+++|+||++||.+++++||||| |+++
T Consensus 81 V~~~~~e~~~~~~~~~~~l~ilgF~~~~~i~~~~~~~~s~~l~P~~-~~~~~~~a~~aL~~am~~~~k~aI~r~v~r~~~ 159 (300)
T cd00873 81 VPLSEEDEEATKLSTSKGLDILGFIKASNVPRYYLMGESSYVVPQQ-DDEAAALAFSALVRALAELDKYAIARYVYKDNS 159 (300)
T ss_pred EecCHHHHHHHhcCCCCceEEEeeccHHHCChhheeCCcEEEEcCC-CChhHHHHHHHHHHHHHhCCCEEEEEEEEcCCC
Confidence 9999999999999999999999999999999999999999999998 568899999999999999999999998 9999
Q ss_pred CceEEEEEeehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCC-CCCCCHHHHHHHHHHHhhcCCCC--------
Q 006975 414 NPRLVALVAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDA-VPRASDDEVKKAAALMKRIDLKD-------- 484 (623)
Q Consensus 414 ~P~lvaL~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~-~~~~~~eq~~~a~~lI~~l~l~~-------- 484 (623)
.|+||||+|+.+.. +.||++++|||+||||.+.++.+.... ...++++|+++|++||++|++.+
T Consensus 160 ~p~l~aL~P~~~~~-------~~~l~l~~LPf~eDvR~~~f~~l~~~~~~~~~~~e~~~~a~~lId~m~l~~~~~~~~~~ 232 (300)
T cd00873 160 EPQLGVLFPRIKED-------YECLVLVRLPFAEDVRQYRFPSLDKLKTPNLPTEEQLEAMDDLVDSMDLDDDEEDDPEE 232 (300)
T ss_pred CcEEEEEeccccCC-------CCEEEEEecCchhhhhccCCCCCCcccCCCCCCHHHHHHHHHHHHhcCCCccccccccc
Confidence 99999999997654 479999999999999998876542211 14699999999999999999976
Q ss_pred -CCCCCCCChhHHHHHHHHHHhhcCcCCC
Q 006975 485 -FSVCQFANPSLQRHYAVLQALALEEDDM 512 (623)
Q Consensus 485 -y~p~~~~NP~lq~~y~~lea~Al~~~~~ 512 (623)
|+|+.|+||++|+||++|+++|++++.+
T Consensus 233 ~f~p~~~~nP~~q~~~~~i~~~al~~~~~ 261 (300)
T cd00873 233 ALKPDETPNPVLQRIYQALRHRALHPDEP 261 (300)
T ss_pred ccCcccCCChHHHHHHHHHHHHhcCCCCC
Confidence 9999999999999999999999998655
No 6
>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=5.8e-45 Score=367.30 Aligned_cols=253 Identities=14% Similarity=0.220 Sum_probs=214.5
Q ss_pred ceeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCcccc-ccceeeEecC-CeeeecCH
Q 006975 263 KRIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGALMQ-EPAKRFQPYK-GENIKFSV 340 (623)
Q Consensus 263 kR~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~~-~~~~k~y~yG-~~~V~~~~ 340 (623)
.|++|+|.|+|| .++|||++|++++.. .+++++++++++.+|+ ++++|++||+.++ ++++|||+|| |++|+|++
T Consensus 1 ~r~~wkG~l~fg-lV~ipV~lY~at~~~-~i~f~~l~~~~~~~v~--~~~v~~~~g~eV~~~divKgYeyg~g~~V~~~~ 76 (258)
T TIGR02772 1 ARAIWKGAISFG-LVNCPVKLYPATESE-DISFHQLHREDGNRVR--YQKVCSETGKEVEREEIVKGYEYDKGKYVIIED 76 (258)
T ss_pred CCCceEEEEEEc-cEEEEEEEEEeeecC-CCccEEEEcCCCCeee--EEEEcCCCCCCCCHHHeeeeEEeCCCCEEEcCH
Confidence 388999999999 999999999999954 5889999999999997 4689999998665 8999999999 69999999
Q ss_pred HHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEecCCCCceEEEE
Q 006975 341 QELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFYGNPSNPRLVAL 420 (623)
Q Consensus 341 ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~r~~s~P~lvaL 420 (623)
+|+++++..++++|+|+||++.++|+++| +++||||+|+ .||.++|++|++||.++++||||||...+.++|+||
T Consensus 77 eel~~~~~~~~~~i~I~gFv~~~~i~~~y-~~~syyl~P~----~~~~~a~~~L~~Al~~~~kvaIar~v~r~r~~l~aL 151 (258)
T TIGR02772 77 EDIESLPPESTKTIEIEAFVDADEIDPIY-FDTPYYLAPD----KGGEKAYALLREALEDTGKVGIAKVVLRGRERLAAL 151 (258)
T ss_pred HHHHhhcccCCCeEEEEEEeCHHHCChhe-eCCCEEEccC----CCchHHHHHHHHHHHHcCCEEEEEEEEcCCcEEEEE
Confidence 99999999999999999999999999876 5999999997 358999999999999999999999932234899999
Q ss_pred EeehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChhHHHHHH
Q 006975 421 VAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPSLQRHYA 500 (623)
Q Consensus 421 ~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~lq~~y~ 500 (623)
.|+. .||++++|||+||||+++.+.. ......++++|+++|++||++|+.. |+|+.|+||+.|++++
T Consensus 152 ~P~~-----------~gL~l~~LpfadEvR~~~~~~~-~~~~~~~~~~el~~A~~LI~~mt~~-fdp~~y~d~y~~~l~~ 218 (258)
T TIGR02772 152 RPVG-----------KGLVLTTLRYPDEVRSPDEFFG-PIKDVEVDPEELELAGQLIDKMTGK-FDPEDYHDEYREALLE 218 (258)
T ss_pred EECC-----------CeEEEEECCChhhccChhhccc-ccccCCCCHHHHHHHHHHHHHhccC-CChhhCCCHHHHHHHH
Confidence 9996 4999999999999999853211 1224579999999999999999986 9999999999999999
Q ss_pred HHHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHhhc
Q 006975 501 VLQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLSVY 543 (623)
Q Consensus 501 ~lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~~~ 543 (623)
+|++++.+.+.... +....|. .... .++|++.+.++-
T Consensus 219 ~i~~K~~~~~~~~~-~~~~~~~----~~~v-idlm~aL~~S~~ 255 (258)
T TIGR02772 219 LVDAKLEGGKPPKA-EEPAAPA----PGNV-VDLMDALKASLR 255 (258)
T ss_pred HHHHHHhCCCCCCC-cccCCCC----CCcH-HHHHHHHHHHHh
Confidence 99999999765321 1111111 1112 378888888763
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=6.6e-45 Score=366.50 Aligned_cols=250 Identities=18% Similarity=0.270 Sum_probs=213.1
Q ss_pred eeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCccc-cccceeeEecC-CeeeecCHH
Q 006975 264 RIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGALM-QEPAKRFQPYK-GENIKFSVQ 341 (623)
Q Consensus 264 R~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~-~~~~~k~y~yG-~~~V~~~~e 341 (623)
|++|+|.|+|| .++|||++|++++.. .+++++++++++.+|+. +++|++||+.+ +++++|||+|| |++|+|+++
T Consensus 1 r~~wkG~l~fg-lV~ipV~ly~at~~~-~i~f~~l~~~~~~~v~~--~~v~~~~g~eV~~~divKgYeyg~~~~V~~~~e 76 (256)
T cd00789 1 RAIWKGAISFG-LVNIPVKLYSATESE-DISFHQLHKKDGARIRY--QRVCPETGKEVPRDDIVKGYEYEKGEYVILTDE 76 (256)
T ss_pred CCceEEEEEEC-cEEEEEEEEEeeccC-CcccEEEecCCCCEeeE--EEECCCCCCCCCHHHceeeEEeCCCCEEEcCHH
Confidence 78999999999 999999999965555 47889999999999974 67999999865 59999999999 999999999
Q ss_pred HHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEecCCCCceEEEEE
Q 006975 342 ELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFYGNPSNPRLVALV 421 (623)
Q Consensus 342 e~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~r~~s~P~lvaL~ 421 (623)
|+++++..++++|+|+||++.++|+++|+ ++||||+|++ |+.++|++|++||.+.+|||||||.....++||||+
T Consensus 77 el~~~~~~~~~~i~IlgFv~~~~I~~~y~-~~syyl~P~~----~~~kaf~~L~~Al~~~~kvaIar~V~r~~~~l~aL~ 151 (256)
T cd00789 77 ELEALPPESTRTIEIVDFVPLDEIDPIYF-DKPYYLAPDK----GGEKAYALLREALRDTGKVAIAKVVLRTRERLAALR 151 (256)
T ss_pred HHHhhccCCCCeEEEEeEeCHHHCCHhHc-CCCEEEecCC----CcchHHHHHHHHHHHcCCEEEEEEEEcCCceEEEEE
Confidence 99999999999999999999999998776 8999999998 478899999999999999999999222347999999
Q ss_pred eehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChhHHHHHHH
Q 006975 422 AQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPSLQRHYAV 501 (623)
Q Consensus 422 P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~lq~~y~~ 501 (623)
|+. .||++++|||+||||+++++.... ....++++|+++|++||++|+.. |+|+.|+||+.++++++
T Consensus 152 P~~-----------~gL~l~~LpfaddvR~~~~~~~~~-~~~~~~~~el~~A~~LI~~m~~~-fdp~~~~d~y~~~l~~l 218 (256)
T cd00789 152 PRG-----------KGLVLNTLRYPDEVRSPEELFLPI-KAVKVDPKELEMAKQLIEQLTGD-FDPEKYEDEYREALMEL 218 (256)
T ss_pred ECC-----------CEEEEEECCChhhccCccccCccc-ccCCCCHHHHHHHHHHHHHccCC-CCccccCCHHHHHHHHH
Confidence 986 499999999999999988654221 24579999999999999999997 99999999999999999
Q ss_pred HHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHhh
Q 006975 502 LQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLSV 542 (623)
Q Consensus 502 lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~~ 542 (623)
|++++.+.+.... + |..+. . ....++|++.+.++
T Consensus 219 i~~K~~~~~~~~~-~----~~~~~-~-~~v~dlm~aL~~Sl 252 (256)
T cd00789 219 IEAKIEGKAIEAA-E----PAPAA-S-GNVVDLMEALKKSL 252 (256)
T ss_pred HHHHHcCCCCCCC-C----CCCCC-C-CCHHHHHHHHHHHH
Confidence 9999998665211 1 11110 1 11237888888775
No 8
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=100.00 E-value=1.5e-41 Score=358.49 Aligned_cols=438 Identities=17% Similarity=0.150 Sum_probs=337.8
Q ss_pred ccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhcc-CCCeEEEEEEecCCCCCCC----CCCcEE
Q 006975 26 ATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINR-LYDEVAICFFNTRKKKNLQ----DLNAVF 100 (623)
Q Consensus 26 ~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~-~~D~vgivl~gt~~t~n~~----~~~~i~ 100 (623)
..++|++|++|||++|....+ ++.|+|++|+.++.+++++|.+++ ++|+||||+|||+.|+|+. .|+||.
T Consensus 2 s~se~ttfilDvG~~Ms~~~~-----~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~ten~legg~~fqnis 76 (669)
T KOG2326|consen 2 SSSESTTFILDVGPSMSKNNE-----TGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTENSLEGGNVFQNIS 76 (669)
T ss_pred CCCcceEEEEecCccccccCC-----CccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCccCccccccccceeE
Confidence 467899999999999988763 678999999999999999999999 8999999999999999984 499999
Q ss_pred EecccccccCCCCChH-HHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHH-hcCC-CCCCCcEEEEEeCCC
Q 006975 101 VFNVAEREQLDRPTAR-FIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLL-RKGS-SKTADKRILLFTNED 177 (623)
Q Consensus 101 ~l~~~~~~~l~~p~~~-~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f-~~~~-~~~~~krI~l~Tn~d 177 (623)
++ .++..|... .++.+...++. ++..+|+..||.+..++. .+++ ++...+|+++.|+.-
T Consensus 77 vl-----~p~~tpaf~~l~k~~~~~~qq-------------ns~q~Df~gal~vs~dL~~qhe~~~k~~~kr~Il~~~~l 138 (669)
T KOG2326|consen 77 VL-----APVTTPAFIGLIKRLKQYCQQ-------------NSHQSDFEGALSVSQDLLVQHEDIKKQFQKRKILKQIVL 138 (669)
T ss_pred Ee-----ecccchhhHHHHHHHHHhcCC-------------CccccchhhhHHHHHHHHHHHHhccchhhceEEEEeecc
Confidence 99 788777654 34444434432 466788999999999944 4555 677888888888875
Q ss_pred CCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccc-----------hhhhhcccCCccccccCCCc-
Q 006975 178 DPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSH-----------FYADMIGLEGDDLALFMPSA- 245 (623)
Q Consensus 178 ~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~-----------fy~~i~~~~~~~~~~~~~~~- 245 (623)
.--.. + + +- .+.+|.+.+|++-+++++..-..-|.++ -|.++... .+..
T Consensus 139 ~~dfs-----d-~-~~----ive~l~~~didL~~~gldf~~e~id~s~dl~e~~kk~n~~~~q~~e~--------l~~~q 199 (669)
T KOG2326|consen 139 FTDFS-----D-D-LF----IVEDLTDEDIDLLTEGLDFRIELIDCSKDLQEERKKSNYTWLQLVEA--------LPNSQ 199 (669)
T ss_pred cccch-----h-h-HH----HHHHHhhcCcceeEeeccCCccccccCccccccccccchHHHHHHHh--------cchhh
Confidence 33222 1 1 11 6779999999999988864211111110 11111100 0111
Q ss_pred cccHHHHHHHH---HhhhhcceeeeeeeEEec-CCceEEEEEeeeecccCCCc-EeEecCC--CC----CCceeeeEEee
Q 006975 246 GQKLEDMKDQL---RKRMFSKRIVKRISFIIA-NGLSIELNTYALIRPTVPGA-ITWLDSV--TN----HPLKTERSFIC 314 (623)
Q Consensus 246 ~~~~~~L~~~i---~~k~~~kR~~~~~~l~lg-~~~~I~V~~Y~~~~~~~~~~-~~~~~~~--~~----~~vk~~t~~~~ 314 (623)
...++++...+ +.+.+++.++|+|.|+|| +.++|.+.-|.-..-.+.++ ++.++.. +- .-+++...+.+
T Consensus 200 ~~~~~eiYn~i~spa~~~v~pv~if~g~l~ig~~~Lsiq~a~y~g~~q~r~~~~~~~vea~~etk~ke~~n~ktV~~~~d 279 (669)
T KOG2326|consen 200 IYNMNEIYNEITSPATSVVKPVRIFSGELRIGADILSIQTANYSGSMQDRNECLCIKVEAFPETKAKEGLNRKTVVEVED 279 (669)
T ss_pred HHhHHHHHHhhcCcccccccceEEEeeeEeeccceeEEeccCCCccccccccceeEEeecchhhccchhcccceeEEeec
Confidence 13456666654 557888889999999999 67999999999888777653 4555433 21 12333333333
Q ss_pred CCcCccccccceeeEecCCeeeecCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHH
Q 006975 315 ADTGALMQEPAKRFQPYKGENIKFSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIAL 394 (623)
Q Consensus 315 ~dt~~~~~~~~~k~y~yG~~~V~~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL 394 (623)
.+--++++++++.||.||...|+++.-+.+.++.-+.+++.||||+++++++..|.+|..+-|+|.-. ..+++.++++|
T Consensus 280 ~d~~evlKed~~sGysyG~~iIp~s~nDenv~e~dt~g~~~ilgFikkssv~~~Y~~g~~~~Vlpa~d-d~~a~~a~ssl 358 (669)
T KOG2326|consen 280 SDKLEVLKEDYVSGYSYGEYIIPNSGNDENVSEDDTSGSSYILGFIKKSSVTKAYRYGADYVVLPAVD-DDQAVYASSSL 358 (669)
T ss_pred CCchhhHHHhhhhhcccceeEeccCCcchhhcccccCCceEEeeeeccccccceeeecCceEEecccC-chHhHHhhhHH
Confidence 33335778999999999999999999999999998889999999999999999999997788889742 25799999999
Q ss_pred HHHHHhcCcEEEEEe--cCCCCceEEEEEeehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHH
Q 006975 395 HRSMLRLNRFAVAFY--GNPSNPRLVALVAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKK 472 (623)
Q Consensus 395 ~~am~~~~kvaI~r~--r~~s~P~lvaL~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~ 472 (623)
++||...+++||||| ...+.|++.+|+|+....- --.+|+.|+|||+||+|.+-+..+.......|+..|+.|
T Consensus 359 i~al~~l~r~Al~Ry~~~~ks~pql~vl~Ph~~~~~-----~~~yLvdVqLPF~eD~R~y~Fskf~~~~n~~pt~aql~A 433 (669)
T KOG2326|consen 359 IDALGFLNREALPRYFLTSKSSPQLAVLRPHCQSDL-----AFSYLVDVQLPFREDARAYYFSKFDSEVNMCPTCAQLIA 433 (669)
T ss_pred HHHHhhhhHHHhhhhhhccCCCceEeeecccccccc-----ceeeEEEeeccchhhhHHhhcccccchhccCchHHHHHH
Confidence 999999999999998 8999999999999986541 024889999999999999877766555677899999999
Q ss_pred HHHHHhhcCCC--------CCCCCCCCChhHHHHHHHHHHhhcCcCCC
Q 006975 473 AAALMKRIDLK--------DFSVCQFANPSLQRHYAVLQALALEEDDM 512 (623)
Q Consensus 473 a~~lI~~l~l~--------~y~p~~~~NP~lq~~y~~lea~Al~~~~~ 512 (623)
..+||+.|+|. +|.|.. +||..+++.++|-+.|+.++.+
T Consensus 434 VsnlID~M~L~ksdtl~~~pf~p~~-~~mr~hrL~qlllh~a~spe~~ 480 (669)
T KOG2326|consen 434 VSNLIDEMKLVKSDTLCRLPFAPPK-LDMRVHRLPQLLLHTATSPEPL 480 (669)
T ss_pred HHHHhhhhhhhhhccccCCCCCCCC-ccchhhhHHHHhccccCCCCCC
Confidence 99999999994 255554 6999999999999999998765
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=4.8e-42 Score=337.44 Aligned_cols=197 Identities=31% Similarity=0.485 Sum_probs=152.0
Q ss_pred EEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCc-cccccceeeEecCCeeeecCHHHHHHhhcc
Q 006975 271 FIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGA-LMQEPAKRFQPYKGENIKFSVQELSEIKRV 349 (623)
Q Consensus 271 l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~-~~~~~~~k~y~yG~~~V~~~~ee~~~ik~~ 349 (623)
|+||++++|+|++|+++++++++++++++.++++.++.+++++|++||+ +.+++++|||.|||++|+|+++|++.++..
T Consensus 1 ~~ig~~v~I~V~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~d~~kgy~~g~~~V~~~~~e~~~~~~~ 80 (200)
T PF02735_consen 1 LSIGPDVSIPVKLYKATKEAKPPFFKKLSRDTNEEVRSRTKYVCPDTGEEVPPEDIIKGYRYGGEYVPFTDEELEAIKPE 80 (200)
T ss_dssp EECTTTEEEEEEEEECE-----S--EEEETTTTTEEEEEEEEECTTT--EE-GGGEEEEEEECTEEEEE-HHHHHHCT--
T ss_pred CEeCCCeEEEEEEEEeEeeccCCCcEEEEecCCcCceEEEEEEcCCCCCccCHHHeEEEEEeCCEEEEeCHHHHHhhhhc
Confidence 6899999999999999999999999999999999999999999999996 556999999999999999999999999999
Q ss_pred CCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe--cCCCCceEEEEEeehhhc
Q 006975 350 STGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY--GNPSNPRLVALVAQDEIV 427 (623)
Q Consensus 350 ~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~--r~~s~P~lvaL~P~~~~~ 427 (623)
++|+|+||||+++++|+++|++++++||+|++....||+++|+||++||.+++++||||| |.++.|+||||+|+.+..
T Consensus 81 ~~~~l~ilGF~~~~~i~~~~~~~~~~~i~p~~~~~~~s~~~f~aL~~am~~~~~vaI~r~v~r~~~~p~l~aL~P~~~~~ 160 (200)
T PF02735_consen 81 TSPGLEILGFVPRSNIPPYYFMGESYFIVPDEKSGEGSAKAFSALVQAMLEKNKVAIARYVLRSNSRPRLVALIPQIEES 160 (200)
T ss_dssp S-SEEEEEEEEEGGGS-CCG-ECEEEEEEEETTTECCHHHHHHHHHHHHHHCTEEEEEEEESSTTS--EEEEEEEEE-CE
T ss_pred CCCeEEEEEEEcchhCCceEEeCCcEEEEECCCCcchhHHHHHHHHHHHHhcCcEEEEEEEEcCCCCcEEEEEEEecccc
Confidence 999999999999999999999999999999999988999999999999999999999998 889999999999999764
Q ss_pred ccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHH
Q 006975 428 RAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKA 473 (623)
Q Consensus 428 ~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a 473 (623)
. .|.||++++|||+||||.++++.+.. ....++++|+++|
T Consensus 161 ~-----~~~gl~~~~Lpf~dDvR~~~~~~~~~-~~~~~~~eql~~a 200 (200)
T PF02735_consen 161 D-----TPEGLVLIRLPFADDVRSFPFPSLSS-AKTKPTEEQLDAA 200 (200)
T ss_dssp E-----C-CEEEEEE---GGGB-------STT--TT---HHHHHH-
T ss_pred C-----CCCeEEEEEcCChhhccCccccCcCc-CCCCCCHHHhhcC
Confidence 2 36899999999999999988765432 2347999999987
No 10
>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=100.00 E-value=3.3e-37 Score=308.68 Aligned_cols=215 Identities=34% Similarity=0.597 Sum_probs=159.1
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCC---CCCCCcEEEecccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKN---LQDLNAVFVFNVAE 106 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n---~~~~~~i~~l~~~~ 106 (623)
|||||||||++||.+.+. ..++|+.|++||.++|++||+++++|+||||||||++|+| ..+|+|||++
T Consensus 1 ~~vflID~s~sM~~~~~~-----~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l---- 71 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSE-----SESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVL---- 71 (224)
T ss_dssp EEEEEEE-SCGGGS-BTT-----CS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEE----
T ss_pred CEEEEEECCHHHCCCCCC-----cchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEe----
Confidence 799999999999998862 2239999999999999999999999999999999999999 8899999999
Q ss_pred cccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhc--CCCCCCCcEEEEEeCCCCCCCCCc
Q 006975 107 REQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRK--GSSKTADKRILLFTNEDDPFGSIK 184 (623)
Q Consensus 107 ~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~--~~~~~~~krI~l~Tn~d~P~~~~~ 184 (623)
++|+.|+++.|+.|.++++.... . ....++...++|.+|||+|++||+. +++++++||||||||+|+|+..
T Consensus 72 -~~l~~~~~~~l~~L~~~~~~~~~-~---~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~-- 144 (224)
T PF03731_consen 72 -QPLDPPSAERLKELEELLKPGDK-F---ENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHED-- 144 (224)
T ss_dssp -EECC--BHHHHHHHHTTSHHHHH-H---HHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT---
T ss_pred -ecCCccCHHHHHHHHHhhccccc-c---cccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCC--
Confidence 99999999999999998876322 1 1111246689999999999999997 6789999999999999999964
Q ss_pred cCcchhhHHHHHHH--HHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccCCccccccCCCccc-cHHHHHHHHHhhhh
Q 006975 185 GAAKNDMTRTTMQR--AKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLEGDDLALFMPSAGQ-KLEDMKDQLRKRMF 261 (623)
Q Consensus 185 ~~~d~~~~~~~~~~--a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~~~~~~~~~~~~~~-~~~~L~~~i~~k~~ 261 (623)
.+.+..++++ ++||++.||.+++++| ++...|+.++||.+++....+......+.... .+++|++++++|++
T Consensus 145 ----~~~~~~~~~~l~~~Dl~~~~i~~~~~~l-~~~~~f~~~~fy~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 219 (224)
T PF03731_consen 145 ----DDELERIIQKLKAKDLQDNGIEIELFFL-PGSDKFDMDKFYKEILKLPEDEENEVMQSSSGESVEDLLSRIRRKKF 219 (224)
T ss_dssp ----CCCHHHHHHHHHHHHHHHHTEEEEEEEC-T-TT---CCCTCGHCCHHHHHHHHHHHHHHCSGCHHHHCCCCCCCHC
T ss_pred ----HHHHHHHHHhhccccchhcCcceeEeec-CCCCCCChhhCcccccccchhhhcccccccccccHHHHHHHHhhhcc
Confidence 2347778888 9999999999999999 55567999999999987543332222222212 79999999999999
Q ss_pred ccee
Q 006975 262 SKRI 265 (623)
Q Consensus 262 ~kR~ 265 (623)
++|+
T Consensus 220 ~kR~ 223 (224)
T PF03731_consen 220 KKRA 223 (224)
T ss_dssp G---
T ss_pred cccC
Confidence 9997
No 11
>COG1273 Ku-homolog [Replication, recombination, and repair]
Probab=100.00 E-value=2.1e-33 Score=272.56 Aligned_cols=253 Identities=15% Similarity=0.190 Sum_probs=217.7
Q ss_pred ceeeeeeeEEecCCceEEEEEeeeecccCCCcEeEecCCCCCCceeeeEEeeCCcCccc-cccceeeEecC-CeeeecCH
Q 006975 263 KRIVKRISFIIANGLSIELNTYALIRPTVPGAITWLDSVTNHPLKTERSFICADTGALM-QEPAKRFQPYK-GENIKFSV 340 (623)
Q Consensus 263 kR~~~~~~l~lg~~~~I~V~~Y~~~~~~~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~-~~~~~k~y~yG-~~~V~~~~ 340 (623)
.|+.|+|.+.|| -++|||++|++++... .++.+||++|+.+|++ .|+|..||+++ ++|++|||+|| |++|.+++
T Consensus 3 ~Ra~WKG~ikfg-LV~~PV~ly~ATs~se-I~F~~L~r~t~nrV~~--~~Vd~~tGk~Ve~~d~VKGYE~~~~~yViled 78 (278)
T COG1273 3 MRAIWKGYIKFG-LVNCPVKLYPATSESE-IRFHTLHRKTGNRVRY--KYVDSVTGKEVERDDIVKGYEYGKGDYVILED 78 (278)
T ss_pred ccccccceeEee-eEecceEeeecccccc-cchhhhhhhhCCceee--EEeccccCCccCccceeeeeEecCCcEEEecH
Confidence 689999999999 9999999999999988 8999999999999975 69999999866 59999999997 78999999
Q ss_pred HHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEecCCCCceEEEE
Q 006975 341 QELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFYGNPSNPRLVAL 420 (623)
Q Consensus 341 ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~r~~s~P~lvaL 420 (623)
||++.+...+.+.|.|..|+|.+.|.+.|+ +.||||.|+.. ++.+|+.|.++|.+.+++||+|..-.++.|+|+|
T Consensus 79 eel~s~~~es~kti~I~~Fvp~~eId~iyf-D~pYYl~Pd~~----g~~af~lLReam~~~~~~aIar~vl~~Rer~v~L 153 (278)
T COG1273 79 EELESVPLESTKTIEIEAFVPRDEIDPIYF-DKPYYLAPDKV----GEKAFALLREAMAETKKVAIARLVLRRRERLVLL 153 (278)
T ss_pred HHHhhccccccceEeEEeecCHhhcCceee-cCceeecCCCC----cchHHHHHHHHHHHcCcchhhhhhhhccceeEEE
Confidence 999999999999999999999999998775 99999999943 7999999999999999999999966677789999
Q ss_pred EeehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHHHHHhhcCCCCCCCCCCCChhHHHHHH
Q 006975 421 VAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAAALMKRIDLKDFSVCQFANPSLQRHYA 500 (623)
Q Consensus 421 ~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~~lI~~l~l~~y~p~~~~NP~lq~~y~ 500 (623)
-|+. .|+++.+|.|.|+||+...+ |.......++++++++|++||++|.-+ |+|+.|.+++-+.+.+
T Consensus 154 rp~~-----------~glv~~TL~~~dEVRs~d~~-f~~i~~~~~d~eml~lA~~lI~~~~~~-fdp~~y~D~y~~aL~e 220 (278)
T COG1273 154 RPRG-----------KGLVLTTLRYPDEVRSPDEY-FPGIPDIKIDPEMLELAKQLIDKKTGT-FDPDEYEDRYQEALME 220 (278)
T ss_pred EecC-----------CcEEEEEecCchhccChhhh-cCCCCcccCCHHHHHHHHHHHHHhcCC-CChHHccCHHHHHHHH
Confidence 9988 49999999999999998632 111224459999999999999999997 9999999999999999
Q ss_pred HHHHhhcCcCCCCCCCCCCCCChhhhccccchHHHHHHHHhhc
Q 006975 501 VLQALALEEDDMPEIKDETVPDEEGMARPGVVKAVEEFKLSVY 543 (623)
Q Consensus 501 ~lea~Al~~~~~~~~~D~t~P~~~~i~~~~~~~~i~~fk~~~~ 543 (623)
.|+++.-+.+..- ..+..-|... .. .+++++.+.++.
T Consensus 221 lI~aK~~g~~~~~-~~~~~~p~~~----nV-idL~daLk~S~~ 257 (278)
T COG1273 221 LIEAKLEGRKTVA-APKKEPPEPS----NV-IDLMDALKASLE 257 (278)
T ss_pred HHHHHHhCCCccc-cccCCCCCcc----cH-HHHHHHHHHHHh
Confidence 9999998866311 1122222211 12 278899988764
No 12
>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=100.00 E-value=3.6e-32 Score=271.06 Aligned_cols=214 Identities=38% Similarity=0.603 Sum_probs=172.7
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
||+|+||||||+||+.... +...|.|++|++|+.+++++||+++++|+||||+|||+.++|..+|+||+++
T Consensus 1 ke~ivf~iDvS~SM~~~~~----~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~----- 71 (218)
T cd01458 1 KESVVFLVDVSPSMFESKD----GEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVL----- 71 (218)
T ss_pred CcEEEEEEeCCHHHcCCCC----CCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEe-----
Confidence 7999999999999994321 2347999999999999999999999999999999999999998899999999
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
+|+..|+++.++.|.++++.......... ......+|.+|||+|.++|..+++++.+||||||||+++|+++
T Consensus 72 ~~l~~~~~~~l~~l~~~~~~~~~~~~~~~---~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~----- 143 (218)
T cd01458 72 LDLDTPGAERVEDLKELIEPGGLSFAGQV---GDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGG----- 143 (218)
T ss_pred ecCCCCCHHHHHHHHHHhhcchhhhcccC---CCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCC-----
Confidence 99999999999999988754211111011 1245789999999999999986678899999999999999976
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccCCc---cccccCCCccccHHHHHHHHHh
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLEGD---DLALFMPSAGQKLEDMKDQLRK 258 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~~~---~~~~~~~~~~~~~~~L~~~i~~ 258 (623)
+.....++..+|++|.+.||.|++++|+.++..|+.++||++++....+ +...........+++|...++.
T Consensus 144 ~~~~~~~~~~~a~~l~~~gI~i~~i~i~~~~~~f~~~~fy~~i~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 217 (218)
T cd01458 144 DSIKDSQAAVKAEDLKDKGIELELFPLSSPGKKFDVSKFYKDIIALVEDANEELLDEFTEPSKDLEDLLKRLRA 217 (218)
T ss_pred CHHHHHHHHHHHHHHHhCCcEEEEEecCCCCCCCChhHHHHHHhccccccccccccccCCcchhHHHHHHHHhc
Confidence 4455677788999999999999999999988789999999999976432 1111111112245677766654
No 13
>smart00559 Ku78 Ku70 and Ku80 are 70kDa and 80kDa subunits of the Lupus Ku autoantigen. This is a single stranded DNA- and ATP-depedent helicase that has a role in chromosome translocation. This is a domain of unknown function C-terminal to its von Willebrand factor A domain, that also occurs in bacterial hypothetical proteins.
Probab=100.00 E-value=2.9e-33 Score=258.56 Aligned_cols=132 Identities=40% Similarity=0.579 Sum_probs=123.4
Q ss_pred ccccccceeeEecCCeeeecCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHH
Q 006975 319 ALMQEPAKRFQPYKGENIKFSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSM 398 (623)
Q Consensus 319 ~~~~~~~~k~y~yG~~~V~~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am 398 (623)
++.+++++|||+|||++|+|+++|++.++..++++|+|+||+++++|+++|+++++|||+|++....||+++|+||++||
T Consensus 3 ~v~~~~~~kgy~yG~~~V~~~~ee~~~~k~~~~~~l~ilgF~~~~~i~~~~~~~~s~~i~P~~~~~~~s~~a~~aL~~am 82 (140)
T smart00559 3 EVKPEDIVKGYEYGGRYVPLSDEELEQLKYKSEPGLELLGFKPLSSLPPYYFLRPSYFLVPDDKSVIGSTKAFSALVEAL 82 (140)
T ss_pred ccChHHceEeeEeCCEEeccCHHHHHHhhccCCCeEEEEeecChHHCCHhHccCCcEEEeeCCcccchhHHHHHHHHHHH
Confidence 35568999999999999999999999999999999999999999999999999999999999988899999999999999
Q ss_pred HhcCcEEEEEe--cCCCCceEEEEEeehhhcccCCCCCCCcEEEEecCCccCCCCCccCC
Q 006975 399 LRLNRFAVAFY--GNPSNPRLVALVAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELH 456 (623)
Q Consensus 399 ~~~~kvaI~r~--r~~s~P~lvaL~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~ 456 (623)
.+++++||||| |.++.|+||||+|+.++.+ +.||++++|||+||||+++++.
T Consensus 83 ~~~~~~aiar~v~r~~~~p~l~aL~P~~~~~~------~~~l~~~~LpfaedvR~~~~~~ 136 (140)
T smart00559 83 LETDKIAIARYTLRTKSNPRLVALRPYDEEDD------GEGLVLVQLPFADDVRKLDFPE 136 (140)
T ss_pred HhcCCEEEEEEEEcCCCCCEEEEEEeeecccC------CCcEEEEecCCchhccCCCCcC
Confidence 99999999999 8889999999999987542 3699999999999999998764
No 14
>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=99.39 E-value=1.3e-13 Score=119.23 Aligned_cols=63 Identities=44% Similarity=0.687 Sum_probs=48.5
Q ss_pred CCCCCCCCChhHHHHHHHHHHhhcCcCCCCCCCCCCCCChhhhcc--ccchHHHHHHHHhhcCCCC
Q 006975 484 DFSVCQFANPSLQRHYAVLQALALEEDDMPEIKDETVPDEEGMAR--PGVVKAVEEFKLSVYGDNY 547 (623)
Q Consensus 484 ~y~p~~~~NP~lq~~y~~lea~Al~~~~~~~~~D~t~P~~~~i~~--~~~~~~i~~fk~~~~~~~~ 547 (623)
+|+|+.|+||+|||||++|+|+||+++.|+++.|.|+|++..|.+ |++ ..|++|++.+++..+
T Consensus 4 ~y~P~~~~NP~LQ~hY~~L~a~AL~~d~p~~~~D~t~p~~~~~~~~~~~~-~~i~~~k~~~~~~~~ 68 (96)
T PF03730_consen 4 SYDPDKFPNPSLQRHYKCLQALALDEDEPEPPEDQTLPDYEEIDKELRVG-EKIEEFKELFYLEDY 68 (96)
T ss_dssp S--CCCS--HHHHHHHHHHHHHHCTTTS------CCCHHHHCHHHHHHHC-CHHHHHHHHCS-CC-
T ss_pred CCCcCCcCCchHHHHHHHHHHHHcCCCCCCCcccccchhhhccCHHHHHH-HHHHHHHHHhchhhh
Confidence 399999999999999999999999999999999999999999999 888 789999999998777
No 15
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=98.88 E-value=2.3e-09 Score=74.33 Aligned_cols=35 Identities=46% Similarity=0.644 Sum_probs=32.5
Q ss_pred cccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhh
Q 006975 587 LKEMTVQELKLYLMAHNLSTTGRKETLISRILTHM 621 (623)
Q Consensus 587 l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l 621 (623)
+++|||++||++|+.+|++++|+|++||+||.+|+
T Consensus 1 l~~l~v~eLk~~l~~~gL~~~G~K~~Li~Rl~~~l 35 (35)
T PF02037_consen 1 LSKLTVAELKEELKERGLSTSGKKAELIERLKEHL 35 (35)
T ss_dssp TTTSHHHHHHHHHHHTTS-STSSHHHHHHHHHHHH
T ss_pred CCcCcHHHHHHHHHHCCCCCCCCHHHHHHHHHHhC
Confidence 57899999999999999999999999999999996
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=98.84 E-value=1.4e-07 Score=91.19 Aligned_cols=144 Identities=14% Similarity=0.118 Sum_probs=101.8
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
-||++++||+|.+|.... -..+.|+.+.+++..++.+++-.+|.+.||||.|+... .+++
T Consensus 3 ~ea~vi~lD~S~sM~a~D------~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~---------a~v~----- 62 (187)
T cd01452 3 LEATMICIDNSEYMRNGD------YPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNS---------PEVL----- 62 (187)
T ss_pred ceEEEEEEECCHHHHcCC------CCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCc---------eEEE-----
Confidence 489999999999997643 34689999999999999999999999999999999854 3555
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCC-CCCCCCccC
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNED-DPFGSIKGA 186 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d-~P~~~~~~~ 186 (623)
. +|+-+.-. +...+... . + ....++.+||-+|...|.+...+-..+||++|.-.+ ..+.
T Consensus 63 ~---plT~D~~~-~~~~L~~i--------~--~-~g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d~----- 122 (187)
T cd01452 63 V---TLTNDQGK-ILSKLHDV--------Q--P-KGKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEEDE----- 122 (187)
T ss_pred E---CCCCCHHH-HHHHHHhC--------C--C-CCcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCCH-----
Confidence 4 33333222 22222211 0 1 235689999999999997654444445866555543 3221
Q ss_pred cchhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 187 AKNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 187 ~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
.. +...++.|...||.+.++.++..
T Consensus 123 ---~~---i~~~~~~lkk~~I~v~vI~~G~~ 147 (187)
T cd01452 123 ---KD---LVKLAKRLKKNNVSVDIINFGEI 147 (187)
T ss_pred ---HH---HHHHHHHHHHcCCeEEEEEeCCC
Confidence 11 33466789999999999999865
No 17
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=98.65 E-value=4e-08 Score=68.24 Aligned_cols=35 Identities=40% Similarity=0.565 Sum_probs=33.1
Q ss_pred cccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhh
Q 006975 587 LKEMTVQELKLYLMAHNLSTTGRKETLISRILTHM 621 (623)
Q Consensus 587 l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l 621 (623)
+++|||++||++|+.+|++++|+|++||+||.+|+
T Consensus 1 ~~~l~~~~Lk~~l~~~gl~~~G~K~~Lv~Rl~~~~ 35 (35)
T smart00513 1 LAKLKVSELKDELKKRGLSTSGTKAELVDRLLEAL 35 (35)
T ss_pred CCcCcHHHHHHHHHHcCCCCCCCHHHHHHHHHHhC
Confidence 46899999999999999999999999999999986
No 18
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=98.55 E-value=1.8e-06 Score=83.75 Aligned_cols=140 Identities=14% Similarity=0.190 Sum_probs=91.6
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++|+||+|.||.... -..+.|+.|..++..+++++.-.++.|.||||.|+... .|++ +|
T Consensus 5 ~ivi~lD~S~SM~a~D------~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~---------a~~~-----~P 64 (183)
T cd01453 5 HLIIVIDCSRSMEEQD------LKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGR---------AEKL-----TD 64 (183)
T ss_pred EEEEEEECcHHHhcCC------CCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCc---------cEEE-----EC
Confidence 4789999999997643 24689999999999999998888899999999995433 3555 55
Q ss_pred CCCCChH-HHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEE-EEeCCCCCCCCCccCc
Q 006975 110 LDRPTAR-FIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRIL-LFTNEDDPFGSIKGAA 187 (623)
Q Consensus 110 l~~p~~~-~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~-l~Tn~d~P~~~~~~~~ 187 (623)
| .-+.+ .+..|..+ . +.....++.+||-.|.++|.... ....|+|+ |+|+..+ ..
T Consensus 65 l-T~D~~~~~~~L~~~-----------~---~~~G~t~l~~aL~~A~~~l~~~~-~~~~~~iiil~sd~~~-~~------ 121 (183)
T cd01453 65 L-TGNPRKHIQALKTA-----------R---ECSGEPSLQNGLEMALESLKHMP-SHGSREVLIIFSSLST-CD------ 121 (183)
T ss_pred C-CCCHHHHHHHhhcc-----------c---CCCCchhHHHHHHHHHHHHhcCC-ccCceEEEEEEcCCCc-CC------
Confidence 5 22222 22222211 0 11224689999999999997532 23345555 5554221 11
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..... ..++.+.+.||.|.++.++.
T Consensus 122 -~~~~~---~~~~~l~~~~I~v~~IgiG~ 146 (183)
T cd01453 122 -PGNIY---ETIDKLKKENIRVSVIGLSA 146 (183)
T ss_pred -hhhHH---HHHHHHHHcCcEEEEEEech
Confidence 11122 23556788999999999963
No 19
>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=98.53 E-value=6.4e-06 Score=79.83 Aligned_cols=179 Identities=15% Similarity=0.142 Sum_probs=109.3
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||... .+|..+...+..++++.-+..++..||||.|++... +. .++
T Consensus 3 v~~vlD~SgSm~~~----------~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~----------~~-----~~l 57 (186)
T cd01471 3 LYLLVDGSGSIGYS----------NWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAK----------EL-----IRL 57 (186)
T ss_pred EEEEEeCCCCccch----------hhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCce----------EE-----EEC
Confidence 68999999999432 258899999999998877777788999999997532 22 344
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC--CCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG--SSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~--~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
..........+.+++...... .+ .....++.+||..|.+.+... ...-..+.|+||||... ...
T Consensus 58 ~~~~~~~~~~~~~~i~~l~~~---~~----~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~-~~~------ 123 (186)
T cd01471 58 SSPNSTNKDLALNAIRALLSL---YY----PNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIP-DSK------ 123 (186)
T ss_pred CCccccchHHHHHHHHHHHhC---cC----CCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCC-CCC------
Confidence 443322222222233221110 01 123568999999999887652 23456689999999963 222
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccCCccccccCCCccccHHHHHHHHH
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLEGDDLALFMPSAGQKLEDMKDQLR 257 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~~~~~~~~~~~~~~~~~~L~~~i~ 257 (623)
.. +...++.|++.||.+.+++++. ..|.. +.+.|.....++... ........++|.+.|+
T Consensus 124 ~~----~~~~a~~l~~~gv~v~~igiG~---~~d~~-~l~~ia~~~~~~~~~-~~~~~~~~~~~~~~~~ 183 (186)
T cd01471 124 FR----TLKEARKLRERGVIIAVLGVGQ---GVNHE-ENRSLVGCDPDDSPC-PLYLQSSWSEVQNVIK 183 (186)
T ss_pred cc----hhHHHHHHHHCCCEEEEEEeeh---hhCHH-HHHHhcCCCCCCCCC-CeeecCCHHHHHHHhh
Confidence 11 2234557888999999999974 24544 666665543221101 0011246777766654
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=98.35 E-value=1.5e-05 Score=77.44 Aligned_cols=140 Identities=16% Similarity=0.185 Sum_probs=90.5
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhh------hhccCCCeEEEEEEecCCCCCCCCCCcEEEecc
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQ------IINRLYDEVAICFFNTRKKKNLQDLNAVFVFNV 104 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~k------Ii~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~ 104 (623)
++|+||.|.||.. +.|+.+...+..++.+. -+....+.||||.|++... +.
T Consensus 5 vv~vlD~S~Sm~~-----------~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~----------~~-- 61 (186)
T cd01480 5 ITFVLDSSESVGL-----------QNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQE----------VE-- 61 (186)
T ss_pred EEEEEeCCCccch-----------hhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCce----------ee--
Confidence 7899999999943 34888888888877776 3345679999999997632 23
Q ss_pred cccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCc
Q 006975 105 AEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIK 184 (623)
Q Consensus 105 ~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~ 184 (623)
.++... ......+.+.+... .+ ......+.+||..|.+++......-..|.|+||||.......
T Consensus 62 ---~~l~~~-~~~~~~l~~~i~~l------~~----~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~-- 125 (186)
T cd01480 62 ---AGFLRD-IRNYTSLKEAVDNL------EY----IGGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSP-- 125 (186)
T ss_pred ---Eecccc-cCCHHHHHHHHHhC------cc----CCCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCc--
Confidence 344321 12222333333221 11 012467999999999988764445678999999999752111
Q ss_pred cCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 185 GAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 185 ~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+ .... ..++.+++.||.|-.+.++.
T Consensus 126 ---~-~~~~---~~~~~~~~~gi~i~~vgig~ 150 (186)
T cd01480 126 ---D-GGIE---KAVNEADHLGIKIFFVAVGS 150 (186)
T ss_pred ---c-hhHH---HHHHHHHHCCCEEEEEecCc
Confidence 1 1122 23456789999999998864
No 21
>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=98.30 E-value=2.7e-05 Score=76.13 Aligned_cols=145 Identities=14% Similarity=0.147 Sum_probs=94.1
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHH-HHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFH-IAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~-~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
++|+||.|.||.. ..|. ..+..+..++++..++...+.||||.|++... +. .+
T Consensus 3 i~fllD~S~Si~~-----------~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~----------~~-----~~ 56 (192)
T cd01473 3 LTLILDESASIGY-----------SNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNR----------DV-----VP 56 (192)
T ss_pred EEEEEeCCCcccH-----------HHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCce----------eE-----Ee
Confidence 6899999999943 2366 47889999999999998999999999998652 22 34
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC--CCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS--SKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~--~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
|.......-..|.+.+..... .+.. .....+.+||-.+.+.|.... ..-..|-++||||..+....
T Consensus 57 ~~~~~~~~~~~l~~~i~~l~~----~~~~---~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~----- 124 (192)
T cd01473 57 FSDEERYDKNELLKKINDLKN----SYRS---GGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSAS----- 124 (192)
T ss_pred cCcccccCHHHHHHHHHHHHh----ccCC---CCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcc-----
Confidence 443322222222222221110 1111 224568999998888775432 23347889999999754322
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
.. .+...|+.|++.||.+-.++|+..
T Consensus 125 -~~---~~~~~a~~lk~~gV~i~~vGiG~~ 150 (192)
T cd01473 125 -KK---ELQDISLLYKEENVKLLVVGVGAA 150 (192)
T ss_pred -hh---hHHHHHHHHHHCCCEEEEEEeccc
Confidence 11 123356689999999999999763
No 22
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.23 E-value=6.4e-05 Score=71.31 Aligned_cols=149 Identities=14% Similarity=0.147 Sum_probs=90.1
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||... .++.+..++..++.+. .+.|.|||+.|+++.. ++ .++
T Consensus 3 ~~~vlD~S~SM~~~-----------~~~~~k~a~~~~~~~l---~~~~~v~li~f~~~~~----------~~-----~~~ 53 (170)
T cd01465 3 LVFVIDRSGSMDGP-----------KLPLVKSALKLLVDQL---RPDDRLAIVTYDGAAE----------TV-----LPA 53 (170)
T ss_pred EEEEEECCCCCCCh-----------hHHHHHHHHHHHHHhC---CCCCEEEEEEecCCcc----------EE-----ecC
Confidence 78999999999531 2777777666665532 4679999999998532 22 232
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcchh
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKND 190 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~ 190 (623)
... ...+.|.+.+... . .....++..+|..+...+.........++||||||...-.+.. +
T Consensus 54 ~~~--~~~~~l~~~l~~~--------~---~~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~----~-- 114 (170)
T cd01465 54 TPV--RDKAAILAAIDRL--------T---AGGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGET----D-- 114 (170)
T ss_pred ccc--chHHHHHHHHHcC--------C---CCCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCC----C--
Confidence 211 1113333333321 0 1224578999999888876533223348899999997443321 1
Q ss_pred hHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcc
Q 006975 191 MTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIG 232 (623)
Q Consensus 191 ~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~ 232 (623)
...+.+.++.++..+|.|.++.++. ..+.. +++.+..
T Consensus 115 -~~~~~~~~~~~~~~~v~i~~i~~g~---~~~~~-~l~~ia~ 151 (170)
T cd01465 115 -PDELARLVAQKRESGITLSTLGFGD---NYNED-LMEAIAD 151 (170)
T ss_pred -HHHHHHHHHHhhcCCeEEEEEEeCC---CcCHH-HHHHHHh
Confidence 1223334456778899999999973 24433 5565554
No 23
>PRK13685 hypothetical protein; Provisional
Probab=98.22 E-value=3.9e-05 Score=81.31 Aligned_cols=145 Identities=14% Similarity=0.175 Sum_probs=94.9
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAERE 108 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~ 108 (623)
-.++|+||+|.||.... ...+.++.|.+++..++.+. .+.|.||+|.|+++. +++ +
T Consensus 89 ~~vvlvlD~S~SM~~~D------~~p~RL~~ak~~~~~~l~~l---~~~d~vglv~Fa~~a----------~~~-----~ 144 (326)
T PRK13685 89 AVVMLVIDVSQSMRATD------VEPNRLAAAQEAAKQFADEL---TPGINLGLIAFAGTA----------TVL-----V 144 (326)
T ss_pred ceEEEEEECCccccCCC------CCCCHHHHHHHHHHHHHHhC---CCCCeEEEEEEcCce----------eec-----C
Confidence 46899999999997643 23578999999999998763 468999999999853 344 4
Q ss_pred cCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC------CCCCCcEEEEEeCCCCCCCC
Q 006975 109 QLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS------SKTADKRILLFTNEDDPFGS 182 (623)
Q Consensus 109 ~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~------~~~~~krI~l~Tn~d~P~~~ 182 (623)
++. .+...+...++... + ....++.+++..|.+.+.... .....++|+||||+.+..+.
T Consensus 145 p~t----~d~~~l~~~l~~l~----------~-~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~ 209 (326)
T PRK13685 145 SPT----TNREATKNAIDKLQ----------L-ADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPT 209 (326)
T ss_pred CCC----CCHHHHHHHHHhCC----------C-CCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCC
Confidence 432 23333444443311 1 123457899999998886321 12346889999998765432
Q ss_pred CccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 183 IKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 183 ~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
... +.. .....++.+.+.||.|..++++.+
T Consensus 210 ~~~--~~~---~~~~aa~~a~~~gi~i~~Ig~G~~ 239 (326)
T PRK13685 210 NPD--NPR---GAYTAARTAKDQGVPISTISFGTP 239 (326)
T ss_pred CCC--Ccc---cHHHHHHHHHHcCCeEEEEEECCC
Confidence 100 011 112234567788999999999875
No 24
>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=98.21 E-value=5.9e-05 Score=69.52 Aligned_cols=139 Identities=18% Similarity=0.228 Sum_probs=94.3
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
.++|+||+|.||. .+.+..+...+..++.......+.+.+||+.|++.. .++ .+
T Consensus 2 ~v~~viD~S~Sm~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~----------~~~-----~~ 55 (161)
T cd00198 2 DIVFLLDVSGSMG-----------GEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNA----------RVV-----LP 55 (161)
T ss_pred cEEEEEeCCCCcC-----------cchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCcc----------cee-----ec
Confidence 4789999999991 246899999999999988888899999999999832 122 22
Q ss_pred CCC-CChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 110 LDR-PTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 110 l~~-p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
+.. .+.+.+ .+.+... .. ......++..+|..+.+.+.........+.|++|||.......
T Consensus 56 ~~~~~~~~~~---~~~~~~~------~~---~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~------ 117 (161)
T cd00198 56 LTTDTDKADL---LEAIDAL------KK---GLGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGP------ 117 (161)
T ss_pred ccccCCHHHH---HHHHHhc------cc---CCCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCc------
Confidence 222 133332 2323221 00 1234678999999999999664446678899999998643322
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..... ..+.+...+|.+..+.++.
T Consensus 118 -~~~~~---~~~~~~~~~v~v~~v~~g~ 141 (161)
T cd00198 118 -ELLAE---AARELRKLGITVYTIGIGD 141 (161)
T ss_pred -chhHH---HHHHHHHcCCEEEEEEcCC
Confidence 11222 3345677799999999975
No 25
>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=98.20 E-value=0.00014 Score=69.73 Aligned_cols=152 Identities=16% Similarity=0.080 Sum_probs=91.1
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
+++|+||+|.||... +.++.|.+++..++.. +..+.|.+||+.|++.... ..++..+. ..+
T Consensus 2 ~v~~llD~SgSM~~~----------~kl~~ak~a~~~l~~~--l~~~~d~~~l~~F~~~~~~----~~~~~~~~---~~~ 62 (174)
T cd01454 2 AVTLLLDLSGSMRSD----------RRIDVAKKAAVLLAEA--LEACGVPHAILGFTTDAGG----RERVRWIK---IKD 62 (174)
T ss_pred EEEEEEECCCCCCCC----------cHHHHHHHHHHHHHHH--HHHcCCcEEEEEecCCCCC----ccceEEEE---ecC
Confidence 588999999999532 4688888888876554 2337899999999997410 11222220 012
Q ss_pred CCCCChHHH-HHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 110 LDRPTARFI-KEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 110 l~~p~~~~i-k~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
++......+ ..|..+. .....++.+||+.+.+.+... ....|.||||||..........+ +
T Consensus 63 ~~~~~~~~~~~~l~~~~---------------~~g~T~~~~al~~a~~~l~~~--~~~~~~iiliTDG~~~~~~~~~~-~ 124 (174)
T cd01454 63 FDESLHERARKRLAALS---------------PGGNTRDGAAIRHAAERLLAR--PEKRKILLVISDGEPNDLDYYEG-N 124 (174)
T ss_pred cccccchhHHHHHHccC---------------CCCCCcHHHHHHHHHHHHhcC--CCcCcEEEEEeCCCcCcccccCc-c
Confidence 222111111 1121111 122468999999999999653 33467899999997543221000 1
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPPD 218 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~ 218 (623)
......+...+..+...||.+..++++...
T Consensus 125 ~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 125 VFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred hhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 112333444466788899999999997644
No 26
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.17 E-value=4.5e-05 Score=72.26 Aligned_cols=135 Identities=15% Similarity=0.139 Sum_probs=86.5
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||-. ..|..+.+++..++.+..+....+.+|||.|+++. .+. .++
T Consensus 3 vv~vlD~SgSm~~-----------~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~----------~~~-----~~~ 56 (164)
T cd01472 3 IVFLVDGSESIGL-----------SNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDP----------RTE-----FYL 56 (164)
T ss_pred EEEEEeCCCCCCH-----------HHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCce----------eEE-----Eec
Confidence 6899999999943 35888888888888876655678999999999753 122 333
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC---CCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG---SSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~---~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
... .....+.+.+... .+ .....++.+||..|.+++... ...-..+.|+||||...+ ..
T Consensus 57 ~~~--~~~~~~~~~l~~l------~~----~~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~-~~----- 118 (164)
T cd01472 57 NTY--RSKDDVLEAVKNL------RY----IGGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQ-DD----- 118 (164)
T ss_pred CCC--CCHHHHHHHHHhC------cC----CCCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCC-ch-----
Confidence 321 1222222222211 11 122357999999999988652 233456779999999532 11
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
... .+..+.+.||.+..+.++.
T Consensus 119 ----~~~---~~~~l~~~gv~i~~ig~g~ 140 (164)
T cd01472 119 ----VEE---PAVELKQAGIEVFAVGVKN 140 (164)
T ss_pred ----HHH---HHHHHHHCCCEEEEEECCc
Confidence 111 2335677899988888864
No 27
>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=98.16 E-value=8.7e-05 Score=72.55 Aligned_cols=140 Identities=16% Similarity=0.199 Sum_probs=89.8
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhc------cCCCeEEEEEEecCCCCCCCCCCcEEEec
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIIN------RLYDEVAICFFNTRKKKNLQDLNAVFVFN 103 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~------~~~D~vgivl~gt~~t~n~~~~~~i~~l~ 103 (623)
=++|+||.|.||.. ..|+.+...+..++...-+. ...+.||||.|++.. ++.
T Consensus 21 DivfvlD~S~Sm~~-----------~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a----------~~~- 78 (193)
T cd01477 21 DIVFVVDNSKGMTQ-----------GGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNA----------TVV- 78 (193)
T ss_pred eEEEEEeCCCCcch-----------hhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCce----------EEE-
Confidence 37999999999942 24899988888877766553 235899999999964 344
Q ss_pred ccccccCCCC-ChHHH-HHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC--C-CCCCCcEEEEEeCCCC
Q 006975 104 VAEREQLDRP-TARFI-KEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG--S-SKTADKRILLFTNEDD 178 (623)
Q Consensus 104 ~~~~~~l~~p-~~~~i-k~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~--~-~~~~~krI~l~Tn~d~ 178 (623)
.+|... +...+ ..|+..+.. +. ......+..||-.|.++|... . ..-..|-|+||||+..
T Consensus 79 ----~~L~d~~~~~~~~~ai~~~~~~--------~~---~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~ 143 (193)
T cd01477 79 ----ADLNDLQSFDDLYSQIQGSLTD--------VS---STNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYN 143 (193)
T ss_pred ----EecccccCHHHHHHHHHHHhhc--------cc---cCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCcc
Confidence 555432 33332 223321111 00 112456899999999999743 2 2334566999998743
Q ss_pred CCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 179 PFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 179 P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..... +. ...|+.|++.||.|..+.|+.
T Consensus 144 ~~~~~----~~------~~~a~~l~~~GI~i~tVGiG~ 171 (193)
T cd01477 144 DEGSN----DP------RPIAARLKSTGIAIITVAFTQ 171 (193)
T ss_pred CCCCC----CH------HHHHHHHHHCCCEEEEEEeCC
Confidence 32210 11 124667899999999999975
No 28
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.14 E-value=7.9e-05 Score=71.77 Aligned_cols=152 Identities=17% Similarity=0.193 Sum_probs=91.2
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||... +.++.+..++..+++.. ..+.|.+|||.|++... .+. .++
T Consensus 3 v~lvlD~SgSM~~~----------~rl~~ak~a~~~~~~~~--~~~~d~v~lv~F~~~~~---------~~~-----~~~ 56 (178)
T cd01451 3 VIFVVDASGSMAAR----------HRMAAAKGAVLSLLRDA--YQRRDKVALIAFRGTEA---------EVL-----LPP 56 (178)
T ss_pred EEEEEECCccCCCc----------cHHHHHHHHHHHHHHHh--hcCCCEEEEEEECCCCc---------eEE-----eCC
Confidence 78999999999542 35888888888877542 24789999999986421 222 222
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhc-CCCCCCCcEEEEEeCCCCCCCCCccCcch
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRK-GSSKTADKRILLFTNEDDPFGSIKGAAKN 189 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~-~~~~~~~krI~l~Tn~d~P~~~~~~~~d~ 189 (623)
. .....+...+... +.....++.++|..+.+.+.. ....-..+.||||||.....+. +.
T Consensus 57 t----~~~~~~~~~l~~l-----------~~~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~-----~~ 116 (178)
T cd01451 57 T----RSVELAKRRLARL-----------PTGGGTPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGP-----DP 116 (178)
T ss_pred C----CCHHHHHHHHHhC-----------CCCCCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCC-----Cc
Confidence 2 1222232323221 112346899999999998832 2222235899999999755433 11
Q ss_pred hhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcc
Q 006975 190 DMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIG 232 (623)
Q Consensus 190 ~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~ 232 (623)
. .......++.+.+.||.+.++.+... .++.. +.+.|-.
T Consensus 117 ~-~~~~~~~~~~l~~~gi~v~~I~~~~~--~~~~~-~l~~iA~ 155 (178)
T cd01451 117 T-ADRALAAARKLRARGISALVIDTEGR--PVRRG-LAKDLAR 155 (178)
T ss_pred h-hHHHHHHHHHHHhcCCcEEEEeCCCC--ccCcc-HHHHHHH
Confidence 1 01113455678899999887766532 12332 4555543
No 29
>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=98.14 E-value=4.9e-05 Score=72.15 Aligned_cols=135 Identities=14% Similarity=0.152 Sum_probs=87.4
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||.|.||.. ..|..+...+..++++.-+..+.+.||||.|+++.. +. .++
T Consensus 3 v~~vlD~S~Sm~~-----------~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~----------~~-----~~l 56 (164)
T cd01482 3 IVFLVDGSWSIGR-----------SNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPR----------TE-----FDL 56 (164)
T ss_pred EEEEEeCCCCcCh-----------hhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCee----------EE-----Eec
Confidence 7899999999943 248999999999999876666899999999999742 22 233
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHH-HHhcC--CCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQG-LLRKG--SSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~-~f~~~--~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
... .....+.+.+.. + .+ .....++..||..+.. +|... ...-..|.|+||||.. |..
T Consensus 57 ~~~--~~~~~l~~~l~~----~--~~----~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~-~~~------ 117 (164)
T cd01482 57 NAY--TSKEDVLAAIKN----L--PY----KGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGK-SQD------ 117 (164)
T ss_pred CCC--CCHHHHHHHHHh----C--cC----CCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCC-CCc------
Confidence 221 122222222221 1 11 1224579999987775 55532 1344567799999885 221
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+ . ...|..|++.||.|..++++.
T Consensus 118 ~---~---~~~a~~lk~~gi~i~~ig~g~ 140 (164)
T cd01482 118 D---V---ELPARVLRNLGVNVFAVGVKD 140 (164)
T ss_pred h---H---HHHHHHHHHCCCEEEEEecCc
Confidence 1 1 224567888999999998854
No 30
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.12 E-value=6.8e-05 Score=70.63 Aligned_cols=148 Identities=20% Similarity=0.266 Sum_probs=93.5
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
|+||||.|.||.... ...+.+..+...+..++.+. +.|.|||+.|+... ++. .++
T Consensus 2 vv~v~D~SgSM~~~~------~~~~~~~~~~~~~~~~~~~~----~~~~v~l~~f~~~~----------~~~-----~~~ 56 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYD------GNRTRIDQAKDALNELLANL----PGDRVGLVSFSDSS----------RTL-----SPL 56 (172)
T ss_dssp EEEEEE-SGGGGTTT------SSS-HHHHHHHHHHHHHHHH----TTSEEEEEEESTSC----------EEE-----EEE
T ss_pred EEEEEECCcccCCCC------CCCcHHHHHHHHHHHHHHHC----CCCEEEEEEecccc----------ccc-----ccc
Confidence 789999999997652 23678999999998888873 78899999999842 334 444
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcchh
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKND 190 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~ 190 (623)
. .+...++ +.+..... ... .....++.+||..|.++|.... ...+.||||||...- . +
T Consensus 57 t-~~~~~~~---~~l~~~~~----~~~---~~~~t~~~~al~~a~~~~~~~~--~~~~~iv~iTDG~~~-~--------~ 114 (172)
T PF13519_consen 57 T-SDKDELK---NALNKLSP----QGM---PGGGTNLYDALQEAAKMLASSD--NRRRAIVLITDGEDN-S--------S 114 (172)
T ss_dssp E-SSHHHHH---HHHHTHHH----HG-----SSS--HHHHHHHHHHHHHC-S--SEEEEEEEEES-TTH-C--------H
T ss_pred c-ccHHHHH---HHhhcccc----ccc---CccCCcHHHHHHHHHHHHHhCC--CCceEEEEecCCCCC-c--------c
Confidence 3 3444432 22222111 011 1345789999999999997642 567899999997322 1 1
Q ss_pred hHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcc
Q 006975 191 MTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIG 232 (623)
Q Consensus 191 ~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~ 232 (623)
.. +.++.+...||.+.++.++.+.. ...+++.+..
T Consensus 115 ~~----~~~~~~~~~~i~i~~v~~~~~~~---~~~~l~~la~ 149 (172)
T PF13519_consen 115 DI----EAAKALKQQGITIYTVGIGSDSD---ANEFLQRLAE 149 (172)
T ss_dssp HH----HHHHHHHCTTEEEEEEEES-TT----EHHHHHHHHH
T ss_pred hh----HHHHHHHHcCCeEEEEEECCCcc---HHHHHHHHHH
Confidence 11 25567889999999999976442 2235666654
No 31
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.10 E-value=0.0001 Score=71.49 Aligned_cols=135 Identities=14% Similarity=0.132 Sum_probs=80.8
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++|+||+|.||... +..+++.+..++++.+ ++.+.||||.|+++. .+. .+
T Consensus 6 Dvv~llD~SgSm~~~------------~~~~~~~~~~l~~~~~--~~~~rvglv~Fs~~~----------~~~-----~~ 56 (185)
T cd01474 6 DLYFVLDKSGSVAAN------------WIEIYDFVEQLVDRFN--SPGLRFSFITFSTRA----------TKI-----LP 56 (185)
T ss_pred eEEEEEeCcCchhhh------------HHHHHHHHHHHHHHcC--CCCcEEEEEEecCCc----------eEE-----Ee
Confidence 378999999999532 3444566777776543 477999999999863 223 44
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhc--CCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRK--GSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~--~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
|........+.|+.+.. + . ......+.+||..|.+.+.. .......+.|+||||........
T Consensus 57 l~~~~~~~~~~l~~l~~-----~---~----~~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~---- 120 (185)
T cd01474 57 LTDDSSAIIKGLEVLKK-----V---T----PSGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGH---- 120 (185)
T ss_pred ccccHHHHHHHHHHHhc-----c---C----CCCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCC----
Confidence 44333222222322211 0 0 12246799999999876532 11222348899999997521110
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPL 214 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i 214 (623)
.. ....|+.+++.||.|..+.+
T Consensus 121 -~~----~~~~a~~l~~~gv~i~~vgv 142 (185)
T cd01474 121 -KY----PEHEAKLSRKLGAIVYCVGV 142 (185)
T ss_pred -cc----hHHHHHHHHHcCCEEEEEee
Confidence 01 12234577889998888877
No 32
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.08 E-value=0.00018 Score=69.10 Aligned_cols=140 Identities=17% Similarity=0.268 Sum_probs=85.1
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++||||+|.||..... ...+.+..|..++..++.. .+.|.|||+.|++.. .++ .+
T Consensus 4 ~vv~vlD~S~SM~~~~~-----~~~~r~~~a~~~~~~~~~~----~~~~~v~lv~f~~~~----------~~~-----~~ 59 (180)
T cd01467 4 DIMIALDVSGSMLAQDF-----VKPSRLEAAKEVLSDFIDR----RENDRIGLVVFAGAA----------FTQ-----AP 59 (180)
T ss_pred eEEEEEECCcccccccC-----CCCCHHHHHHHHHHHHHHh----CCCCeEEEEEEcCCe----------eec-----cC
Confidence 37899999999965432 1346777777776665543 478999999997743 233 33
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcch
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKN 189 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~ 189 (623)
+. .+...++ +++..... . ......++..+|..+.++|.... ...+.|+||||.....+. .
T Consensus 60 ~~-~~~~~~~---~~l~~l~~----~----~~~g~T~l~~al~~a~~~l~~~~--~~~~~iiliTDG~~~~g~------~ 119 (180)
T cd01467 60 LT-LDRESLK---ELLEDIKI----G----LAGQGTAIGDAIGLAIKRLKNSE--AKERVIVLLTDGENNAGE------I 119 (180)
T ss_pred CC-ccHHHHH---HHHHHhhh----c----ccCCCCcHHHHHHHHHHHHHhcC--CCCCEEEEEeCCCCCCCC------C
Confidence 32 2333332 22222110 0 01224579999999999996532 235789999998643222 1
Q ss_pred hhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 190 DMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 190 ~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
. ...+ ++.+.+.||.|..+.++.+
T Consensus 120 ~-~~~~---~~~~~~~gi~i~~i~ig~~ 143 (180)
T cd01467 120 D-PATA---AELAKNKGVRIYTIGVGKS 143 (180)
T ss_pred C-HHHH---HHHHHHCCCEEEEEEecCC
Confidence 1 1122 2244578999999999863
No 33
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.07 E-value=0.00015 Score=71.62 Aligned_cols=159 Identities=14% Similarity=0.107 Sum_probs=91.6
Q ss_pred cceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccc
Q 006975 27 TKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAE 106 (623)
Q Consensus 27 ~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~ 106 (623)
..--++|+||+|.||.... ..+.+.++.+..++..++.. ..+.|.|||+.|++..+.. ..+.-+... -+.
T Consensus 19 ~~~~vv~vlD~SgSM~~~~-----~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~-~~~~~~~p~-~~~ 88 (206)
T cd01456 19 LPPNVAIVLDNSGSMREVD-----GGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNP-LDVRVLVPK-GCL 88 (206)
T ss_pred CCCcEEEEEeCCCCCcCCC-----CCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCC-ccccccccc-ccc
Confidence 3456999999999997521 13457899999999998875 3568999999999965321 112111101 000
Q ss_pred cccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccC
Q 006975 107 REQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGA 186 (623)
Q Consensus 107 ~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~ 186 (623)
+.++..........|.+.+.... + .....++.++|..|.+++. .-..+.|+||||.......
T Consensus 89 ~~~~~~~~~~~~~~l~~~i~~i~------~----~~G~T~l~~aL~~a~~~l~----~~~~~~iillTDG~~~~~~---- 150 (206)
T cd01456 89 TAPVNGFPSAQRSALDAALNSLQ------T----PTGWTPLAAALAEAAAYVD----PGRVNVVVLITDGEDTCGP---- 150 (206)
T ss_pred ccccCCCCcccHHHHHHHHHhhc------C----CCCcChHHHHHHHHHHHhC----CCCcceEEEEcCCCccCCC----
Confidence 01111110023344444443311 0 1235689999999999985 1123899999999754432
Q ss_pred cchhhHHHHHHHHHHh-HhcCceEEEeeCCC
Q 006975 187 AKNDMTRTTMQRAKDA-QDLGISIELLPLSP 216 (623)
Q Consensus 187 ~d~~~~~~~~~~a~dL-~~~gI~i~l~~i~~ 216 (623)
+. ...+...++.. ...+|.|.++.++.
T Consensus 151 -~~--~~~~~~~~~~~~~~~~i~i~~igiG~ 178 (206)
T cd01456 151 -DP--CEVARELAKRRTPAPPIKVNVIDFGG 178 (206)
T ss_pred -CH--HHHHHHHHHhcCCCCCceEEEEEecC
Confidence 11 12222211110 11489999998875
No 34
>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=98.06 E-value=0.00011 Score=70.78 Aligned_cols=137 Identities=15% Similarity=0.164 Sum_probs=90.1
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||.|.||.. ..|+.++.++..++.+.-+..+.+.||||.|++..+ +. .+|
T Consensus 3 i~fvlD~S~S~~~-----------~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~----------~~-----~~l 56 (177)
T cd01469 3 IVFVLDGSGSIYP-----------DDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFR----------TE-----FTL 56 (177)
T ss_pred EEEEEeCCCCCCH-----------HHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCcee----------EE-----Eec
Confidence 6899999999942 359999999999999988888899999999998632 22 233
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHH-hc--CCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLL-RK--GSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f-~~--~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
... .....+.+.+.. +. .. .....+..||..|.+++ .. ..+....|-++||||....-..
T Consensus 57 ~~~--~~~~~~~~~i~~----~~-~~-----~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~----- 119 (177)
T cd01469 57 NEY--RTKEEPLSLVKH----IS-QL-----LGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDP----- 119 (177)
T ss_pred Ccc--CCHHHHHHHHHh----Cc-cC-----CCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCcc-----
Confidence 321 111222222221 10 01 11367899999998875 32 2244567889999998644221
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
. ... .++.+++.||.+-.++++.
T Consensus 120 ~---~~~---~~~~~k~~gv~v~~Vgvg~ 142 (177)
T cd01469 120 L---LKD---VIPQAEREGIIRYAIGVGG 142 (177)
T ss_pred c---cHH---HHHHHHHCCcEEEEEEecc
Confidence 1 122 2335778999999999864
No 35
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=98.04 E-value=0.00011 Score=72.01 Aligned_cols=146 Identities=14% Similarity=0.123 Sum_probs=85.1
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++||||+|.||.. +.|+.+..++..++.+.-...+.|.+|||.|+++.. ++ .++
T Consensus 3 i~~vlD~SgSM~~-----------~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~----------~~-----~~~ 56 (198)
T cd01470 3 IYIALDASDSIGE-----------EDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPK----------EI-----VSI 56 (198)
T ss_pred EEEEEECCCCccH-----------HHHHHHHHHHHHHHHHccccCCCceEEEEEecCCce----------EE-----Eec
Confidence 7899999999942 359999999999988865555689999999999742 22 334
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC------CCCCCcEEEEEeCCCCCCCCCc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS------SKTADKRILLFTNEDDPFGSIK 184 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~------~~~~~krI~l~Tn~d~P~~~~~ 184 (623)
..+.......+...+... .+.........++..||-.+.+++.... .....+.|+||||...-.+.
T Consensus 57 ~~~~~~~~~~~~~~l~~~------~~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~-- 128 (198)
T cd01470 57 RDFNSNDADDVIKRLEDF------NYDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGG-- 128 (198)
T ss_pred ccCCCCCHHHHHHHHHhC------CcccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCC--
Confidence 333222222222222221 1110000123578899988877663211 12345679999998643222
Q ss_pred cCcchhhHHHHHHHHHHh----------HhcCceEEEeeCCC
Q 006975 185 GAAKNDMTRTTMQRAKDA----------QDLGISIELLPLSP 216 (623)
Q Consensus 185 ~~~d~~~~~~~~~~a~dL----------~~~gI~i~l~~i~~ 216 (623)
+.. .+...++.+ ++.||.|..+.++.
T Consensus 129 ---~~~---~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~ 164 (198)
T cd01470 129 ---SPL---PTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD 164 (198)
T ss_pred ---Chh---HHHHHHHHHHhcccccccchhcceeEEEEecCc
Confidence 111 111222222 45588888888864
No 36
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=98.04 E-value=0.00013 Score=68.04 Aligned_cols=138 Identities=17% Similarity=0.163 Sum_probs=91.0
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||.. .+|..+...+..++.......+.+.+||+.|++... .. .++
T Consensus 3 i~~llD~S~Sm~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~----------~~-----~~~ 56 (161)
T cd01450 3 IVFLLDGSESVGP-----------ENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVR----------VE-----FSL 56 (161)
T ss_pred EEEEEeCCCCcCH-----------HHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCce----------EE-----EEC
Confidence 6799999999942 258888888999988888888899999999999531 12 222
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC--CCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS--SKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~--~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
.... ...++.+.+..... .. ....++.+||..+.+++.... .....+.|+||||.......
T Consensus 57 ~~~~--~~~~~~~~i~~~~~----~~-----~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~------ 119 (161)
T cd01450 57 NDYK--SKDDLLKAVKNLKY----LG-----GGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGG------ 119 (161)
T ss_pred CCCC--CHHHHHHHHHhccc----CC-----CCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCc------
Confidence 2221 12233333322110 11 125789999999999886543 34567789999998533221
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
.. ...++.+++.||.+..+.++.
T Consensus 120 --~~---~~~~~~~~~~~v~v~~i~~g~ 142 (161)
T cd01450 120 --DP---KEAAAKLKDEGIKVFVVGVGP 142 (161)
T ss_pred --ch---HHHHHHHHHCCCEEEEEeccc
Confidence 11 224456778899999998864
No 37
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=97.95 E-value=0.00037 Score=65.79 Aligned_cols=136 Identities=14% Similarity=0.107 Sum_probs=85.8
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||.. .|..++..+..++....+..+.+.||||.|+++. +..+. .++
T Consensus 3 v~~llD~S~Sm~~------------~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~--------~~~~~-----~~l 57 (163)
T cd01476 3 LLFVLDSSGSVRG------------KFEKYKKYIERIVEGLEIGPTATRVALITYSGRG--------RQRVR-----FNL 57 (163)
T ss_pred EEEEEeCCcchhh------------hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCC--------ceEEE-----ecC
Confidence 6899999999932 2778888888988877777778999999998863 23333 344
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC--CCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS--SKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~--~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
.... ....+...+.. + .+ .....++.+||-.+.+++.... +....+.|+|+||.... ..
T Consensus 58 ~~~~--~~~~l~~~i~~----l--~~----~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~-~~------ 118 (163)
T cd01476 58 PKHN--DGEELLEKVDN----L--RF----IGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSH-DD------ 118 (163)
T ss_pred CCCC--CHHHHHHHHHh----C--cc----CCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCC-Cc------
Confidence 3321 11222222222 1 11 1224689999999999986321 22334889999997532 11
Q ss_pred hhhHHHHHHHHHHhHh-cCceEEEeeCCC
Q 006975 189 NDMTRTTMQRAKDAQD-LGISIELLPLSP 216 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~-~gI~i~l~~i~~ 216 (623)
. . ..++.|+. .||.+..+.++.
T Consensus 119 ~---~---~~~~~l~~~~~v~v~~vg~g~ 141 (163)
T cd01476 119 P---E---KQARILRAVPNIETFAVGTGD 141 (163)
T ss_pred h---H---HHHHHHhhcCCCEEEEEECCC
Confidence 1 1 12335666 788887787764
No 38
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=97.94 E-value=0.00026 Score=66.57 Aligned_cols=131 Identities=19% Similarity=0.247 Sum_probs=84.4
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||.|.||-. ..|+.|..++..++... .+.|.+||+.|++... ++ .++
T Consensus 3 v~~vlD~S~SM~~-----------~rl~~ak~a~~~l~~~l---~~~~~~~li~F~~~~~----------~~-----~~~ 53 (155)
T cd01466 3 LVAVLDVSGSMAG-----------DKLQLVKHALRFVISSL---GDADRLSIVTFSTSAK----------RL-----SPL 53 (155)
T ss_pred EEEEEECCCCCCc-----------HHHHHHHHHHHHHHHhC---CCcceEEEEEecCCcc----------cc-----CCC
Confidence 6799999999932 15787777776555432 2578999999999632 23 455
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcchh
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKND 190 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~ 190 (623)
...+...-+.+.+++.... .....++..||..+.+++.........++|+|+||....... .
T Consensus 54 ~~~~~~~~~~~~~~i~~~~-----------~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~~~-------~ 115 (155)
T cd01466 54 RRMTAKGKRSAKRVVDGLQ-----------AGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNHGA-------V 115 (155)
T ss_pred cccCHHHHHHHHHHHHhcc-----------CCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCcch-------h
Confidence 4444444445555554310 123568999999999999654333456799999998632211 0
Q ss_pred hHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 191 MTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 191 ~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+....+.+|.+..+.++.
T Consensus 116 --------~~~~~~~~v~v~~igig~ 133 (155)
T cd01466 116 --------VLRADNAPIPIHTFGLGA 133 (155)
T ss_pred --------hhcccCCCceEEEEecCC
Confidence 011345689888888864
No 39
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.91 E-value=0.00015 Score=69.61 Aligned_cols=144 Identities=15% Similarity=0.165 Sum_probs=85.4
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhh---hccCCCeEEEEEEecCCCCCCCCCCcEEEecccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQI---INRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAE 106 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kI---i~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~ 106 (623)
-|+||||+|.||... .|..+.+++..++.... +..+.+.||||.|++... ++
T Consensus 5 ~v~~llD~SgSM~~~-----------~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~----------~~---- 59 (176)
T cd01464 5 PIYLLLDTSGSMAGE-----------PIEALNQGLQMLQSELRQDPYALESVEISVITFDSAAR----------VI---- 59 (176)
T ss_pred CEEEEEECCCCCCCh-----------HHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce----------Ee----
Confidence 378999999999432 36666666666655432 223688999999999532 22
Q ss_pred cccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC-------CCCCCcEEEEEeCCCCC
Q 006975 107 REQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS-------SKTADKRILLFTNEDDP 179 (623)
Q Consensus 107 ~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~-------~~~~~krI~l~Tn~d~P 179 (623)
.++.... +... ..+ ......++.+||..|.+++.... +....+.|+||||.. |
T Consensus 60 -~~l~~~~--------~~~~---~~l-------~~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~-~ 119 (176)
T cd01464 60 -VPLTPLE--------SFQP---PRL-------TASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGE-P 119 (176)
T ss_pred -cCCccHH--------hcCC---Ccc-------cCCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCC-C
Confidence 3332211 0000 000 01224689999999999986532 112346899999996 3
Q ss_pred CCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhc
Q 006975 180 FGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMI 231 (623)
Q Consensus 180 ~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~ 231 (623)
... ...+.+.++.+...++.|..|.++. .+|.. +.+.|.
T Consensus 120 ~~~---------~~~~~~~~~~~~~~~~~i~~igiG~---~~~~~-~L~~ia 158 (176)
T cd01464 120 TDD---------LTAAIERIKEARDSKGRIVACAVGP---KADLD-TLKQIT 158 (176)
T ss_pred Cch---------HHHHHHHHHhhcccCCcEEEEEecc---ccCHH-HHHHHH
Confidence 322 1122234455666689999999975 24443 444443
No 40
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=97.87 E-value=0.00062 Score=64.33 Aligned_cols=138 Identities=22% Similarity=0.204 Sum_probs=90.8
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++|+||+|.||. .+.+..+..++..+++......+++.|||+.|++... .. .+
T Consensus 3 ~v~l~vD~S~SM~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~----------~~-----~~ 56 (177)
T smart00327 3 DVVFLLDGSGSMG-----------PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDAT----------VL-----FP 56 (177)
T ss_pred cEEEEEeCCCccc-----------hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCce----------EE-----Ec
Confidence 3789999999995 1458999999999998888777899999999998431 11 12
Q ss_pred C-CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC---CCCCCcEEEEEeCCCCCCCCCcc
Q 006975 110 L-DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS---SKTADKRILLFTNEDDPFGSIKG 185 (623)
Q Consensus 110 l-~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~---~~~~~krI~l~Tn~d~P~~~~~~ 185 (623)
+ ...+... +.+.+.... .. .....++..+|..+...+.... +....+.|++|||.......
T Consensus 57 ~~~~~~~~~---~~~~i~~~~------~~---~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~~--- 121 (177)
T smart00327 57 LNDSRSKDA---LLEALASLS------YK---LGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDGG--- 121 (177)
T ss_pred ccccCCHHH---HHHHHHhcC------CC---CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCCc---
Confidence 2 1233333 333333210 00 1345789999999999986322 22236799999997644211
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
... ..++.+...+|.+..+.++.
T Consensus 122 -----~~~---~~~~~~~~~~i~i~~i~~~~ 144 (177)
T smart00327 122 -----DLL---KAAKELKRSGVKVFVVGVGN 144 (177)
T ss_pred -----cHH---HHHHHHHHCCCEEEEEEccC
Confidence 122 23446777889999998875
No 41
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.82 E-value=0.00049 Score=78.10 Aligned_cols=145 Identities=16% Similarity=0.149 Sum_probs=94.6
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
.-.++||||+|-||-. ..+..|..++..++.+. ..+.|.||||.|+.... .++
T Consensus 401 ~~~vvfvvD~SGSM~~-----------~rl~~aK~a~~~ll~~a--y~~rD~v~lI~F~g~~a---------~~~----- 453 (584)
T PRK13406 401 ETTTIFVVDASGSAAL-----------HRLAEAKGAVELLLAEA--YVRRDQVALVAFRGRGA---------ELL----- 453 (584)
T ss_pred CccEEEEEECCCCCcH-----------hHHHHHHHHHHHHHHhh--cCCCCEEEEEEECCCce---------eEE-----
Confidence 4679999999999932 25899999888887662 35789999999977542 344
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCc-cC
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIK-GA 186 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~-~~ 186 (623)
.+... +... +..-+.. .+.....+|.++|..|.+++.....+-..++|+|+||.....+... .+
T Consensus 454 lppT~-~~~~---~~~~L~~-----------l~~gGgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~ 518 (584)
T PRK13406 454 LPPTR-SLVR---AKRSLAG-----------LPGGGGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAG 518 (584)
T ss_pred cCCCc-CHHH---HHHHHhc-----------CCCCCCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCcccccc
Confidence 33222 2222 2222221 1223467899999999998876544445789999999986543210 00
Q ss_pred cchhhHHHHHHHHHHhHhcCceEEEeeCC
Q 006975 187 AKNDMTRTTMQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 187 ~d~~~~~~~~~~a~dL~~~gI~i~l~~i~ 215 (623)
.......+...|..+...||.+.++.+.
T Consensus 519 -~~~~~~~~~~~a~~~~~~gi~~~vId~g 546 (584)
T PRK13406 519 -RAQAEEDALAAARALRAAGLPALVIDTS 546 (584)
T ss_pred -ccchhhHHHHHHHHHHhcCCeEEEEecC
Confidence 0111233455677888999988887775
No 42
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=97.80 E-value=0.00061 Score=69.63 Aligned_cols=140 Identities=13% Similarity=0.287 Sum_probs=89.3
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-|+++||.|.||..... +...++ |+..+.+++. ....|.+|||.||++ ++++ +|
T Consensus 62 qIvlaID~S~SM~~~~~------~~~ale-ak~lIs~al~----~Le~g~vgVv~Fg~~----------~~~v-----~P 115 (266)
T cd01460 62 QILIAIDDSKSMSENNS------KKLALE-SLCLVSKALT----LLEVGQLGVCSFGED----------VQIL-----HP 115 (266)
T ss_pred eEEEEEecchhcccccc------cccHHH-HHHHHHHHHH----hCcCCcEEEEEeCCC----------ceEe-----CC
Confidence 49999999999987543 234455 4444444333 346799999999984 4666 77
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC--CCC--CCcEEEEEeCCCCCCCCCcc
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS--SKT--ADKRILLFTNEDDPFGSIKG 185 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~--~~~--~~krI~l~Tn~d~P~~~~~~ 185 (623)
|..+-.. +..-+++..+ .| +....++..+|-.|.++|.... ... ..+-|+|+||+..-...
T Consensus 116 lt~d~~~--~a~~~~l~~~------~f----~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e--- 180 (266)
T cd01460 116 FDEQFSS--QSGPRILNQF------TF----QQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSE--- 180 (266)
T ss_pred CCCCchh--hHHHHHhCcc------cC----CCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCc---
Confidence 7665322 2222222211 11 2345689999999999997542 122 23889999999742221
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
.... ..++.+.+.||.+..+.|+.+
T Consensus 181 ----~~~~---~~~r~a~e~~i~l~~I~ld~~ 205 (266)
T cd01460 181 ----GAQK---VRLREAREQNVFVVFIIIDNP 205 (266)
T ss_pred ----cHHH---HHHHHHHHcCCeEEEEEEcCC
Confidence 1112 225577889999999999886
No 43
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.78 E-value=0.0018 Score=60.40 Aligned_cols=134 Identities=15% Similarity=0.141 Sum_probs=78.2
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
.++||||+|.||... .+..|..++..++.... ...|.++||.|+++.. ...+
T Consensus 2 ~v~illD~SgSM~~~-----------k~~~a~~~~~~l~~~~~--~~~~~v~li~F~~~~~--------~~~~------- 53 (152)
T cd01462 2 PVILLVDQSGSMYGA-----------PEEVAKAVALALLRIAL--AENRDTYLILFDSEFQ--------TKIV------- 53 (152)
T ss_pred CEEEEEECCCCCCCC-----------HHHHHHHHHHHHHHHHH--HcCCcEEEEEeCCCce--------EEec-------
Confidence 378999999999531 35566665555554322 2678999999998721 1111
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcch
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKN 189 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~ 189 (623)
+....+..+.+.+.. . ......++..+|..+..++... ......|++|||...+... .
T Consensus 54 ---~~~~~~~~~~~~l~~--------~---~~~ggT~l~~al~~a~~~l~~~--~~~~~~ivliTDG~~~~~~------~ 111 (152)
T cd01462 54 ---DKTDDLEEPVEFLSG--------V---QLGGGTDINKALRYALELIERR--DPRKADIVLITDGYEGGVS------D 111 (152)
T ss_pred ---CCcccHHHHHHHHhc--------C---CCCCCcCHHHHHHHHHHHHHhc--CCCCceEEEECCCCCCCCC------H
Confidence 112222222221211 0 0123568999999999988653 2345799999999533222 1
Q ss_pred hhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 190 DMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 190 ~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
. +...+...+..++.|..+.++..
T Consensus 112 ~----~~~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 112 E----LLREVELKRSRVARFVALALGDH 135 (152)
T ss_pred H----HHHHHHHHHhcCcEEEEEEecCC
Confidence 1 11112233455799999999763
No 44
>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=97.77 E-value=0.00075 Score=65.68 Aligned_cols=117 Identities=23% Similarity=0.225 Sum_probs=73.3
Q ss_pred cceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEe-ccc
Q 006975 27 TKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVF-NVA 105 (623)
Q Consensus 27 ~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l-~~~ 105 (623)
..--++||||+|.||.. ..|+.|..++..++.+. .+.|.||||.|++.... +... +
T Consensus 12 ~p~~vv~llD~SgSM~~-----------~~l~~ak~~~~~ll~~l---~~~d~v~lv~F~~~~~~-------~~~~~~-- 68 (190)
T cd01463 12 SPKDIVILLDVSGSMTG-----------QRLHLAKQTVSSILDTL---SDNDFFNIITFSNEVNP-------VVPCFN-- 68 (190)
T ss_pred CCceEEEEEECCCCCCc-----------HHHHHHHHHHHHHHHhC---CCCCEEEEEEeCCCeeE-------Eeeecc--
Confidence 34568899999999942 35888888888887643 57899999999997431 1100 0
Q ss_pred ccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC-------CCCCCcEEEEEeCCCC
Q 006975 106 EREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS-------SKTADKRILLFTNEDD 178 (623)
Q Consensus 106 ~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~-------~~~~~krI~l~Tn~d~ 178 (623)
..+..++....+.+...+.... .....++..||..|.+++...+ .....+.|+||||...
T Consensus 69 --~~~~~~~~~~~~~~~~~l~~l~-----------~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~ 135 (190)
T cd01463 69 --DTLVQATTSNKKVLKEALDMLE-----------AKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVP 135 (190)
T ss_pred --cceEecCHHHHHHHHHHHhhCC-----------CCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCC
Confidence 0111223334444444332210 1223578899999988886511 1234578999999974
Q ss_pred C
Q 006975 179 P 179 (623)
Q Consensus 179 P 179 (623)
.
T Consensus 136 ~ 136 (190)
T cd01463 136 E 136 (190)
T ss_pred C
Confidence 3
No 45
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=97.76 E-value=0.00057 Score=79.92 Aligned_cols=134 Identities=17% Similarity=0.194 Sum_probs=90.5
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++|+||+|.||... ..+..+.+++..++.+.+ .+.|+||||.|++.. +++ ++
T Consensus 306 ~VVLVLDvSGSM~g~----------dRL~~lkqAA~~fL~~~l--~~~DrVGLVtFsssA----------~vl-----~p 358 (863)
T TIGR00868 306 IVCLVLDKSGSMTVE----------DRLKRMNQAAKLFLLQTV--EKGSWVGMVTFDSAA----------YIK-----NE 358 (863)
T ss_pred eEEEEEECCcccccc----------CHHHHHHHHHHHHHHHhC--CCCCEEEEEEECCce----------eEe-----ec
Confidence 388999999999432 246666666777766653 478999999999964 345 56
Q ss_pred CCCCC-hHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 110 LDRPT-ARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 110 l~~p~-~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
|...+ ....+.|...+.. . .....++.++|..|.+++.....+...+.|+|+||..+.. .
T Consensus 359 Lt~Its~~dr~aL~~~L~~-----------~-A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn~-~------ 419 (863)
T TIGR00868 359 LIQITSSAERDALTANLPT-----------A-ASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDNT-I------ 419 (863)
T ss_pred cccCCcHHHHHHHHHhhcc-----------c-cCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCCC-H------
Confidence 65543 3344444433321 0 1235789999999999998654445578999999986431 1
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..+ +..+.+.||.|..|.++.
T Consensus 420 ----~~~---l~~lk~~gVtI~TIg~G~ 440 (863)
T TIGR00868 420 ----SSC---FEEVKQSGAIIHTIALGP 440 (863)
T ss_pred ----HHH---HHHHHHcCCEEEEEEeCC
Confidence 122 235677899999999975
No 46
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.74 E-value=0.00096 Score=74.17 Aligned_cols=143 Identities=9% Similarity=0.150 Sum_probs=92.9
Q ss_pred cceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccc
Q 006975 27 TKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAE 106 (623)
Q Consensus 27 ~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~ 106 (623)
.+==++||||+|.||... .++..|...+..++...-++...-.||+++|.+... .+
T Consensus 41 ~~lDIvFLLD~SgSMg~~----------Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r----------~v---- 96 (576)
T PTZ00441 41 EEVDLYLLVDGSGSIGYH----------NWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTT----------EL---- 96 (576)
T ss_pred CCceEEEEEeCCCccCCc----------cHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCce----------EE----
Confidence 344589999999999532 234788899999999888877778888899988642 22
Q ss_pred cccCCCC---Ch-HHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC-CCCCCCcEEEEEeCCCCCCC
Q 006975 107 REQLDRP---TA-RFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG-SSKTADKRILLFTNEDDPFG 181 (623)
Q Consensus 107 ~~~l~~p---~~-~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~-~~~~~~krI~l~Tn~d~P~~ 181 (623)
.+|..- +. ..+..|..+.... + ......+..||-.+.+++... .+.-..|-||||||...- .
T Consensus 97 -fpL~s~~s~Dk~~aL~~I~sL~~~~-------~----pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sn-s 163 (576)
T PTZ00441 97 -IRLGSGASKDKEQALIIVKSLRKTY-------L----PYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPN-S 163 (576)
T ss_pred -EecCCCccccHHHHHHHHHHHHhhc-------c----CCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCC-C
Confidence 233222 21 2333444443321 0 112467899998887777542 234566899999999732 1
Q ss_pred CCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 182 SIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 182 ~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
. .+ ++..|+.|++.||.|.+|+|+.
T Consensus 164 ~------~d----vleaAq~LR~~GVeI~vIGVG~ 188 (576)
T PTZ00441 164 K------YR----ALEESRKLKDRNVKLAVIGIGQ 188 (576)
T ss_pred c------cc----HHHHHHHHHHCCCEEEEEEeCC
Confidence 1 11 2234557889999999999964
No 47
>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=97.64 E-value=0.0026 Score=60.12 Aligned_cols=147 Identities=18% Similarity=0.186 Sum_probs=89.2
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++|+||+|.||.. ..++.+..++..++.. -.+.|.++|+.|+++.. .+ .+
T Consensus 4 ~v~~vlD~S~SM~~-----------~~~~~~~~al~~~l~~---l~~~~~~~l~~Fs~~~~----------~~-----~~ 54 (171)
T cd01461 4 EVVFVIDTSGSMSG-----------TKIEQTKEALLTALKD---LPPGDYFNIIGFSDTVE----------EF-----SP 54 (171)
T ss_pred eEEEEEECCCCCCC-----------hhHHHHHHHHHHHHHh---CCCCCEEEEEEeCCCce----------ee-----cC
Confidence 47899999999952 2377777777666643 23568999999988642 11 11
Q ss_pred CC-CCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 110 LD-RPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 110 l~-~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
.. ..+...+..+.+.+... . + ....++..+|-.|.+.+.. .....+.|++|||... . +
T Consensus 55 ~~~~~~~~~~~~~~~~l~~~------~----~-~g~T~l~~al~~a~~~l~~--~~~~~~~iillTDG~~---~-----~ 113 (171)
T cd01461 55 SSVSATAENVAAAIEYVNRL------Q----A-LGGTNMNDALEAALELLNS--SPGSVPQIILLTDGEV---T-----N 113 (171)
T ss_pred cceeCCHHHHHHHHHHHHhc------C----C-CCCcCHHHHHHHHHHhhcc--CCCCccEEEEEeCCCC---C-----C
Confidence 11 22344454444443321 0 1 2246799999999888854 2335789999999972 1 1
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhccc
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGL 233 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~ 233 (623)
.. .+...++.+...+|.|..+.++. .++.. +.+.+...
T Consensus 114 ~~---~~~~~~~~~~~~~i~i~~i~~g~---~~~~~-~l~~ia~~ 151 (171)
T cd01461 114 ES---QILKNVREALSGRIRLFTFGIGS---DVNTY-LLERLARE 151 (171)
T ss_pred HH---HHHHHHHHhcCCCceEEEEEeCC---ccCHH-HHHHHHHc
Confidence 11 22334445555689888888864 24432 55666543
No 48
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=0.0018 Score=61.01 Aligned_cols=144 Identities=17% Similarity=0.222 Sum_probs=107.8
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
-|+++++||-|..|-... --.|.|++-..++..++++|+=.+|-..||++-.+-...
T Consensus 3 lEatvvliDNse~s~NgD------y~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p----------------- 59 (243)
T COG5148 3 LEATVVLIDNSEASQNGD------YLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQP----------------- 59 (243)
T ss_pred cceEEEEEeChhhhhcCC------CCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCc-----------------
Confidence 479999999998885432 236899999999999999999999999999997766543
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
+.|..|+.+.=+-|.-| .+ + +-....++..+|-.|+..|.+...+..+.||+.|-.. |...
T Consensus 60 ~vlsT~T~~~gkilt~l-hd----~-------~~~g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgS--pi~e----- 120 (243)
T COG5148 60 NVLSTPTKQRGKILTFL-HD----I-------RLHGGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGS--PIQE----- 120 (243)
T ss_pred chhccchhhhhHHHHHh-cc----c-------cccCcchHHHHHHHHHHHHhcccCCccceEEEEEecC--cccc-----
Confidence 33445566554433221 11 1 1134678999999999999887777888899999764 6544
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+. ...+.+|+.|..+||-|..++++.
T Consensus 121 se---deLirlak~lkknnVAidii~fGE 146 (243)
T COG5148 121 SE---DELIRLAKQLKKNNVAIDIIFFGE 146 (243)
T ss_pred cH---HHHHHHHHHHHhcCeeEEEEehhh
Confidence 22 345668889999999999999874
No 49
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=97.63 E-value=3.4e-05 Score=53.00 Aligned_cols=33 Identities=27% Similarity=0.388 Sum_probs=21.7
Q ss_pred cccccHHHHHHHHHHcCCC--CCCChHHHHHHHHH
Q 006975 587 LKEMTVQELKLYLMAHNLS--TTGRKETLISRILT 619 (623)
Q Consensus 587 l~kltv~~LK~~l~~~~~~--~~gkK~dLi~~i~~ 619 (623)
+++|||+|||.+|..+|+. ++.||+|||+.+++
T Consensus 1 p~sltV~~Lk~iL~~~~I~~ps~AkKaeLv~L~~~ 35 (35)
T PF12949_consen 1 PKSLTVAQLKRILDEHGIEFPSNAKKAELVALFNQ 35 (35)
T ss_dssp STT--SHHHHHHHHHHT---SSS--SHHHHHH---
T ss_pred CCcCcHHHHHHHHHHcCCCCCCCCCHHHHHHHHcC
Confidence 4689999999999999987 46699999998753
No 50
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.59 E-value=0.0013 Score=75.17 Aligned_cols=154 Identities=14% Similarity=0.118 Sum_probs=95.8
Q ss_pred hhhhcccceE-EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcE
Q 006975 21 YQEHEATKEY-VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAV 99 (623)
Q Consensus 21 ~~~~~~~ke~-iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i 99 (623)
..++....+. ++|+||+|.||.. ..|..|..++..++.. ...+.|.||||.|+....
T Consensus 399 ~k~~~~~~~~~v~fvvD~SGSM~~-----------~rl~~aK~av~~Ll~~--~~~~~D~v~Li~F~~~~a--------- 456 (589)
T TIGR02031 399 IKRYRRKSGRLLIFVVDASGSAAV-----------ARMSEAKGAVELLLGE--AYVHRDQVSLIAFRGTAA--------- 456 (589)
T ss_pred EEeeccccCceEEEEEECCCCCCh-----------HHHHHHHHHHHHHHHh--hccCCCEEEEEEECCCCc---------
Confidence 4455533344 7799999999932 2588888888887764 234679999999986542
Q ss_pred EEecccccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCC
Q 006975 100 FVFNVAEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDP 179 (623)
Q Consensus 100 ~~l~~~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P 179 (623)
.++ .+. ..+...+ ...+.. .+.....+|..+|..|.+++.....+-..++|+||||....
T Consensus 457 ~~~-----lp~-t~~~~~~---~~~L~~-----------l~~gGgTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~n 516 (589)
T TIGR02031 457 EVL-----LPP-SRSVEQA---KRRLDV-----------LPGGGGTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGN 516 (589)
T ss_pred eEE-----CCC-CCCHHHH---HHHHhc-----------CCCCCCCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCC
Confidence 123 222 1133332 222221 11233578999999999998764444456799999999765
Q ss_pred CCCCc-----cCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 180 FGSIK-----GAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 180 ~~~~~-----~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..... .+.-......+...+..+.+.||.+.++.+..
T Consensus 517 v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~ 558 (589)
T TIGR02031 517 IPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAM 558 (589)
T ss_pred CCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCC
Confidence 43210 00001223344556778999999988887753
No 51
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=97.57 E-value=0.0023 Score=59.92 Aligned_cols=133 Identities=22% Similarity=0.202 Sum_probs=83.2
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||... ...+.+++..++++ -+++|.+.||.||+... .+- ..+
T Consensus 3 vvilvD~S~Sm~g~------------~~~~k~al~~~l~~---L~~~d~fnii~f~~~~~----------~~~----~~~ 53 (155)
T PF13768_consen 3 VVILVDTSGSMSGE------------KELVKDALRAILRS---LPPGDRFNIIAFGSSVR----------PLF----PGL 53 (155)
T ss_pred EEEEEeCCCCCCCc------------HHHHHHHHHHHHHh---CCCCCEEEEEEeCCEee----------Ecc----hhH
Confidence 78999999999432 15555555666655 45899999999999532 110 122
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcchh
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKND 190 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~ 190 (623)
...+.+.++.+.+.+..... .....++..||-.|...+ ......+.|+||||... ... ...
T Consensus 54 ~~~~~~~~~~a~~~I~~~~~----------~~G~t~l~~aL~~a~~~~---~~~~~~~~IilltDG~~-~~~-----~~~ 114 (155)
T PF13768_consen 54 VPATEENRQEALQWIKSLEA----------NSGGTDLLAALRAALALL---QRPGCVRAIILLTDGQP-VSG-----EEE 114 (155)
T ss_pred HHHhHHHHHHHHHHHHHhcc----------cCCCccHHHHHHHHHHhc---ccCCCccEEEEEEeccC-CCC-----HHH
Confidence 34456666666665554211 123578999999888876 34566899999997763 222 112
Q ss_pred hHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 191 MTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 191 ~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+...++... ..+.|..+.++.
T Consensus 115 ----i~~~v~~~~-~~~~i~~~~~g~ 135 (155)
T PF13768_consen 115 ----ILDLVRRAR-GHIRIFTFGIGS 135 (155)
T ss_pred ----HHHHHHhcC-CCceEEEEEECC
Confidence 222232212 468888888865
No 52
>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=97.52 E-value=0.0016 Score=65.08 Aligned_cols=134 Identities=14% Similarity=0.153 Sum_probs=84.5
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||.|.||.. ..|+.+...+..++.+.-+....+.||||.|+++.. +. .+|
T Consensus 5 lvfllD~S~Sm~~-----------~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~----------~~-----~~l 58 (224)
T cd01475 5 LVFLIDSSRSVRP-----------ENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVK----------QE-----FPL 58 (224)
T ss_pred EEEEEeCCCCCCH-----------HHHHHHHHHHHHHHHhcccCCCccEEEEEEecCcee----------EE-----ecc
Confidence 7999999999942 359999999999998876776789999999999642 33 444
Q ss_pred CCC-ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHH-HhcC--CCCC---CCcEEEEEeCCCCCCCCC
Q 006975 111 DRP-TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGL-LRKG--SSKT---ADKRILLFTNEDDPFGSI 183 (623)
Q Consensus 111 ~~p-~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~-f~~~--~~~~---~~krI~l~Tn~d~P~~~~ 183 (623)
..- +... |...+.. + .+. ........||-.+... |... .+.. ..|-|+||||.... .
T Consensus 59 ~~~~~~~~---l~~~i~~----i--~~~----~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~-~-- 122 (224)
T cd01475 59 GRFKSKAD---LKRAVRR----M--EYL----ETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQ-D-- 122 (224)
T ss_pred cccCCHHH---HHHHHHh----C--cCC----CCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCc-c--
Confidence 432 2222 2222221 1 110 1123466788777754 5321 1111 25667999998632 1
Q ss_pred ccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 184 KGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 184 ~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+ .. ..++.++..||.|-.+.++.
T Consensus 123 ----~---~~---~~a~~lk~~gv~i~~VgvG~ 145 (224)
T cd01475 123 ----D---VS---EVAAKARALGIEMFAVGVGR 145 (224)
T ss_pred ----c---HH---HHHHHHHHCCcEEEEEeCCc
Confidence 1 12 23557788999998888864
No 53
>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=97.48 E-value=0.0029 Score=66.04 Aligned_cols=147 Identities=19% Similarity=0.255 Sum_probs=83.8
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
.=.++||||+|.||.. .+..+.+++..+++..+ .+.|.||||.|++.. .++
T Consensus 53 p~~vvlvlD~SgSM~~------------~~~~a~~a~~~~l~~~l--~~~d~v~lv~f~~~~----------~~~----- 103 (296)
T TIGR03436 53 PLTVGLVIDTSGSMRN------------DLDRARAAAIRFLKTVL--RPNDRVFVVTFNTRL----------RLL----- 103 (296)
T ss_pred CceEEEEEECCCCchH------------HHHHHHHHHHHHHHhhC--CCCCEEEEEEeCCce----------eEe-----
Confidence 3468999999999942 27788888888887643 589999999999742 334
Q ss_pred ccCCCCChH-HHHHHHHHHHhHhhhhcccccccC-CCCCCCHHHHHHHH-HHHHhcCC-CCCCCcEEEEEeCCCCCCCCC
Q 006975 108 EQLDRPTAR-FIKEFDHIEESFEKEIGSQYGIVS-GSRENSLYNALWVA-QGLLRKGS-SKTADKRILLFTNEDDPFGSI 183 (623)
Q Consensus 108 ~~l~~p~~~-~ik~L~~l~~~~~~~~~~~~~~~~-~~~~~~l~daL~~a-~~~f~~~~-~~~~~krI~l~Tn~d~P~~~~ 183 (623)
+++.. +.. ....|+.+........ ..++... .....++.+||..+ .+++.... .....|.|+||||..+...
T Consensus 104 ~~~t~-~~~~l~~~l~~l~~~~~~~~-~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~-- 179 (296)
T TIGR03436 104 QDFTS-DPRLLEAALNRLKPPLRTDY-NSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRS-- 179 (296)
T ss_pred ecCCC-CHHHHHHHHHhccCCCcccc-ccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcch--
Confidence 44422 222 2233333221000000 0000000 02345788997554 55654321 1225688999999854321
Q ss_pred ccCcchhhHHHHHHHHHHhHhcCceEEEeeCC
Q 006975 184 KGAAKNDMTRTTMQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 184 ~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~ 215 (623)
.....++ ++.+...+|.|..+.++
T Consensus 180 -----~~~~~~~---~~~~~~~~v~vy~I~~~ 203 (296)
T TIGR03436 180 -----RDTLERA---IDAAQRADVAIYSIDAR 203 (296)
T ss_pred -----HHHHHHH---HHHHHHcCCEEEEeccC
Confidence 1223333 33567788888777775
No 54
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.41 E-value=0.0012 Score=62.72 Aligned_cols=110 Identities=24% Similarity=0.261 Sum_probs=73.2
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
|+|+||.|.+|.. ..|..+.+.+..+++.--+..+.+.||||.|++... ++ .++
T Consensus 2 ivflvD~S~sm~~-----------~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~----------~~-----~~~ 55 (178)
T PF00092_consen 2 IVFLVDTSGSMSG-----------DNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSAR----------VL-----FSL 55 (178)
T ss_dssp EEEEEE-STTSCH-----------HHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEE----------EE-----EET
T ss_pred EEEEEeCCCCCch-----------HHHHHHHHHHHHHHHhhhccccccccceeeeecccc----------cc-----ccc
Confidence 7899999999943 348999999999999666888999999999999753 22 333
Q ss_pred CCC-ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC---CCCCCCcEEEEEeCCCC
Q 006975 111 DRP-TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG---SSKTADKRILLFTNEDD 178 (623)
Q Consensus 111 ~~p-~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~---~~~~~~krI~l~Tn~d~ 178 (623)
... +...+... +.... . ......++..||..|.++|... ...-..|-|++|||+..
T Consensus 56 ~~~~~~~~~~~~--i~~~~------~----~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~ 115 (178)
T PF00092_consen 56 TDYQSKNDLLNA--INDSI------P----SSGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNS 115 (178)
T ss_dssp TSHSSHHHHHHH--HHTTG------G----CCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSS
T ss_pred cccccccccccc--ccccc------c----ccchhhhHHHHHhhhhhcccccccccccccccceEEEEeecc
Confidence 332 22222211 10110 0 1133567999999999999754 23456667899999763
No 55
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.40 E-value=0.0036 Score=59.58 Aligned_cols=135 Identities=16% Similarity=0.131 Sum_probs=85.4
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||.|.||.. ..|+.+++.+..++.+--++.....||||.|++... + . .+|
T Consensus 3 ivfllD~S~Si~~-----------~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~--------~--~-----~~l 56 (165)
T cd01481 3 IVFLIDGSDNVGS-----------GNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPR--------P--E-----FYL 56 (165)
T ss_pred EEEEEeCCCCcCH-----------HHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCee--------E--E-----Eec
Confidence 7899999999942 459999999999999988888899999999998642 1 1 222
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHH-HHHhcCC-C---CCCCcEEEEEeCCCCCCCCCcc
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQ-GLLRKGS-S---KTADKRILLFTNEDDPFGSIKG 185 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~-~~f~~~~-~---~~~~krI~l~Tn~d~P~~~~~~ 185 (623)
.... .-..|.+-+.. + +|- +....+...||-.|. ++|.... . .-..|.++||||+... +
T Consensus 57 ~~~~--~~~~l~~~i~~----i--~~~---~g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~--d--- 120 (165)
T cd01481 57 NTHS--TKADVLGAVRR----L--RLR---GGSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQ--D--- 120 (165)
T ss_pred cccC--CHHHHHHHHHh----c--ccC---CCCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCc--c---
Confidence 2211 11222222221 1 111 122346889997765 5675432 1 2345778999988521 1
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~ 215 (623)
+ ....|+.|++.||.+-.++++
T Consensus 121 --~------~~~~a~~lr~~gv~i~~vG~~ 142 (165)
T cd01481 121 --D------VERPAVALKRAGIVPFAIGAR 142 (165)
T ss_pred --h------HHHHHHHHHHCCcEEEEEeCC
Confidence 1 223466888999987766664
No 56
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.39 E-value=0.0041 Score=62.23 Aligned_cols=141 Identities=18% Similarity=0.211 Sum_probs=91.1
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-|||+||.|-||.... ....|.-++..++.. -....|.||||-|+..+.. ++ .
T Consensus 80 lvvfvVDASgSM~~~~----------Rm~aaKG~~~~lL~d--AYq~RdkvavI~F~G~~A~---------ll-----l- 132 (261)
T COG1240 80 LIVFVVDASGSMAARR----------RMAAAKGAALSLLRD--AYQRRDKVAVIAFRGEKAE---------LL-----L- 132 (261)
T ss_pred cEEEEEeCcccchhHH----------HHHHHHHHHHHHHHH--HHHccceEEEEEecCCcce---------EE-----e-
Confidence 3999999999996642 255555555555544 2346799999999977641 22 1
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCC--CCCcEEEEEeCCCCCCCCCccCc
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSK--TADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~--~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
+|+ ..+..+++.+++. +..-..+|.++|..+.++|..++.+ -..-.+++|||.-.-...+
T Consensus 133 --~pT-~sv~~~~~~L~~l-----------~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~---- 194 (261)
T COG1240 133 --PPT-SSVELAERALERL-----------PTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIP---- 194 (261)
T ss_pred --CCc-ccHHHHHHHHHhC-----------CCCCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCC----
Confidence 232 2333333333331 2345679999999999999987633 3556889999986222221
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..-...+...+..+...|+.+-++.+..
T Consensus 195 -~~~~~e~~~~a~~~~~~g~~~lvid~e~ 222 (261)
T COG1240 195 -LGPKAETLEAASKLRLRGIQLLVIDTEG 222 (261)
T ss_pred -CchHHHHHHHHHHHhhcCCcEEEEecCC
Confidence 1123445566778899999988887754
No 57
>PF04056 Ssl1: Ssl1-like; InterPro: IPR007198 Ssl1-like proteins are 40 kDa subunits of the transcription factor II H complex. This domain is often found associated with the C2H2 type Zn-finger (IPR007087 from INTERPRO).; GO: 0008270 zinc ion binding, 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent
Probab=97.35 E-value=0.0037 Score=60.73 Aligned_cols=140 Identities=14% Similarity=0.199 Sum_probs=101.3
Q ss_pred EEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccCCCC
Q 006975 34 LVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQLDRP 113 (623)
Q Consensus 34 lIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l~~p 113 (623)
+||+|.+|-+.. -..+.|...++++..++++..-.+|--.+||+...-.. ...+ .+|.--
T Consensus 1 viD~S~~m~~~D------~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~---------a~~l-----s~lsgn 60 (193)
T PF04056_consen 1 VIDMSEAMREKD------LKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGR---------AERL-----SELSGN 60 (193)
T ss_pred CeechHhHHhCc------CCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecce---------eEEe-----eecCCC
Confidence 589999997643 34689999999999999999999999999999887644 2334 455443
Q ss_pred ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcchhhHH
Q 006975 114 TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAKNDMTR 193 (623)
Q Consensus 114 ~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~~~~ 193 (623)
-.+.++.|.++... ....+.+|-++|-.|...+.+. +...+|.|++|.-.-.-++. ..+.
T Consensus 61 ~~~h~~~L~~~~~~------------~~~G~~SLqN~Le~A~~~L~~~-p~~~srEIlvi~gSl~t~Dp-------~di~ 120 (193)
T PF04056_consen 61 PQEHIEALKKLRKL------------EPSGEPSLQNGLEMARSSLKHM-PSHGSREILVIFGSLTTCDP-------GDIH 120 (193)
T ss_pred HHHHHHHHHHhccC------------CCCCChhHHHHHHHHHHHHhhC-ccccceEEEEEEeecccCCc-------hhHH
Confidence 34566666655421 1234678999999999999765 45678888887744332221 2233
Q ss_pred HHHHHHHHhHhcCceEEEeeCCC
Q 006975 194 TTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 194 ~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
..++.|...+|.+.++.+..
T Consensus 121 ---~ti~~l~~~~IrvsvI~laa 140 (193)
T PF04056_consen 121 ---ETIESLKKENIRVSVISLAA 140 (193)
T ss_pred ---HHHHHHHHcCCEEEEEEEhH
Confidence 34558899999999999864
No 58
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=97.32 E-value=0.0062 Score=70.38 Aligned_cols=143 Identities=16% Similarity=0.166 Sum_probs=89.6
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
.-.++|+||+|.||... ..+..|..++..++..- ....|.||||.|+... ..++
T Consensus 465 ~~~vv~vvD~SgSM~~~----------~rl~~ak~a~~~ll~~a--~~~~D~v~lI~F~g~~---------a~~~----- 518 (633)
T TIGR02442 465 GNLVIFVVDASGSMAAR----------GRMAAAKGAVLSLLRDA--YQKRDKVALITFRGEE---------AEVL----- 518 (633)
T ss_pred CceEEEEEECCccCCCc----------cHHHHHHHHHHHHHHHh--hcCCCEEEEEEECCCC---------ceEE-----
Confidence 34688999999999532 25778888777776542 3467999999998542 1233
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC--CCCCCCcEEEEEeCCCCCCCCCcc
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG--SSKTADKRILLFTNEDDPFGSIKG 185 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~--~~~~~~krI~l~Tn~d~P~~~~~~ 185 (623)
.++. -+...+ ...+... +.....+|..+|..|..++... +.......||||||...-....
T Consensus 519 ~p~t-~~~~~~---~~~L~~l-----------~~gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~-- 581 (633)
T TIGR02442 519 LPPT-SSVELA---ARRLEEL-----------PTGGRTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADG-- 581 (633)
T ss_pred cCCC-CCHHHH---HHHHHhC-----------CCCCCCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCC--
Confidence 3332 122222 2222221 1233578999999999998742 2234567899999997544200
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~ 215 (623)
.......+...|..|...||.+.++...
T Consensus 582 --~~~~~~~~~~~a~~l~~~~i~~~vIdt~ 609 (633)
T TIGR02442 582 --GEPPTDDARTIAAKLAARGILFVVIDTE 609 (633)
T ss_pred --CCChHHHHHHHHHHHHhcCCeEEEEeCC
Confidence 0111233455677888899988887654
No 59
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=0.0069 Score=58.54 Aligned_cols=146 Identities=16% Similarity=0.224 Sum_probs=106.7
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
-|+|++|||=|..|-... -..|.|+.-..++..+.+.|+-++|-..|||+-..-.. +.|+
T Consensus 3 lEatmi~iDNse~mrNgD------y~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~---------~~vL----- 62 (259)
T KOG2884|consen 3 LEATMICIDNSEYMRNGD------YLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANAS---------VQVL----- 62 (259)
T ss_pred cceEEEEEeChHHhhcCC------CChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCC---------ceee-----
Confidence 479999999999885432 34689999999999999999999999999999665432 3333
Q ss_pred ccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 108 EQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 108 ~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
..|+.+.=+-|..+- + + .-....+|..+|-.|+..|++...+..+.||++|-.. |...
T Consensus 63 ---sT~T~d~gkils~lh-~----i-------~~~g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGS--pi~e----- 120 (259)
T KOG2884|consen 63 ---STLTSDRGKILSKLH-G----I-------QPHGKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGS--PIEE----- 120 (259)
T ss_pred ---eeccccchHHHHHhc-C----C-------CcCCcccHHHHHHHHHHHHHhhcCCCcceEEEEEecC--cchh-----
Confidence 345554433332221 1 0 1134689999999999999887767777899999764 6654
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCCCC
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSPPD 218 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~ 218 (623)
+.. ....+|+.|...+|.|.++.++..+
T Consensus 121 ~ek---eLv~~akrlkk~~Vaidii~FGE~~ 148 (259)
T KOG2884|consen 121 SEK---ELVKLAKRLKKNKVAIDIINFGEAE 148 (259)
T ss_pred hHH---HHHHHHHHHHhcCeeEEEEEecccc
Confidence 222 4556888999999999999987543
No 60
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=97.24 E-value=0.014 Score=57.18 Aligned_cols=142 Identities=12% Similarity=0.161 Sum_probs=83.6
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++|+||+|.||..+.. ..+.+.+..|.+++..+.. .+...+.|.+++++|..... .+ .
T Consensus 5 vv~~ID~SgSM~~~~~----~~~~~k~~~ak~~~~~l~~-~~~~~D~d~i~l~~f~~~~~----------~~-----~-- 62 (199)
T cd01457 5 YTLLIDKSGSMAEADE----AKERSRWEEAQESTRALAR-KCEEYDSDGITVYLFSGDFR----------RY-----D-- 62 (199)
T ss_pred EEEEEECCCcCCCCCC----CCCchHHHHHHHHHHHHHH-HHHhcCCCCeEEEEecCCcc----------cc-----C--
Confidence 5699999999987653 1245688999988888774 33455789999999966431 11 1
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhc-C---CCCCCCcEEEEEeCCCCCCCCCccC
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRK-G---SSKTADKRILLFTNEDDPFGSIKGA 186 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~-~---~~~~~~krI~l~Tn~d~P~~~~~~~ 186 (623)
.++.. .+.+++... .+ ....++..+|..+...+.. . ..+...+-|++|||.. |...
T Consensus 63 -~~~~~---~v~~~~~~~----------~p-~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~-~~d~---- 122 (199)
T cd01457 63 -NVNSS---KVDQLFAEN----------SP-DGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGA-PDDK---- 122 (199)
T ss_pred -CcCHH---HHHHHHhcC----------CC-CCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCC-CCcH----
Confidence 22322 233333210 01 2346799999988754432 1 1122367899999987 3322
Q ss_pred cchhhHHHHH-HHHHHhHh-cCceEEEeeCCCC
Q 006975 187 AKNDMTRTTM-QRAKDAQD-LGISIELLPLSPP 217 (623)
Q Consensus 187 ~d~~~~~~~~-~~a~dL~~-~gI~i~l~~i~~~ 217 (623)
+....++ ..++.|.. .+|.+..+.|+.+
T Consensus 123 ---~~~~~~i~~a~~~l~~~~~i~i~~v~vG~~ 152 (199)
T cd01457 123 ---DAVERVIIKASDELDADNELAISFLQIGRD 152 (199)
T ss_pred ---HHHHHHHHHHHHhhccccCceEEEEEeCCc
Confidence 2222222 22333433 3788888888753
No 61
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=97.24 E-value=0.01 Score=57.54 Aligned_cols=148 Identities=11% Similarity=0.081 Sum_probs=87.8
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
-++++||+|.||..-.. -++...+.|+.+...+..+. +-+-..+.|.|| ++|..-.-. . ..
T Consensus 2 ~l~lavDlSgSM~~~~~--~dg~~~~RL~a~k~v~~~f~-~f~~~r~~DriG--~~g~~~~~~--------~------lt 62 (191)
T cd01455 2 RLKLVVDVSGSMYRFNG--YDGRLDRSLEAVVMVMEAFD-GFEDKIQYDIIG--HSGDGPCVP--------F------VK 62 (191)
T ss_pred ceEEEEECcHhHHHHhc--cCCccccHHHHHHHHHHHHH-HHHHhCccceee--ecCcccccC--------c------cc
Confidence 37899999999965321 12334566766665555443 224556899999 333322101 1 11
Q ss_pred CCC-C--ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHh-cCCCCCCCcEEEEEeCCCCCCCCCcc
Q 006975 110 LDR-P--TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLR-KGSSKTADKRILLFTNEDDPFGSIKG 185 (623)
Q Consensus 110 l~~-p--~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~-~~~~~~~~krI~l~Tn~d~P~~~~~~ 185 (623)
++. | +.++++-|..++... ++|.. +... . +||-.|.+.|. .. ....|-|+|+||..+.-..-
T Consensus 63 ~d~p~t~d~~~~~~l~~~l~~~------q~g~a-g~~T--a-dAi~~av~rl~~~~--~a~~kvvILLTDG~n~~~~i-- 128 (191)
T cd01455 63 TNHPPKNNKERLETLKMMHAHS------QFCWS-GDHT--V-EATEFAIKELAAKE--DFDEAIVIVLSDANLERYGI-- 128 (191)
T ss_pred cccCcccchhHHHHHHHHHHhc------ccCcc-CccH--H-HHHHHHHHHHHhcC--cCCCcEEEEEeCCCcCCCCC--
Confidence 222 2 345567777777642 44432 2222 2 99999999996 53 33478999999998754432
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
+.. ..+. .-..+.||.|..++|+.+
T Consensus 129 --~P~--~aAa---~lA~~~gV~iytIgiG~~ 153 (191)
T cd01455 129 --QPK--KLAD---ALAREPNVNAFVIFIGSL 153 (191)
T ss_pred --ChH--HHHH---HHHHhCCCEEEEEEecCC
Confidence 111 1111 223568999999999863
No 62
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=97.20 E-value=0.036 Score=63.73 Aligned_cols=148 Identities=15% Similarity=0.111 Sum_probs=89.1
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
+--++|+||+|.||... .++.|..++..++.+. .+.|.++||.|++.-. .+
T Consensus 271 p~~vvfvlD~SgSM~g~-----------~i~~ak~al~~~l~~L---~~~d~~~ii~F~~~~~----------~~----- 321 (596)
T TIGR03788 271 PRELVFVIDTSGSMAGE-----------SIEQAKSALLLALDQL---RPGDRFNIIQFDSDVT----------LL----- 321 (596)
T ss_pred CceEEEEEECCCCCCCc-----------cHHHHHHHHHHHHHhC---CCCCEEEEEEECCcce----------Ee-----
Confidence 34588999999999531 2677777666666542 5799999999998642 22
Q ss_pred cc-CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccC
Q 006975 108 EQ-LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGA 186 (623)
Q Consensus 108 ~~-l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~ 186 (623)
.+ ....+...+..+...+.... .....++..+|..|.++... ......++|+||||+.. +
T Consensus 322 ~~~~~~~~~~~~~~a~~~i~~l~-----------a~GgT~l~~aL~~a~~~~~~-~~~~~~~~iillTDG~~---~---- 382 (596)
T TIGR03788 322 FPVPVPATAHNLARARQFVAGLQ-----------ADGGTEMAGALSAALRDDGP-ESSGALRQVVFLTDGAV---G---- 382 (596)
T ss_pred ccccccCCHHHHHHHHHHHhhCC-----------CCCCccHHHHHHHHHHhhcc-cCCCceeEEEEEeCCCC---C----
Confidence 22 22445666666665554321 12246799999998887422 22345689999999863 2
Q ss_pred cchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcc
Q 006975 187 AKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIG 232 (623)
Q Consensus 187 ~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~ 232 (623)
+...+ ...++. ...++.|..++|+.. .|. .+.+.+-.
T Consensus 383 -~~~~~---~~~~~~-~~~~~ri~tvGiG~~---~n~-~lL~~lA~ 419 (596)
T TIGR03788 383 -NEDAL---FQLIRT-KLGDSRLFTVGIGSA---PNS-YFMRKAAQ 419 (596)
T ss_pred -CHHHH---HHHHHH-hcCCceEEEEEeCCC---cCH-HHHHHHHH
Confidence 22212 122211 223577778888642 333 25555543
No 63
>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=96.78 E-value=0.029 Score=57.46 Aligned_cols=169 Identities=22% Similarity=0.248 Sum_probs=112.6
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHH-HHHHHHHhhhhccCCCeEEEEEEecCCCC--------------CCC
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVS-CIAQSLKTQIINRLYDEVAICFFNTRKKK--------------NLQ 94 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~-~i~~~~~~kIi~~~~D~vgivl~gt~~t~--------------n~~ 94 (623)
-++++|.+|..|..-.+ .+.-.|+.++. ....+.++=--.+-++.|.||||..-.-. +..
T Consensus 72 r~~~~IQmS~EMW~fd~-----~Ge~~fek~vn~Fl~~lf~kWk~~~~~H~vTIVlfsRv~~~~~~~~~l~~~~~~~~y~ 146 (281)
T PF12257_consen 72 RVYIFIQMSSEMWDFDE-----DGEIYFEKAVNGFLPELFKKWKEIGTHHLVTIVLFSRVDYDDISFRDLPPGERGKNYK 146 (281)
T ss_pred eeeehHhhhHHHhCcCc-----cHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEEEEEEccccchhhcCCccccCCCCC
Confidence 37789999999998654 45778998885 56666665555667899999999853322 113
Q ss_pred CCCcEEEecccccccCCCCChHHH-HHHHHHHHhHhhhhccc-----------ccccCCCCCCCHHHHHHHHHHHHhcCC
Q 006975 95 DLNAVFVFNVAEREQLDRPTARFI-KEFDHIEESFEKEIGSQ-----------YGIVSGSRENSLYNALWVAQGLLRKGS 162 (623)
Q Consensus 95 ~~~~i~~l~~~~~~~l~~p~~~~i-k~L~~l~~~~~~~~~~~-----------~~~~~~~~~~~l~daL~~a~~~f~~~~ 162 (623)
+|-.|- . +.....+|..| ..|+.-...+..++... -|..+....+++.+|+..|.+.|.+.-
T Consensus 147 DfYrVV-v-----~~~~~~~W~~il~~Lk~eF~~f~rdi~~~~~~~~~~~~~i~g~~s~A~~gNiLEaINlaln~~~~~~ 220 (281)
T PF12257_consen 147 DFYRVV-V-----DEENSQDWTSILVTLKKEFNQFQRDILLYHQSDEDGTTRIKGRFSPAIKGNILEAINLALNQFDKHY 220 (281)
T ss_pred cceEEE-E-----eccccccHHHHHHHHHHHHHHHHHHhhcccccccCCCccccceEeecccccHHHHHHHHhhhccccc
Confidence 455563 3 45555566554 55555444444433221 111122457899999999999998643
Q ss_pred ----CCCCCcEEEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 163 ----SKTADKRILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 163 ----~~~~~krI~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
-......|+++|-+..=+.- |.+....+.+ -|-+.||.+.++-++++
T Consensus 221 idRdl~rTG~~iivITpG~Gvf~V-----d~~ll~~T~~---rl~~~gi~~DlIcL~~~ 271 (281)
T PF12257_consen 221 IDRDLRRTGQSIIVITPGTGVFEV-----DYDLLRLTTQ---RLLDNGIGIDLICLSKP 271 (281)
T ss_pred ccCcccccCceEEEEcCCCceEEE-----CHHHHHHHHH---HHHhcCccEEEEEcCCC
Confidence 23467789999999877765 5565554444 57788999999888764
No 64
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=96.11 E-value=0.0058 Score=44.38 Aligned_cols=35 Identities=34% Similarity=0.379 Sum_probs=27.3
Q ss_pred cccccHHHHHHHHHHcCCCCCC--ChHHHHHHHHHhh
Q 006975 587 LKEMTVQELKLYLMAHNLSTTG--RKETLISRILTHM 621 (623)
Q Consensus 587 l~kltv~~LK~~l~~~~~~~~g--kK~dLi~~i~~~l 621 (623)
|.++|+.+|++.++..|++..+ ||+|||.+|.+.-
T Consensus 2 L~~~~~~eL~~iAk~lgI~~~~~~~K~eLI~~Il~~q 38 (43)
T PF07498_consen 2 LKSMTLSELREIAKELGIEGYSKMRKQELIFAILKAQ 38 (43)
T ss_dssp HHCS-HHHHHHHHHCTT-TTGCCS-HHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHHHHH
Confidence 5789999999999999998533 8999999997653
No 65
>PRK10997 yieM hypothetical protein; Provisional
Probab=96.08 E-value=0.17 Score=56.10 Aligned_cols=139 Identities=12% Similarity=0.060 Sum_probs=84.4
Q ss_pred cccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecc
Q 006975 25 EATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNV 104 (623)
Q Consensus 25 ~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~ 104 (623)
...|--+|+|||+|.||... ....|..++..++. +....+|.+++++|++.... |.+
T Consensus 320 ~~~kGpiII~VDtSGSM~G~-----------ke~~AkalAaAL~~--iAl~q~dr~~li~Fs~~i~~--------~~l-- 376 (487)
T PRK10997 320 EQPRGPFIVCVDTSGSMGGF-----------NEQCAKAFCLALMR--IALAENRRCYIMLFSTEVVT--------YEL-- 376 (487)
T ss_pred CCCCCcEEEEEECCCCCCCC-----------HHHHHHHHHHHHHH--HHHhcCCCEEEEEecCCcee--------ecc--
Confidence 45688899999999999521 12444443443332 33556899999999985321 112
Q ss_pred cccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCc
Q 006975 105 AEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIK 184 (623)
Q Consensus 105 ~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~ 184 (623)
+....+..+-+++.. .+ ....++..+|-.+...+.... ...-=|++|||.-.|...
T Consensus 377 --------~~~~gl~~ll~fL~~-------~f-----~GGTDl~~aL~~al~~l~~~~--~r~adIVVISDF~~~~~~-- 432 (487)
T PRK10997 377 --------TGPDGLEQAIRFLSQ-------SF-----RGGTDLAPCLRAIIEKMQGRE--WFDADAVVISDFIAQRLP-- 432 (487)
T ss_pred --------CCccCHHHHHHHHHH-------hc-----CCCCcHHHHHHHHHHHHcccc--cCCceEEEECCCCCCCCh--
Confidence 222334444444432 11 225789999998888885532 334459999999655322
Q ss_pred cCcchhhHHHHHHHHHHhHh-cCceEEEeeCCCCC
Q 006975 185 GAAKNDMTRTTMQRAKDAQD-LGISIELLPLSPPD 218 (623)
Q Consensus 185 ~~~d~~~~~~~~~~a~dL~~-~gI~i~l~~i~~~~ 218 (623)
.+ .....+.|+. .|..|..+.|+..+
T Consensus 433 ----ee----l~~~L~~Lk~~~~~rf~~l~i~~~~ 459 (487)
T PRK10997 433 ----DE----LVAKVKELQRQHQHRFHAVAMSAHG 459 (487)
T ss_pred ----HH----HHHHHHHHHHhcCcEEEEEEeCCCC
Confidence 11 2234446666 79999999897533
No 66
>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=95.81 E-value=0.51 Score=47.68 Aligned_cols=163 Identities=18% Similarity=0.167 Sum_probs=90.4
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCC----CCCCCCcEEEeccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKK----NLQDLNAVFVFNVA 105 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~----n~~~~~~i~~l~~~ 105 (623)
+.+|+||+|..-.+. ..++.+.+++...++..= ..++.+||||.|++.-+= +...-+..+++
T Consensus 5 ~~vFvID~s~~ai~~----------~~l~~~~~sl~~~l~~lp-~~~~~~igiITf~~~V~~~~~~~~~~~~~~~v~--- 70 (239)
T cd01468 5 VFVFVIDVSYEAIKE----------GLLQALKESLLASLDLLP-GDPRARVGLITYDSTVHFYNLSSDLAQPKMYVV--- 70 (239)
T ss_pred EEEEEEEcchHhccc----------cHHHHHHHHHHHHHHhCC-CCCCcEEEEEEeCCeEEEEECCCCCCCCeEEEe---
Confidence 579999999853221 236666666666665421 137889999999864321 11112446666
Q ss_pred ccccCCCC----------C-hHHHHHHHHHHHhHhhhhcccccc-cCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEE
Q 006975 106 EREQLDRP----------T-ARFIKEFDHIEESFEKEIGSQYGI-VSGSRENSLYNALWVAQGLLRKGSSKTADKRILLF 173 (623)
Q Consensus 106 ~~~~l~~p----------~-~~~ik~L~~l~~~~~~~~~~~~~~-~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~ 173 (623)
.+++.+ + .+....|.++++.... .+.. ........+..||.+|..++.... ..=||++|
T Consensus 71 --~dl~d~f~p~~~~~l~~~~e~~~~i~~~l~~l~~----~~~~~~~~~~~~~~G~Al~~A~~ll~~~~---~gGkI~~f 141 (239)
T cd01468 71 --SDLKDVFLPLPDRFLVPLSECKKVIHDLLEQLPP----MFWPVPTHRPERCLGPALQAAFLLLKGTF---AGGRIIVF 141 (239)
T ss_pred --CCCccCcCCCcCceeeeHHHHHHHHHHHHHhhhh----hccccCCCCCcccHHHHHHHHHHHHhhcC---CCceEEEE
Confidence 555443 1 1222334444443222 2211 012345779999999999997542 45689999
Q ss_pred eCCCCCCCCCc---cC-------c--ch----hhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 174 TNEDDPFGSIK---GA-------A--KN----DMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 174 Tn~d~P~~~~~---~~-------~--d~----~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+..- |..+.. .. + .. ....--.+.|..+...||.+++|.++.
T Consensus 142 ~sg~-pt~GpG~l~~~~~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~ 199 (239)
T cd01468 142 QGGL-PTVGPGKLKSREDKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSL 199 (239)
T ss_pred ECCC-CCCCCCccccCcccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccc
Confidence 8752 211100 00 0 00 000111345678888999999998764
No 67
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.51 E-value=0.32 Score=56.13 Aligned_cols=163 Identities=17% Similarity=0.149 Sum_probs=101.3
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCC----CCCCCcEEEecc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKN----LQDLNAVFVFNV 104 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n----~~~~~~i~~l~~ 104 (623)
=+.||+||||-.-... -.+..+.+.+++++.....-.++-.||||.|+..-.=. .+.=++++++
T Consensus 418 pafvFmIDVSy~Ai~~----------G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~L~qp~mliV-- 485 (1007)
T KOG1984|consen 418 PAFVFMIDVSYNAISN----------GAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSNLAQPQMLIV-- 485 (1007)
T ss_pred ceEEEEEEeehhhhhc----------chHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCccccCceEEEe--
Confidence 4789999998754332 23778888888888888888899999999998654211 1223455555
Q ss_pred cccccCCCC-----------ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEE
Q 006975 105 AEREQLDRP-----------TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLF 173 (623)
Q Consensus 105 ~~~~~l~~p-----------~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~ 173 (623)
.+++.+ -.+..+.|+.|+..... .|.- .+..+.-+.+||-+|...+..+. .-++|+|
T Consensus 486 ---sdv~dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~----mf~~-sk~pes~~g~alqaa~lalk~~~----gGKl~vF 553 (1007)
T KOG1984|consen 486 ---SDVDDVFVPFLDGLFVNPNESRKVIELLLDSIPT----MFQD-SKIPESVFGSALQAAKLALKAAD----GGKLFVF 553 (1007)
T ss_pred ---ecccccccccccCeeccchHHHHHHHHHHHHhhh----hhcc-CCCCchhHHHHHHHHHHHHhccC----CceEEEE
Confidence 333332 34556666666654322 2211 13446779999999999986543 6678999
Q ss_pred eCCCCCCCCC-------c---cCcchhh-H-----HHHHHHHHHhHhcCceEEEeeCC
Q 006975 174 TNEDDPFGSI-------K---GAAKNDM-T-----RTTMQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 174 Tn~d~P~~~~-------~---~~~d~~~-~-----~~~~~~a~dL~~~gI~i~l~~i~ 215 (623)
++----.+.. | -+++++. + ..-.+.|+++-+.||.+++|...
T Consensus 554 ~s~Lpt~g~g~kl~~r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~ 611 (1007)
T KOG1984|consen 554 HSVLPTAGAGGKLSNRDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTP 611 (1007)
T ss_pred ecccccccCcccccccchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcc
Confidence 9853211110 0 0001111 0 11335788999999999998653
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=94.85 E-value=1.6 Score=44.23 Aligned_cols=160 Identities=18% Similarity=0.210 Sum_probs=90.0
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhcc-CCCeEEEEEEecCCCC----CCCCCCcEEEecc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINR-LYDEVAICFFNTRKKK----NLQDLNAVFVFNV 104 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~-~~D~vgivl~gt~~t~----n~~~~~~i~~l~~ 104 (623)
..+|+||+|..=.+ .-.++.+++++...+.+ +-.. ++-+||+|.|++.-+= ....-....++
T Consensus 5 ~~~FvIDvs~~a~~----------~g~~~~~~~si~~~L~~-lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~vv-- 71 (244)
T cd01479 5 VYVFLIDVSYNAIK----------SGLLATACEALLSNLDN-LPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMMVV-- 71 (244)
T ss_pred EEEEEEEccHHHHh----------hChHHHHHHHHHHHHHh-cCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEEEe--
Confidence 57999999875322 11367777777777764 3333 6789999999985521 11122344454
Q ss_pred cccccCCCCC-----------hHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEE
Q 006975 105 AEREQLDRPT-----------ARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLF 173 (623)
Q Consensus 105 ~~~~~l~~p~-----------~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~ 173 (623)
.+++.|- .+....|.++++... ..+.. .......+..||.+|..+++.. .=||++|
T Consensus 72 ---~dl~d~f~P~~~~~lv~l~e~~~~i~~lL~~L~----~~~~~-~~~~~~c~G~Al~~A~~lL~~~-----GGkIi~f 138 (244)
T cd01479 72 ---SDLDDPFLPLPDGLLVNLKESRQVIEDLLDQIP----EMFQD-TKETESALGPALQAAFLLLKET-----GGKIIVF 138 (244)
T ss_pred ---eCcccccCCCCcceeecHHHHHHHHHHHHHHHH----HHHhc-CCCCcccHHHHHHHHHHHHHhc-----CCEEEEE
Confidence 4444321 122233444444332 22222 1234578999999999999732 2488888
Q ss_pred eCCCCCCCCCc---c-------Ccchh------hHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 174 TNEDDPFGSIK---G-------AAKND------MTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 174 Tn~d~P~~~~~---~-------~~d~~------~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+..- |..+.. . +++.+ ...--.+.|..+...||.+++|.++.
T Consensus 139 ~s~~-pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~ 196 (244)
T cd01479 139 QSSL-PTLGAGKLKSREDPKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSN 196 (244)
T ss_pred eCCC-CCcCCcccccCccccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccC
Confidence 8752 211100 0 00000 01112246778889999999998864
No 69
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=94.70 E-value=0.065 Score=37.74 Aligned_cols=33 Identities=15% Similarity=0.311 Sum_probs=27.8
Q ss_pred ccccHHHHHHHHHHcCCCCC---CChHHHHHHHHHh
Q 006975 588 KEMTVQELKLYLMAHNLSTT---GRKETLISRILTH 620 (623)
Q Consensus 588 ~kltv~~LK~~l~~~~~~~~---gkK~dLi~~i~~~ 620 (623)
+..+-.+||+||..+|++.. .++.+||+.+..+
T Consensus 2 dtWs~~~L~~wL~~~gi~~~~~~~~rd~Ll~~~k~~ 37 (38)
T PF10281_consen 2 DTWSDSDLKSWLKSHGIPVPKSAKTRDELLKLAKKN 37 (38)
T ss_pred CCCCHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHh
Confidence 34677999999999999964 3799999999876
No 70
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=94.67 E-value=0.51 Score=50.27 Aligned_cols=143 Identities=22% Similarity=0.245 Sum_probs=90.7
Q ss_pred hhhcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhcc-CCCeEEEEEEecCCCCCCCCCCcEE
Q 006975 22 QEHEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINR-LYDEVAICFFNTRKKKNLQDLNAVF 100 (623)
Q Consensus 22 ~~~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~-~~D~vgivl~gt~~t~n~~~~~~i~ 100 (623)
++|. .--+|++++|||-||--.- .-+|.....-+..+++. +. +.|.+.+|+||-...+ |
T Consensus 458 tE~r-t~aAvallvDtS~SM~~eG-------Rw~PmKQtALALhHLv~----TrfrGD~l~~i~Fgr~A~~-------v- 517 (652)
T COG4867 458 TETR-TQAAVALLVDTSFSMVMEG-------RWLPMKQTALALHHLVC----TRFRGDALQIIAFGRYART-------V- 517 (652)
T ss_pred hhhh-cccceeeeeeccHHHHHhc-------cCCchHHHHHHHHHHHH----hcCCCcceEEEeccchhcc-------c-
Confidence 4444 4678999999999996532 23334333334444444 44 8899999999975421 1
Q ss_pred EecccccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCC
Q 006975 101 VFNVAEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPF 180 (623)
Q Consensus 101 ~l~~~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~ 180 (623)
++ .+|-.+. + ......+++-+|..|.+.|... ....+.|+++||.. |.
T Consensus 518 -------------~v---~eLt~l~-----------~--v~eqgTNlhhaL~LA~r~l~Rh--~~~~~~il~vTDGe-Pt 565 (652)
T COG4867 518 -------------TA---AELTGLA-----------G--VYEQGTNLHHALALAGRHLRRH--AGAQPVVLVVTDGE-PT 565 (652)
T ss_pred -------------CH---HHHhcCC-----------C--ccccccchHHHHHHHHHHHHhC--cccCceEEEEeCCC-cc
Confidence 11 1111110 0 0134568999999999999764 46678899999963 21
Q ss_pred C----------CCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 181 G----------SIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 181 ~----------~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
. .++=+.|..-+........+....|+.+.+|-+..
T Consensus 566 Ahle~~DG~~~~f~yp~DP~t~~~Tvr~~d~~~r~G~q~t~FrLg~ 611 (652)
T COG4867 566 AHLEDGDGTSVFFDYPPDPRTIAHTVRGFDDMARLGAQVTIFRLGS 611 (652)
T ss_pred ccccCCCCceEecCCCCChhHHHHHHHHHHHHHhccceeeEEeecC
Confidence 1 11112355556666666778899999999998865
No 71
>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=92.96 E-value=3.7 Score=40.93 Aligned_cols=161 Identities=14% Similarity=0.083 Sum_probs=80.4
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHH--HHHhhhh-ccCCCeEEEEEEecCCCCCCCCCCcEEEecc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQ--SLKTQII-NRLYDEVAICFFNTRKKKNLQDLNAVFVFNV 104 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~--~~~~kIi-~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~ 104 (623)
..-+||+||.+..|..--+. -....+.-++++... +-..... .....+.|||+|||... |+...+-
T Consensus 13 ~~~vVfvvEgTAalgpy~~~----Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~-----~~~~~v~-- 81 (226)
T PF11265_consen 13 QAQVVFVVEGTAALGPYWNT----LKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADC-----YPEPIVQ-- 81 (226)
T ss_pred cceEEEEEecchhhhhhHHH----HHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCC-----Cccccee--
Confidence 34588999999998442110 001122222222221 1111110 23578999999999864 3333332
Q ss_pred cccccCCCCChHH-HHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC-------CCCCCcEEEEEeCC
Q 006975 105 AEREQLDRPTARF-IKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS-------SKTADKRILLFTNE 176 (623)
Q Consensus 105 ~~~~~l~~p~~~~-ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~-------~~~~~krI~l~Tn~ 176 (623)
.-=-..+.+. ++.|+.+. -.-|. ..+...+.++|-.|+.+|...+ ..-.+|..+||||.
T Consensus 82 ---~~g~T~~~~~fl~~L~~I~--------f~GGG--~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nS 148 (226)
T PF11265_consen 82 ---RSGPTSSPQKFLQWLDAIQ--------FSGGG--FESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNS 148 (226)
T ss_pred ---ccCCcCCHHHHHHHHHccC--------cCCCC--cccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCC
Confidence 1111223332 22222211 01111 1334559999999999998432 12357999999997
Q ss_pred CCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEee
Q 006975 177 DDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLP 213 (623)
Q Consensus 177 d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~ 213 (623)
.|+.-.......-.-..+-+.|.-+.+.+|.+.++.
T Consensus 149 -pP~~~p~~~~~~~~~~~~d~la~~~~~~~I~LSiis 184 (226)
T PF11265_consen 149 -PPYRLPVNECPQYSGKTCDQLAVLISERNISLSIIS 184 (226)
T ss_pred -CCccccccCCCcccCCCHHHHHHHHHhcCceEEEEc
Confidence 355431100000001123344556668899998874
No 72
>PTZ00395 Sec24-related protein; Provisional
Probab=92.04 E-value=24 Score=43.64 Aligned_cols=162 Identities=17% Similarity=0.172 Sum_probs=92.8
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCC-----CC-----------
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKK-----KN----------- 92 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t-----~n----------- 92 (623)
=+.+||||||..--.. --+..++++|...|.+. ..+...||||.|.+.-. ..
T Consensus 953 P~YvFLIDVS~~AVkS----------GLl~tacesIK~sLDsL--~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~ 1020 (1560)
T PTZ00395 953 PYFVFVVECSYNAIYN----------NITYTILEGIRYAVQNV--KCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGG 1020 (1560)
T ss_pred CEEEEEEECCHHHHhh----------ChHHHHHHHHHHHHhcC--CCCCcEEEEEEecCcEEEEecCccccccccccccc
Confidence 5789999999864332 13677888888888773 46788999998876431 00
Q ss_pred -CCCCCcEEEecccccccCCCCC------------hHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHh
Q 006975 93 -LQDLNAVFVFNVAEREQLDRPT------------ARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLR 159 (623)
Q Consensus 93 -~~~~~~i~~l~~~~~~~l~~p~------------~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~ 159 (623)
.+.=+.+.|+ .+|+.|= .+....|+.|++...+ .|.. .......|..||.+|..+++
T Consensus 1021 ~~l~qPQMLVV-----SDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPe----mFt~-t~~~esCLGSALqAA~~aLk 1090 (1560)
T PTZ00395 1021 GGSGNHQVIVM-----SDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKS----VSTT-MQSYGSCGNSALKIAMDMLK 1090 (1560)
T ss_pred ccCCCceEEee-----cCCccCcCCCCccCeeechHHHHHHHHHHHHHHHH----Hhhc-cCCCcccHHHHHHHHHHHHH
Confidence 1122455555 4544431 1333444555544322 2221 12346789999999999996
Q ss_pred cCCCCCCCcEEEEEeCCCCCCCCCcc-----Ccch------hhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 160 KGSSKTADKRILLFTNEDDPFGSIKG-----AAKN------DMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 160 ~~~~~~~~krI~l~Tn~d~P~~~~~~-----~~d~------~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
... ..=||++|... -|..+... ...+ ....--.+.|.++...+|.|++|.++.
T Consensus 1091 ~~G---GGGKIiVF~SS-LPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSs 1154 (1560)
T PTZ00395 1091 ERN---GLGSICMFYTT-TPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISS 1154 (1560)
T ss_pred hcC---CCceEEEEEcC-CCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccC
Confidence 431 13466777652 23222100 0000 001112346789999999999997753
No 73
>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=91.62 E-value=0.78 Score=46.41 Aligned_cols=163 Identities=20% Similarity=0.257 Sum_probs=87.0
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCC----CCCCCCcEEEeccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKK----NLQDLNAVFVFNVA 105 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~----n~~~~~~i~~l~~~ 105 (623)
+.+|+||+|..=.+ ...++.+++++...+...- ..++.+||||.|++.-+= +.......++.
T Consensus 5 ~y~FvID~s~~av~----------~g~~~~~~~sl~~~l~~l~-~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~v~--- 70 (243)
T PF04811_consen 5 VYVFVIDVSYEAVQ----------SGLLQSLIESLKSALDSLP-GDERTRVGIITFDSSVHFYNLSSSLSQPQMIVV--- 70 (243)
T ss_dssp EEEEEEE-SHHHHH----------HTHHHHHHHHHHHHGCTSS-TSTT-EEEEEEESSSEEEEETTTTSSSTEEEEE---
T ss_pred EEEEEEECchhhhh----------ccHHHHHHHHHHHHHHhcc-CCCCcEEEEEEeCCEEEEEECCCCcCCCcccch---
Confidence 67999999975222 2347888888888885554 678999999999875421 11123445555
Q ss_pred ccccCCCC---C--------hHHHHHHHHHHHhHhhhhccccccc-CCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEE
Q 006975 106 EREQLDRP---T--------ARFIKEFDHIEESFEKEIGSQYGIV-SGSRENSLYNALWVAQGLLRKGSSKTADKRILLF 173 (623)
Q Consensus 106 ~~~~l~~p---~--------~~~ik~L~~l~~~~~~~~~~~~~~~-~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~ 173 (623)
.+++.+ . .+....|.++++.... .+... .......+..||.+|..+++... ..=||++|
T Consensus 71 --~dl~~~~~p~~~~llv~~~e~~~~i~~ll~~L~~----~~~~~~~~~~~~c~G~Al~~A~~ll~~~~---~gGkI~~F 141 (243)
T PF04811_consen 71 --SDLDDPFIPLPDGLLVPLSECRDAIEELLESLPS----IFPETAGKRPERCLGSALSAALSLLSSRN---TGGKILVF 141 (243)
T ss_dssp --HHTTSHHSSTSSSSSEETTTCHHHHHHHHHHHHH----HSTT-TTB-----HHHHHHHHHHHHHHHT---S-EEEEEE
T ss_pred --HHHhhcccCCcccEEEEhHHhHHHHHHHHHHhhh----hcccccccCccccHHHHHHHHHHHHhccc---cCCEEEEE
Confidence 444432 0 0111223333333221 11111 12345789999999999997432 34589999
Q ss_pred eCCCCCCCCC----c--c-----Ccchh-------hHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 174 TNEDDPFGSI----K--G-----AAKND-------MTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 174 Tn~d~P~~~~----~--~-----~~d~~-------~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+..- |..+. . . +.+++ ...--...|..+...||.+++|..+.
T Consensus 142 ~s~~-pt~G~Gg~l~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~ 201 (243)
T PF04811_consen 142 TSGP-PTYGPGGSLKKREDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSS 201 (243)
T ss_dssp ESS----SSSTTSS-SBTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECS
T ss_pred eccC-CCCCCCceecccccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecC
Confidence 8652 21111 0 0 00000 00112346778899999999988764
No 74
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=91.60 E-value=3.4 Score=42.81 Aligned_cols=140 Identities=16% Similarity=0.210 Sum_probs=92.4
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAERE 108 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~ 108 (623)
-.++++||+|.+|-+.. =..+.|...++.+..++.+=.=.+|--.+|||..-.....- + .
T Consensus 61 Rhl~iviD~S~am~e~D------f~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~---------l-----t 120 (378)
T KOG2807|consen 61 RHLYIVIDCSRAMEEKD------FRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADR---------L-----T 120 (378)
T ss_pred eeEEEEEEhhhhhhhcc------CCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhH---------H-----H
Confidence 35689999999997653 23688999999999999988888899999999877544211 1 1
Q ss_pred cCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEE-eCCC--CCCCCCcc
Q 006975 109 QLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLF-TNED--DPFGSIKG 185 (623)
Q Consensus 109 ~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~-Tn~d--~P~~~~~~ 185 (623)
++.----..|..|+.+.+ .....+|-+||-.|...+... +.-.+|-|+++ ..-. +|.+
T Consensus 121 ~ltgnp~~hI~aL~~~~~--------------~~g~fSLqNaLe~a~~~Lk~~-p~H~sREVLii~sslsT~DPgd---- 181 (378)
T KOG2807|consen 121 DLTGNPRIHIHALKGLTE--------------CSGDFSLQNALELAREVLKHM-PGHVSREVLIIFSSLSTCDPGD---- 181 (378)
T ss_pred HhcCCHHHHHHHHhcccc--------------cCCChHHHHHHHHHHHHhcCC-CcccceEEEEEEeeecccCccc----
Confidence 111111234455544431 234678999999999998654 34445555544 3332 2322
Q ss_pred CcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 186 AAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 186 ~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
+- ..++.|...+|++.+++++-
T Consensus 182 ------i~---~tI~~lk~~kIRvsvIgLsa 203 (378)
T KOG2807|consen 182 ------IY---ETIDKLKAYKIRVSVIGLSA 203 (378)
T ss_pred ------HH---HHHHHHHhhCeEEEEEeech
Confidence 22 24457899999999999974
No 75
>PF10208 Armet: Degradation arginine-rich protein for mis-folding; InterPro: IPR019345 This entry represents Armet proteins (aka mesencephalic astrocyte-derived neurotrophic factor or arginine-rich protein). Armet is a small protein of approximately 170 residues which contains four di-sulphide bridges that are highly conserved from nematodes to humans. Armet is a soluble protein resident in the endoplasmic reticulum and induced by ER stress. It appears to be involved with dealing with mis-folded proteins in the ER, thus in quality control of ER stress []. Armet from Rattus norvegicus (Rat) selectively promotes the survival of dopaminergic neurons of the ventral mid-brain. It modulates GABAergic transmission to the dopaminergic neurons of the substantia nigra, and enhances spontaneous, as well as evoked, GABAergic inhibitory postsynaptic currents in dopaminergic neurons [].; PDB: 2KVE_A 2KVD_A 2W51_A 2W50_B 2RQY_A.
Probab=91.23 E-value=0.18 Score=46.70 Aligned_cols=39 Identities=26% Similarity=0.302 Sum_probs=34.8
Q ss_pred HcCCcccccHHHHHHHHHHcCCCCCC--ChHHHHHHHHHhh
Q 006975 583 DKGKLKEMTVQELKLYLMAHNLSTTG--RKETLISRILTHM 621 (623)
Q Consensus 583 ~~g~l~kltv~~LK~~l~~~~~~~~g--kK~dLi~~i~~~l 621 (623)
.+-.|++|.|.|||.+|..+|+...| -|.|+|.||.+..
T Consensus 100 ~~~Dl~KlrVk~LK~iL~~~g~~C~GC~EK~dfv~ri~el~ 140 (154)
T PF10208_consen 100 STVDLKKLRVKQLKKILDDWGEDCKGCLEKSDFVRRIEELK 140 (154)
T ss_dssp CCTSTTTTCHHHHHHHHHHHTTT-SS-CSHHHHHHHCHCCC
T ss_pred hhhHHhhCcHHHHHHHHHHcCCCCCCccchHHHHHHHHHHh
Confidence 56789999999999999999999999 7999999998754
No 76
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=90.72 E-value=3.2 Score=39.92 Aligned_cols=107 Identities=18% Similarity=0.233 Sum_probs=64.0
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQL 110 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l 110 (623)
++||||+|-||-... .-.+..+++...+-+++=-..-..-+++||-|+... -+. +||
T Consensus 6 ~~lllDtSgSM~Ge~--------IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a----------~~~-----~pf 62 (207)
T COG4245 6 CYLLLDTSGSMIGEP--------IEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPA----------RVI-----QPF 62 (207)
T ss_pred EEEEEecCccccccc--------HHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcc----------eEE-----ech
Confidence 689999999996543 222333443333333333334457899999999732 222 333
Q ss_pred CCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcC-------CCCCCCcEEEEEeCCCCC
Q 006975 111 DRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKG-------SSKTADKRILLFTNEDDP 179 (623)
Q Consensus 111 ~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~-------~~~~~~krI~l~Tn~d~P 179 (623)
.. + .++ .+...+.+...+|..||-.+.+|..+. .+..+.==+||+||.. |
T Consensus 63 ~~-----------~-~nF------~~p~L~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~-P 119 (207)
T COG4245 63 TD-----------A-ANF------NPPILTAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGE-P 119 (207)
T ss_pred hh-----------H-hhc------CCCceecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCC-c
Confidence 11 0 111 112222344568999999999999753 1445556789999986 5
No 77
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.18 E-value=3.8 Score=42.34 Aligned_cols=181 Identities=14% Similarity=0.174 Sum_probs=104.2
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCC----C-------C--CC
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKN----L-------Q--DL 96 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n----~-------~--~~ 96 (623)
-++++||++|---..... .++...|..+++.+.-++.--+..+....|+||-.++...+- + . +.
T Consensus 4 lL~vvlD~np~~W~~~~~---~~~~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~ 80 (279)
T TIGR00627 4 LLVVIIEANPCSWGMLAL---AHGKRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDP 80 (279)
T ss_pred EEEEEEeCCHHHHHHHhh---ccCCCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCcccccccccccc
Confidence 467899999964321110 123567999999999999999999999999999887665321 0 0 00
Q ss_pred CcE--EEecccccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC-CCCCCcEEEEE
Q 006975 97 NAV--FVFNVAEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS-SKTADKRILLF 173 (623)
Q Consensus 97 ~~i--~~l~~~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~-~~~~~krI~l~ 173 (623)
..+ -.+ .++...+...+.+|.+++...... ........-.+.|+-||-..+++.+... ....+.||++|
T Consensus 81 ~~~~~~~y-----~~f~~v~~~v~~~l~~l~~~~~~~---~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii 152 (279)
T TIGR00627 81 KRLRELLY-----RDFRTVDETIVEEIKPLMAHADKH---MKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVI 152 (279)
T ss_pred ccccchhc-----cchhHHHHHHHHHHHHHHhhchhc---ccccccccchhHHHhhhhhhcccccccccCcCCcceEEEE
Confidence 011 011 233444555666666666542110 0000001123445555555555543222 33558899999
Q ss_pred eCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhcccC
Q 006975 174 TNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGLE 234 (623)
Q Consensus 174 Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~~ 234 (623)
+-.++- ..+.-...+.+..++..+|.|.++.++.+ .+. .|++++....
T Consensus 153 ~~s~~~---------~~qYi~~mn~Ifaaqk~~I~Idv~~L~~e---~~~-~~lqQa~~~T 200 (279)
T TIGR00627 153 SITPDM---------ALQYIPLMNCIFSAQKQNIPIDVVSIGGD---FTS-GFLQQAADIT 200 (279)
T ss_pred ECCCCc---------hHHHHHHHHHHHHHHHcCceEEEEEeCCc---ccc-HHHHHHHHHh
Confidence 975321 22233345666788999999999999642 222 3777765433
No 78
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=86.84 E-value=17 Score=36.95 Aligned_cols=168 Identities=17% Similarity=0.167 Sum_probs=99.9
Q ss_pred cceEEEEEEECCc---cccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCC------CCCCC
Q 006975 27 TKEYVVYLVDASP---KMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKN------LQDLN 97 (623)
Q Consensus 27 ~ke~iiflIDvs~---sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n------~~~~~ 97 (623)
.---++.+||++| .|+.... + .-.....+.++--++---...+.+..|+|+-++....+. ..+-+
T Consensus 22 ~~slL~vlId~~p~~Wg~~as~~-----~-~~ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~ 95 (314)
T KOG2487|consen 22 NPSLLVVLIDANPCSWGMLASAE-----N-WETISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDR 95 (314)
T ss_pred CceeEEEEEecCcchhhhhhhhc-----C-ceeHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCcc
Confidence 3456889999999 7776542 2 226788888888999999999999999999998776431 11222
Q ss_pred cEEEeccc-----ccccCCCCChHHHHHHHHHHHhHhhhhcccccccC---CCCCCCHHHHHHHHHHHHhcCCCCCCCcE
Q 006975 98 AVFVFNVA-----EREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVS---GSRENSLYNALWVAQGLLRKGSSKTADKR 169 (623)
Q Consensus 98 ~i~~l~~~-----~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~---~~~~~~l~daL~~a~~~f~~~~~~~~~kr 169 (623)
|...++.- .-.++...+...+.++..+++. .++... .--.+.++++|-....+=+........-|
T Consensus 96 n~~~~~~t~~~~~~y~~~~~~d~tiv~ei~~lm~~-------~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSR 168 (314)
T KOG2487|consen 96 NASELDPTRLVLFDYSEFRTVDDTIVEEIYRLMEH-------PDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSR 168 (314)
T ss_pred CccccCchhhhcchhhhhcccchHHHHHHHHHHhC-------ccccccccceeeccchhhccchHhhhhhhhhhhhhhce
Confidence 33333000 0012222233334445554443 222211 12257888999888877655545566789
Q ss_pred EEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 170 ILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 170 I~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
|++||-..+- . .+.-...+-+=..+..+|-|.++.|+.
T Consensus 169 ilV~t~t~d~--~-------~qyi~~MNciFaAqKq~I~Idv~~l~~ 206 (314)
T KOG2487|consen 169 ILVFTLTRDR--A-------LQYIPYMNCIFAAQKQNIPIDVVSLGG 206 (314)
T ss_pred EEEEEechHH--H-------hhhhhHHHHHHHHHhcCceeEEEEecC
Confidence 9999984211 1 111112222224567899999999964
No 79
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=86.75 E-value=0.015 Score=64.00 Aligned_cols=130 Identities=17% Similarity=0.132 Sum_probs=94.0
Q ss_pred cccceeeEecCCeeeecCHHHHHHhhccCCCcEEEEeeecCCCCCcccccCCcEEEecCCCCCcCcHHHHHHHHHHHHhc
Q 006975 322 QEPAKRFQPYKGENIKFSVQELSEIKRVSTGHLRLHGFKPLSYLKDYHNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRL 401 (623)
Q Consensus 322 ~~~~~k~y~yG~~~V~~~~ee~~~ik~~~~~~l~llGF~~~~~i~~~~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~ 401 (623)
++.+.++|.||..++++..-+..+-+....+.|..+||-.+..|+++.+-+++.++...--.+..+..+|.+|+..++.-
T Consensus 327 kssv~~~Y~~g~~~~Vlpa~dd~~a~~a~ssli~al~~l~r~Al~Ry~~~~ks~pql~vl~Ph~~~~~~~~yLvdVqLPF 406 (669)
T KOG2326|consen 327 KSSVTKAYRYGADYVVLPAVDDDQAVYASSSLIDALGFLNREALPRYFLTSKSSPQLAVLRPHCQSDLAFSYLVDVQLPF 406 (669)
T ss_pred cccccceeeecCceEEecccCchHhHHhhhHHHHHHhhhhHHHhhhhhhccCCCceEeeeccccccccceeeEEEeeccc
Confidence 36788999999999999986666666667899999999999999999988888876533322233556899999888877
Q ss_pred CcEEEEEe--cCCCCceEEEEEeehhhccc--CCCCCCCcEEEEecCCcc---CCCC
Q 006975 402 NRFAVAFY--GNPSNPRLVALVAQDEIVRA--GGQVEPPGMHMIYLPYSD---DIRP 451 (623)
Q Consensus 402 ~kvaI~r~--r~~s~P~lvaL~P~~~~~~~--~~q~~p~g~~li~LPfad---DiR~ 451 (623)
..-+..++ +......++.++|+....+. ..-..-.-.-++.+||++ ++|.
T Consensus 407 ~eD~R~y~Fskf~~~~n~~pt~aql~AVsnlID~M~L~ksdtl~~~pf~p~~~~mr~ 463 (669)
T KOG2326|consen 407 REDARAYYFSKFDSEVNMCPTCAQLIAVSNLIDEMKLVKSDTLCRLPFAPPKLDMRV 463 (669)
T ss_pred hhhhHHhhcccccchhccCchHHHHHHHHHHhhhhhhhhhccccCCCCCCCCccchh
Confidence 77777765 55556668888888877654 000011222567888887 5554
No 80
>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=86.56 E-value=12 Score=37.31 Aligned_cols=134 Identities=13% Similarity=0.178 Sum_probs=71.1
Q ss_pred hhhhcccce-EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcE
Q 006975 21 YQEHEATKE-YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAV 99 (623)
Q Consensus 21 ~~~~~~~ke-~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i 99 (623)
+++-...+. -+|+|+|+|-||-.- + ..++..++.+ .+.. ..+.+++|+|+-.. |
T Consensus 49 ~r~~r~~~~~~lvvl~DvSGSM~~~----------s--~~~l~~~~~l-~~~~-----~~~~~f~F~~~l~~-------v 103 (222)
T PF05762_consen 49 RRRRRPRKPRRLVVLCDVSGSMAGY----------S--EFMLAFLYAL-QRQF-----RRVRVFVFSTRLTE-------V 103 (222)
T ss_pred ccccccCCCccEEEEEeCCCChHHH----------H--HHHHHHHHHH-HHhC-----CCEEEEEEeeehhh-------h
Confidence 344233455 799999999999321 1 1222222322 2221 18999999986431 1
Q ss_pred EEecccccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCC-CC
Q 006975 100 FVFNVAEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNE-DD 178 (623)
Q Consensus 100 ~~l~~~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~-d~ 178 (623)
. ..|...+. .+.|..+.... . .+ ....++..||-.+.+.+.. ..+....++|+||. ++
T Consensus 104 T-------~~l~~~~~--~~~l~~~~~~~-~----~~-----~GgTdi~~aL~~~~~~~~~--~~~~~t~vvIiSDg~~~ 162 (222)
T PF05762_consen 104 T-------PLLRRRDP--EEALARLSALV-Q----SF-----GGGTDIGQALREFLRQYAR--PDLRRTTVVIISDGWDT 162 (222)
T ss_pred h-------hhhccCCH--HHHHHHHHhhc-c----CC-----CCccHHHHHHHHHHHHhhc--ccccCcEEEEEeccccc
Confidence 1 12222222 22233332110 0 11 2357899999988888743 23456688889997 32
Q ss_pred CCCCCccCcchhhHHHHHHHHHHhHhcCceEEE
Q 006975 179 PFGSIKGAAKNDMTRTTMQRAKDAQDLGISIEL 211 (623)
Q Consensus 179 P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l 211 (623)
.. .+ ........|...+..+.-
T Consensus 163 ~~--------~~---~~~~~l~~l~~r~~rviw 184 (222)
T PF05762_consen 163 ND--------PE---PLAEELRRLRRRGRRVIW 184 (222)
T ss_pred CC--------hH---HHHHHHHHHHHhCCEEEE
Confidence 21 11 123345578888886543
No 81
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=84.29 E-value=46 Score=33.05 Aligned_cols=176 Identities=16% Similarity=0.189 Sum_probs=83.4
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccc
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAER 107 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~ 107 (623)
--+|-||||||-||.... ...|+.|+.-+.+-.--.+ =-+=|+-|.|..-+....++. +
T Consensus 12 d~~VtlLID~SGSMrgr~-----------~~vA~~~adila~aL~~~g--vp~EVlGFtT~aw~gg~~~~~---w----- 70 (219)
T PF11775_consen 12 DTVVTLLIDCSGSMRGRP-----------IEVAALCADILARALERCG--VPVEVLGFTTRAWKGGRSREA---W----- 70 (219)
T ss_pred CeEEEEEEeCCcCCCCCh-----------HHHHHHHHHHHHHHHHhCC--CCeEEEeeecCCcCCcchHHH---H-----
Confidence 446889999999996643 4666666666555444444 335567788874321111110 0
Q ss_pred ccCC-CCChHHHHHHHHHHHhH-hh-------hhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCC
Q 006975 108 EQLD-RPTARFIKEFDHIEESF-EK-------EIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDD 178 (623)
Q Consensus 108 ~~l~-~p~~~~ik~L~~l~~~~-~~-------~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~ 178 (623)
+.=+ ++..-++-.|..++-.. .. +++-....-+-.+.-|=....|+|..+... .-.|||+++-.+..
T Consensus 71 ~~~G~p~~pgrln~l~h~vyk~a~~~wrraR~~l~~m~~~~~~~eniDGeAl~~a~~rL~~r----~e~rkiLiViSDG~ 146 (219)
T PF11775_consen 71 LAAGRPRYPGRLNDLRHIVYKDADTPWRRARRNLGLMMREGLLKENIDGEALRWAAERLLAR----PEQRKILIVISDGA 146 (219)
T ss_pred HhcCCCCCChHHHHHHHHHHHhcCChhhhHHHhHHHHhhccccccCCcHHHHHHHHHHHHcC----CccceEEEEEeCCC
Confidence 0001 11222333333333210 00 010000000112333444556888888733 34566766666667
Q ss_pred CCCCCccCc-chhhHHH-HHHHHHHhHh-cCceEEEeeCCCCCCCCcccchhhhhccc
Q 006975 179 PFGSIKGAA-KNDMTRT-TMQRAKDAQD-LGISIELLPLSPPDEEFKVSHFYADMIGL 233 (623)
Q Consensus 179 P~~~~~~~~-d~~~~~~-~~~~a~dL~~-~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~ 233 (623)
|.+...-.. +.+.+.+ ..+.++.... .+|+|.-++|+ -|.+.||+.-+..
T Consensus 147 P~d~st~~~n~~~~L~~HLr~vi~~ie~~~~Vel~aiGIg-----~D~~~yY~~~~~i 199 (219)
T PF11775_consen 147 PADDSTLSANDGDYLDAHLRQVIAEIETRSDVELIAIGIG-----HDVSRYYRRAVTI 199 (219)
T ss_pred cCcccccccCChHHHHHHHHHHHHHHhccCCcEEEEEEcC-----CCchhhcccceec
Confidence 874311000 1111211 1222334443 36776666664 3566799876554
No 82
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=84.15 E-value=17 Score=42.14 Aligned_cols=167 Identities=20% Similarity=0.256 Sum_probs=91.9
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCC--CCCC-CcEEEeccc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKN--LQDL-NAVFVFNVA 105 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n--~~~~-~~i~~l~~~ 105 (623)
-..+|+||||-.-... -.+..+.+.|...+-..-=-.+.-+||+|+|-..-.-. +.+. +|.++.
T Consensus 277 ~~yvFlIDVS~~a~~~----------g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d~~~~~~~v--- 343 (861)
T COG5028 277 PVYVFLIDVSFEAIKN----------GLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPDLDEQMLIV--- 343 (861)
T ss_pred CEEEEEEEeehHhhhc----------chHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCCCccceeee---
Confidence 4689999999653221 23677888888777776666689999999997654211 1233 356666
Q ss_pred ccccCCCC-----ChHHHHHHHHHHHhH---hhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCC
Q 006975 106 EREQLDRP-----TARFIKEFDHIEESF---EKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNED 177 (623)
Q Consensus 106 ~~~~l~~p-----~~~~ik~L~~l~~~~---~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d 177 (623)
.+|+.| +-..+..|++...-. -+-++.-|.. .......+.+||-+|..++.. .+.|.|+++.-.-
T Consensus 344 --sdld~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~If~d-~~~pk~~~G~aLk~a~~l~g~----~GGkii~~~stlP 416 (861)
T COG5028 344 --SDLDEPFLPFPSGLFVLPLKSCKQIIETLLDRVPRIFQD-NKSPKNALGPALKAAKSLIGG----TGGKIIVFLSTLP 416 (861)
T ss_pred --cccccccccCCcchhcccHHHHHHHHHHHHHHhhhhhcc-cCCCccccCHHHHHHHHHhhc----cCceEEEEeecCC
Confidence 566555 233333333332211 1111111111 123467799999999998854 4466677662210
Q ss_pred -CCCCCCccCc-chhhHHHH-----HHHHHHhHhcCceEEEeeCC
Q 006975 178 -DPFGSIKGAA-KNDMTRTT-----MQRAKDAQDLGISIELLPLS 215 (623)
Q Consensus 178 -~P~~~~~~~~-d~~~~~~~-----~~~a~dL~~~gI~i~l~~i~ 215 (623)
.-.+..+-.- ++.....| ...|.++...||.+.+|.-+
T Consensus 417 n~G~Gkl~~r~d~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~ 461 (861)
T COG5028 417 NMGIGKLQLREDKESSLLSCKDSFYKEFAIECSKVGISVDLFLTS 461 (861)
T ss_pred CcccccccccccchhhhccccchHHHHHHHHHHHhcceEEEEecc
Confidence 0000000000 01112222 23567899999999998764
No 83
>PRK14537 50S ribosomal protein L20/unknown domain fusion protein; Provisional
Probab=83.07 E-value=1.1 Score=43.88 Aligned_cols=38 Identities=24% Similarity=0.364 Sum_probs=33.3
Q ss_pred CcccccHHHHHHHHHHcCCCC--CCChHHHHHHHHHhhcC
Q 006975 586 KLKEMTVQELKLYLMAHNLST--TGRKETLISRILTHMGK 623 (623)
Q Consensus 586 ~l~kltv~~LK~~l~~~~~~~--~gkK~dLi~~i~~~l~~ 623 (623)
.|++|.|++||+..+.+.++. .-||+|||+.+..++.+
T Consensus 190 ~l~~m~~~elk~lak~~~i~~~~~~kk~e~i~al~~~~~~ 229 (230)
T PRK14537 190 DLSKMLLKELKKLAKEHKIPNFNKLKKTEIIKALKKALKK 229 (230)
T ss_pred cHHHhhHHHHHHHHHHhCCcchhhhhHHHHHHHHHHHHhc
Confidence 388999999999999999985 34999999999988753
No 84
>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=80.32 E-value=23 Score=36.38 Aligned_cols=33 Identities=33% Similarity=0.327 Sum_probs=25.3
Q ss_pred CCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCC
Q 006975 143 RENSLYNALWVAQGLLRKGSSKTADKRILLFTNE 176 (623)
Q Consensus 143 ~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~ 176 (623)
....+..||.+|..++..+.++. .=||++|+..
T Consensus 139 ~~r~~G~Al~~A~~ll~~~~~~~-gGki~~F~sg 171 (267)
T cd01478 139 PLRCTGVALSIAVGLLEACFPNT-GARIMLFAGG 171 (267)
T ss_pred CCCchHHHHHHHHHHHHhhcCCC-CcEEEEEECC
Confidence 35679999999999998653333 4589999986
No 85
>PF13867 SAP30_Sin3_bdg: Sin3 binding region of histone deacetylase complex subunit SAP30; PDB: 2LD7_A.
Probab=78.90 E-value=3.5 Score=31.34 Aligned_cols=33 Identities=21% Similarity=0.332 Sum_probs=24.4
Q ss_pred ccHHHHHHHHHHcCCCC--CCChHHHHHHHHHhhc
Q 006975 590 MTVQELKLYLMAHNLST--TGRKETLISRILTHMG 622 (623)
Q Consensus 590 ltv~~LK~~l~~~~~~~--~gkK~dLi~~i~~~l~ 622 (623)
|.++-||.|.+.+++.. ...|++|.+.|..||.
T Consensus 1 L~~~tLrrY~~~~~l~~~~~~sK~qLa~~V~kHF~ 35 (53)
T PF13867_consen 1 LQTPTLRRYKKHYKLPERPRSSKEQLANAVRKHFN 35 (53)
T ss_dssp S-HHHHHHHHHHTT----SS--HHHHHHHHHHHHT
T ss_pred CchHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHh
Confidence 56789999999988773 5589999999999985
No 86
>PLN00162 transport protein sec23; Provisional
Probab=78.34 E-value=1.2e+02 Score=36.12 Aligned_cols=32 Identities=31% Similarity=0.316 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCC
Q 006975 144 ENSLYNALWVAQGLLRKGSSKTADKRILLFTNE 176 (623)
Q Consensus 144 ~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~ 176 (623)
.-.+..||.+|..++..+.++ ..=||++|+..
T Consensus 261 ~r~tG~AL~vA~~lL~~~~~~-~gGrI~~F~sg 292 (761)
T PLN00162 261 ARCTGAALSVAAGLLGACVPG-TGARIMAFVGG 292 (761)
T ss_pred CccHHHHHHHHHHHHhhccCC-CceEEEEEeCC
Confidence 456899999999999765433 36689999974
No 87
>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=76.02 E-value=20 Score=37.13 Aligned_cols=180 Identities=15% Similarity=0.155 Sum_probs=94.6
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEE--Eeccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVF--VFNVAER 107 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~--~l~~~~~ 107 (623)
-++++||++|.--.... ....|..+++.+.-++.--+..+....|+||..++..+.-- |+.-- .-....-
T Consensus 3 LLvIILD~nP~~W~~~~------~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~L--YP~~~~~~~~~~~~ 74 (276)
T PF03850_consen 3 LLVIILDTNPLAWGQLS------DQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFL--YPSPSSSESSNSGD 74 (276)
T ss_pred EEEEEEECCHHHHhhcc------ccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEE--eCCCccccccCCCc
Confidence 47899999996444332 23679999999999999999999999999999988775310 11100 0000000
Q ss_pred ccCCCCC---hHHHHHHHHHHHhH-hhhhcccccccCCCCCCCHHHHHHHHHHHHhc----CC--CCCCCcEEEE-EeCC
Q 006975 108 EQLDRPT---ARFIKEFDHIEESF-EKEIGSQYGIVSGSRENSLYNALWVAQGLLRK----GS--SKTADKRILL-FTNE 176 (623)
Q Consensus 108 ~~l~~p~---~~~ik~L~~l~~~~-~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~----~~--~~~~~krI~l-~Tn~ 176 (623)
.+....+ ....+.+++.+... .+.+.+............|+-||-.|.-.+.+ .. ....+.||++ ++..
T Consensus 75 ~~~~~~~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s 154 (276)
T PF03850_consen 75 VEMNSSDSNKYRQFRNVDETVLEELKKLMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGS 154 (276)
T ss_pred ccccccccchhHHHHHHHHHHHHHHHHHHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecC
Confidence 0011111 12333333333221 11111111110111125566666555444332 22 1456779998 6654
Q ss_pred CCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhc
Q 006975 177 DDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMI 231 (623)
Q Consensus 177 d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~ 231 (623)
++.- .+ .-...+-+=..+..+|.|++..++.. .+.|.++..
T Consensus 155 ~d~~--------~Q-Yi~~MN~iFaAqk~~v~IDv~~L~~~-----~s~fLqQa~ 195 (276)
T PF03850_consen 155 PDSS--------SQ-YIPLMNCIFAAQKQKVPIDVCKLGGK-----DSTFLQQAS 195 (276)
T ss_pred CCcc--------HH-HHHHHHHHHHHhcCCceeEEEEecCC-----chHHHHHHH
Confidence 3221 11 22234444456788999999999752 234665544
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=75.66 E-value=99 Score=31.59 Aligned_cols=158 Identities=11% Similarity=0.155 Sum_probs=89.1
Q ss_pred ceEEEEEEECCccccCCCCCCCC-----CCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEe
Q 006975 28 KEYVVYLVDASPKMFSTTCPAED-----QTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVF 102 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~-----~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l 102 (623)
.=-++++||++.|=..+..+ .+ .....+.+.|++.+-.+++. ..+.-++-++.||+..+.+. .+..+
T Consensus 31 ~~nl~vaIDfT~SNg~p~~~-~SLHy~~~~~~N~Yq~aI~~vg~il~~---yD~D~~ip~~GFGa~~~~~~----~v~~~ 102 (254)
T cd01459 31 ESNLIVAIDFTKSNGWPGEK-RSLHYISPGRLNPYQKAIRIVGEVLQP---YDSDKLIPAFGFGAIVTKDQ----SVFSF 102 (254)
T ss_pred eeeEEEEEEeCCCCCCCCCC-CCcccCCCCCccHHHHHHHHHHHHHHh---cCCCCceeeEeecccCCCCC----ccccc
Confidence 34689999999986554332 11 13457788888777666554 34567999999999765432 12222
Q ss_pred ccccccc--CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCC
Q 006975 103 NVAEREQ--LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPF 180 (623)
Q Consensus 103 ~~~~~~~--l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~ 180 (623)
.+ ...|....|. .+++.-...+. .... ..+.++..++..+.++.........---++++||.+- .
T Consensus 103 -----f~~~~~~p~~~Gi~---gvl~aY~~~l~-~v~l---sGpT~fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i-~ 169 (254)
T cd01459 103 -----FPGYSESPECQGFE---GVLRAYREALP-NVSL---SGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGEI-T 169 (254)
T ss_pred -----cCCCCCCCcccCHH---HHHHHHHHHhc-eeee---cCcchHHHHHHHHHHHHHHhcCCCceEEEEEECCCCc-c
Confidence 22 1223333332 22222111110 1111 2356788888888887765432222334778888853 2
Q ss_pred CCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 181 GSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 181 ~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
|..+..+++. +...+.+.|..++++.
T Consensus 170 -------D~~~t~~aIv---~AS~~PlSIiiVGVGd 195 (254)
T cd01459 170 -------DMNETIKAIV---EASKYPLSIVIVGVGD 195 (254)
T ss_pred -------cHHHHHHHHH---HHhcCCeEEEEEEeCC
Confidence 3333344444 4456799999999975
No 89
>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=75.58 E-value=85 Score=30.82 Aligned_cols=142 Identities=15% Similarity=0.124 Sum_probs=75.4
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCe-EEEEEEecCCCCCCCCCCcEEEecccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDE-VAICFFNTRKKKNLQDLNAVFVFNVAERE 108 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~-vgivl~gt~~t~n~~~~~~i~~l~~~~~~ 108 (623)
.|.++||.|-||...+. ++ ..+.+.+-+.-+-. .-..|. |=|++|+++-..
T Consensus 3 rV~LVLD~SGSM~~~yk-----~G--~vQ~~~Er~lalA~----~~DdDG~i~v~~Fs~~~~~----------------- 54 (200)
T PF10138_consen 3 RVYLVLDISGSMRPLYK-----DG--TVQRVVERILALAA----QFDDDGEIDVWFFSTEFDR----------------- 54 (200)
T ss_pred EEEEEEeCCCCCchhhh-----Cc--cHHHHHHHHHHHHh----hcCCCCceEEEEeCCCCCc-----------------
Confidence 57899999999977654 11 13333322222211 123444 999999997632
Q ss_pred cCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 109 QLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 109 ~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
+...+..... ..+......+ ...+. -...+..-|+-.+.+.+....+...--=|+.|||.+ |..
T Consensus 55 -~~~vt~~~~~---~~v~~~~~~~-~~~~~---~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~-~~~------- 118 (200)
T PF10138_consen 55 -LPDVTLDNYE---GYVDELHAGL-PDWGR---MGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGG-PDD------- 118 (200)
T ss_pred -CCCcCHHHHH---HHHHHHhccc-cccCC---CCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCC-ccc-------
Confidence 2233333322 2222210000 01121 113677788877777775332222223566667765 543
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPPD 218 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~ 218 (623)
.....+++. ......|....++|+.++
T Consensus 119 ~~~~~~~i~---~as~~pifwqFVgiG~~~ 145 (200)
T PF10138_consen 119 RRAIEKLIR---EASDEPIFWQFVGIGDSN 145 (200)
T ss_pred hHHHHHHHH---hccCCCeeEEEEEecCCc
Confidence 233444444 457889999999998754
No 90
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=73.96 E-value=2.7 Score=35.19 Aligned_cols=34 Identities=32% Similarity=0.414 Sum_probs=30.3
Q ss_pred cCCcccccHHHHHHHHHHcCCCCCCChHHHHHHH
Q 006975 584 KGKLKEMTVQELKLYLMAHNLSTTGRKETLISRI 617 (623)
Q Consensus 584 ~g~l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i 617 (623)
+.+|+.+|+.+|..|++.||++.+.+=|+.|-.+
T Consensus 9 n~Kln~iT~~eLlkyskqy~i~it~~QA~~I~~~ 42 (85)
T PF11116_consen 9 NQKLNNITAKELLKYSKQYNISITKKQAEQIANI 42 (85)
T ss_pred HHHHhcCCHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 4678999999999999999999999888887665
No 91
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=71.06 E-value=86 Score=34.58 Aligned_cols=135 Identities=14% Similarity=0.124 Sum_probs=77.8
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAERE 108 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~ 108 (623)
.-++.|||-|-||+... -..|.-.|..+|+.-.. -+=-+.++||-+.- .. .
T Consensus 273 GpvilllD~SGSM~G~~-----------e~~AKAvalAl~~~ala--enR~~~~~lF~s~~----------~~------~ 323 (437)
T COG2425 273 GPVILLLDKSGSMSGFK-----------EQWAKAVALALMRIALA--ENRDCYVILFDSEV----------IE------Y 323 (437)
T ss_pred CCEEEEEeCCCCcCCcH-----------HHHHHHHHHHHHHHHHH--hccceEEEEecccc----------ee------e
Confidence 56999999999997743 24444444555543322 23347888898821 11 1
Q ss_pred cCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCcc
Q 006975 109 QLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAAK 188 (623)
Q Consensus 109 ~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~d 188 (623)
.+..+... ++++-+.+.. .|| . ..|+..+|..|.+-.+... ...-.|++|||.-.++.. +
T Consensus 324 el~~k~~~-~~e~i~fL~~-------~f~----G-GTD~~~~l~~al~~~k~~~--~~~adiv~ITDg~~~~~~-----~ 383 (437)
T COG2425 324 ELYEKKID-IEELIEFLSY-------VFG----G-GTDITKALRSALEDLKSRE--LFKADIVVITDGEDERLD-----D 383 (437)
T ss_pred eecCCccC-HHHHHHHHhh-------hcC----C-CCChHHHHHHHHHHhhccc--ccCCCEEEEeccHhhhhh-----H
Confidence 22233322 2222222221 222 2 3789999999999886543 223889999999877652 1
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCC
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPP 217 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~ 217 (623)
.+.. ..+-.+.....+.-+.|+..
T Consensus 384 --~~~~---v~e~~k~~~~rl~aV~I~~~ 407 (437)
T COG2425 384 --FLRK---VKELKKRRNARLHAVLIGGY 407 (437)
T ss_pred --HHHH---HHHHHHHhhceEEEEEecCC
Confidence 1111 11233456777777777653
No 92
>KOG3572 consensus Uncharacterized conserved protein, contains DEP domain [Signal transduction mechanisms]
Probab=70.90 E-value=51 Score=40.51 Aligned_cols=171 Identities=15% Similarity=0.121 Sum_probs=98.4
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhh-ccCCCeEEEEEEecCC---CC--------------
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQII-NRLYDEVAICFFNTRK---KK-------------- 91 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi-~~~~D~vgivl~gt~~---t~-------------- 91 (623)
-++|.|..+..|-.-.. .+.=.|+.|+.-..--+=.|=. .+-.++|.||||-.-. +.
T Consensus 293 rvliFIQMs~EMW~Fde-----~GdlyfeKaIngFLpdLF~KWKe~~chH~VsIiLfsr~~ys~~gvdd~~~~~~~~~~D 367 (1701)
T KOG3572|consen 293 RVLIFIQMSSEMWQFDE-----QGDLYFEKAINGFLPDLFLKWKEQSCHHYVSIILFSRMWYSIGGVDDAAKRFMKGACD 367 (1701)
T ss_pred eEEeeeeechHhhcCcc-----hhHHHHHHHHHhHHHHHHHHHHhcCCceEEEEEEEEeeecccCCchhccchhcccccc
Confidence 47889999999976443 3456788666543332222222 2347999999997621 11
Q ss_pred CCC-CCCcEEEecccccccCCCCChHHH-HHHHHHHHhHh---------hhhcccccccCCCCCCCHHHHHHHHHHHHhc
Q 006975 92 NLQ-DLNAVFVFNVAEREQLDRPTARFI-KEFDHIEESFE---------KEIGSQYGIVSGSRENSLYNALWVAQGLLRK 160 (623)
Q Consensus 92 n~~-~~~~i~~l~~~~~~~l~~p~~~~i-k~L~~l~~~~~---------~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~ 160 (623)
+.+ -|+.-|-+ ++|....-+|..+ ..|+....... ++..---|-.++...+++.+|+..+...|+.
T Consensus 368 h~gr~yqDFyrv---VVqNes~edW~d~l~tlk~ef~~~r~vlvrk~~dEg~~~~qGr~Stsa~gNfLEvVNms~n~F~~ 444 (1701)
T KOG3572|consen 368 HRGRYYQDFYRV---VVQNESYEDWADKLLTLKNEFCSKRSVLVRKKLDEGLPQVQGRVSTSADGNFLEVVNMSMNSFSM 444 (1701)
T ss_pred ccCCcHhhhhhh---hhccccHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCcccccccccccccchHHhhhhhhhhccc
Confidence 111 13333333 1144444555443 22222221111 1110111223456789999999999999985
Q ss_pred CC----CCCCCcEEEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 161 GS----SKTADKRILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 161 ~~----~~~~~krI~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
.- -......|++||-+..-+.- |.+++.-..+ .|.++||.++++-++.
T Consensus 445 ~yidrdf~rTgq~iiiVTPG~GvfeV-----Dr~Ll~LTkq---rlid~gigmDlVCLge 496 (1701)
T KOG3572|consen 445 YYIDRDFERTGQQIIIVTPGNGVFEV-----DRDLLSLTKQ---RLIDMGIGMDLVCLGE 496 (1701)
T ss_pred hhhhccccccceEEEEEcCCCceeee-----cHHHHHHhhh---HhhhcccceeEEEccC
Confidence 32 23355689999988877765 5665554333 6788999988886653
No 93
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=67.58 E-value=98 Score=38.23 Aligned_cols=148 Identities=21% Similarity=0.199 Sum_probs=93.0
Q ss_pred hcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEec
Q 006975 24 HEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFN 103 (623)
Q Consensus 24 ~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~ 103 (623)
-.+...-++|++|+|.||... .|+.|...+..++... +.+|.|-|+-||.+...-.. | .+
T Consensus 221 aAt~pKdiviLlD~SgSm~g~-----------~~~lak~tv~~iLdtL---s~~Dfvni~tf~~~~~~v~p----c--~~ 280 (1104)
T KOG2353|consen 221 AATSPKDIVILLDVSGSMSGL-----------RLDLAKQTVNEILDTL---SDNDFVNILTFNSEVNPVSP----C--FN 280 (1104)
T ss_pred ccCCccceEEEEeccccccch-----------hhHHHHHHHHHHHHhc---ccCCeEEEEeeccccCcccc----c--cc
Confidence 345667789999999999554 3788877777777653 68999999999987632211 1 22
Q ss_pred ccccccCCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCC-------CCCCCcEEEEEeCC
Q 006975 104 VAEREQLDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGS-------SKTADKRILLFTNE 176 (623)
Q Consensus 104 ~~~~~~l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~-------~~~~~krI~l~Tn~ 176 (623)
..|=+.+...++.|.+.++... . ....++.-+|-.|..++.... ..-.++-|+||||.
T Consensus 281 ----~~lvqAt~~nk~~~~~~i~~l~--------~---k~~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG 345 (1104)
T KOG2353|consen 281 ----GTLVQATMRNKKVFKEAIETLD--------A---KGIANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLITDG 345 (1104)
T ss_pred ----CceeecchHHHHHHHHHHhhhc--------c---ccccchhhhHHHHHHHHHHhccccccccccccceeeEEeecC
Confidence 4555778888888888776532 1 224556666766666665311 22367899999943
Q ss_pred CCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeCCCCC
Q 006975 177 DDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPLSPPD 218 (623)
Q Consensus 177 d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~ 218 (623)
+-+. ...+.+.-.. .+..|++--|.|+...
T Consensus 346 --~~~~---------~~~If~~yn~-~~~~Vrvftflig~~~ 375 (1104)
T KOG2353|consen 346 --VDEN---------AKEIFEKYNW-PDKKVRVFTFLIGDEV 375 (1104)
T ss_pred --Cccc---------HHHHHHhhcc-CCCceEEEEEEecccc
Confidence 2222 1112222111 1457777777777644
No 94
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=65.68 E-value=7.6 Score=42.11 Aligned_cols=35 Identities=23% Similarity=0.207 Sum_probs=32.6
Q ss_pred cccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhh
Q 006975 587 LKEMTVQELKLYLMAHNLSTTGRKETLISRILTHM 621 (623)
Q Consensus 587 l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l 621 (623)
.+.|+-.+||+-|+..||++.|.|+.||.|-.+|+
T Consensus 266 y~~l~~~~lr~kL~~lglpt~G~r~~l~~Rh~e~~ 300 (397)
T TIGR00599 266 YSLLTDSQIRKKLSELGLSTNGTRQLLQKRHNEWE 300 (397)
T ss_pred hhhcCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence 35699999999999999999999999999999986
No 95
>PF07766 LETM1: LETM1-like protein; InterPro: IPR011685 This is a group of mainly hypothetical eukaryotic proteins. Putative features found in LETM1, such as a transmembrane domain and a CK2 and PKC phosphorylation site [], are relatively conserved throughout the family. Deletion of LETM1 is thought to be involved in the development of Wolf-Hirschhorn syndrome in humans []. A member of this family, P91927 from SWISSPROT, is known to be expressed in the mitochondria of Drosophila melanogaster [], suggesting that this may be a group of mitochondrial proteins.; PDB: 3SKQ_A.
Probab=64.58 E-value=7.5 Score=40.05 Aligned_cols=40 Identities=18% Similarity=0.259 Sum_probs=30.3
Q ss_pred HcCCcccccHHHHHHHHHHcCCCCCC-ChHHHHHHHHHhhc
Q 006975 583 DKGKLKEMTVQELKLYLMAHNLSTTG-RKETLISRILTHMG 622 (623)
Q Consensus 583 ~~g~l~kltv~~LK~~l~~~~~~~~g-kK~dLi~~i~~~l~ 622 (623)
....++.||..+|+..|...|+.+.| ..++|.+...+||+
T Consensus 213 ~~eGv~~Ls~~EL~~Ac~~RGl~~~~~s~~~lr~~L~~WL~ 253 (268)
T PF07766_consen 213 KREGVDSLSEEELQDACYERGLRSTGLSEEELREWLKQWLQ 253 (268)
T ss_dssp HHH-GGGS-HHHHHHHHHHTT---TT--HHHHHHHHHHHHH
T ss_pred HHhccccCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHH
Confidence 33478999999999999999999877 78999999999985
No 96
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=64.45 E-value=65 Score=33.38 Aligned_cols=150 Identities=15% Similarity=0.134 Sum_probs=89.0
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
.++++||||.+|-+..= -.+.+...++++..++-.=.-.+|-..+||+...-.-.+ .+ ..
T Consensus 89 hl~l~lD~Seam~e~Df------~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~------~~--------s~ 148 (421)
T COG5151 89 HLHLILDVSEAMDESDF------LPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAK------YT--------SS 148 (421)
T ss_pred eeEEEEEhhhhhhhhhc------cchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHHH------Hh--------hh
Confidence 56899999999976532 256788899999998887777778888888865432110 01 11
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEe---CCCCCCCCCccC
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFT---NEDDPFGSIKGA 186 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~T---n~d~P~~~~~~~ 186 (623)
++----..|..|.++.+ .+...+|.+||-.|.-.+...+ .-..|-|.+|- .-.+|.+
T Consensus 149 ~~gnpq~hi~~lkS~rd--------------~~gnfSLqNaLEmar~~l~~~~-~H~trEvLiifgS~st~DPgd----- 208 (421)
T COG5151 149 MDGNPQAHIGQLKSKRD--------------CSGNFSLQNALEMARIELMKNT-MHGTREVLIIFGSTSTRDPGD----- 208 (421)
T ss_pred cCCCHHHHHHHhhcccc--------------cCCChhHHhHHHHhhhhhcccc-cccceEEEEEEeecccCCCcc-----
Confidence 11111234455544431 1335789999998876665543 22344444442 2233432
Q ss_pred cchhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccchhhhhccc
Q 006975 187 AKNDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHFYADMIGL 233 (623)
Q Consensus 187 ~d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~fy~~i~~~ 233 (623)
+.+ .+..|...+|.+.++++... .. .|++|-+.
T Consensus 209 -----i~~---tid~Lv~~~IrV~~igL~ae-----va-icKeicka 241 (421)
T COG5151 209 -----IAE---TIDKLVAYNIRVHFIGLCAE-----VA-ICKEICKA 241 (421)
T ss_pred -----HHH---HHHHHHhhceEEEEEeehhH-----HH-HHHHHHhh
Confidence 232 34478899999999988532 11 56666544
No 97
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=59.44 E-value=1.7e+02 Score=29.08 Aligned_cols=55 Identities=13% Similarity=0.157 Sum_probs=37.6
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecC
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTR 88 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~ 88 (623)
..-+..+||+.|....... ..-+....|..+--++.--.-.+....|+||---++
T Consensus 20 pslL~viid~~p~~W~~~~------ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~ 74 (296)
T COG5242 20 PSLLFVIIDLEPENWELTT------EKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQ 74 (296)
T ss_pred CceEEEEEecChhhccccc------ccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccC
Confidence 4456778899998766543 123456666667777777777888889998855443
No 98
>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=57.63 E-value=3.1e+02 Score=31.55 Aligned_cols=49 Identities=27% Similarity=0.242 Sum_probs=29.7
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCC
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRK 89 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~ 89 (623)
.-+|-+|||+|-||.... ...|..|+.-+-+..=.+ .=-+-|+-|-|..
T Consensus 392 D~~V~LLID~SGSM~~r~-----------~~vA~~~a~iLa~aL~~~--gIp~eVlGFtt~a 440 (600)
T TIGR01651 392 DTVVTLLIDNSGSMRGRP-----------ITVAATCADILARTLERC--GVKVEILGFTTRA 440 (600)
T ss_pred CcEEEEEEECCccCCCCH-----------HHHHHHHHHHHHHHHHHC--CCCeEEEeecccc
Confidence 346889999999996432 344555555444433333 3346677777763
No 99
>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=54.21 E-value=3.3e+02 Score=29.92 Aligned_cols=42 Identities=14% Similarity=-0.067 Sum_probs=25.3
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEE
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICF 84 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl 84 (623)
+-||.|+|-||... ++........+++..--..++=.+|+=-
T Consensus 102 LYyLMDlS~SM~dd------------l~~lk~lg~~L~~~m~~it~n~rlGfGs 143 (423)
T smart00187 102 LYYLMDLSYSMKDD------------LDNLKSLGDDLAREMKGLTSNFRLGFGS 143 (423)
T ss_pred eEEEEeCCccHHHH------------HHHHHHHHHHHHHHHHhcccCceeeEEE
Confidence 45999999999442 4444444555555544444566666533
No 100
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.66 E-value=1.6e+02 Score=34.05 Aligned_cols=31 Identities=32% Similarity=0.353 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCC
Q 006975 145 NSLYNALWVAQGLLRKGSSKTADKRILLFTNE 176 (623)
Q Consensus 145 ~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~ 176 (623)
-...-||.+|..++..|- .....||++|+++
T Consensus 249 RcTG~Al~iA~~Ll~~c~-p~~g~rIv~f~gG 279 (745)
T KOG1986|consen 249 RCTGVALSIASGLLEGCF-PNTGARIVLFAGG 279 (745)
T ss_pred cchhHHHHHHHHHhcccC-CCCcceEEEeccC
Confidence 356789999999997664 4557899999997
No 101
>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=48.99 E-value=2.2e+02 Score=26.37 Aligned_cols=137 Identities=13% Similarity=0.175 Sum_probs=81.5
Q ss_pred CCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccccCCCCChHHHHHHHHHHHhHhhhh
Q 006975 53 DETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQLDRPTARFIKEFDHIEESFEKEI 132 (623)
Q Consensus 53 ~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~l~~p~~~~ik~L~~l~~~~~~~~ 132 (623)
...+.+.|++++-.+++.- ...-++-++-||...+. .....|++.+| ...+.|....+..+ ++.-.+.+
T Consensus 9 ~~N~Y~~ai~~vg~il~~Y---d~dk~~p~~GFGa~~~~-~~~vsh~F~ln----~~~~~p~~~Gi~gv---l~~Y~~~~ 77 (146)
T PF07002_consen 9 QPNPYQQAIRAVGEILQDY---DSDKMIPAYGFGAKIPP-DYSVSHCFPLN----GNPQNPECQGIDGV---LEAYRKAL 77 (146)
T ss_pred CCCHHHHHHHHHHHHHHhh---ccCCccceeccCCcCCC-Ccccccceeee----cCCCCCcccCHHHH---HHHHHHHh
Confidence 3568999999998888764 45567889999996543 23457888885 44455655554333 33221111
Q ss_pred cccccccCCCCCCCHHHHHHHHHHHHhc-CCCCCCCcEEEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEE
Q 006975 133 GSQYGIVSGSRENSLYNALWVAQGLLRK-GSSKTADKRILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIEL 211 (623)
Q Consensus 133 ~~~~~~~~~~~~~~l~daL~~a~~~f~~-~~~~~~~krI~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l 211 (623)
.+ ... ..+..|..++..|.++-.. .+....---++++||.+-- |.++-.+++. +...+.+.|..
T Consensus 78 ~~-v~l---~GPT~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~--------D~~~T~~aIv---~AS~~PlSIIi 142 (146)
T PF07002_consen 78 PK-VQL---SGPTNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQIT--------DMEETIDAIV---EASKLPLSIII 142 (146)
T ss_pred hh-eEE---CCCccHHHHHHHHHHHHhhhccCCceEEEEEEecccccc--------cHHHHHHHHH---HHccCCeEEEE
Confidence 11 111 3356788888888877653 2233444467788888722 2232333344 44567888877
Q ss_pred eeCC
Q 006975 212 LPLS 215 (623)
Q Consensus 212 ~~i~ 215 (623)
++++
T Consensus 143 VGVG 146 (146)
T PF07002_consen 143 VGVG 146 (146)
T ss_pred EEeC
Confidence 7663
No 102
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=45.02 E-value=62 Score=30.61 Aligned_cols=52 Identities=13% Similarity=0.220 Sum_probs=37.7
Q ss_pred hhhhhhcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEec
Q 006975 19 EFYQEHEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNT 87 (623)
Q Consensus 19 ~~~~~~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt 87 (623)
..|..|...-+++||+||.+.. ..|.++.+....++.+.-.. +.-=+|++|-
T Consensus 73 ~~w~~y~~~~~~iIfVvDssd~--------------~~l~e~~~~L~~ll~~~~~~---~~piLIl~NK 124 (175)
T PF00025_consen 73 PLWKSYFQNADGIIFVVDSSDP--------------ERLQEAKEELKELLNDPELK---DIPILILANK 124 (175)
T ss_dssp GGGGGGHTTESEEEEEEETTGG--------------GGHHHHHHHHHHHHTSGGGT---TSEEEEEEES
T ss_pred ccceeeccccceeEEEEecccc--------------eeecccccchhhhcchhhcc---cceEEEEecc
Confidence 3578888788999999999852 24888888888888775443 3345566664
No 103
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=44.25 E-value=27 Score=36.51 Aligned_cols=33 Identities=33% Similarity=0.437 Sum_probs=29.9
Q ss_pred cccHHHHHHHHHHcCCCCCCChHHHHHHHHHhh
Q 006975 589 EMTVQELKLYLMAHNLSTTGRKETLISRILTHM 621 (623)
Q Consensus 589 kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l 621 (623)
-||-.++|.-|..+||++.|.||-||-|=..|.
T Consensus 250 lls~s~ik~KLse~GLst~G~kQ~likRh~~~v 282 (442)
T KOG0287|consen 250 LLSDSDIKKKLSEHGLSTQGNKQQLIKRHQEFV 282 (442)
T ss_pred hccHHHHHHHHHHcCCCCcchHHHHHHHHHHHH
Confidence 378899999999999999999999999987774
No 104
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.89 E-value=1.6e+02 Score=34.92 Aligned_cols=127 Identities=17% Similarity=0.210 Sum_probs=70.7
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCC----CCCCCCcEEEec
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKK----NLQDLNAVFVFN 103 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~----n~~~~~~i~~l~ 103 (623)
--..+||||||-+--+ .-.++.+.+.+..-+-.+= ..+...||+|.|-..-.- .+...++..++
T Consensus 294 Pavy~FliDVS~~a~k----------sG~L~~~~~slL~~LD~lp-gd~Rt~igfi~fDs~ihfy~~~~~~~qp~mm~v- 361 (887)
T KOG1985|consen 294 PAVYVFLIDVSISAIK----------SGYLETVARSLLENLDALP-GDPRTRIGFITFDSTIHFYSVQGDLNQPQMMIV- 361 (887)
T ss_pred CceEEEEEEeehHhhh----------hhHHHHHHHHHHHhhhcCC-CCCcceEEEEEeeceeeEEecCCCcCCCceeee-
Confidence 3457899999875322 1246666666666555544 557899999987654311 01124444444
Q ss_pred ccccccCCCC---Ch----HHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCC
Q 006975 104 VAEREQLDRP---TA----RFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNE 176 (623)
Q Consensus 104 ~~~~~~l~~p---~~----~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~ 176 (623)
.+++.+ -. -.+++.++++++.-+.+...|... .+....|..||-+|.+++.... =||++|-+.
T Consensus 362 ----sdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~-~~t~~alGpALkaaf~li~~~G-----Gri~vf~s~ 431 (887)
T KOG1985|consen 362 ----SDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQDT-RSTGSALGPALKAAFNLIGSTG-----GRISVFQST 431 (887)
T ss_pred ----ccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhhc-cCcccccCHHHHHHHHHHhhcC-----CeEEEEecc
Confidence 344333 11 124554445544433333333321 1336779999999999996532 177777664
No 105
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=42.29 E-value=15 Score=40.74 Aligned_cols=37 Identities=32% Similarity=0.510 Sum_probs=34.1
Q ss_pred CcccccHHHHHHHHHHcCCCCCCChHHHHHHHHHhhc
Q 006975 586 KLKEMTVQELKLYLMAHNLSTTGRKETLISRILTHMG 622 (623)
Q Consensus 586 ~l~kltv~~LK~~l~~~~~~~~gkK~dLi~~i~~~l~ 622 (623)
.|+.|.|-+||.-|+..+|.+.|.|+-||||++.-|.
T Consensus 29 rlseLRViDLraEL~KRnldt~GnKsVLmERLkKal~ 65 (940)
T KOG4661|consen 29 RLSELRVIDLRAELEKRNLDTVGNKSVLMERLKKALR 65 (940)
T ss_pred hhhheeeeehhhHHhhhcccccCcHHHHHHHHHHHHH
Confidence 5888999999999999999999999999999987664
No 106
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=41.53 E-value=62 Score=35.51 Aligned_cols=53 Identities=25% Similarity=0.205 Sum_probs=40.9
Q ss_pred ceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecC
Q 006975 28 KEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTR 88 (623)
Q Consensus 28 ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~ 88 (623)
..-+++++|+|.+|..... ..+.|+.|+..+..+.. +.....|.||+.++|..
T Consensus 224 ~~~v~l~lD~~~~m~~~~~------~~~~~e~av~~a~~la~--~~l~~gd~vg~~~~~~~ 276 (416)
T COG1721 224 GRTVVLVLDASRSMLFGSG------VASKFEEAVRAAASLAY--AALKNGDRVGLLIFGGG 276 (416)
T ss_pred CceEEEEEeCCccccCCCC------CccHHHHHHHHHHHHHH--HHHhCCCeeEEEEECCC
Confidence 4568889999999986543 25789999998887764 34456799999999864
No 107
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=41.38 E-value=46 Score=37.24 Aligned_cols=162 Identities=15% Similarity=0.122 Sum_probs=77.8
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEeccccccc
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAEREQ 109 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~~ 109 (623)
++.+|||||-||+..... .....--|++||+.+..-++-. .|.-.+.-|-+... .+..|.++ -+
T Consensus 448 a~TLLvD~S~St~a~mde--trRvidl~~eaL~~la~~~qa~-----gd~~~~~~fts~rr----~~vri~tv-----k~ 511 (637)
T COG4548 448 AFTLLVDVSASTDAKMDE--TRRVIDLFHEALLVLAHGHQAL-----GDSEDILDFTSRRR----PWVRINTV-----KD 511 (637)
T ss_pred eeEEEeecccchHHHhhh--hhhhHHHHHHHHHHhhchhhhh-----CCHHHhcCchhhcC----cceeeeee-----ec
Confidence 467899999999987631 1234566788887655433311 12222222222111 11223333 33
Q ss_pred CCCCChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCC-ccCcc
Q 006975 110 LDRPTARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSI-KGAAK 188 (623)
Q Consensus 110 l~~p~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~-~~~~d 188 (623)
++..--+.+ +...-........-..-|+-.|...+... ....|=++||||+. |...+ -+|
T Consensus 512 FDes~~~~~--------------~~RImALePg~ytR~G~AIR~As~kL~~r--pq~qklLivlSDGk-Pnd~d~YEg-- 572 (637)
T COG4548 512 FDESMGETV--------------GPRIMALEPGYYTRDGAAIRHASAKLMER--PQRQKLLIVLSDGK-PNDFDHYEG-- 572 (637)
T ss_pred ccccccccc--------------chhheecCccccccccHHHHHHHHHHhcC--cccceEEEEecCCC-ccccccccc--
Confidence 333222111 00000001122344667888887776542 34455567777753 54331 010
Q ss_pred hhhHHHHHHHHHHhHhcCceEEEeeCCCCCCCCcccch
Q 006975 189 NDMTRTTMQRAKDAQDLGISIELLPLSPPDEEFKVSHF 226 (623)
Q Consensus 189 ~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~Fd~~~f 226 (623)
..-+.-...-+...+..||++--++++.....+.+..|
T Consensus 573 r~gIeDTr~AV~eaRk~Gi~VF~Vtld~ea~~y~p~~f 610 (637)
T COG4548 573 RFGIEDTREAVIEARKSGIEVFNVTLDREAISYLPALF 610 (637)
T ss_pred ccchhhHHHHHHHHHhcCceEEEEEecchhhhhhHHHh
Confidence 01111122233356778999888888876544444433
No 108
>COG4902 Uncharacterized protein conserved in archaea [Function unknown]
Probab=38.66 E-value=50 Score=30.42 Aligned_cols=41 Identities=24% Similarity=0.475 Sum_probs=31.6
Q ss_pred CHHHHHHHHHHHhhcCCCC----CCCCCCCChhHHHHHHHHHHhh
Q 006975 466 SDDEVKKAAALMKRIDLKD----FSVCQFANPSLQRHYAVLQALA 506 (623)
Q Consensus 466 ~~eq~~~a~~lI~~l~l~~----y~p~~~~NP~lq~~y~~lea~A 506 (623)
.++..||.+.|+.+..+.+ =.-..|.||.||.+|..|-...
T Consensus 87 EQ~HmDAVk~LlekYnv~dP~~~~siGvF~NpelqeLYn~Lve~G 131 (189)
T COG4902 87 EQEHMDAVKSLLEKYNVQDPASTTSIGVFTNPELQELYNQLVEQG 131 (189)
T ss_pred HHHHHHHHHHHHHHcCCCCCCccCcceeecCHHHHHHHHHHHHcc
Confidence 3456789999999999862 2346789999999999886543
No 109
>KOG4154 consensus Arginine-rich protein [General function prediction only]
Probab=36.64 E-value=27 Score=31.56 Aligned_cols=37 Identities=30% Similarity=0.339 Sum_probs=32.9
Q ss_pred CCcccccHHHHHHHHHHcCCCCCC--ChHHHHHHHHHhh
Q 006975 585 GKLKEMTVQELKLYLMAHNLSTTG--RKETLISRILTHM 621 (623)
Q Consensus 585 g~l~kltv~~LK~~l~~~~~~~~g--kK~dLi~~i~~~l 621 (623)
=.|.||.|-+||..|-..+.+..| -|.|.|-+|++..
T Consensus 132 vdlkklkvkdlkkilddw~esc~gc~ek~d~ikki~el~ 170 (178)
T KOG4154|consen 132 VDLKKLKVKDLKKILDDWDESCDGCAEKGDFIKKIEELK 170 (178)
T ss_pred hhHHHHhHHHHHHHHhhhhhhcccHhhhhhHHHHHHHhC
Confidence 347899999999999999999888 7999999998754
No 110
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=36.59 E-value=73 Score=36.02 Aligned_cols=51 Identities=18% Similarity=0.191 Sum_probs=39.4
Q ss_pred EEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccC--CCeEEEEEE
Q 006975 30 YVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRL--YDEVAICFF 85 (623)
Q Consensus 30 ~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~--~D~vgivl~ 85 (623)
+++|+||.|.||.+..- -+.|.|+.|.-++..+|+++--... .|+.-++-|
T Consensus 3 i~lFllDTS~SM~qrah-----~~~tylD~AKgaVEtFiK~R~r~~~~~gdryml~Tf 55 (888)
T KOG3768|consen 3 IFLFLLDTSGSMSQRAH-----PQFTYLDLAKGAVETFIKQRTRVGRETGDRYMLTTF 55 (888)
T ss_pred eEEEEEecccchhhhcc-----CCchhhHHHHHHHHHHHHHHhccccccCceEEEEec
Confidence 68999999999987543 2479999999999999999877553 455544433
No 111
>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=35.30 E-value=55 Score=31.10 Aligned_cols=43 Identities=12% Similarity=0.290 Sum_probs=33.1
Q ss_pred hhhhhhcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhcc
Q 006975 19 EFYQEHEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINR 75 (623)
Q Consensus 19 ~~~~~~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~ 75 (623)
+.|..|+..-+|+|||+|.+..| .|+.+..-+..++...=..+
T Consensus 75 ~~W~nYfestdglIwvvDssD~~--------------r~~e~~~~L~~lL~eerlaG 117 (185)
T KOG0073|consen 75 SYWKNYFESTDGLIWVVDSSDRM--------------RMQECKQELTELLVEERLAG 117 (185)
T ss_pred HHHHHhhhccCeEEEEEECchHH--------------HHHHHHHHHHHHHhhhhhcC
Confidence 46889998999999999998877 37777777777666554444
No 112
>PF07131 DUF1382: Protein of unknown function (DUF1382); InterPro: IPR009814 This entry is represented by Bacteriophage lambda, Xis. This entry overlaps with IPR009750, both representing lambda Xis. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Escherichia coli and Bacteriophage lambda-like proteins of around 60 residues in length. The function of this family is unknown.
Probab=34.65 E-value=52 Score=25.47 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=23.9
Q ss_pred hhHHHHHHHHHHhHhcCceEEEeeCCC
Q 006975 190 DMTRTTMQRAKDAQDLGISIELLPLSP 216 (623)
Q Consensus 190 ~~~~~~~~~a~dL~~~gI~i~l~~i~~ 216 (623)
.++++++..|..|...||.+.++|+-.
T Consensus 7 v~LR~~lE~A~~La~~GIRFVpiPv~~ 33 (61)
T PF07131_consen 7 VDLRKALEMAHSLAHIGIRFVPIPVVT 33 (61)
T ss_pred HHHHHHHHHHHHHHHcCceeecccccc
Confidence 448889999999999999999999864
No 113
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=34.00 E-value=55 Score=24.74 Aligned_cols=47 Identities=13% Similarity=0.181 Sum_probs=35.4
Q ss_pred hHHHHHHHHcCCcccccHHHHHHHHHHc-CCCCCCChHHHHHHHHHhh
Q 006975 575 NYDWADLADKGKLKEMTVQELKLYLMAH-NLSTTGRKETLISRILTHM 621 (623)
Q Consensus 575 ~~~~~~~~~~g~l~kltv~~LK~~l~~~-~~~~~gkK~dLi~~i~~~l 621 (623)
...+++..++-.|..+|.-+++.-|..+ |+..+.+|+-+=+.|..+|
T Consensus 6 ~~~i~~iL~~~dl~~vT~k~vr~~Le~~~~~dL~~~K~~I~~~I~~~l 53 (54)
T PF08766_consen 6 REAIREILREADLDTVTKKQVREQLEERFGVDLSSRKKFIKELIDEFL 53 (54)
T ss_dssp HHHHHHHHTTS-GGG--HHHHHHHHHHH-SS--SHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhCCHhHhhHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHh
Confidence 3467777788889999999999999775 9999999999888888876
No 114
>PF13362 Toprim_3: Toprim domain
Probab=33.54 E-value=87 Score=26.35 Aligned_cols=41 Identities=12% Similarity=0.340 Sum_probs=30.6
Q ss_pred CCCcEEEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEeeC
Q 006975 165 TADKRILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELLPL 214 (623)
Q Consensus 165 ~~~krI~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~~i 214 (623)
...++|+|+.|+|....+ ...+...++.|...|+.+.++..
T Consensus 39 ~~~~~vii~~D~D~~~~G---------~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEG---------QKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCCeEEEEECCCCchhh---------HHHHHHHHHHHHhCCCeEEEECC
Confidence 478899999999977544 23344456688889999988766
No 115
>PF09968 DUF2202: Uncharacterized protein domain (DUF2202); InterPro: IPR019243 This domain, found in various hypothetical archaeal proteins, has no known function.; PDB: 3Q4O_A 3Q4Q_A 3Q4R_A 3Q4N_A.
Probab=30.76 E-value=94 Score=29.44 Aligned_cols=41 Identities=27% Similarity=0.375 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhcCCC----CCCCCCCCChhHHHHHHHHHHhhcC
Q 006975 468 DEVKKAAALMKRIDLK----DFSVCQFANPSLQRHYAVLQALALE 508 (623)
Q Consensus 468 eq~~~a~~lI~~l~l~----~y~p~~~~NP~lq~~y~~lea~Al~ 508 (623)
..+++++.|+++..+. +.....|.||.||.+|..|-+....
T Consensus 40 ~Hmdav~~Ll~kY~l~dP~~~~~~G~f~~~~lq~LY~~Lv~~G~~ 84 (162)
T PF09968_consen 40 RHMDAVKALLEKYGLEDPVEGDPVGVFTNPELQELYNQLVEQGSK 84 (162)
T ss_dssp HHHHHHHHHHHHTT---S-SS-STT--SSHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHhCCCCCCccCCCCCcCcHHHHHHHHHHHHHhhh
Confidence 3467999999999995 2455889999999999999776543
No 116
>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=29.39 E-value=81 Score=27.58 Aligned_cols=37 Identities=14% Similarity=0.038 Sum_probs=27.3
Q ss_pred CcHHHHHHHHHHHHhcCcEEEEEe--cCCCCceEEEEEe
Q 006975 386 GSTCIFIALHRSMLRLNRFAVAFY--GNPSNPRLVALVA 422 (623)
Q Consensus 386 gS~~~fsaL~~am~~~~kvaI~r~--r~~s~P~lvaL~P 422 (623)
.....|..|++-|.+++++||+.. ......+-..|+|
T Consensus 81 ~~~~~~~~l~~Yl~~k~r~GVv~~~~~~~~~~~dlYl~P 119 (119)
T PF07744_consen 81 SDRRPFQKLVDYLKSKQRAGVVSVGNSPSGQVKDLYLFP 119 (119)
T ss_dssp HHHHHHHHTHHHHHHHTEEEEEEE--TT--S-EEEEEE-
T ss_pred HHHHHHHHHHHHHhhCCEEEEEecCCCCCCceeEEEEcC
Confidence 357789999999999999999987 2344466777776
No 117
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=28.79 E-value=36 Score=22.70 Aligned_cols=26 Identities=19% Similarity=0.482 Sum_probs=19.1
Q ss_pred HHHHHHHHcCCcccccHHHHHHHHHH
Q 006975 576 YDWADLADKGKLKEMTVQELKLYLMA 601 (623)
Q Consensus 576 ~~~~~~~~~g~l~kltv~~LK~~l~~ 601 (623)
.+|..+++.-.-..+|+.|.|+||..
T Consensus 3 ~EW~~Li~eA~~~Gls~eeir~FL~~ 28 (30)
T PF08671_consen 3 EEWVELIKEAKESGLSKEEIREFLEF 28 (30)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 46777777766777999999999975
No 118
>KOG2266 consensus Chromatin-associated protein Dek and related proteins, contains SAP DNA binding domain [Chromatin structure and dynamics]
Probab=28.79 E-value=38 Score=37.13 Aligned_cols=40 Identities=28% Similarity=0.424 Sum_probs=34.1
Q ss_pred cCCcccccHHHHHHHHHHcCCCCCC---ChHHHHHHHHHhhcC
Q 006975 584 KGKLKEMTVQELKLYLMAHNLSTTG---RKETLISRILTHMGK 623 (623)
Q Consensus 584 ~g~l~kltv~~LK~~l~~~~~~~~g---kK~dLi~~i~~~l~~ 623 (623)
.-+|.+++-.-|..||-...|+.+| ||.+||-||-.||.+
T Consensus 262 kEkl~K~~kekL~~fCdvLdi~~~kst~kkeelv~rvleFL~~ 304 (594)
T KOG2266|consen 262 KEKLKKCDKEKLISFCDVLDIPRSKSTVKKEELVVRVLEFLEK 304 (594)
T ss_pred HHHHHHHHHHHHHHHHhhhccccccccchHHHHHHHHHHHHhC
Confidence 3457789999999999999888655 899999999999964
No 119
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.71 E-value=55 Score=33.69 Aligned_cols=36 Identities=28% Similarity=0.244 Sum_probs=31.0
Q ss_pred CcccccHHHHHHHHHHcCCCCCC--ChHHHHHHHHHhh
Q 006975 586 KLKEMTVQELKLYLMAHNLSTTG--RKETLISRILTHM 621 (623)
Q Consensus 586 ~l~kltv~~LK~~l~~~~~~~~g--kK~dLi~~i~~~l 621 (623)
.+..+||.|||+.+...+..-+| -|-+|+++++.-+
T Consensus 248 d~Eg~~v~qLke~l~~d~vsy~gCcek~el~d~vtrl~ 285 (350)
T KOG4275|consen 248 DEEGLTVRQLKEILDDDFVSYKGCCEKYELDDRVTRLY 285 (350)
T ss_pred ccccchHHHhhhhhhccCCcccchhHHHHHHHHHHHHH
Confidence 34668999999999999998877 6999999998755
No 120
>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=27.36 E-value=6.1e+02 Score=25.02 Aligned_cols=193 Identities=14% Similarity=0.152 Sum_probs=99.9
Q ss_pred eEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecCCCCCCCCCCcEEEecccccc
Q 006975 29 EYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTRKKKNLQDLNAVFVFNVAERE 108 (623)
Q Consensus 29 e~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~~t~n~~~~~~i~~l~~~~~~ 108 (623)
-++++++|+|.||=...- .-+.--+..|+. .--+++-|..++.-.|+|-+|-=..... +. ++ .
T Consensus 4 laLvLavDvS~SVD~~E~----~lQ~~G~A~Al~--dp~V~~Ai~~g~~g~Iav~~~eWsg~~~----q~--~~-----v 66 (205)
T PF06707_consen 4 LALVLAVDVSGSVDADEY----RLQREGYAAALR--DPEVIAAILSGPIGRIAVAVVEWSGPGR----QR--VV-----V 66 (205)
T ss_pred ceeeeeeeccCCCCHHHH----HHHHHHHHHHHC--CHHHHHHHhcCCCCeEEEEEEEecCCCC----ce--EE-----e
Confidence 468999999999922100 000011222322 2256667777788888888775543222 11 21 1
Q ss_pred cCCCC-ChHHHHHHHHHHHhHhhhhcccccccCCCCCCCHHHHHHHHHHHHhcCCCCCCCcEEEEEeCCCCCCCCCccCc
Q 006975 109 QLDRP-TARFIKEFDHIEESFEKEIGSQYGIVSGSRENSLYNALWVAQGLLRKGSSKTADKRILLFTNEDDPFGSIKGAA 187 (623)
Q Consensus 109 ~l~~p-~~~~ik~L~~l~~~~~~~~~~~~~~~~~~~~~~l~daL~~a~~~f~~~~~~~~~krI~l~Tn~d~P~~~~~~~~ 187 (623)
|-... +...+..+-+-+.... . .......+..||..+..+|... +-...||++=|+-+.....+..
T Consensus 67 ~Wt~i~~~~da~a~A~~l~~~~--------r-~~~~~Taig~Al~~a~~ll~~~-~~~~~RrVIDvSGDG~~N~G~~--- 133 (205)
T PF06707_consen 67 PWTRIDSPADAEAFAARLRAAP--------R-RFGGRTAIGSALDFAAALLAQN-PFECWRRVIDVSGDGPNNQGPR--- 133 (205)
T ss_pred CCEEeCCHHHHHHHHHHHHhCC--------C-CCCCCchHHHHHHHHHHHHHhC-CCCCceEEEEECCCCCCCCCCC---
Confidence 11111 3444443333332211 0 1122378999999999999764 3446777776665432222211
Q ss_pred chhhHHHHHHHHHHhHhcCceEEEeeCCCCCCC--CcccchhhhhcccCCccccccCCCccccHHHHHHHHHhhhh
Q 006975 188 KNDMTRTTMQRAKDAQDLGISIELLPLSPPDEE--FKVSHFYADMIGLEGDDLALFMPSAGQKLEDMKDQLRKRMF 261 (623)
Q Consensus 188 d~~~~~~~~~~a~dL~~~gI~i~l~~i~~~~~~--Fd~~~fy~~i~~~~~~~~~~~~~~~~~~~~~L~~~i~~k~~ 261 (623)
. ...++. .+...||.|.-++|...+.. -+...||.+-+-... ..++ .....+++-...||+|..
T Consensus 134 -p--~~~ard---~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGp---gAFV-~~a~~~~df~~AirrKL~ 199 (205)
T PF06707_consen 134 -P--VTSARD---AAVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGP---GAFV-ETARGFEDFAEAIRRKLI 199 (205)
T ss_pred -c--cHHHHH---HHHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCC---CceE-EEcCCHHHHHHHHHHHHH
Confidence 1 112222 34557999998888764421 145567766432211 1122 112467777777887754
No 121
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.67 E-value=93 Score=28.86 Aligned_cols=51 Identities=10% Similarity=0.258 Sum_probs=37.7
Q ss_pred hhhhhcccceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEec
Q 006975 20 FYQEHEATKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNT 87 (623)
Q Consensus 20 ~~~~~~~~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt 87 (623)
.|..|+++-.++||+||-..+ -.+++|..-.+.+++.+=+ .|.+=+|+.|-
T Consensus 77 lWrhYy~gtqglIFV~Dsa~~--------------dr~eeAr~ELh~ii~~~em---~~~~~LvlANk 127 (180)
T KOG0071|consen 77 LWRHYYTGTQGLIFVVDSADR--------------DRIEEARNELHRIINDREM---RDAIILILANK 127 (180)
T ss_pred HHHhhccCCceEEEEEeccch--------------hhHHHHHHHHHHHhCCHhh---hcceEEEEecC
Confidence 489999999999999997764 1377887777776666543 46667777665
No 122
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=26.58 E-value=1.1e+02 Score=32.55 Aligned_cols=58 Identities=7% Similarity=0.114 Sum_probs=41.5
Q ss_pred hhhhhcccceEEEEEEECCcc---ccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecC
Q 006975 20 FYQEHEATKEYVVYLVDASPK---MFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTR 88 (623)
Q Consensus 20 ~~~~~~~~ke~iiflIDvs~s---M~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~ 88 (623)
-|..|..+-++|||+||+|.- +.+ ......++.++.....++.++.+.+ +.+++|.+.
T Consensus 200 kW~~~f~~v~~IiFvvdlSd~d~~~~E-------d~~~nrl~esl~~f~~l~~~~~~~~----~piil~~NK 260 (342)
T smart00275 200 KWIHCFDNVTAIIFCVALSEYDQVLEE-------DESTNRMQESLNLFESICNSRWFAN----TSIILFLNK 260 (342)
T ss_pred hHHHHhCCCCEEEEEEECcccccchhc-------cCcchHHHHHHHHHHHHHcCccccC----CcEEEEEec
Confidence 377777789999999999963 222 1234579999998888888877654 556666654
No 123
>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=25.54 E-value=1.3e+02 Score=24.39 Aligned_cols=35 Identities=17% Similarity=0.412 Sum_probs=24.2
Q ss_pred CcEEEEEeCCCCCCCCCccCcchhhHHHHHHHHHHhHhcCceEEEe
Q 006975 167 DKRILLFTNEDDPFGSIKGAAKNDMTRTTMQRAKDAQDLGISIELL 212 (623)
Q Consensus 167 ~krI~l~Tn~d~P~~~~~~~~d~~~~~~~~~~a~dL~~~gI~i~l~ 212 (623)
.++|++++|+|.+ + +..+...++.|...|+.+..+
T Consensus 43 ~~~vii~~D~D~a--G---------~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEA--G---------QKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHH--H---------HHHHHHHHHHHHHCCCeEEEE
Confidence 6899999999965 2 222334555788888887654
No 124
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=24.73 E-value=1.8e+02 Score=27.16 Aligned_cols=65 Identities=11% Similarity=0.152 Sum_probs=42.7
Q ss_pred cCcEEEEEe----cCCCCceEEEEEeehhhcccCCCCCCCcEEEEecCCccCCCCCccCCCCCCCCCCCCHHHHHHHH
Q 006975 401 LNRFAVAFY----GNPSNPRLVALVAQDEIVRAGGQVEPPGMHMIYLPYSDDIRPVEELHSDTDAVPRASDDEVKKAA 474 (623)
Q Consensus 401 ~~kvaI~r~----r~~s~P~lvaL~P~~~~~~~~~q~~p~g~~li~LPfadDiR~~~~~~~~~~~~~~~~~eq~~~a~ 474 (623)
..++||+|| -.++.=.+.+.+=-.. ..|+++.-+.=.|+-|.+-.+-....+....++|+.++.+
T Consensus 80 ~~kvgvvRYnAF~dmGg~LSFslAlLD~~---------~nGvVltsI~~Re~s~~YaK~I~~G~S~~~LS~EE~eal~ 148 (151)
T PF14584_consen 80 VQKVGVVRYNAFEDMGGDLSFSLALLDDN---------NNGVVLTSIHSREESRTYAKPIVNGQSSYPLSEEEKEALE 148 (151)
T ss_pred cceEEEEEccCcccccccceeeeEEEeCC---------CCEEEEEeeecCCCcEEEEEEecCCcccccCCHHHHHHHH
Confidence 578999998 4455544433222111 2599999999999999875432233446678888877654
No 125
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=24.31 E-value=99 Score=27.81 Aligned_cols=42 Identities=21% Similarity=0.253 Sum_probs=28.1
Q ss_pred EEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhhhccCCCeEEEEEEecC
Q 006975 31 VVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQIINRLYDEVAICFFNTR 88 (623)
Q Consensus 31 iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kIi~~~~D~vgivl~gt~ 88 (623)
++++||+|-||... .+..++.-+..++++. ...|-|+.|-+.
T Consensus 1 i~vaiDtSGSis~~-----------~l~~fl~ev~~i~~~~-----~~~v~vi~~D~~ 42 (126)
T PF09967_consen 1 IVVAIDTSGSISDE-----------ELRRFLSEVAGILRRF-----PAEVHVIQFDAE 42 (126)
T ss_pred CEEEEECCCCCCHH-----------HHHHHHHHHHHHHHhC-----CCCEEEEEECCE
Confidence 57899999999442 2666676667666665 334666665554
No 126
>KOG2781 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification]
Probab=22.57 E-value=1e+02 Score=31.06 Aligned_cols=59 Identities=14% Similarity=0.191 Sum_probs=43.8
Q ss_pred cccCCcEEEecCCCCCcCcHHHHHHHHHHHHhcCcEEEEEe-cCCCCceEEEEEeehhhcccCCCCCCCcEEEEecCCcc
Q 006975 369 HNLRPSTFVFPSDKEVVGSTCIFIALHRSMLRLNRFAVAFY-GNPSNPRLVALVAQDEIVRAGGQVEPPGMHMIYLPYSD 447 (623)
Q Consensus 369 ~~~~~s~fi~Pd~~~~~gS~~~fsaL~~am~~~~kvaI~r~-r~~s~P~lvaL~P~~~~~~~~~q~~p~g~~li~LPfad 447 (623)
++.++-.+|+|+........-....|++||.+.+.--++.+ -..+ .|.||.+..|||.-
T Consensus 99 ~FaKelkLvfPNaqr~nRG~~~~~~lv~a~ra~~~Td~iivHEhRG--------------------~PdgL~vshlPfGP 158 (290)
T KOG2781|consen 99 MFAKELKLVFPNAQRLNRGNYVVGELVDAARANGVTDLIIVHEHRG--------------------IPDGLVVSHLPFGP 158 (290)
T ss_pred HHHHhheEeccChhhhcccceeHHHHHHHHHHCCCceEEEEeccCC--------------------CCCceEEEecCCCC
Confidence 44677788999887655566788999999999888665544 1111 36899999999974
No 127
>KOG4479 consensus Transcription factor e(y)2 [Transcription]
Probab=22.48 E-value=1.2e+02 Score=25.14 Aligned_cols=48 Identities=21% Similarity=0.215 Sum_probs=34.5
Q ss_pred HHHHHHHHcCCcccccHHHHHHHHHHcC--CCCCCChHHHHHHHHHhhcC
Q 006975 576 YDWADLADKGKLKEMTVQELKLYLMAHN--LSTTGRKETLISRILTHMGK 623 (623)
Q Consensus 576 ~~~~~~~~~g~l~kltv~~LK~~l~~~~--~~~~gkK~dLi~~i~~~l~~ 623 (623)
..++..+....+..+||+||-+-..-++ +-.-.=|.+|+-||..+|.+
T Consensus 39 ~mcrniimEkG~~n~tvdqL~AeitPkaRaLVPd~VKkEll~rirt~L~~ 88 (92)
T KOG4479|consen 39 EMCRNIIMEKGVDNITVDQLAAEITPKARALVPDVVKKELLLRIRTALDK 88 (92)
T ss_pred HHHHHHHHHhccccccHHHHHHHhCchhhhhchHHHHHHHHHHHHHHHHH
Confidence 4566667777888899999987664433 22333588999999988753
No 128
>PF13101 DUF3945: Protein of unknown function (DUF3945)
Probab=22.29 E-value=2.5e+02 Score=21.67 Aligned_cols=56 Identities=16% Similarity=0.185 Sum_probs=34.2
Q ss_pred CCCcEeEecCCCCCCceeeeEEeeCCcCccccccceeeEecCCeeeecCHHHHHHhhccCCCcEEEEeeecC
Q 006975 291 VPGAITWLDSVTNHPLKTERSFICADTGALMQEPAKRFQPYKGENIKFSVQELSEIKRVSTGHLRLHGFKPL 362 (623)
Q Consensus 291 ~~~~~~~~~~~~~~~vk~~t~~~~~dt~~~~~~~~~k~y~yG~~~V~~~~ee~~~ik~~~~~~l~llGF~~~ 362 (623)
..++++.+|..||+.+...+.-+ -++ -.++| +.||+++.+.++. ...+.+-|+++.
T Consensus 2 ~~~~~vs~D~~Tn~l~~~~~~~i------~ip------~~i~g--~~Ls~~q~~~L~~--G~~v~le~m~~k 57 (59)
T PF13101_consen 2 KFPSFVSIDKETNELVYMPVDKI------RIP------DKIKG--VELSPEQKEDLRE--GKPVYLEGMVDK 57 (59)
T ss_pred cccEEEEEccccCceEEeccccc------ccc------ceecC--ccCCHHHHHHHHC--CCeEEEeeeEcC
Confidence 34678889999988775432211 011 12333 6789999988876 345666666554
No 129
>PF15008 DUF4518: Domain of unknown function (DUF4518)
Probab=22.18 E-value=1.3e+02 Score=30.92 Aligned_cols=42 Identities=21% Similarity=0.288 Sum_probs=31.7
Q ss_pred HHHHHHcCCcccccHHHHHHHHHHcCCC--CCCChHHHHHHHHHhhc
Q 006975 578 WADLADKGKLKEMTVQELKLYLMAHNLS--TTGRKETLISRILTHMG 622 (623)
Q Consensus 578 ~~~~~~~g~l~kltv~~LK~~l~~~~~~--~~gkK~dLi~~i~~~l~ 622 (623)
.+++.++. |.+-+.|=.||..+|+. +...|++||.++.+|-+
T Consensus 52 a~~LL~rk---kV~RelLFkYLa~kgv~v~p~s~K~~LI~~~l~~W~ 95 (262)
T PF15008_consen 52 AEELLRRK---KVKRELLFKYLASKGVIVPPDSEKADLIQRVLQYWS 95 (262)
T ss_pred HHHHHhcc---cccHHHHHHHHHHcCCCCCCCccHHHHHHHHHHHHh
Confidence 34444544 45668899999999865 56699999999998854
No 130
>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=21.64 E-value=1.9e+02 Score=23.52 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=30.2
Q ss_pred cceEEEEEEECCccccCCCCCCCCCCCCCHHHHHHHHHHHHHHhhh
Q 006975 27 TKEYVVYLVDASPKMFSTTCPAEDQTDETHFHIAVSCIAQSLKTQI 72 (623)
Q Consensus 27 ~ke~iiflIDvs~sM~~~~~~~~~~~~~s~~~~al~~i~~~~~~kI 72 (623)
...-+++++|.+++|..... ....++.++.++..++..-.
T Consensus 39 ~~~~~~i~ld~~~~~~~~~~------~~~~~e~~l~~a~~l~~~~~ 78 (86)
T PF01882_consen 39 RSQPVWIVLDLSPSMYFGSN------GRSKFERALSAAASLANQAL 78 (86)
T ss_pred cCCcEEEEEECCCccccCcC------CCCHHHHHHHHHHHHHHHHH
Confidence 34568899999999977543 24789999998888776544
No 131
>PF13297 Telomere_Sde2_2: Telomere stability C-terminal
Probab=21.17 E-value=1.2e+02 Score=23.67 Aligned_cols=29 Identities=28% Similarity=0.338 Sum_probs=23.1
Q ss_pred ccccHHHHHHHHHHcCCCCCCChHHHHHH
Q 006975 588 KEMTVQELKLYLMAHNLSTTGRKETLISR 616 (623)
Q Consensus 588 ~kltv~~LK~~l~~~~~~~~gkK~dLi~~ 616 (623)
..|-.+.||+-|.+.|++++|+=++=-+|
T Consensus 13 e~lGldrLK~~L~a~GLKcGGTl~ERA~R 41 (60)
T PF13297_consen 13 EALGLDRLKSALMALGLKCGGTLQERAAR 41 (60)
T ss_pred HHhCHHHHHHHHHHcCCccCCCHHHHHHH
Confidence 35778999999999999999975554444
Done!