Query 012724
Match_columns 457
No_of_seqs 139 out of 792
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 05:39:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012724.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012724hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1985 Vesicle coat complex C 100.0 1.4E-90 3E-95 711.3 30.3 416 1-454 171-606 (887)
2 KOG1984 Vesicle coat complex C 100.0 1.5E-89 3.3E-94 704.5 34.9 421 2-455 289-732 (1007)
3 PLN00162 transport protein sec 100.0 4.9E-88 1.1E-92 730.4 43.2 430 2-454 11-493 (761)
4 COG5028 Vesicle coat complex C 100.0 6.2E-81 1.3E-85 635.2 31.0 409 2-455 152-583 (861)
5 KOG1986 Vesicle coat complex C 100.0 1.2E-77 2.6E-82 607.2 34.5 427 2-455 11-478 (745)
6 PTZ00395 Sec24-related protein 100.0 1.1E-75 2.4E-80 626.5 34.9 418 2-454 654-1280(1560)
7 COG5047 SEC23 Vesicle coat com 100.0 2.3E-70 4.9E-75 541.2 23.7 424 2-454 11-488 (755)
8 cd01479 Sec24-like Sec24-like: 100.0 5.8E-48 1.3E-52 367.5 21.5 228 120-377 2-243 (244)
9 cd01478 Sec23-like Sec23-like: 100.0 1.1E-47 2.4E-52 368.5 23.6 241 120-372 2-267 (267)
10 cd01468 trunk_domain trunk dom 100.0 5.6E-47 1.2E-51 360.8 22.1 228 119-372 1-239 (239)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 1.4E-45 3E-50 352.4 16.9 230 119-374 1-243 (243)
12 PF08033 Sec23_BS: Sec23/Sec24 99.6 4.3E-15 9.3E-20 121.0 9.8 76 379-456 1-86 (96)
13 PF04810 zf-Sec23_Sec24: Sec23 99.6 7.4E-16 1.6E-20 103.4 1.9 38 49-86 1-40 (40)
14 PRK13685 hypothetical protein; 98.9 5.3E-08 1.2E-12 97.2 17.3 162 122-360 89-275 (326)
15 cd01456 vWA_ywmD_type VWA ywmD 98.9 5.2E-08 1.1E-12 90.7 14.9 164 120-355 19-196 (206)
16 cd01466 vWA_C3HC4_type VWA C3H 98.9 1.1E-07 2.3E-12 84.5 15.6 150 124-358 3-154 (155)
17 cd01465 vWA_subgroup VWA subgr 98.9 2.7E-07 5.9E-12 82.7 18.4 158 124-360 3-162 (170)
18 cd01453 vWA_transcription_fact 98.9 5.3E-08 1.2E-12 88.9 13.8 158 123-368 5-173 (183)
19 cd01451 vWA_Magnesium_chelatas 98.9 1.1E-07 2.5E-12 86.3 15.9 167 123-367 2-173 (178)
20 cd01463 vWA_VGCC_like VWA Volt 98.8 3.3E-07 7.2E-12 84.2 17.3 167 121-360 13-188 (190)
21 cd01467 vWA_BatA_type VWA BatA 98.7 1.1E-06 2.3E-11 79.8 16.6 155 123-360 4-176 (180)
22 cd01472 vWA_collagen von Wille 98.6 2.2E-06 4.8E-11 76.6 16.1 153 124-360 3-163 (164)
23 TIGR00868 hCaCC calcium-activa 98.6 3.2E-06 6.9E-11 92.7 18.6 155 121-360 304-462 (863)
24 cd01452 VWA_26S_proteasome_sub 98.5 2.9E-06 6.3E-11 77.2 15.0 147 123-352 5-162 (187)
25 PF13768 VWA_3: von Willebrand 98.5 2.9E-06 6.2E-11 75.1 14.4 150 124-356 3-154 (155)
26 cd01480 vWA_collagen_alpha_1-V 98.5 2.8E-06 6E-11 77.8 14.7 159 123-362 4-173 (186)
27 TIGR03436 acidobact_VWFA VWFA- 98.5 1.1E-05 2.3E-10 79.5 19.7 172 120-358 52-238 (296)
28 cd01470 vWA_complement_factors 98.5 6E-06 1.3E-10 76.3 15.8 169 124-361 3-190 (198)
29 cd01461 vWA_interalpha_trypsin 98.4 1.7E-05 3.8E-10 70.9 17.7 159 121-361 2-162 (171)
30 PF13519 VWA_2: von Willebrand 98.4 2.8E-06 6.1E-11 75.7 11.3 150 124-358 2-158 (172)
31 cd01474 vWA_ATR ATR (Anthrax T 98.3 2.5E-05 5.4E-10 71.3 16.2 158 123-362 6-168 (185)
32 cd01475 vWA_Matrilin VWA_Matri 98.3 2.4E-05 5.1E-10 73.9 16.2 156 123-362 4-170 (224)
33 cd01469 vWA_integrins_alpha_su 98.3 5.4E-05 1.2E-09 68.7 17.5 159 124-362 3-172 (177)
34 cd01471 vWA_micronemal_protein 98.3 3.3E-05 7.2E-10 70.5 15.2 150 124-350 3-160 (186)
35 cd01482 vWA_collagen_alphaI-XI 98.2 0.00012 2.5E-09 65.5 17.4 153 124-360 3-163 (164)
36 cd01477 vWA_F09G8-8_type VWA F 98.2 7.6E-05 1.6E-09 68.7 15.1 155 122-354 20-188 (193)
37 TIGR03788 marine_srt_targ mari 98.1 0.00019 4.1E-09 77.6 19.9 186 121-388 271-459 (596)
38 TIGR02031 BchD-ChlD magnesium 98.1 9.6E-05 2.1E-09 79.4 16.3 177 121-364 407-586 (589)
39 PRK13406 bchD magnesium chelat 98.1 0.00017 3.7E-09 77.1 17.8 173 121-368 401-577 (584)
40 cd01450 vWFA_subfamily_ECM Von 98.1 0.00019 4E-09 63.2 15.3 148 124-352 3-156 (161)
41 cd01481 vWA_collagen_alpha3-VI 98.0 0.00032 7E-09 62.9 15.8 154 124-361 3-165 (165)
42 PTZ00441 sporozoite surface pr 98.0 0.00035 7.6E-09 73.2 17.4 165 121-362 42-217 (576)
43 cd01476 VWA_integrin_invertebr 98.0 0.00058 1.3E-08 60.7 16.6 108 124-282 3-117 (163)
44 PF00092 VWA: von Willebrand f 97.9 0.00017 3.8E-09 64.6 13.0 158 124-362 2-169 (178)
45 COG1240 ChlD Mg-chelatase subu 97.9 0.00027 5.8E-09 66.4 14.2 171 121-367 78-253 (261)
46 TIGR02442 Cob-chelat-sub cobal 97.9 0.0002 4.4E-09 77.8 15.3 160 121-358 465-632 (633)
47 smart00327 VWA von Willebrand 97.9 0.00097 2.1E-08 59.4 16.6 155 123-357 3-164 (177)
48 cd00198 vWFA Von Willebrand fa 97.7 0.0017 3.7E-08 56.3 15.1 149 123-351 2-155 (161)
49 cd01464 vWA_subfamily VWA subf 97.7 0.00031 6.7E-09 63.5 9.7 44 124-167 6-57 (176)
50 PF04056 Ssl1: Ssl1-like; Int 97.6 0.00061 1.3E-08 62.2 11.1 163 127-374 1-173 (193)
51 cd01473 vWA_CTRP CTRP for CS 97.5 0.0059 1.3E-07 56.1 16.6 151 124-350 3-161 (192)
52 cd01454 vWA_norD_type norD typ 97.5 0.0059 1.3E-07 55.0 16.3 146 123-338 2-154 (174)
53 cd01458 vWA_ku Ku70/Ku80 N-ter 97.5 0.0036 7.7E-08 58.7 15.1 158 123-337 3-173 (218)
54 cd01462 VWA_YIEM_type VWA YIEM 97.2 0.016 3.4E-07 50.8 15.1 42 124-165 3-47 (152)
55 KOG2884 26S proteasome regulat 96.7 0.053 1.2E-06 49.5 13.8 148 123-354 5-164 (259)
56 cd01460 vWA_midasin VWA_Midasi 95.5 0.69 1.5E-05 44.6 15.5 45 120-166 59-110 (266)
57 COG4245 TerY Uncharacterized p 95.4 0.029 6.3E-07 50.3 5.4 48 121-169 4-59 (207)
58 cd01455 vWA_F11C1-5a_type Von 94.7 1.6 3.4E-05 39.9 14.5 78 250-360 95-174 (191)
59 cd01457 vWA_ORF176_type VWA OR 94.2 1 2.2E-05 41.4 12.6 43 123-165 4-57 (199)
60 PF03850 Tfb4: Transcription f 93.9 4.6 0.0001 39.3 16.8 98 246-373 116-218 (276)
61 KOG2807 RNA polymerase II tran 93.1 1.6 3.6E-05 42.4 11.9 96 245-376 142-237 (378)
62 TIGR00578 ku70 ATP-dependent D 93.0 2.7 5.8E-05 45.5 15.0 73 246-342 117-190 (584)
63 COG5148 RPN10 26S proteasome r 91.9 7.9 0.00017 34.9 13.8 131 123-335 5-145 (243)
64 KOG2353 L-type voltage-depende 90.7 7.8 0.00017 44.7 15.8 203 100-381 203-419 (1104)
65 TIGR00627 tfb4 transcription f 90.5 18 0.00039 35.2 17.5 99 246-374 119-221 (279)
66 PF00362 Integrin_beta: Integr 87.8 37 0.0008 35.2 19.2 266 121-431 101-394 (426)
67 smart00187 INB Integrin beta s 86.7 41 0.0009 34.6 22.4 272 122-430 99-390 (423)
68 COG2425 Uncharacterized protei 85.2 5.5 0.00012 41.1 9.4 149 121-359 273-424 (437)
69 PF06707 DUF1194: Protein of u 84.3 35 0.00075 31.6 16.9 103 245-378 94-202 (205)
70 PF09967 DUF2201: VWA-like dom 84.0 3.1 6.7E-05 35.4 6.0 41 125-167 2-44 (126)
71 PF10058 DUF2296: Predicted in 83.8 0.57 1.2E-05 33.5 1.2 34 47-80 19-54 (54)
72 PRK10997 yieM hypothetical pro 83.6 12 0.00026 39.4 11.2 49 123-171 325-376 (487)
73 KOG3768 DEAD box RNA helicase 83.1 3.4 7.3E-05 43.5 6.8 47 338-387 191-237 (888)
74 KOG2487 RNA polymerase II tran 81.2 53 0.0012 31.5 15.0 45 315-362 185-229 (314)
75 PRK00398 rpoP DNA-directed RNA 80.1 1 2.2E-05 30.9 1.4 28 50-81 3-32 (46)
76 TIGR01053 LSD1 zinc finger dom 77.8 1.7 3.6E-05 27.3 1.7 30 51-82 2-31 (31)
77 PF09082 DUF1922: Domain of un 75.7 0.56 1.2E-05 34.9 -1.0 30 50-83 3-32 (68)
78 PF10571 UPF0547: Uncharacteri 68.3 2.3 5E-05 25.5 0.6 23 52-80 2-24 (26)
79 PF11781 RRN7: RNA polymerase 67.8 4.4 9.5E-05 26.3 1.9 28 50-80 8-35 (36)
80 PF03731 Ku_N: Ku70/Ku80 N-ter 67.2 12 0.00026 34.8 5.6 67 245-334 104-172 (224)
81 PF10122 Mu-like_Com: Mu-like 63.5 1.8 4E-05 30.2 -0.5 34 50-83 4-37 (51)
82 PF05762 VWA_CoxE: VWA domain 63.3 18 0.00039 33.9 6.0 33 244-279 128-160 (222)
83 smart00661 RPOL9 RNA polymeras 62.8 4.5 9.6E-05 28.2 1.4 31 52-83 2-33 (52)
84 cd00350 rubredoxin_like Rubred 62.2 4.5 9.7E-05 25.6 1.1 23 52-78 3-25 (33)
85 cd00730 rubredoxin Rubredoxin; 61.2 3.7 8E-05 28.8 0.7 27 52-78 3-42 (50)
86 TIGR00686 phnA alkylphosphonat 58.5 7.8 0.00017 31.7 2.2 29 50-81 2-30 (109)
87 PF12760 Zn_Tnp_IS1595: Transp 57.3 9.3 0.0002 26.1 2.1 26 51-78 19-45 (46)
88 PF13240 zinc_ribbon_2: zinc-r 56.9 4.9 0.00011 23.3 0.6 21 52-78 1-21 (23)
89 PF02318 FYVE_2: FYVE-type zin 56.3 6.8 0.00015 32.8 1.6 31 50-80 71-104 (118)
90 PF00301 Rubredoxin: Rubredoxi 56.2 4.4 9.5E-05 28.1 0.4 28 52-79 3-43 (47)
91 TIGR00100 hypA hydrogenase nic 55.6 5 0.00011 33.5 0.7 27 50-80 70-96 (115)
92 PRK12380 hydrogenase nickel in 55.2 5 0.00011 33.4 0.6 28 50-81 70-97 (113)
93 COG0275 Predicted S-adenosylme 52.1 22 0.00047 34.9 4.4 30 135-164 218-247 (314)
94 PF08792 A2L_zn_ribbon: A2L zi 52.0 12 0.00026 23.8 1.8 30 49-80 2-31 (33)
95 COG1096 Predicted RNA-binding 51.6 8.6 0.00019 34.7 1.5 25 51-79 150-174 (188)
96 PHA00626 hypothetical protein 50.6 12 0.00026 26.7 1.8 30 53-82 3-35 (59)
97 COG1198 PriA Primosomal protei 50.3 23 0.00049 39.3 4.8 113 51-173 436-572 (730)
98 PRK03681 hypA hydrogenase nick 49.1 6.4 0.00014 32.8 0.3 28 50-81 70-98 (114)
99 PRK00564 hypA hydrogenase nick 47.8 6.9 0.00015 32.8 0.3 29 49-81 70-99 (117)
100 PF07282 OrfB_Zn_ribbon: Putat 47.5 12 0.00027 27.8 1.6 29 50-80 28-56 (69)
101 TIGR02605 CxxC_CxxC_SSSS putat 47.2 8.9 0.00019 26.8 0.8 30 51-80 6-36 (52)
102 PRK12722 transcriptional activ 46.5 9.9 0.00021 34.6 1.1 28 49-78 133-162 (187)
103 PF11265 Med25_VWA: Mediator c 46.0 2.6E+02 0.0057 26.3 15.2 88 247-357 111-204 (226)
104 TIGR00416 sms DNA repair prote 45.8 10 0.00022 39.8 1.2 30 50-85 7-36 (454)
105 PF00641 zf-RanBP: Zn-finger i 45.8 7.2 0.00016 23.9 0.1 15 69-83 3-17 (30)
106 smart00659 RPOLCX RNA polymera 45.4 15 0.00034 24.9 1.7 26 52-80 4-29 (44)
107 PF09723 Zn-ribbon_8: Zinc rib 45.4 9.4 0.0002 25.6 0.6 29 51-79 6-35 (42)
108 PRK10220 hypothetical protein; 44.6 17 0.00037 29.8 2.1 29 50-81 3-31 (111)
109 PRK00762 hypA hydrogenase nick 44.4 8.7 0.00019 32.5 0.4 32 49-81 69-103 (124)
110 PF08274 PhnA_Zn_Ribbon: PhnA 43.8 15 0.00033 22.8 1.3 27 50-79 2-28 (30)
111 PRK11823 DNA repair protein Ra 43.7 9.8 0.00021 39.8 0.8 29 50-84 7-35 (446)
112 cd01121 Sms Sms (bacterial rad 42.6 11 0.00024 38.3 1.0 27 52-84 2-28 (372)
113 PRK00432 30S ribosomal protein 42.4 16 0.00035 25.6 1.4 26 51-79 21-46 (50)
114 PF09779 Ima1_N: Ima1 N-termin 42.2 14 0.0003 31.6 1.4 33 51-85 1-35 (131)
115 TIGR00006 S-adenosyl-methyltra 42.0 35 0.00075 33.7 4.2 30 135-164 214-243 (305)
116 PRK03954 ribonuclease P protei 41.8 12 0.00026 31.5 0.9 32 52-83 66-106 (121)
117 KOG3799 Rab3 effector RIM1 and 41.3 12 0.00027 31.7 0.8 31 50-82 89-119 (169)
118 PRK06393 rpoE DNA-directed RNA 40.9 20 0.00044 26.5 1.8 26 51-84 6-31 (64)
119 PRK00420 hypothetical protein; 40.9 16 0.00036 30.3 1.5 30 51-83 24-53 (112)
120 PF08271 TF_Zn_Ribbon: TFIIB z 40.8 14 0.0003 24.8 0.9 25 52-79 2-28 (43)
121 PF05191 ADK_lid: Adenylate ki 40.6 13 0.00029 24.1 0.8 26 53-78 4-29 (36)
122 COG4867 Uncharacterized protei 40.5 1.4E+02 0.003 30.8 8.1 99 245-362 532-636 (652)
123 PF13894 zf-C2H2_4: C2H2-type 40.3 15 0.00031 20.4 0.8 13 71-83 1-13 (24)
124 COG1545 Predicted nucleic-acid 39.9 53 0.0012 28.4 4.6 26 50-81 29-54 (140)
125 PF02905 EBV-NA1: Epstein Barr 39.7 42 0.00092 28.1 3.7 33 135-167 110-145 (146)
126 PF13719 zinc_ribbon_5: zinc-r 39.2 17 0.00037 23.6 1.1 29 51-79 3-34 (37)
127 smart00834 CxxC_CXXC_SSSS Puta 38.9 14 0.00031 24.1 0.7 28 51-78 6-34 (41)
128 PF06827 zf-FPG_IleRS: Zinc fi 38.7 12 0.00025 23.0 0.2 27 52-78 3-29 (30)
129 PF14803 Nudix_N_2: Nudix N-te 38.5 21 0.00046 22.8 1.4 28 52-79 2-31 (34)
130 PF06943 zf-LSD1: LSD1 zinc fi 38.5 23 0.00049 21.0 1.4 10 69-78 15-24 (25)
131 PF13248 zf-ribbon_3: zinc-rib 37.6 16 0.00034 21.7 0.7 8 51-58 3-10 (26)
132 PF03604 DNA_RNApol_7kD: DNA d 37.1 22 0.00048 22.4 1.3 14 47-60 14-27 (32)
133 PRK00050 16S rRNA m(4)C1402 me 37.0 46 0.001 32.7 4.2 30 135-164 210-239 (296)
134 PF05280 FlhC: Flagellar trans 36.9 17 0.00038 32.7 1.2 29 49-78 133-162 (175)
135 smart00547 ZnF_RBZ Zinc finger 36.0 15 0.00032 21.5 0.4 14 70-83 2-15 (26)
136 PF01927 Mut7-C: Mut7-C RNAse 34.4 22 0.00049 30.9 1.5 31 50-80 91-134 (147)
137 PRK12286 rpmF 50S ribosomal pr 34.3 29 0.00063 25.1 1.7 27 48-81 25-51 (57)
138 PF09788 Tmemb_55A: Transmembr 34.3 43 0.00094 31.8 3.3 36 49-84 64-99 (256)
139 TIGR01384 TFS_arch transcripti 34.2 23 0.0005 28.7 1.4 27 52-82 2-28 (104)
140 PF10138 vWA-TerF-like: vWA fo 33.6 95 0.0021 28.6 5.4 43 123-165 3-51 (200)
141 COG1996 RPC10 DNA-directed RNA 33.3 19 0.00042 25.1 0.7 26 51-80 7-34 (49)
142 PF02891 zf-MIZ: MIZ/SP-RING z 32.7 15 0.00032 25.7 0.0 10 69-78 40-49 (50)
143 PRK03824 hypA hydrogenase nick 32.7 24 0.00053 30.3 1.4 32 49-80 69-117 (135)
144 COG1773 Rubredoxin [Energy pro 32.4 23 0.00051 25.3 1.0 25 49-78 18-44 (55)
145 COG0777 AccD Acetyl-CoA carbox 32.1 16 0.00034 35.2 0.1 33 50-84 28-61 (294)
146 cd00729 rubredoxin_SM Rubredox 32.1 22 0.00048 22.7 0.7 12 70-81 2-13 (34)
147 COG2093 DNA-directed RNA polym 31.2 20 0.00043 26.2 0.5 28 52-85 6-33 (64)
148 PF13717 zinc_ribbon_4: zinc-r 31.2 26 0.00056 22.6 1.0 29 51-79 3-34 (36)
149 PF05129 Elf1: Transcription e 31.1 18 0.00039 28.1 0.3 15 69-83 21-35 (81)
150 PF07754 DUF1610: Domain of un 30.9 39 0.00084 19.9 1.6 23 53-77 1-23 (24)
151 PF12773 DZR: Double zinc ribb 30.3 24 0.00052 24.3 0.8 32 49-83 11-42 (50)
152 COG2888 Predicted Zn-ribbon RN 30.0 18 0.00038 26.3 0.0 11 50-60 9-19 (61)
153 COG2956 Predicted N-acetylgluc 30.0 26 0.00056 34.7 1.2 30 47-84 351-382 (389)
154 COG1645 Uncharacterized Zn-fin 29.9 34 0.00075 29.1 1.8 25 51-79 29-53 (131)
155 PRK13130 H/ACA RNA-protein com 29.9 41 0.00089 24.2 1.9 27 49-83 4-30 (56)
156 PRK14890 putative Zn-ribbon RN 29.5 18 0.00038 26.3 -0.0 9 70-78 48-56 (59)
157 COG0266 Nei Formamidopyrimidin 28.9 30 0.00064 33.5 1.4 27 51-78 246-273 (273)
158 COG5415 Predicted integral mem 28.5 29 0.00064 31.8 1.2 36 50-85 192-229 (251)
159 COG0675 Transposase and inacti 28.1 33 0.00072 33.7 1.7 25 50-81 309-333 (364)
160 PRK12496 hypothetical protein; 27.6 24 0.00053 31.4 0.5 25 51-79 128-152 (164)
161 KOG1074 Transcriptional repres 27.6 27 0.00059 38.6 1.0 39 46-84 349-395 (958)
162 PF12874 zf-met: Zinc-finger o 27.3 36 0.00078 19.4 1.1 14 71-84 1-14 (25)
163 PF15288 zf-CCHC_6: Zinc knuck 26.8 25 0.00055 23.4 0.4 9 51-59 2-10 (40)
164 PF01155 HypA: Hydrogenase exp 26.6 17 0.00036 30.2 -0.7 27 50-80 70-96 (113)
165 PRK08351 DNA-directed RNA poly 26.5 33 0.00072 25.1 0.9 26 52-85 5-30 (61)
166 PF01795 Methyltransf_5: MraW 26.4 45 0.00098 33.0 2.2 30 135-164 215-244 (310)
167 KOG2846 Predicted membrane pro 26.4 31 0.00067 34.0 1.0 35 50-84 220-256 (328)
168 PF12172 DUF35_N: Rubredoxin-l 25.9 48 0.001 21.3 1.6 24 50-79 11-34 (37)
169 PF06677 Auto_anti-p27: Sjogre 24.9 45 0.00098 22.3 1.3 23 52-77 19-41 (41)
170 PRK12860 transcriptional activ 24.7 33 0.00071 31.3 0.8 28 48-77 132-161 (189)
171 COG4416 Com Mu-like prophage p 24.2 10 0.00023 26.7 -1.9 30 50-82 4-36 (60)
172 COG3552 CoxE Protein containin 24.0 1.5E+02 0.0032 30.1 5.2 45 119-165 216-260 (395)
173 TIGR01031 rpmF_bact ribosomal 24.0 44 0.00095 23.9 1.2 25 49-80 25-49 (55)
174 PF03660 PHF5: PHF5-like prote 23.7 25 0.00054 28.5 -0.2 38 51-88 28-73 (106)
175 TIGR00340 zpr1_rel ZPR1-relate 23.6 54 0.0012 29.2 1.9 13 69-81 27-39 (163)
176 cd02342 ZZ_UBA_plant Zinc fing 23.3 53 0.0012 22.2 1.4 22 51-77 1-22 (43)
177 COG3357 Predicted transcriptio 22.9 31 0.00067 27.3 0.2 34 49-84 57-90 (97)
178 PRK09263 anaerobic ribonucleos 22.7 41 0.00089 37.3 1.2 33 47-81 638-670 (711)
179 smart00401 ZnF_GATA zinc finge 22.6 53 0.0012 23.1 1.4 29 50-78 3-33 (52)
180 TIGR00515 accD acetyl-CoA carb 22.6 19 0.00041 35.1 -1.2 32 50-83 26-58 (285)
181 COG1594 RPB9 DNA-directed RNA 22.4 56 0.0012 27.1 1.7 34 51-84 3-36 (113)
182 CHL00174 accD acetyl-CoA carbo 22.3 19 0.00042 35.2 -1.2 32 50-83 38-70 (296)
183 TIGR02098 MJ0042_CXXC MJ0042 f 22.2 37 0.0008 21.9 0.5 9 70-78 25-33 (38)
184 smart00778 Prim_Zn_Ribbon Zinc 21.8 71 0.0015 20.9 1.7 25 52-78 5-33 (37)
185 COG1439 Predicted nucleic acid 21.1 40 0.00086 30.3 0.6 25 50-80 139-163 (177)
186 COG2023 RPR2 RNase P subunit R 20.9 69 0.0015 26.2 1.8 32 52-83 58-95 (105)
187 PF08273 Prim_Zn_Ribbon: Zinc- 20.7 53 0.0012 21.9 1.0 25 53-78 6-34 (40)
188 PF04032 Rpr2: RNAse P Rpr2/Rp 20.5 82 0.0018 24.2 2.2 28 51-78 47-85 (85)
No 1
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.4e-90 Score=711.33 Aligned_cols=416 Identities=31% Similarity=0.526 Sum_probs=375.4
Q ss_pred CeeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccCCCCCCCCCcCcceEEecCceEeC--ceEEEccCCC
Q 012724 1 MAVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (457)
Q Consensus 1 ~~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~~~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~ 78 (457)
+++|+|++++|.+.+++++++||||++|+||++..+.+..| ......|+||++||+|||||+.|++ ++|+||+|+.
T Consensus 171 ~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~~~p--~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCNlC~~ 248 (887)
T KOG1985|consen 171 SYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDIDPLP--VITSTLIVRCRRCRTYINPFVEFIDQGRRWRCNLCGR 248 (887)
T ss_pred HHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccCCCC--cccCCceeeehhhhhhcCCeEEecCCCceeeechhhh
Confidence 47999999999999999999999999999999876322223 3357789999999999999999984 7999999999
Q ss_pred CCCCChhhhcc-----cCCCCCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 012724 79 LNGLSSQAIAR-----YTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (457)
Q Consensus 79 ~N~v~~~y~~~-----~~~~~~~pEL~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (457)
.|++|.+|..+ |.+..+||||++.+|||++|.||+.++ ++|++|||+||||.++ |+|++++++|+..||.
T Consensus 249 ~NdvP~~f~~~~~t~~~~~~~~RpEl~~s~vE~iAP~eYmlR~--P~Pavy~FliDVS~~a~ksG~L~~~~~slL~~LD~ 326 (887)
T KOG1985|consen 249 VNDVPDDFDWDPLTGAYGDPYSRPELTSSVVEFIAPSEYMLRP--PQPAVYVFLIDVSISAIKSGYLETVARSLLENLDA 326 (887)
T ss_pred hcCCcHHhhcCccccccCCcccCccccceeEEEecCcccccCC--CCCceEEEEEEeehHhhhhhHHHHHHHHHHHhhhc
Confidence 99999987644 566888999999999999999999875 4789999999999975 8999999999999999
Q ss_pred CC--CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc-cccc-cccccchHhHHHHHHHHHHhcCCCC
Q 012724 151 VP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL-SQFLAPVETFKENITSALETLRPTT 226 (457)
Q Consensus 151 l~--~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~-~~p~-~~~l~~~~~~~~~i~~~l~~l~~~~ 226 (457)
|| +++||||||||++||||++..+..++.+ .+++|++| ++|. +++|+|+++||+.|..+|+.|++++
T Consensus 327 lpgd~Rt~igfi~fDs~ihfy~~~~~~~qp~m---------m~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F 397 (887)
T KOG1985|consen 327 LPGDPRTRIGFITFDSTIHFYSVQGDLNQPQM---------MIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMF 397 (887)
T ss_pred CCCCCcceEEEEEeeceeeEEecCCCcCCCce---------eeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHH
Confidence 99 7899999999999999999887755555 35678888 4554 7899999999999999999999999
Q ss_pred CcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCcccccc
Q 012724 227 SWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRA 306 (457)
Q Consensus 227 ~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~ 306 (457)
.+++. .++|+|+||++|.++|+..| |||++|.+++||.|.|+|+.||+.+.. +++++..
T Consensus 398 ~~~~~------------t~~alGpALkaaf~li~~~G------Gri~vf~s~lPnlG~G~L~~rEdp~~~---~s~~~~q 456 (887)
T KOG1985|consen 398 QDTRS------------TGSALGPALKAAFNLIGSTG------GRISVFQSTLPNLGAGKLKPREDPNVR---SSDEDSQ 456 (887)
T ss_pred hhccC------------cccccCHHHHHHHHHHhhcC------CeEEEEeccCCCCCccccccccccccc---cchhhhh
Confidence 88764 46899999999999999887 799999999999999999999765543 4567788
Q ss_pred CCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCC------cHHHHHHHHhccCcce
Q 012724 307 LLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDS------TLPQDIYRMLSRPYAF 380 (457)
Q Consensus 307 ~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~------~l~~dl~~~l~~~~~~ 380 (457)
++.++++|||+||.+|.+.+|+||+|+++.+|.|+|+|+.|++.|||.+|||++|+.. +|.+||.|+|+|++||
T Consensus 457 lL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP~f~~s~p~~~~Kf~~el~r~Ltr~~~f 536 (887)
T KOG1985|consen 457 LLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYPSFDGSNPHDVLKFARELARYLTRKIGF 536 (887)
T ss_pred ccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEccCCCCCCHHHHHHHHHHHHHHhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999999999765 6999999999999999
Q ss_pred eeEEEEEcCCCeeEeEeeeccccCCCCCCceEEeeeCCCceEEEEEEEecCCCCCCceeEEEEEEeeecCCCcc
Q 012724 381 NCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARLHFNIQLLCLLRNFQVKD 454 (457)
Q Consensus 381 ~~~lrvR~S~gl~i~~~~G~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~l~~~~~~iQ~~~~y~~~~~~~ 454 (457)
||+||||||+|++++.+||||+.++ .+++.++++.+|++++|.+++++ .+.....++|.|++||...|+.
T Consensus 537 eaVmRiR~S~gl~~~~f~GnFF~RS--tDLla~~~v~~D~sy~~qisiEe--sl~~~~~~fQvAlLyT~~~GER 606 (887)
T KOG1985|consen 537 EAVMRIRCSTGLRMSSFFGNFFVRS--TDLLALPNVNPDQSYAFQISIEE--SLTTGFCVFQVALLYTLSKGER 606 (887)
T ss_pred heeEEeeccccccccceecccccCc--HHHhcccCCCCCccceEEEEeeh--hcCCceeEEEeeeeecccCCce
Confidence 9999999999999999999999986 78999999999999999999964 4677888899999999998874
No 2
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-89 Score=704.49 Aligned_cols=421 Identities=22% Similarity=0.384 Sum_probs=381.6
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCC-CCcccCCCCCCCCCcCcceEEecCceEeC--ceEEEccCCC
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGA-APVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~-~p~~~~~~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~ 78 (457)
+||+|+|++|.|.++++.++||||++|+|||...+.|. +++++....+|+||+||+||||||++|.+ ++|+||||+.
T Consensus 289 ~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~Cn~C~~ 368 (1007)
T KOG1984|consen 289 FMRCTMYTIPCTNDLLKASQIPLALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFICNFCGS 368 (1007)
T ss_pred hheeecccCCccHhHHHhcCCcceeEecccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEecCCCc
Confidence 69999999999999999999999999999998655554 46677778889999999999999999984 7999999999
Q ss_pred CCCCChhhhcccC------CCCCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHH
Q 012724 79 LNGLSSQAIARYT------HPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALE 149 (457)
Q Consensus 79 ~N~v~~~y~~~~~------~~~~~pEL~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~ 149 (457)
.|++|++|++++. |.++||||+.|+|||+++++|+.+...+.+|+|||+||||+.+ |.+.+++++|+..|+
T Consensus 369 ~n~vp~~yf~~L~~~grr~D~~erpEL~~Gt~dfvatk~Y~~~~k~p~ppafvFmIDVSy~Ai~~G~~~a~ce~ik~~l~ 448 (1007)
T KOG1984|consen 369 KNQVPDDYFNHLGPTGRRVDVEERPELCLGTVDFVATKDYCRKTKPPKPPAFVFMIDVSYNAISNGAVKAACEAIKSVLE 448 (1007)
T ss_pred cccCChhhcccCCCcccccccccCchhcccccceeeehhhhhcCCCCCCceEEEEEEeehhhhhcchHHHHHHHHHHHHh
Confidence 9999999986543 4788999999999999999998876567899999999999986 889999999999999
Q ss_pred hCC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc-cccc-cccccchHhHHHHHHHHHHhcCC
Q 012724 150 AVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL-SQFLAPVETFKENITSALETLRP 224 (457)
Q Consensus 150 ~l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~-~~p~-~~~l~~~~~~~~~i~~~l~~l~~ 224 (457)
.++ +++||||||||++|||||++..+.++.+. +++|++| ++|+ +.+|++..|++..|+.+|++|+.
T Consensus 449 ~lp~~~p~~~Vgivtfd~tvhFfnl~s~L~qp~ml---------iVsdv~dvfvPf~~g~~V~~~es~~~i~~lLd~Ip~ 519 (1007)
T KOG1984|consen 449 DLPREEPNIRVGIVTFDKTVHFFNLSSNLAQPQML---------IVSDVDDVFVPFLDGLFVNPNESRKVIELLLDSIPT 519 (1007)
T ss_pred hcCccCCceEEEEEEecceeEeeccCccccCceEE---------EeecccccccccccCeeccchHHHHHHHHHHHHhhh
Confidence 887 47999999999999999999988877763 5689999 5898 67999999999999999999999
Q ss_pred CCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCC-ccccccccCccCCCCccc
Q 012724 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAG-QLDTRRYGEQYASKGEDA 303 (457)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG-~l~~~~~~~~~~~~~~~~ 303 (457)
++...+. +..++|+||++|..+|+..- |||+++|++.+||.|.| +++.|++..++ ++++
T Consensus 520 mf~~sk~------------pes~~g~alqaa~lalk~~~-----gGKl~vF~s~Lpt~g~g~kl~~r~D~~l~---~t~k 579 (1007)
T KOG1984|consen 520 MFQDSKI------------PESVFGSALQAAKLALKAAD-----GGKLFVFHSVLPTAGAGGKLSNRDDRRLI---GTDK 579 (1007)
T ss_pred hhccCCC------------CchhHHHHHHHHHHHHhccC-----CceEEEEecccccccCcccccccchhhhh---cccc
Confidence 9876543 57899999999999999873 38999999999999997 88988887776 6788
Q ss_pred cccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCC----CCcHHHHHHHHhccCcc
Q 012724 304 DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD----DSTLPQDIYRMLSRPYA 379 (457)
Q Consensus 304 ~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~----~~~l~~dl~~~l~~~~~ 379 (457)
|+.++.+++++|++||++|++.|+|||||+++..|+|+|+++.+++.|||.+|+|..|. ..+|.+||.|.++++.|
T Consensus 580 ek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y~~F~a~~D~~rl~nDL~~~vtk~~g 659 (1007)
T KOG1984|consen 580 EKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKYYPFQALTDGPRLLNDLVRNVTKKQG 659 (1007)
T ss_pred hhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEecchhhcccHHHHHHHHHHhccccee
Confidence 99999999999999999999999999999999999999999999999999999999984 55899999999999999
Q ss_pred eeeEEEEEcCCCeeEeEeeeccccCCCCCCceEEeeeCCCceEEEEEEEecCCCCC-CceeEEEEEEeeecCCCccc
Q 012724 380 FNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFA-RLHFNIQLLCLLRNFQVKDW 455 (457)
Q Consensus 380 ~~~~lrvR~S~gl~i~~~~G~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~l~-~~~~~iQ~~~~y~~~~~~~~ 455 (457)
|+|.||||||+||++.++|||+..++ ....+++.+|.|+++.++|+|+ ++|+ +..++||+|++||+.+|+.-
T Consensus 660 f~a~mrvRtStGirv~~f~Gnf~~~~--~tDiela~lD~dkt~~v~fkhD--dkLq~~s~~~fQ~AlLYTti~G~RR 732 (1007)
T KOG1984|consen 660 FDAVMRVRTSTGIRVQDFYGNFLMRN--PTDIELAALDCDKTLTVEFKHD--DKLQDGSDVHFQTALLYTTIDGQRR 732 (1007)
T ss_pred eeeEEEEeecCceeeeeeechhhhcC--CCCccccccccCceeEEEEecc--ccccCCcceeEEEEEEEeccCCcee
Confidence 99999999999999999999999875 5567899999999999999995 4674 66799999999999998753
No 3
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=4.9e-88 Score=730.37 Aligned_cols=430 Identities=25% Similarity=0.353 Sum_probs=367.3
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccCCCCCCCCCcCcceEEecCceEeC--ceEEEccCCCC
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~~~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~ 79 (457)
|||+|||+||.++.++++++||||++|+||++.++ +|++ .++|+||++|+|||||||+++. ++|+||||++.
T Consensus 11 gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~~---vp~v---~~~pvRC~~CraylNPf~~~d~~~~~W~C~~C~~~ 84 (761)
T PLN00162 11 GVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLPE---LPVL---PYDPLRCRTCRAVLNPYCRVDFQAKIWICPFCFQR 84 (761)
T ss_pred ceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCCC---CCcC---CCCCCccCCCcCEECCceEEecCCCEEEccCCCCC
Confidence 79999999999999999999999999999988644 4444 3589999999999999999984 79999999999
Q ss_pred CCCChhhhcccCCCCCcccc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEE
Q 012724 80 NGLSSQAIARYTHPQSCAEM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALF 157 (457)
Q Consensus 80 N~v~~~y~~~~~~~~~~pEL--~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~l~~~~~v 157 (457)
|.+|++|.. ..+.+.+||| .+++|||.+|+ |..+ .+.+|+|+||||+|..+..++.++++|+.+|+.||++++|
T Consensus 85 N~~P~~Y~~-~~~~~~p~EL~p~~~TvEY~~p~-~~~~--~~~pp~fvFvID~s~~~~~l~~lk~sl~~~L~~LP~~a~V 160 (761)
T PLN00162 85 NHFPPHYSS-ISETNLPAELFPQYTTVEYTLPP-GSGG--APSPPVFVFVVDTCMIEEELGALKSALLQAIALLPENALV 160 (761)
T ss_pred CCCchHhcc-cCccCCChhhcCCceeEEEECCC-CCCC--CCCCcEEEEEEecchhHHHHHHHHHHHHHHHHhCCCCCEE
Confidence 999999752 2334567899 89999999997 5433 3578999999999999999999999999999999999999
Q ss_pred EEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc-----------------------ccc-cccccchHhHHH
Q 012724 158 GLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV-----------------------MPL-SQFLAPVETFKE 213 (457)
Q Consensus 158 glItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~-----------------------~p~-~~~l~~~~~~~~ 213 (457)
||||||+.||||+|+.......+|+.+ +++ ....++++. +|. ++||+|++||+.
T Consensus 161 GlITF~s~V~~~~L~~~~~~~~~Vf~g-~k~-~t~~~l~~~l~l~~~~~~~~~~~~~~~~~~~~~p~~~~fLvpl~e~~~ 238 (761)
T PLN00162 161 GLITFGTHVHVHELGFSECSKSYVFRG-NKE-VSKDQILEQLGLGGKKRRPAGGGIAGARDGLSSSGVNRFLLPASECEF 238 (761)
T ss_pred EEEEECCEEEEEEcCCCCCcceEEecC-Ccc-CCHHHHHHHhccccccccccccccccccccccCCCccceeEEHHHHHH
Confidence 999999999999998765444455542 222 222222221 233 689999999999
Q ss_pred HHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCcccccccc
Q 012724 214 NITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYG 293 (457)
Q Consensus 214 ~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~ 293 (457)
.|+++|++|+++ .|+.+.+ +++.||+|+||++|..+|+...++. ||||++|++|+||.|||+|+.++++
T Consensus 239 ~i~~lLe~L~~~-~~~~~~~--------~rp~r~tG~AL~vA~~lL~~~~~~~--gGrI~~F~sgppT~GpG~v~~r~~~ 307 (761)
T PLN00162 239 TLNSALEELQKD-PWPVPPG--------HRPARCTGAALSVAAGLLGACVPGT--GARIMAFVGGPCTEGPGAIVSKDLS 307 (761)
T ss_pred HHHHHHHhhhcc-ccccCCC--------CCCCccHHHHHHHHHHHHhhccCCC--ceEEEEEeCCCCCCCCceeeccccc
Confidence 999999999987 4655433 2478999999999999998654332 6999999999999999999999999
Q ss_pred CccCCCCc--cccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHHH
Q 012724 294 EQYASKGE--DADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIY 371 (457)
Q Consensus 294 ~~~~~~~~--~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~ 371 (457)
+.+|+|.+ +++.++++++.+||++||++|+++||+||+|+++.+++|+++|+.|++.|||.+++|++|+.++|.++|+
T Consensus 308 ~~~rsh~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~ 387 (761)
T PLN00162 308 EPIRSHKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLR 387 (761)
T ss_pred ccccCccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHH
Confidence 99998764 3456799999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccC------cceeeEEEEEcCCCeeEeEeeeccccCCCC-------------CCceEEeeeCCCceEEEEEEEecCC
Q 012724 372 RMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQY-------------ENVQHIICCDSYATYAYDFDFANAA 432 (457)
Q Consensus 372 ~~l~~~------~~~~~~lrvR~S~gl~i~~~~G~~~~~~~~-------------~~~~~~~~~~~~~s~~~~~~~~~~~ 432 (457)
|.|+++ +||+|+||||||+|++|++++||+....++ .+.|+++.+|+++||+|+|++++..
T Consensus 388 r~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~av~f~~~~~~ 467 (761)
T PLN00162 388 RVFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSLAVFFEVANSG 467 (761)
T ss_pred HHhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEEEEEEEEcccc
Confidence 999974 799999999999999999999999753322 2469999999999999999998754
Q ss_pred ---CC-CCceeEEEEEEeeecCCCcc
Q 012724 433 ---GF-ARLHFNIQLLCLLRNFQVKD 454 (457)
Q Consensus 433 ---~l-~~~~~~iQ~~~~y~~~~~~~ 454 (457)
++ ++..+||||+++||+.+|+-
T Consensus 468 ~~~~~~~~~~~~iQ~a~lYt~~~G~r 493 (761)
T PLN00162 468 QSNPQPPGQQFFLQFLTRYQHSNGQT 493 (761)
T ss_pred ccCCCCCCceEEEEEEEEEEcCCCCE
Confidence 22 45679999999999998863
No 4
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=6.2e-81 Score=635.25 Aligned_cols=409 Identities=22% Similarity=0.414 Sum_probs=362.7
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccCCCCCCCCCcCcceEEecCceEeC--ceEEEccCCCC
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~~~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~ 79 (457)
+||+|+|++|.+.+++++++||||+|++||.++.+.+.+++++ ....|+||++||+|+|||.+|.. ++|+||+|+..
T Consensus 152 yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~-~d~~ivRCrrCrsYiNPfv~fi~~g~kw~CNiC~~k 230 (861)
T COG5028 152 YVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLV-EDGSIVRCRRCRSYINPFVQFIEQGRKWRCNICRSK 230 (861)
T ss_pred HHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccC-CCCcchhhhhhHhhcCceEEEecCCcEEEEeecccc
Confidence 5899999999999999999999999999999986655544443 34459999999999999999984 69999999999
Q ss_pred CCCChhhhc------ccCCCCCccccccccEEEEecCCCCccccCCCCcEEEEEEECCCCh---hHHHHHHHHHHHHHHh
Q 012724 80 NGLSSQAIA------RYTHPQSCAEMISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSE---EFLELTRSALQAALEA 150 (457)
Q Consensus 80 N~v~~~y~~------~~~~~~~~pEL~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~ 150 (457)
|++|..+.. ++.++.+||||.+++|||.+|++|+.+++ .||+|||+||||..+ |.+.++..+|+..|+.
T Consensus 231 N~vp~~~~~~~~~~~~r~d~~~r~El~~~vvdf~ap~~Y~~~~p--~P~~yvFlIDVS~~a~~~g~~~a~~r~Il~~l~~ 308 (861)
T COG5028 231 NDVPEGFDNPSGPNDPRSDRYSRPELKSGVVDFLAPKEYSLRQP--PPPVYVFLIDVSFEAIKNGLVKAAIRAILENLDQ 308 (861)
T ss_pred ccCcccccCcCCCCCccccccccchhhceeeEEecccceeeccC--CCCEEEEEEEeehHhhhcchHHHHHHHHHhhccC
Confidence 999987652 22236789999999999999999988764 589999999999986 8888888899988887
Q ss_pred CC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc-cccc--cccccchHhHHHHHHHHHHhcCC
Q 012724 151 VP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED-VMPL--SQFLAPVETFKENITSALETLRP 224 (457)
Q Consensus 151 l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~-~~p~--~~~l~~~~~~~~~i~~~l~~l~~ 224 (457)
+| +++||+||.||++||+|+++.+... ++ .+++|+|+ |+|. +.|+.|+..++..++.||+.++.
T Consensus 309 ~~~~dpr~kIaii~fD~sl~ffk~s~d~~~-~~---------~~vsdld~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~ 378 (861)
T COG5028 309 IPNFDPRTKIAIICFDSSLHFFKLSPDLDE-QM---------LIVSDLDEPFLPFPSGLFVLPLKSCKQIIETLLDRVPR 378 (861)
T ss_pred CCCCCCcceEEEEEEcceeeEEecCCCCcc-ce---------eeecccccccccCCcchhcccHHHHHHHHHHHHHHhhh
Confidence 75 6899999999999999999876521 11 35789999 5787 47999999999999999999999
Q ss_pred CCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCcccc
Q 012724 225 TTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDAD 304 (457)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~ 304 (457)
++.... .++.|+|.||++|..+++.+| |||++|.+++||.|.|+|..|++ +|
T Consensus 379 If~d~~------------~pk~~~G~aLk~a~~l~g~~G------Gkii~~~stlPn~G~Gkl~~r~d----------~e 430 (861)
T COG5028 379 IFQDNK------------SPKNALGPALKAAKSLIGGTG------GKIIVFLSTLPNMGIGKLQLRED----------KE 430 (861)
T ss_pred hhcccC------------CCccccCHHHHHHHHHhhccC------ceEEEEeecCCCccccccccccc----------ch
Confidence 876542 367999999999999998876 89999999999999999998864 45
Q ss_pred ccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCc------HHHHHHHHhccCc
Q 012724 305 RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDST------LPQDIYRMLSRPY 378 (457)
Q Consensus 305 ~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~------l~~dl~~~l~~~~ 378 (457)
..++++.+.||++++.+|.+.||+||+|+++.+++|++|++.|++.|||.+++|+.|+..+ |.+||.++++++.
T Consensus 431 ~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp~f~~~~~~d~~kl~~dL~~~ls~~~ 510 (861)
T COG5028 431 SSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYPNFSATRPNDATKLANDLVSHLSMEI 510 (861)
T ss_pred hhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcCCcccCCchhHHHHHHHHHHhhhhhh
Confidence 5689999999999999999999999999999999999999999999999999999997665 9999999999999
Q ss_pred ceeeEEEEEcCCCeeEeEeeeccccCCCCCCceEEeeeCCCceEEEEEEEecCCCCCCceeEEEEEEeeecCCCccc
Q 012724 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQYENVQHIICCDSYATYAYDFDFANAAGFARLHFNIQLLCLLRNFQVKDW 455 (457)
Q Consensus 379 ~~~~~lrvR~S~gl~i~~~~G~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~l~~~~~~iQ~~~~y~~~~~~~~ 455 (457)
||++.||+|||+|++++++|||++.+. ++++.++.++.|+|+.|+|++++ ++....+|||.|++||..+|+.-
T Consensus 511 gy~~~~rvR~S~glr~s~fyGnf~~rs--~dl~~F~tm~rd~Sl~~~~sid~--~l~~~~v~fQvAlL~T~~~GeRR 583 (861)
T COG5028 511 GYEAVMRVRCSTGLRVSSFYGNFFNRS--SDLCAFSTMPRDTSLLVEFSIDE--KLMTSDVYFQVALLYTLNDGERR 583 (861)
T ss_pred hhheeeEeeccCceehhhhhccccccC--cccccccccCCCceEEEEEEecc--cccCCceEEEEEEEeeccCCceE
Confidence 999999999999999999999999986 78999999999999999999954 57779999999999999998753
No 5
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.2e-77 Score=607.23 Aligned_cols=427 Identities=24% Similarity=0.354 Sum_probs=374.3
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccCCCCCCCCCcCcceEEecCceEeC--ceEEEccCCCC
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSL 79 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~~~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~ 79 (457)
|||+|||.||.++....++.+|++++++||.+... +|. ..++|+||.+|+||+||||.+|. +.|.|+||.+.
T Consensus 11 GvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~---~~~---~~y~P~~C~~C~AvlNPyc~vd~~a~~W~CpfC~qr 84 (745)
T KOG1986|consen 11 GVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPD---LPP---IQYDPLRCSKCGAVLNPYCSVDFRAKSWICPFCNQR 84 (745)
T ss_pred CcccccccCCCcccccccccccHHHhccccccCCC---CCc---cCCCCchhccchhhcCcceeecccCceEeccccccC
Confidence 79999999999999999999999999999987544 232 25799999999999999999994 68999999999
Q ss_pred CCCChhhhcccCCCCCcc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcE
Q 012724 80 NGLSSQAIARYTHPQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGAL 156 (457)
Q Consensus 80 N~v~~~y~~~~~~~~~~p-EL--~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~l~~~~~ 156 (457)
|..|++|..-- ..+.| || ...+|||..++. ...||+|+||||++..+++|+++|++|+.+|+.||++++
T Consensus 85 N~~p~~Y~~is--~~n~P~el~Pq~stvEy~l~~~------~~~ppvf~fVvDtc~~eeeL~~LkssL~~~l~lLP~~al 156 (745)
T KOG1986|consen 85 NPFPPHYSGIS--ENNLPPELLPQYSTVEYTLSPG------RVSPPVFVFVVDTCMDEEELQALKSSLKQSLSLLPENAL 156 (745)
T ss_pred CCCChhhcccC--ccCCChhhcCCcceeEEecCCC------CCCCceEEEEEeeccChHHHHHHHHHHHHHHhhCCCcce
Confidence 99999854311 23445 88 588999999853 245899999999999999999999999999999999999
Q ss_pred EEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccccc--------------cccccccchHhHHHHHHHHHHhc
Q 012724 157 FGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVM--------------PLSQFLAPVETFKENITSALETL 222 (457)
Q Consensus 157 vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~~--------------p~~~~l~~~~~~~~~i~~~l~~l 222 (457)
||||||++.||+|+++.....+.+||.+ +++ .....+.+.+ +...||.|+++|...++++|++|
T Consensus 157 vGlItfg~~v~v~el~~~~~sk~~VF~G-~ke-~s~~q~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L 234 (745)
T KOG1986|consen 157 VGLITFGTMVQVHELGFEECSKSYVFSG-NKE-YSAKQLLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEEL 234 (745)
T ss_pred EEEEEecceEEEEEcCCCcccceeEEec-ccc-ccHHHHHHHhcCCcccccCCcccccchhhhccHHHHHHHHHHHHHHh
Confidence 9999999999999999988888898875 333 2233333321 22479999999999999999999
Q ss_pred CCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCc-
Q 012724 223 RPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGE- 301 (457)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~- 301 (457)
.++ .|++++++ ++.||+|+||++|+.+|++..+++ |+||++|++||||.|||.+..++.++.+|++..
T Consensus 235 ~~d-~wpV~~g~--------Rp~RcTG~Al~iA~~Ll~~c~p~~--g~rIv~f~gGPcT~GpG~vv~~el~~piRshhdi 303 (745)
T KOG1986|consen 235 QPD-PWPVPPGH--------RPLRCTGVALSIASGLLEGCFPNT--GARIVLFAGGPCTRGPGTVVSRELKEPIRSHHDI 303 (745)
T ss_pred cCC-CCCCCCCC--------CcccchhHHHHHHHHHhcccCCCC--cceEEEeccCCCCcCCceecchhhcCCCcCcccc
Confidence 988 78888764 578999999999999999887654 689999999999999999999999999999873
Q ss_pred c-ccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHHHHHhcc----
Q 012724 302 D-ADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSR---- 376 (457)
Q Consensus 302 ~-~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~---- 376 (457)
+ ....+++++.+||++||++++++|++||+|+++.+++++++|++|++.|||.+.+.++|+.+.|+++++|++++
T Consensus 304 ~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~d~~~ 383 (745)
T KOG1986|consen 304 EKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTRDGEG 383 (745)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhcccccc
Confidence 3 45678999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred --CcceeeEEEEEcCCCeeEeEeeeccccCCCCC-------------CceEEeeeCCCceEEEEEEEecCCCCC-CceeE
Q 012724 377 --PYAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANAAGFA-RLHFN 440 (457)
Q Consensus 377 --~~~~~~~lrvR~S~gl~i~~~~G~~~~~~~~~-------------~~~~~~~~~~~~s~~~~~~~~~~~~l~-~~~~~ 440 (457)
..||+++|+|+||++++|++++|++...++++ .-|++..+++.+|+++.||+.....++ +..+|
T Consensus 384 ~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~~~~~~~~~~~~ 463 (745)
T KOG1986|consen 384 DLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISNQHNIPQSGQGY 463 (745)
T ss_pred chhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEeccccCCCCCCeeE
Confidence 47999999999999999999999999876532 249999999999999999998765543 67999
Q ss_pred EEEEEeeecCCCccc
Q 012724 441 IQLLCLLRNFQVKDW 455 (457)
Q Consensus 441 iQ~~~~y~~~~~~~~ 455 (457)
|||+|+|+|.++++-
T Consensus 464 iQFiT~Yq~s~g~~r 478 (745)
T KOG1986|consen 464 IQFITQYQHSSGQKR 478 (745)
T ss_pred EEEEEEEEcCCCcEE
Confidence 999999999998763
No 6
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=1.1e-75 Score=626.47 Aligned_cols=418 Identities=18% Similarity=0.306 Sum_probs=348.9
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccC--------CCCCCCCCcCcceEEecCceEe-CceEE
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGS--------DGHMLPRCENCYAYFNTYCELE-QWAWT 72 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~--------~~~~p~RC~~C~aYiNp~~~~~-~~~w~ 72 (457)
+||+|||++|.+.++++.+.||||++++|||.+.++|.+|.++. .+..|+||.+|++|+|+++.++ ..+++
T Consensus 654 ~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~~~e~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~~~~~~~ 733 (1560)
T PTZ00395 654 FLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLNEGEGIDKIDMKDIINDKEENIEILRCPKCLGYLHATILEDISSSVQ 733 (1560)
T ss_pred hhhhhhhcCcchHHHHHhcCCCceeecchhhhcCCCCCCcccchhhcccchhhccceeecchhHhhhcchheecccceEE
Confidence 68999999999999999999999999999999887776655442 3568999999999999999887 58999
Q ss_pred EccCCCCCCCChhh---hcccC----C----C----CCccccccccEEEEecCCCCcc----------------------
Q 012724 73 CSLCGSLNGLSSQA---IARYT----H----P----QSCAEMISSFIDLDLPLEGSEE---------------------- 115 (457)
Q Consensus 73 C~~C~~~N~v~~~y---~~~~~----~----~----~~~pEL~~~~ve~~~~~~~~~~---------------------- 115 (457)
|+||.+.+.+.+.. +.+|. + . ...-.|.+|+||+.+|+-|...
T Consensus 734 c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 813 (1560)
T PTZ00395 734 CVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSPLLKGSVDIIIPPIYYHNVNKFKLTYTYLNKNINQTAFMI 813 (1560)
T ss_pred EEecCCcchhhHHHHHHHHHHhhhhccccccccccccccchhhcCceeEEccchhhccCCccceeeehhhcchhhhhhhh
Confidence 99999999885431 11221 1 1 1123577899999988643100
Q ss_pred ---------------------------------------------------c----------------------------
Q 012724 116 ---------------------------------------------------E---------------------------- 116 (457)
Q Consensus 116 ---------------------------------------------------~---------------------------- 116 (457)
+
T Consensus 814 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 893 (1560)
T PTZ00395 814 TNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVVNNRGGSGAGN 893 (1560)
T ss_pred hhhhhhhhhhhcchheecccccccccchhhhcccccccccccccccccccccccccccccccccccccccccccccCcCc
Confidence 0
Q ss_pred ------------------------------------------------------cCCCCcEEEEEEECCCCh---hHHHH
Q 012724 117 ------------------------------------------------------TMQARPVYVAAVDLSSSE---EFLEL 139 (457)
Q Consensus 117 ------------------------------------------------------~~~~~p~~vFvID~s~~~---~~l~~ 139 (457)
..+.||+|+||||||..+ |++++
T Consensus 894 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~~AVkSGLl~t 973 (1560)
T PTZ00395 894 HLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSYNAIYNNITYT 973 (1560)
T ss_pred ccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCHHHHhhChHHH
Confidence 013579999999999975 99999
Q ss_pred HHHHHHHHHHhCC-CCcEEEEEEecceeEEEEccCCC-------------cceeeeeeCCCCCccccccccc-cccc--c
Q 012724 140 TRSALQAALEAVP-SGALFGLATFSHKIGLYDVQGAI-------------PVVKNVFIPSDTEDTLSLELED-VMPL--S 202 (457)
Q Consensus 140 ~~~~l~~~l~~l~-~~~~vglItf~~~V~~y~l~~~~-------------~~~~~v~~~~~~~~~v~~dl~~-~~p~--~ 202 (457)
++++|+++|+.++ +++||||||||++||||+|++.+ .+++| .|++||+| |+|+ +
T Consensus 974 acesIK~sLDsL~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~l~qPQM---------LVVSDLDDPFLPlP~d 1044 (1560)
T PTZ00395 974 ILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGGSGNHQV---------IVMSDVDDPFLPLPLE 1044 (1560)
T ss_pred HHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecCcccccccccccccccCCCceE---------EeecCCccCcCCCCcc
Confidence 9999999999986 67999999999999999997642 23333 46789999 5787 5
Q ss_pred ccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCC
Q 012724 203 QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH 282 (457)
Q Consensus 203 ~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~ 282 (457)
++|+++.|+++.|+++|+.|+.++.... ...+|+|+||++|..+|+..|| ||||++|++++|++
T Consensus 1045 dLLVnL~ESRevIe~LLDkLPemFt~t~------------~~esCLGSALqAA~~aLk~~GG----GGKIiVF~SSLPni 1108 (1560)
T PTZ00395 1045 DLFFGCVEEIDKINTLIDTIKSVSTTMQ------------SYGSCGNSALKIAMDMLKERNG----LGSICMFYTTTPNC 1108 (1560)
T ss_pred CeeechHHHHHHHHHHHHHHHHHhhccC------------CCcccHHHHHHHHHHHHHhcCC----CceEEEEEcCCCCC
Confidence 7999999999999999999998864332 2578999999999999999875 48999999999999
Q ss_pred CCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccC--ccccccccccCccEEEEeCC
Q 012724 283 GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTD--LASLKFLSIESGGSLFLYSS 360 (457)
Q Consensus 283 GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~--l~~l~~l~~~TGG~v~~~~~ 360 (457)
|||+|+.++. +.+|+.++.++++||++||.+|++++|+||||+++.+++| +++|+.|++.|||.+++|+.
T Consensus 1109 GpGaLK~Re~--------~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPn 1180 (1560)
T PTZ00395 1109 GIGAIKELKK--------DLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVEN 1180 (1560)
T ss_pred CCCccccccc--------ccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEEEeCC
Confidence 9999996542 2356678889999999999999999999999999999876 79999999999999999999
Q ss_pred CCC----CcHHHHHHHHhcc-CcceeeEEEEEcCCCeeEeEee--eccccCCCCCCceEEeeeCCCceEEEEEEEecCCC
Q 012724 361 TDD----STLPQDIYRMLSR-PYAFNCIMRLRTSSEFKPGHSY--GHFFPDPQYENVQHIICCDSYATYAYDFDFANAAG 433 (457)
Q Consensus 361 ~~~----~~l~~dl~~~l~~-~~~~~~~lrvR~S~gl~i~~~~--G~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~ 433 (457)
|+. .+|.+||.+.|++ ++||+|+||||||+||+|+.+| |+++......+++.+|.+++|++|+|+|++++ +
T Consensus 1181 Fna~rD~~KL~~DL~r~LTre~iGyEAVMRVRCS~GLrVs~fyG~GnnF~s~rStDLLaLP~Id~DqSfaVeLk~DE--k 1258 (1560)
T PTZ00395 1181 FLWQKDYKEIYMNIMDTLTSEDIAYCCELKLRYSHHMSVKKLFCCNNNFNSIISVDTIKIPKIRHDQTFAFLLNYSD--I 1258 (1560)
T ss_pred CcccccHHHHHHHHHHHhhccceeeEEEEEEECCCCeEEEEEeccCCccccccccccccccccCCCceEEEEEEecc--c
Confidence 964 4799999999998 5899999999999999999999 44553222257889999999999999999964 4
Q ss_pred CC-CceeEEEEEEeeecCCCcc
Q 012724 434 FA-RLHFNIQLLCLLRNFQVKD 454 (457)
Q Consensus 434 l~-~~~~~iQ~~~~y~~~~~~~ 454 (457)
|. ...+|||+|++||+.+|+.
T Consensus 1259 L~~~~~AYFQaALLYTSssGER 1280 (1560)
T PTZ00395 1259 SESKKQIYFQCACIYTNLWGDR 1280 (1560)
T ss_pred cCCCCcEEEEEEEeeccCCCcE
Confidence 64 6789999999999999875
No 7
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.3e-70 Score=541.17 Aligned_cols=424 Identities=25% Similarity=0.384 Sum_probs=367.1
Q ss_pred eeecccCccCCCHHHHHhcCCceEEEEccCCCCCCCCCCCcccCCCCCCCCCcC-cceEEecCceEeC--ceEEEccCCC
Q 012724 2 AVRATVSRFPSDPDAQEASGLPWGVTVTPFATKDENGAAPVYGSDGHMLPRCEN-CYAYFNTYCELEQ--WAWTCSLCGS 78 (457)
Q Consensus 2 ~vR~T~~~~P~~~~~~~~~~lPlg~vv~Pf~~~~~~~~~p~~~~~~~~p~RC~~-C~aYiNp~~~~~~--~~w~C~~C~~ 78 (457)
|||+|||+||+|+.....+.+|++++|+||++.++ .++ ..++|+.|.. |+||+||||.+|. +.|+|+||+.
T Consensus 11 gir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~---~~v---~~yepv~C~~pC~avlnpyC~id~r~~~W~CpfCnq 84 (755)
T COG5047 11 GIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDA---LTV---NYYEPVKCTAPCKAVLNPYCHIDERNQSWICPFCNQ 84 (755)
T ss_pred ceEEEEecccCCccccccccccHHHhccccccccc---cCc---ccCCCceecccchhhcCcceeeccCCceEecceecC
Confidence 79999999999999999999999999999988643 222 3578999999 9999999999995 5899999999
Q ss_pred CCCCChhhhcccCC--CCCcc-cc--ccccEEEEecCCCCccccCCCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCC
Q 012724 79 LNGLSSQAIARYTH--PQSCA-EM--ISSFIDLDLPLEGSEEETMQARPVYVAAVDLSSSEEFLELTRSALQAALEAVPS 153 (457)
Q Consensus 79 ~N~v~~~y~~~~~~--~~~~p-EL--~~~~ve~~~~~~~~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~l~~ 153 (457)
.|.+|++ |++ ..+.| || .+.|+||+.++. ..-+|+|+||||++...+.|.+++++|...+..+|+
T Consensus 85 rn~lp~q----y~~iS~~~LplellpqssTiey~lskp------~~~ppvf~fvvD~~~D~e~l~~Lkdslivslsllpp 154 (755)
T COG5047 85 RNTLPPQ----YRDISNANLPLELLPQSSTIEYTLSKP------VILPPVFFFVVDACCDEEELTALKDSLIVSLSLLPP 154 (755)
T ss_pred CCCCChh----hcCCCcccCCccccCCCceEEEEccCC------ccCCceEEEEEEeecCHHHHHHHHHHHHHHHhcCCc
Confidence 9999998 444 34454 88 689999999873 346899999999999999999999999999999999
Q ss_pred CcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc---------------cc------ccccccchHhHH
Q 012724 154 GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV---------------MP------LSQFLAPVETFK 212 (457)
Q Consensus 154 ~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~---------------~p------~~~~l~~~~~~~ 212 (457)
++.||||||++.|++|+++.......+||.+ +++ +....|+++ ++ ...|+.|+++|.
T Consensus 155 eaLvglItygt~i~v~el~ae~~~r~~VF~g-~~e-yt~~~L~~ll~~~~~~~~~~~es~is~~~~~~~~rFl~p~q~ce 232 (755)
T COG5047 155 EALVGLITYGTSIQVHELNAENHRRSYVFSG-NKE-YTKENLQELLALSKPTKSGGFESKISGIGQFASSRFLLPTQQCE 232 (755)
T ss_pred cceeeEEEecceeEEEeccccccCcceeecc-hHH-HHHHHHHHHhcccCCCCcchhhhhcccccccchhhhhccHHHHH
Confidence 9999999999999999999887777888875 222 222233321 11 124899999999
Q ss_pred HHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccc
Q 012724 213 ENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRY 292 (457)
Q Consensus 213 ~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~ 292 (457)
..+.++|++|.++ .|.++++. ++.||+|+||..|..+|+...++ .++||++|++||||.|||.|.+++.
T Consensus 233 ~~L~n~le~L~pd-~~~v~~~~--------Rp~RCTGsAl~ias~Ll~~~~p~--~~~~i~lF~~GPcTvGpG~Vvs~el 301 (755)
T COG5047 233 FKLLNILEQLQPD-PWPVPAGK--------RPLRCTGSALNIASSLLEQCFPN--AGCHIVLFAGGPCTVGPGTVVSTEL 301 (755)
T ss_pred HHHHHHHHHhCCC-CccCCCCC--------CCccccchhHHHHHHHHHhhccC--cceeEEEEcCCCccccCceeeehhh
Confidence 9999999999987 68877653 68999999999999999988765 3799999999999999999999999
Q ss_pred cCccCCCCc-cc-cccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHH
Q 012724 293 GEQYASKGE-DA-DRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDI 370 (457)
Q Consensus 293 ~~~~~~~~~-~~-~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl 370 (457)
++.+|+|.. +. ..++.+++.+||+.|+++++++|.++|+|+.+.+++|+.+|.+|...|||.+...++|+.+.|.++.
T Consensus 302 kEpmRshH~ie~d~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t~ifkqSf 381 (755)
T COG5047 302 KEPMRSHHDIESDSAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTTSIFKQSF 381 (755)
T ss_pred cccccccccccccchhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccHHHHHHHH
Confidence 999999864 33 3678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccC------cceeeEEEEEcCCCeeEeEeeeccccCCCCC-------------CceEEeeeCCCceEEEEEEEecC
Q 012724 371 YRMLSRP------YAFNCIMRLRTSSEFKPGHSYGHFFPDPQYE-------------NVQHIICCDSYATYAYDFDFANA 431 (457)
Q Consensus 371 ~~~l~~~------~~~~~~lrvR~S~gl~i~~~~G~~~~~~~~~-------------~~~~~~~~~~~~s~~~~~~~~~~ 431 (457)
+|+|.+. .||+|.|+|.||++++|++++|+...-+++. +.|....+.|.+++++.||+..+
T Consensus 382 qrif~~d~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal~fei~~~ 461 (755)
T COG5047 382 QRIFNRDSEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYALYFEIALG 461 (755)
T ss_pred HHHhCcCcccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEEEEEeccc
Confidence 9999885 6899999999999999999999988765422 34999999999999999999865
Q ss_pred CCC----CCceeEEEEEEeeecCCCcc
Q 012724 432 AGF----ARLHFNIQLLCLLRNFQVKD 454 (457)
Q Consensus 432 ~~l----~~~~~~iQ~~~~y~~~~~~~ 454 (457)
..- ....+||||.|+|+|.+++-
T Consensus 462 ~~~~~~~~~~~a~iQfiT~yQhss~t~ 488 (755)
T COG5047 462 AASGSAQRPAEAYIQFITTYQHSSGTY 488 (755)
T ss_pred cCCCccCCcccchhhhhhhhhccCCcE
Confidence 331 13679999999999998763
No 8
>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=100.00 E-value=5.8e-48 Score=367.51 Aligned_cols=228 Identities=26% Similarity=0.458 Sum_probs=199.3
Q ss_pred CCcEEEEEEECCCCh---hHHHHHHHHHHHHHHhCCCC---cEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccc
Q 012724 120 ARPVYVAAVDLSSSE---EFLELTRSALQAALEAVPSG---ALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (457)
Q Consensus 120 ~~p~~vFvID~s~~~---~~l~~~~~~l~~~l~~l~~~---~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~ 193 (457)
.||+|+||||+|..+ |++++++++|+++|+.+|++ ++|||||||+.||||+++....++++. +++
T Consensus 2 ~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~~~~~q~~---------vv~ 72 (244)
T cd01479 2 QPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSSLEQPQMM---------VVS 72 (244)
T ss_pred CCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCCCCCCeEE---------Eee
Confidence 689999999999976 68999999999999999966 999999999999999998766544443 456
Q ss_pred cccc-cccc-cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 194 ELED-VMPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 194 dl~~-~~p~-~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
|++| ++|+ +++|++++|+++.|.++|++|+..+... +++.+|+|+||++|..+|+..| ||
T Consensus 73 dl~d~f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~------------~~~~~c~G~Al~~A~~lL~~~G------Gk 134 (244)
T cd01479 73 DLDDPFLPLPDGLLVNLKESRQVIEDLLDQIPEMFQDT------------KETESALGPALQAAFLLLKETG------GK 134 (244)
T ss_pred CcccccCCCCcceeecHHHHHHHHHHHHHHHHHHHhcC------------CCCcccHHHHHHHHHHHHHhcC------CE
Confidence 8888 4677 6799999999999999999997653221 1368999999999999999665 89
Q ss_pred EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 272 Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|++|++|+||.|||+++.++.++.. ++++|+.+++++++||++||.+|+++||+||+|+++.+++|+++|+.|++.|
T Consensus 135 Ii~f~s~~pt~GpG~l~~~~~~~~~---~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~T 211 (244)
T cd01479 135 IIVFQSSLPTLGAGKLKSREDPKLL---STDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLT 211 (244)
T ss_pred EEEEeCCCCCcCCcccccCcccccc---CchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhc
Confidence 9999999999999999998865533 2345678999999999999999999999999999999999999999999999
Q ss_pred ccEEEEeC--CCC----CCcHHHHHHHHhccC
Q 012724 352 GGSLFLYS--STD----DSTLPQDIYRMLSRP 377 (457)
Q Consensus 352 GG~v~~~~--~~~----~~~l~~dl~~~l~~~ 377 (457)
||.+++|+ +|+ ..+|.+||+|.++|+
T Consensus 212 GG~v~~y~~~~~~~~~d~~kl~~dl~~~ltr~ 243 (244)
T cd01479 212 GGQVYYYPSFNFSAPNDVEKLVNELARYLTRK 243 (244)
T ss_pred CceEEEECCccCCchhhHHHHHHHHHHHhccc
Confidence 99999999 554 357999999999986
No 9
>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=100.00 E-value=1.1e-47 Score=368.52 Aligned_cols=241 Identities=27% Similarity=0.367 Sum_probs=204.8
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCc----------
Q 012724 120 ARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTED---------- 189 (457)
Q Consensus 120 ~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~---------- 189 (457)
.||+|+||||+|..+.++++++++|+++|+.||++++|||||||++||||+|+.......+||.+. .+.
T Consensus 2 ~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~-~~~~~~~~~~~l~ 80 (267)
T cd01478 2 SPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELGFEECSKSYVFRGN-KDYTAKQIQDMLG 80 (267)
T ss_pred CCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCcCceeeeccCC-ccCCHHHHHHHhc
Confidence 589999999999999999999999999999999999999999999999999987655556666542 110
Q ss_pred ----------cccccccc-cccc--cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHH
Q 012724 190 ----------TLSLELED-VMPL--SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLF 256 (457)
Q Consensus 190 ----------~v~~dl~~-~~p~--~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~ 256 (457)
.+..++++ +.|. ++||+|++||++.|+++|++|+++ .|....+ +++.||+|+||++|.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~p~~~~~flvpl~e~~~~i~~lLe~L~~~-~~~~~~~--------~r~~r~~G~Al~~A~ 151 (267)
T cd01478 81 LGGPAMRPSASQHPGAGNPLPSAAASRFLLPVSQCEFTLTDLLEQLQPD-PWPVPAG--------HRPLRCTGVALSIAV 151 (267)
T ss_pred cccccccccccCcCCccccccccccccEEEEHHHHHHHHHHHHHhCccc-ccccCCC--------CCCCCchHHHHHHHH
Confidence 01123455 2343 689999999999999999999887 3544332 247899999999999
Q ss_pred HhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCC-cccc-ccCCCcchHHHHHHHHHHHHcceEEEEeee
Q 012724 257 NYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKG-EDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIFAI 334 (457)
Q Consensus 257 ~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~-~~~~-~~~~~~~~~fY~~la~~~~~~~isvdlf~~ 334 (457)
.+|+...++ .||||++|++|+||.|||+|+.|+.++.+|++. .+++ ..+++++++||++||.+|++++|+||+|++
T Consensus 152 ~ll~~~~~~--~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~ 229 (267)
T cd01478 152 GLLEACFPN--TGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAG 229 (267)
T ss_pred HHHHhhcCC--CCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEec
Confidence 999864322 259999999999999999999999988998865 3444 469999999999999999999999999999
Q ss_pred cCCccCccccccccccCccEEEEeCCCCCCcHHHHHHH
Q 012724 335 TNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYR 372 (457)
Q Consensus 335 ~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~ 372 (457)
+.+++|+++|+.|++.|||.+++|++|+.+.|+++++|
T Consensus 230 s~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s~~~ 267 (267)
T cd01478 230 CLDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQSFQR 267 (267)
T ss_pred cccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHHhcC
Confidence 99999999999999999999999999999999998864
No 10
>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=100.00 E-value=5.6e-47 Score=360.82 Aligned_cols=228 Identities=33% Similarity=0.564 Sum_probs=200.7
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccc
Q 012724 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (457)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~l~--~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~ 193 (457)
++||+|+||||+|.. ++++++++++|+++|+.+| ++++|||||||+.||||++++...++++ .++.
T Consensus 1 p~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~~~~~~---------~v~~ 71 (239)
T cd01468 1 PQPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDLAQPKM---------YVVS 71 (239)
T ss_pred CCCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCCCCCeE---------EEeC
Confidence 368999999999998 6999999999999999999 9999999999999999999876543333 2456
Q ss_pred cccc-cccc-cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 194 ELED-VMPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 194 dl~~-~~p~-~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
|++| ++|. .++|++++|+++.|.++|++|++++... .+ +++.+|+|+||++|..+|+..++ |||
T Consensus 72 dl~d~f~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~-~~---------~~~~~~~G~Al~~A~~ll~~~~~----gGk 137 (239)
T cd01468 72 DLKDVFLPLPDRFLVPLSECKKVIHDLLEQLPPMFWPV-PT---------HRPERCLGPALQAAFLLLKGTFA----GGR 137 (239)
T ss_pred CCccCcCCCcCceeeeHHHHHHHHHHHHHhhhhhcccc-CC---------CCCcccHHHHHHHHHHHHhhcCC----Cce
Confidence 8888 4676 6799999999999999999999885321 01 14789999999999999998731 389
Q ss_pred EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 272 Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|++|++|+||.|||+++.+++++.+|++ +|+.+++++++||++||++|++++|+||+|+++.+++|+++|++|++.|
T Consensus 138 I~~f~sg~pt~GpG~l~~~~~~~~~~~~---~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~T 214 (239)
T cd01468 138 IIVFQGGLPTVGPGKLKSREDKEPIRSH---DEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKST 214 (239)
T ss_pred EEEEECCCCCCCCCccccCcccccCCCc---cchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcC
Confidence 9999999999999999999888888764 6788999999999999999999999999999999999999999999999
Q ss_pred ccEEEEeCCC----CCCcHHHHHHH
Q 012724 352 GGSLFLYSST----DDSTLPQDIYR 372 (457)
Q Consensus 352 GG~v~~~~~~----~~~~l~~dl~~ 372 (457)
||.+++|++| +.++|.+||+|
T Consensus 215 GG~v~~y~~f~~~~~~~~~~~~l~r 239 (239)
T cd01468 215 GGQVYLYDSFQAPNDGSKFKQDLQR 239 (239)
T ss_pred CceEEEeCCCCCcccHHHHHHHhcC
Confidence 9999999999 67788888864
No 11
>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=100.00 E-value=1.4e-45 Score=352.44 Aligned_cols=230 Identities=29% Similarity=0.545 Sum_probs=181.0
Q ss_pred CCCcEEEEEEECCCC---hhHHHHHHHHHHHHHHhCC--CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccc
Q 012724 119 QARPVYVAAVDLSSS---EEFLELTRSALQAALEAVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSL 193 (457)
Q Consensus 119 ~~~p~~vFvID~s~~---~~~l~~~~~~l~~~l~~l~--~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~ 193 (457)
|+||+|+|+||+|.. ++++++++++|+++|+.+| +++||||||||+.||+|+++......+++ ++.
T Consensus 1 P~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~~~~~~~---------v~~ 71 (243)
T PF04811_consen 1 PQPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSLSQPQMI---------VVS 71 (243)
T ss_dssp -S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTSSSTEEE---------EEH
T ss_pred CCCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCcCCCccc---------chH
Confidence 368999999999998 5999999999999999999 99999999999999999998766444443 467
Q ss_pred cccc-cccc-cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 194 ELED-VMPL-SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 194 dl~~-~~p~-~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
|++| ++|. ++||++++++++.|.++|++|++.+..... +++.+|+|+||++|..+|+..+. |||
T Consensus 72 dl~~~~~p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~----------~~~~~c~G~Al~~A~~ll~~~~~----gGk 137 (243)
T PF04811_consen 72 DLDDPFIPLPDGLLVPLSECRDAIEELLESLPSIFPETAG----------KRPERCLGSALSAALSLLSSRNT----GGK 137 (243)
T ss_dssp HTTSHHSSTSSSSSEETTTCHHHHHHHHHHHHHHSTT-TT----------B-----HHHHHHHHHHHHHHHTS-----EE
T ss_pred HHhhcccCCcccEEEEhHHhHHHHHHHHHHhhhhcccccc----------cCccccHHHHHHHHHHHHhcccc----CCE
Confidence 8998 4565 789999999999999999999875433211 14789999999999999994331 499
Q ss_pred EEEEecCCCCCCC-CccccccccCccCCCCcccc-ccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccc
Q 012724 272 VFAFLSGPPDHGA-GQLDTRRYGEQYASKGEDAD-RALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSI 349 (457)
Q Consensus 272 Ii~f~~g~pt~Gp-G~l~~~~~~~~~~~~~~~~~-~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~ 349 (457)
|++|++|+||.|| |++..++..... +.+++ ..+++++++||++||++|++++|+||+|+++.+++|+++|+.|++
T Consensus 138 I~~F~s~~pt~G~Gg~l~~~~~~~~~---~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~ 214 (243)
T PF04811_consen 138 ILVFTSGPPTYGPGGSLKKREDSSHY---DTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLAR 214 (243)
T ss_dssp EEEEESS---SSSTTSS-SBTTSCCC---CHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHH
T ss_pred EEEEeccCCCCCCCceeccccccccc---ccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHH
Confidence 9999999999999 677776554322 34455 567888899999999999999999999999999999999999999
Q ss_pred cCccEEEEeCCCC----CCcHHHHHHHHh
Q 012724 350 ESGGSLFLYSSTD----DSTLPQDIYRML 374 (457)
Q Consensus 350 ~TGG~v~~~~~~~----~~~l~~dl~~~l 374 (457)
.|||.+++|++|+ ..+|++||+|++
T Consensus 215 ~TGG~l~~y~~f~~~~~~~~l~~dl~r~~ 243 (243)
T PF04811_consen 215 YTGGSLYYYPNFNAERDGEKLRQDLKRLV 243 (243)
T ss_dssp CTT-EEEEETTTTCHHHHHHHHHHHHHHH
T ss_pred hCceeEEEeCCCCCchhHHHHHHHHHHhC
Confidence 9999999999998 567999999875
No 12
>PF08033 Sec23_BS: Sec23/Sec24 beta-sandwich domain; InterPro: IPR012990 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 (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes part of the Sec23/24 beta-barrel domain, which is formed from approximately 180 residues from three segments of the polypeptide. The strands of the barrel are oriented roughly parallel to the membrane such that one end of the barrel forms part of the inner surface of the coat and the other end part of the membrane-distal surface. The barrel is constructed from two opposed sheets: a six-stranded beta sheet facing partly towards the zinc finger domain and partly towards the solvent, and a five-stranded beta sheet facing the helical domain.; PDB: 3EFO_B 3EG9_B 1PD0_A 1PD1_A 1M2V_B 1PCX_A 3EH2_C 3EGD_A 2NUP_A 3EGX_A ....
Probab=99.60 E-value=4.3e-15 Score=121.00 Aligned_cols=76 Identities=18% Similarity=0.331 Sum_probs=63.4
Q ss_pred ceeeEEEEEcCCCeeEeEeeeccccCCCC-------CCc--eEEeeeCCCceEEEEEEEecCCCCC-CceeEEEEEEeee
Q 012724 379 AFNCIMRLRTSSEFKPGHSYGHFFPDPQY-------ENV--QHIICCDSYATYAYDFDFANAAGFA-RLHFNIQLLCLLR 448 (457)
Q Consensus 379 ~~~~~lrvR~S~gl~i~~~~G~~~~~~~~-------~~~--~~~~~~~~~~s~~~~~~~~~~~~l~-~~~~~iQ~~~~y~ 448 (457)
||+|+||||||+|++|++++||+...+.. ++. |.++.++++++|+|+|+++++ +. .+.+|||++++||
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~~--~~~~~~~~iQ~~~~Yt 78 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNRSSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDED--LPNGSQAYIQFALLYT 78 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEESSTBESSECSBSSCSEEEEEEEETT--EEEEEEESSB--TBTTSEEEEEEEEEEE
T ss_pred CceEEEEEEECCCeEEEEEEcCccccccccceeeccCCccEEEecccCCCCEEEEEEEECCC--CCCCCeEEEEEEEEEE
Confidence 79999999999999999999999987521 345 999999999999999999643 54 7899999999999
Q ss_pred cCCCcccc
Q 012724 449 NFQVKDWV 456 (457)
Q Consensus 449 ~~~~~~~~ 456 (457)
+.+|+-++
T Consensus 79 ~~~G~r~i 86 (96)
T PF08033_consen 79 DSNGERRI 86 (96)
T ss_dssp ETTSEEEE
T ss_pred CCCCCEEE
Confidence 99988653
No 13
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. 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, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=99.57 E-value=7.4e-16 Score=103.43 Aligned_cols=38 Identities=34% Similarity=0.943 Sum_probs=25.9
Q ss_pred CCCCCcCcceEEecCceEeC--ceEEEccCCCCCCCChhh
Q 012724 49 MLPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQA 86 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~N~v~~~y 86 (457)
+|+||++|+||||||++++. ++|+|+||++.|++|++|
T Consensus 1 ~p~rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~lp~~Y 40 (40)
T PF04810_consen 1 GPVRCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPLPPHY 40 (40)
T ss_dssp -S-B-TTT--BS-TTSEEETTTTEEEETTT--EEE--GGG
T ss_pred CccccCCCCCEECCcceEcCCCCEEECcCCCCcCCCCCCC
Confidence 48999999999999999995 699999999999999875
No 14
>PRK13685 hypothetical protein; Provisional
Probab=98.91 E-value=5.3e-08 Score=97.15 Aligned_cols=162 Identities=22% Similarity=0.278 Sum_probs=113.9
Q ss_pred cEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccc
Q 012724 122 PVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (457)
Q Consensus 122 p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~d 194 (457)
..++|+||+|.++ ..++.+|++++..++.++++.+||+|+|++..++ ..
T Consensus 89 ~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~-------------~~----------- 144 (326)
T PRK13685 89 AVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATV-------------LV----------- 144 (326)
T ss_pred ceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceee-------------cC-----------
Confidence 3589999999985 3689999999999999988889999999986432 11
Q ss_pred ccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccc----cC-CCccc
Q 012724 195 LEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE----YG-NTFAL 269 (457)
Q Consensus 195 l~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~----~~-~~~~~ 269 (457)
| +...++.+.+.|+.+... ..++.|.|+..|++.+... ++ .....
T Consensus 145 -----p-------~t~d~~~l~~~l~~l~~~------------------~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~ 194 (326)
T PRK13685 145 -----S-------PTTNREATKNAIDKLQLA------------------DRTATGEAIFTALQAIATVGAVIGGGDTPPP 194 (326)
T ss_pred -----C-------CCCCHHHHHHHHHhCCCC------------------CCcchHHHHHHHHHHHHhhhcccccccCCCC
Confidence 1 112456677778877542 2356889999998877531 10 01113
Q ss_pred cEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCc-----------
Q 012724 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY----------- 338 (457)
Q Consensus 270 gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~----------- 338 (457)
++|+++++|..+.|....... .. .+.++.+.+.||.|..+.++.+.
T Consensus 195 ~~IILlTDG~~~~~~~~~~~~---------------------~~--~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~ 251 (326)
T PRK13685 195 ARIVLMSDGKETVPTNPDNPR---------------------GA--YTAARTAKDQGVPISTISFGTPYGSVEINGQRQP 251 (326)
T ss_pred CEEEEEcCCCCCCCCCCCCcc---------------------cH--HHHHHHHHHcCCeEEEEEECCCCCCcCcCCceee
Confidence 689999999887653211000 00 14567778899999999887642
Q ss_pred --cCccccccccccCccEEEEeCC
Q 012724 339 --TDLASLKFLSIESGGSLFLYSS 360 (457)
Q Consensus 339 --~~l~~l~~l~~~TGG~v~~~~~ 360 (457)
.|-..|..+++.|||+.++..+
T Consensus 252 ~~~d~~~L~~iA~~tgG~~~~~~~ 275 (326)
T PRK13685 252 VPVDDESLKKIAQLSGGEFYTAAS 275 (326)
T ss_pred ecCCHHHHHHHHHhcCCEEEEcCC
Confidence 5778899999999998766654
No 15
>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=98.88 E-value=5.2e-08 Score=90.70 Aligned_cols=164 Identities=23% Similarity=0.345 Sum_probs=108.5
Q ss_pred CCcEEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccc
Q 012724 120 ARPVYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (457)
Q Consensus 120 ~~p~~vFvID~s~~~~--------~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v 191 (457)
.+..++||||+|.++. .++.+++++...++.++++.+|||++|++.++- ... ..+.++
T Consensus 19 ~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~-----~~~--~~~~~p------- 84 (206)
T cd01456 19 LPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDN-----PLD--VRVLVP------- 84 (206)
T ss_pred CCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCC-----Ccc--cccccc-------
Confidence 4667999999999864 688899999999999998999999999995421 000 000000
Q ss_pred cccccccccccccccchHhHHHHHHHHHHhcC-CCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccc
Q 012724 192 SLELEDVMPLSQFLAPVETFKENITSALETLR-PTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (457)
Q Consensus 192 ~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~g 270 (457)
...+.. ++..+ ....+..+.+.|+.+. .. ..+.++.||+.|..++. .+. ..
T Consensus 85 ~~~~~~--~~~~~---~~~~~~~l~~~i~~i~~~~------------------G~T~l~~aL~~a~~~l~-~~~----~~ 136 (206)
T cd01456 85 KGCLTA--PVNGF---PSAQRSALDAALNSLQTPT------------------GWTPLAAALAEAAAYVD-PGR----VN 136 (206)
T ss_pred cccccc--ccCCC---CcccHHHHHHHHHhhcCCC------------------CcChHHHHHHHHHHHhC-CCC----cc
Confidence 000000 00111 0024566777777775 21 35679999999999986 221 15
Q ss_pred EEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHH-----cceEEEEeeecCCccCccccc
Q 012724 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQ-----AGVCVDIFAITNEYTDLASLK 345 (457)
Q Consensus 271 kIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~-----~~isvdlf~~~~~~~~l~~l~ 345 (457)
.|+++++|.++.|.... +.+.++.+ .+|.|+++.++.+ .|...|.
T Consensus 137 ~iillTDG~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~ 186 (206)
T cd01456 137 VVVLITDGEDTCGPDPC-----------------------------EVARELAKRRTPAPPIKVNVIDFGGD-ADRAELE 186 (206)
T ss_pred eEEEEcCCCccCCCCHH-----------------------------HHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHH
Confidence 89999999887653100 11222222 5899999988765 6778899
Q ss_pred cccccCccEE
Q 012724 346 FLSIESGGSL 355 (457)
Q Consensus 346 ~l~~~TGG~v 355 (457)
.+++.|||..
T Consensus 187 ~iA~~tgG~~ 196 (206)
T cd01456 187 AIAEATGGTY 196 (206)
T ss_pred HHHHhcCCeE
Confidence 9999999987
No 16
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.86 E-value=1.1e-07 Score=84.53 Aligned_cols=150 Identities=22% Similarity=0.304 Sum_probs=103.7
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccccccc
Q 012724 124 YVAAVDLSSSEE--FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (457)
Q Consensus 124 ~vFvID~s~~~~--~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~~p~ 201 (457)
.+|+||.|.++. .++.+++++...++.|+++.++|||+|++..+... ++. +
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~~-----------------------~~~---~- 55 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRLS-----------------------PLR---R- 55 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCccccC-----------------------CCc---c-
Confidence 579999999863 57888999999999999989999999998654310 000 0
Q ss_pred cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCC
Q 012724 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (457)
Q Consensus 202 ~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt 281 (457)
+ -...++.+.++++.+... ..++++.||..|.+.+...... .....|+++++|.++
T Consensus 56 --~---~~~~~~~~~~~i~~~~~~------------------g~T~~~~al~~a~~~~~~~~~~-~~~~~iillTDG~~~ 111 (155)
T cd01466 56 --M---TAKGKRSAKRVVDGLQAG------------------GGTNVVGGLKKALKVLGDRRQK-NPVASIMLLSDGQDN 111 (155)
T ss_pred --c---CHHHHHHHHHHHHhccCC------------------CCccHHHHHHHHHHHHhhcccC-CCceEEEEEcCCCCC
Confidence 0 012345566677665431 3578999999999998643211 113689999999987
Q ss_pred CCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEe
Q 012724 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (457)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~ 358 (457)
.|+.. .++.+.++.|..+.++. ..|..+|..|+..|||+.++.
T Consensus 112 ~~~~~---------------------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 112 HGAVV---------------------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred cchhh---------------------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceEEEe
Confidence 65110 01123577888877754 467788999999999998764
No 17
>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=98.86 E-value=2.7e-07 Score=82.70 Aligned_cols=158 Identities=16% Similarity=0.212 Sum_probs=109.6
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPL 201 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~~p~ 201 (457)
++|++|+|.+. ..++.+++++..+++.++++.+|++|+|++..+.. + +.. +
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~-------------~----------~~~---~- 55 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETV-------------L----------PAT---P- 55 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEE-------------e----------cCc---c-
Confidence 68999999986 34788888999999999988999999999864321 0 000 0
Q ss_pred cccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCC
Q 012724 202 SQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (457)
Q Consensus 202 ~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt 281 (457)
. ..++.+.+.++.+... ..+.++.||..|...+....... ...+|++|++|.++
T Consensus 56 ------~-~~~~~l~~~l~~~~~~------------------g~T~~~~al~~a~~~~~~~~~~~-~~~~ivl~TDG~~~ 109 (170)
T cd01465 56 ------V-RDKAAILAAIDRLTAG------------------GSTAGGAGIQLGYQEAQKHFVPG-GVNRILLATDGDFN 109 (170)
T ss_pred ------c-chHHHHHHHHHcCCCC------------------CCCCHHHHHHHHHHHHHhhcCCC-CeeEEEEEeCCCCC
Confidence 0 1223445555555321 23568999999988886432110 11579999999998
Q ss_pred CCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCC
Q 012724 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (457)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~ 360 (457)
.|+.. .+-+.+....+.+.++.|+.|.++ ...+...|..+++.++|..++.++
T Consensus 110 ~~~~~-------------------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~~~~~ 162 (170)
T cd01465 110 VGETD-------------------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTAYIDN 162 (170)
T ss_pred CCCCC-------------------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEEEeCC
Confidence 76431 012234555667789999999987 667888999999999999776553
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=98.85 E-value=5.3e-08 Score=88.91 Aligned_cols=158 Identities=14% Similarity=0.159 Sum_probs=103.2
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHHhC---CCCcEEEEEEe-cceeEEEEccCCCcceeeeeeCCCCCccc
Q 012724 123 VYVAAVDLSSSE-------EFLELTRSALQAALEAV---PSGALFGLATF-SHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (457)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~~l---~~~~~vglItf-~~~V~~y~l~~~~~~~~~v~~~~~~~~~v 191 (457)
-.+++||+|.++ ..++.+|..+...++.+ .+..+||||+| +..-++ ..
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~-------------~~-------- 63 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEK-------------LT-------- 63 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEE-------------EE--------
Confidence 468999999985 58999999998888754 35679999999 443221 11
Q ss_pred cccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 192 ~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
|+ ....+.+...|+.+.. . ..++.++.||+.|...|+..... ..++
T Consensus 64 --------Pl-------T~D~~~~~~~L~~~~~------~-----------~G~t~l~~aL~~A~~~l~~~~~~--~~~~ 109 (183)
T cd01453 64 --------DL-------TGNPRKHIQALKTARE------C-----------SGEPSLQNGLEMALESLKHMPSH--GSRE 109 (183)
T ss_pred --------CC-------CCCHHHHHHHhhcccC------C-----------CCchhHHHHHHHHHHHHhcCCcc--CceE
Confidence 11 1111233444444311 0 13478999999999999753211 1257
Q ss_pred EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 272 Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|++++++.-+.+|+ -+.++++.+.+.+|.|++..++. ++..|..+|+.|
T Consensus 110 iiil~sd~~~~~~~----------------------------~~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~ia~~t 158 (183)
T cd01453 110 VLIIFSSLSTCDPG----------------------------NIYETIDKLKKENIRVSVIGLSA---EMHICKEICKAT 158 (183)
T ss_pred EEEEEcCCCcCChh----------------------------hHHHHHHHHHHcCcEEEEEEech---HHHHHHHHHHHh
Confidence 88887763222221 12457888999999999998864 356899999999
Q ss_pred ccEEEEeCCCCCCcHHH
Q 012724 352 GGSLFLYSSTDDSTLPQ 368 (457)
Q Consensus 352 GG~v~~~~~~~~~~l~~ 368 (457)
||+.|...+ ...|.+
T Consensus 159 gG~~~~~~~--~~~l~~ 173 (183)
T cd01453 159 NGTYKVILD--ETHLKE 173 (183)
T ss_pred CCeeEeeCC--HHHHHH
Confidence 999766543 334543
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=98.85 E-value=1.1e-07 Score=86.33 Aligned_cols=167 Identities=14% Similarity=0.136 Sum_probs=110.7
Q ss_pred EEEEEEECCCChh---HHHHHHHHHHHHHH-hCCCCcEEEEEEecce-eEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 123 VYVAAVDLSSSEE---FLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 123 ~~vFvID~s~~~~---~l~~~~~~l~~~l~-~l~~~~~vglItf~~~-V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
.++|+||+|.++. .++.+++++...+. .++++.+||||+|++. .++ .+
T Consensus 2 ~v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~-------------~~-------------- 54 (178)
T cd01451 2 LVIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEV-------------LL-------------- 54 (178)
T ss_pred eEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceE-------------Ee--------------
Confidence 3689999999863 67888888888775 4567889999999864 221 11
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEec
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~ 277 (457)
|.. ..+..+...|+.++.. ..+.++.||..|...++...........|+++++
T Consensus 55 --~~t-------~~~~~~~~~l~~l~~~------------------G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTD 107 (178)
T cd01451 55 --PPT-------RSVELAKRRLARLPTG------------------GGTPLAAGLLAAYELAAEQARDPGQRPLIVVITD 107 (178)
T ss_pred --CCC-------CCHHHHHHHHHhCCCC------------------CCCcHHHHHHHHHHHHHHHhcCCCCceEEEEECC
Confidence 000 0122234455555321 3467999999999988221110000148999999
Q ss_pred CCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEE
Q 012724 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (457)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (457)
|.++.|..... .--.++++++.+.+|.+..+.+.....+-..|..|++.|||+.++
T Consensus 108 G~~~~g~~~~~------------------------~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~ 163 (178)
T cd01451 108 GRANVGPDPTA------------------------DRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVR 163 (178)
T ss_pred CCCCCCCCchh------------------------HHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEE
Confidence 99987642100 001467788888998887776655566777899999999999988
Q ss_pred eCCCCCCcHH
Q 012724 358 YSSTDDSTLP 367 (457)
Q Consensus 358 ~~~~~~~~l~ 367 (457)
.++.+...|.
T Consensus 164 ~~d~~~~~~~ 173 (178)
T cd01451 164 LPDLSADAIA 173 (178)
T ss_pred cCcCCHHHHH
Confidence 8877655443
No 20
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=98.80 E-value=3.3e-07 Score=84.17 Aligned_cols=167 Identities=19% Similarity=0.243 Sum_probs=105.8
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
|--++|+||+|.++ ..++.+++++...++.++++.+||||+|++.++..---..
T Consensus 13 p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~------------------------ 68 (190)
T cd01463 13 PKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFN------------------------ 68 (190)
T ss_pred CceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecc------------------------
Confidence 44689999999985 5678889999999999999999999999998764310000
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccc---c---CCCccccEE
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE---Y---GNTFALARV 272 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~---~---~~~~~~gkI 272 (457)
..++....+.+..+.+.|+.|+.. ..+.++.||..|...+... + ........|
T Consensus 69 ---~~~~~~~~~~~~~~~~~l~~l~~~------------------G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~i 127 (190)
T cd01463 69 ---DTLVQATTSNKKVLKEALDMLEAK------------------GIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAI 127 (190)
T ss_pred ---cceEecCHHHHHHHHHHHhhCCCC------------------CcchHHHHHHHHHHHHHHhhhcccccccCCceeEE
Confidence 000101112344555556655432 2467999999999888751 1 000112479
Q ss_pred EEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHH-HHHHcceEEEEeeecCCccCccccccccccC
Q 012724 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA-VAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~-~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
+++++|.++.+.. ....+.. .....++.|..|.++.+..|...|..|+..+
T Consensus 128 illTDG~~~~~~~----------------------------~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~ 179 (190)
T cd01463 128 MLITDGVPENYKE----------------------------IFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACEN 179 (190)
T ss_pred EEEeCCCCCcHhH----------------------------HHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhc
Confidence 9999998763110 0011100 0011245566666666656888999999999
Q ss_pred ccEEEEeCC
Q 012724 352 GGSLFLYSS 360 (457)
Q Consensus 352 GG~v~~~~~ 360 (457)
||..++.++
T Consensus 180 ~G~~~~i~~ 188 (190)
T cd01463 180 KGYYSHIQS 188 (190)
T ss_pred CCeEEEccc
Confidence 999887764
No 21
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.68 E-value=1.1e-06 Score=79.82 Aligned_cols=155 Identities=19% Similarity=0.207 Sum_probs=102.7
Q ss_pred EEEEEEECCCChh--------HHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccc
Q 012724 123 VYVAAVDLSSSEE--------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (457)
Q Consensus 123 ~~vFvID~s~~~~--------~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~d 194 (457)
-++|+||+|.+.. .++.++..+...++.. ++.+||+|+|++.++.. +
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~-~~~~v~lv~f~~~~~~~-------------~----------- 58 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRR-ENDRIGLVVFAGAAFTQ-------------A----------- 58 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhC-CCCeEEEEEEcCCeeec-------------c-----------
Confidence 4789999999752 3566777777666655 46799999998865321 0
Q ss_pred ccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEE
Q 012724 195 LEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFA 274 (457)
Q Consensus 195 l~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~ 274 (457)
| +...+..+.++++.|.... . ...+.++.||..|...+....+. ...|++
T Consensus 59 -----~-------~~~~~~~~~~~l~~l~~~~--~-------------~g~T~l~~al~~a~~~l~~~~~~---~~~iil 108 (180)
T cd01467 59 -----P-------LTLDRESLKELLEDIKIGL--A-------------GQGTAIGDAIGLAIKRLKNSEAK---ERVIVL 108 (180)
T ss_pred -----C-------CCccHHHHHHHHHHhhhcc--c-------------CCCCcHHHHHHHHHHHHHhcCCC---CCEEEE
Confidence 1 0012333455566654221 0 13467899999999888654321 257999
Q ss_pred EecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCC----------ccCcccc
Q 012724 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE----------YTDLASL 344 (457)
Q Consensus 275 f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~----------~~~l~~l 344 (457)
+++|.++.|+-. ..+.+..+.+.+|.|+.+.++.. ..|...|
T Consensus 109 iTDG~~~~g~~~----------------------------~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l 160 (180)
T cd01467 109 LTDGENNAGEID----------------------------PATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSL 160 (180)
T ss_pred EeCCCCCCCCCC----------------------------HHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHH
Confidence 999987754210 01234555678999999888762 4677789
Q ss_pred ccccccCccEEEEeCC
Q 012724 345 KFLSIESGGSLFLYSS 360 (457)
Q Consensus 345 ~~l~~~TGG~v~~~~~ 360 (457)
..|++.|||..++..+
T Consensus 161 ~~la~~tgG~~~~~~~ 176 (180)
T cd01467 161 VEIADKTGGRIFRALD 176 (180)
T ss_pred HHHHHhcCCEEEEecC
Confidence 9999999999887653
No 22
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.60 E-value=2.2e-06 Score=76.59 Aligned_cols=153 Identities=20% Similarity=0.193 Sum_probs=96.3
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
.+|+||+|.+. ..++.++++++..++.+. ++.++|||+|++..+..- ++.
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~-----------------------~~~-- 57 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF-----------------------YLN-- 57 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE-----------------------ecC--
Confidence 58999999985 467788888888888774 467999999998754310 011
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccc--cCCCccccEEEEEe
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAFL 276 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~--~~~~~~~gkIi~f~ 276 (457)
. . ..+..+.+.|+.++... ..+.+|.||..|...+... +........|++++
T Consensus 58 ----~----~-~~~~~~~~~l~~l~~~~-----------------g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliT 111 (164)
T cd01472 58 ----T----Y-RSKDDVLEAVKNLRYIG-----------------GGTNTGKALKYVRENLFTEASGSREGVPKVLVVIT 111 (164)
T ss_pred ----C----C-CCHHHHHHHHHhCcCCC-----------------CCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEc
Confidence 0 0 12334555666665321 2467999999999988752 11111124678888
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCcc-EE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG-SL 355 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG-~v 355 (457)
+|.++.+. ...+..+.+.||.+..+. ....|...|..++..++| .+
T Consensus 112 DG~~~~~~-------------------------------~~~~~~l~~~gv~i~~ig--~g~~~~~~L~~ia~~~~~~~~ 158 (164)
T cd01472 112 DGKSQDDV-------------------------------EEPAVELKQAGIEVFAVG--VKNADEEELKQIASDPKELYV 158 (164)
T ss_pred CCCCCchH-------------------------------HHHHHHHHHCCCEEEEEE--CCcCCHHHHHHHHCCCchheE
Confidence 88543210 122334556776555444 444489999999999987 55
Q ss_pred EEeCC
Q 012724 356 FLYSS 360 (457)
Q Consensus 356 ~~~~~ 360 (457)
+.+.+
T Consensus 159 ~~~~~ 163 (164)
T cd01472 159 FNVAD 163 (164)
T ss_pred EeccC
Confidence 55443
No 23
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.56 E-value=3.2e-06 Score=92.71 Aligned_cols=155 Identities=19% Similarity=0.276 Sum_probs=104.5
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHH-HhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccc
Q 012724 121 RPVYVAAVDLSSSE---EFLELTRSALQAAL-EAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l-~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
.+.+++|||+|.++ ..++.++++++..+ +.++++.+||||+|++..++.. +|
T Consensus 304 ~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~-----------------------pL- 359 (863)
T TIGR00868 304 QRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKN-----------------------EL- 359 (863)
T ss_pred CceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEee-----------------------cc-
Confidence 45689999999996 35777888887765 4578889999999999765321 00
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEe
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~ 276 (457)
.++. +. ..++.+.+.+. .. . ..+++++.||..|+++|..... ...+..|++++
T Consensus 360 --t~It----s~-~dr~aL~~~L~---~~-----A-----------~GGT~I~~GL~~Alq~L~~~~~-~~~~~~IILLT 412 (863)
T TIGR00868 360 --IQIT----SS-AERDALTANLP---TA-----A-----------SGGTSICSGLKAAFQVIKKSYQ-STDGSEIVLLT 412 (863)
T ss_pred --ccCC----cH-HHHHHHHHhhc---cc-----c-----------CCCCcHHHHHHHHHHHHHhccc-ccCCCEEEEEe
Confidence 0100 01 12333333332 11 0 1468999999999999986431 11246899999
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (457)
+|.++.+ .++...+.+++|.|..+.++.+. + ..|..||+.|||..|
T Consensus 413 DGedn~~--------------------------------~~~l~~lk~~gVtI~TIg~G~da-d-~~L~~IA~~TGG~~f 458 (863)
T TIGR00868 413 DGEDNTI--------------------------------SSCFEEVKQSGAIIHTIALGPSA-A-KELEELSDMTGGLRF 458 (863)
T ss_pred CCCCCCH--------------------------------HHHHHHHHHcCCEEEEEEeCCCh-H-HHHHHHHHhcCCEEE
Confidence 9875421 12445566789999999887654 2 459999999999988
Q ss_pred EeCC
Q 012724 357 LYSS 360 (457)
Q Consensus 357 ~~~~ 360 (457)
+.++
T Consensus 459 ~asd 462 (863)
T TIGR00868 459 YASD 462 (863)
T ss_pred EeCC
Confidence 8864
No 24
>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=98.54 E-value=2.9e-06 Score=77.23 Aligned_cols=147 Identities=18% Similarity=0.194 Sum_probs=98.6
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHH----HhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccc
Q 012724 123 VYVAAVDLSSSE-------EFLELTRSALQAAL----EAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (457)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l----~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v 191 (457)
+.+++||+|.++ .++++.++++...+ +..| ..+||||+|....- ++.+
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np-~~~vGlv~fag~~a------------~v~~-------- 63 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNP-ENNVGLMTMAGNSP------------EVLV-------- 63 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCC-CccEEEEEecCCce------------EEEE--------
Confidence 568999999974 57888888887664 5555 45999999987211 1111
Q ss_pred cccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 192 ~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
|+......+...|+.+... ....+|.||+.|...|+...... ...|
T Consensus 64 ---------------plT~D~~~~~~~L~~i~~~------------------g~~~l~~AL~~A~~~L~~~~~~~-~~~r 109 (187)
T cd01452 64 ---------------TLTNDQGKILSKLHDVQPK------------------GKANFITGIQIAQLALKHRQNKN-QKQR 109 (187)
T ss_pred ---------------CCCCCHHHHHHHHHhCCCC------------------CcchHHHHHHHHHHHHhcCCCcC-Ccce
Confidence 1122345556666655421 23569999999999997542210 1259
Q ss_pred EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 272 Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|++|.+++-+.=+| + ..++++++.+++|.||+..++...-+..-|..+.+..
T Consensus 110 ivi~v~S~~~~d~~---------------------------~-i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~ 161 (187)
T cd01452 110 IVAFVGSPIEEDEK---------------------------D-LVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAV 161 (187)
T ss_pred EEEEEecCCcCCHH---------------------------H-HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHh
Confidence 99999886432111 1 2368999999999999999987766666677777665
Q ss_pred c
Q 012724 352 G 352 (457)
Q Consensus 352 G 352 (457)
+
T Consensus 162 ~ 162 (187)
T cd01452 162 N 162 (187)
T ss_pred c
Confidence 3
No 25
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.53 E-value=2.9e-06 Score=75.11 Aligned_cols=150 Identities=24% Similarity=0.325 Sum_probs=98.0
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccccccc
Q 012724 124 YVAAVDLSSSE-EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMPLS 202 (457)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~~p~~ 202 (457)
.+|+||+|.++ +..+.++++++.+++.|+++.++.||+|++.+..+.- .
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~~--~---------------------------- 52 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLFP--G---------------------------- 52 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcch--h----------------------------
Confidence 68999999985 3338899999999999999999999999997654321 0
Q ss_pred ccccchH-hHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecCCCC
Q 012724 203 QFLAPVE-TFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPD 281 (457)
Q Consensus 203 ~~l~~~~-~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt 281 (457)
+++.. +.++...+.++.++.. ...+.+..||+.|+..+...+. .-.|+++++|.|+
T Consensus 53 --~~~~~~~~~~~a~~~I~~~~~~-----------------~G~t~l~~aL~~a~~~~~~~~~----~~~IilltDG~~~ 109 (155)
T PF13768_consen 53 --LVPATEENRQEALQWIKSLEAN-----------------SGGTDLLAALRAALALLQRPGC----VRAIILLTDGQPV 109 (155)
T ss_pred --HHHHhHHHHHHHHHHHHHhccc-----------------CCCccHHHHHHHHHHhcccCCC----ccEEEEEEeccCC
Confidence 00111 1233344445444431 1357799999999988633222 2589999999874
Q ss_pred CCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE
Q 012724 282 HGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (457)
Q Consensus 282 ~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (457)
.++ .... +....+. ..+.+..|.++. ..+-..|..|++.|||...
T Consensus 110 ~~~---------------------------~~i~-~~v~~~~-~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 110 SGE---------------------------EEIL-DLVRRAR-GHIRIFTFGIGS-DADADFLRELARATGGSFH 154 (155)
T ss_pred CCH---------------------------HHHH-HHHHhcC-CCceEEEEEECC-hhHHHHHHHHHHcCCCEEE
Confidence 322 0111 1122211 456777777655 3556889999999999864
No 26
>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=98.52 E-value=2.8e-06 Score=77.80 Aligned_cols=159 Identities=12% Similarity=0.080 Sum_probs=101.5
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccc
Q 012724 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTL 191 (457)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v 191 (457)
-.+|+||.|.+. ..++.+++.++..++.+ +++.|||+|+|++..++. .
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~-------------~-------- 62 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVE-------------A-------- 62 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceee-------------E--------
Confidence 378999999985 35676777777777766 346899999999865421 0
Q ss_pred cccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccE
Q 012724 192 SLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALAR 271 (457)
Q Consensus 192 ~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gk 271 (457)
.+. .. ...+..+.+.|+.++... ..+.+|.||..|...+.. +........
T Consensus 63 --~l~------~~----~~~~~~l~~~i~~l~~~g-----------------g~T~~~~AL~~a~~~l~~-~~~~~~~~~ 112 (186)
T cd01480 63 --GFL------RD----IRNYTSLKEAVDNLEYIG-----------------GGTFTDCALKYATEQLLE-GSHQKENKF 112 (186)
T ss_pred --ecc------cc----cCCHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHHhc-cCCCCCceE
Confidence 000 00 013455667777765321 346899999999988864 111111257
Q ss_pred EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 272 VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 272 Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|+++++|.++.++. .-..+.+.++.+.||.+-.+..+. .+...|..++...
T Consensus 113 iillTDG~~~~~~~---------------------------~~~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~IA~~~ 163 (186)
T cd01480 113 LLVITDGHSDGSPD---------------------------GGIEKAVNEADHLGIKIFFVAVGS--QNEEPLSRIACDG 163 (186)
T ss_pred EEEEeCCCcCCCcc---------------------------hhHHHHHHHHHHCCCEEEEEecCc--cchHHHHHHHcCC
Confidence 88888887642210 011345667778888766665544 7788899999888
Q ss_pred ccEEEEeCCCC
Q 012724 352 GGSLFLYSSTD 362 (457)
Q Consensus 352 GG~v~~~~~~~ 362 (457)
+|. ++.++|.
T Consensus 164 ~~~-~~~~~~~ 173 (186)
T cd01480 164 KSA-LYRENFA 173 (186)
T ss_pred cch-hhhcchh
Confidence 776 4555553
No 27
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=98.52 E-value=1.1e-05 Score=79.49 Aligned_cols=172 Identities=16% Similarity=0.149 Sum_probs=102.1
Q ss_pred CCcEEEEEEECCCCh-hHHHHHHHHHHHHHHh-CCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 120 ARPVYVAAVDLSSSE-EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 120 ~~p~~vFvID~s~~~-~~l~~~~~~l~~~l~~-l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
.|...+|+||+|.++ +.+..+++++...++. ++++.+||||+|++.+++.. ++
T Consensus 52 ~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~~~-----------------------~~-- 106 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRLLQ-----------------------DF-- 106 (296)
T ss_pred CCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeEee-----------------------cC--
Confidence 367899999999985 5567778888888876 78899999999998765321 00
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHH-HHhhccccCCCccccEEEEEe
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESL-FNYLGSEYGNTFALARVFAFL 276 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a-~~lL~~~~~~~~~~gkIi~f~ 276 (457)
...++.+.+.|+.+.......-..+. ... .....+++..||..| ..++....+....--.||+++
T Consensus 107 -----------t~~~~~l~~~l~~l~~~~~~~~~~~~-~~~--~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllT 172 (296)
T TIGR03436 107 -----------TSDPRLLEAALNRLKPPLRTDYNSSG-AFV--RDGGGTALYDAITLAALEQLANALAGIPGRKALIVIS 172 (296)
T ss_pred -----------CCCHHHHHHHHHhccCCCcccccccc-ccc--cCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEe
Confidence 01234455666666431100000000 000 001456788886443 455543321000013477777
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCc------------cCcccc
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY------------TDLASL 344 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~------------~~l~~l 344 (457)
+|..+. ...-++++.+.+.+.+|.|..+.++... .+-..|
T Consensus 173 DG~~~~----------------------------~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L 224 (296)
T TIGR03436 173 DGGDNR----------------------------SRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEAL 224 (296)
T ss_pred cCCCcc----------------------------hHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHH
Confidence 774321 1223467788888899988887665210 244679
Q ss_pred ccccccCccEEEEe
Q 012724 345 KFLSIESGGSLFLY 358 (457)
Q Consensus 345 ~~l~~~TGG~v~~~ 358 (457)
..||+.|||+.++.
T Consensus 225 ~~iA~~TGG~~~~~ 238 (296)
T TIGR03436 225 ERLAEETGGRAFYV 238 (296)
T ss_pred HHHHHHhCCeEecc
Confidence 99999999997554
No 28
>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=98.48 E-value=6e-06 Score=76.29 Aligned_cols=169 Identities=15% Similarity=0.224 Sum_probs=99.6
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEEecceeEEE-EccCCCcceeeeeeCCCCCccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y-~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
++|+||+|.+. ..++.+++++...++.|+ .+.++|||+|++..+.. .+..
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~------------------------ 58 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRD------------------------ 58 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEeccc------------------------
Confidence 68999999986 567888999999998875 36799999999975431 1110
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhcccc---CCCc--cccEE
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY---GNTF--ALARV 272 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~---~~~~--~~gkI 272 (457)
+ ....+..+...|+.+...... . ..++.++.||..+...+.... +... ..-.|
T Consensus 59 ------~---~~~~~~~~~~~l~~~~~~~~~---~----------~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~i 116 (198)
T cd01470 59 ------F---NSNDADDVIKRLEDFNYDDHG---D----------KTGTNTAAALKKVYERMALEKVRNKEAFNETRHVI 116 (198)
T ss_pred ------C---CCCCHHHHHHHHHhCCccccc---C----------ccchhHHHHHHHHHHHHHHHHhcCccchhhcceEE
Confidence 0 001223344556655432100 0 134678999998887663211 0000 01258
Q ss_pred EEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHH------HHHHcceEEEEeeecCCccCcccccc
Q 012724 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA------VAVQAGVCVDIFAITNEYTDLASLKF 346 (457)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~------~~~~~~isvdlf~~~~~~~~l~~l~~ 346 (457)
+++++|.++.|..... ..+.++++.. .+...+|.|..|.++. .+|-.+|..
T Consensus 117 illTDG~~~~g~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~~~~L~~ 173 (198)
T cd01470 117 ILFTDGKSNMGGSPLP----------------------TVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVNKEELND 173 (198)
T ss_pred EEEcCCCcCCCCChhH----------------------HHHHHHHHHhcccccccchhcceeEEEEecCc-ccCHHHHHH
Confidence 9999999987632100 0111122211 1133455555555543 468899999
Q ss_pred ccccCcc--EEEEeCCC
Q 012724 347 LSIESGG--SLFLYSST 361 (457)
Q Consensus 347 l~~~TGG--~v~~~~~~ 361 (457)
|+..||| ++|...+|
T Consensus 174 iA~~~~g~~~~f~~~~~ 190 (198)
T cd01470 174 LASKKDNERHFFKLKDY 190 (198)
T ss_pred HhcCCCCCceEEEeCCH
Confidence 9999999 45555544
No 29
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=98.45 E-value=1.7e-05 Score=70.92 Aligned_cols=159 Identities=21% Similarity=0.258 Sum_probs=101.7
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
|.-++|++|+|.+. ..++.+++++...+..+++..+|+|++|++.++.+- .. .+
T Consensus 2 ~~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~--~~-----~~----------------- 57 (171)
T cd01461 2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEFS--PS-----SV----------------- 57 (171)
T ss_pred CceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceeec--Cc-----ce-----------------
Confidence 34589999999986 447788889988899999888999999998754321 00 00
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecC
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g 278 (457)
+.. .+....+.+.++.+... ..+.+..||..|...+....+ ....|++|++|
T Consensus 58 -~~~------~~~~~~~~~~l~~~~~~------------------g~T~l~~al~~a~~~l~~~~~---~~~~iillTDG 109 (171)
T cd01461 58 -SAT------AENVAAAIEYVNRLQAL------------------GGTNMNDALEAALELLNSSPG---SVPQIILLTDG 109 (171)
T ss_pred -eCC------HHHHHHHHHHHHhcCCC------------------CCcCHHHHHHHHHHhhccCCC---CccEEEEEeCC
Confidence 000 01122233444444321 346799999999988864211 12578888888
Q ss_pred CCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEe
Q 012724 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (457)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~ 358 (457)
.++.+ ... .+.++++.+.++.|..+.++. ..+...|..+++.|||..++.
T Consensus 110 ~~~~~----------------------------~~~-~~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~~~~~ 159 (171)
T cd01461 110 EVTNE----------------------------SQI-LKNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGIARRI 159 (171)
T ss_pred CCCCH----------------------------HHH-HHHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCeEEEe
Confidence 63210 112 234445555577777776653 356677999999999998877
Q ss_pred CCC
Q 012724 359 SST 361 (457)
Q Consensus 359 ~~~ 361 (457)
.+-
T Consensus 160 ~~~ 162 (171)
T cd01461 160 YET 162 (171)
T ss_pred cCh
Confidence 643
No 30
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.40 E-value=2.8e-06 Score=75.70 Aligned_cols=150 Identities=23% Similarity=0.286 Sum_probs=98.4
Q ss_pred EEEEEECCCChh-------HHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccc
Q 012724 124 YVAAVDLSSSEE-------FLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 124 ~vFvID~s~~~~-------~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
++||||+|.++. .++.++.++...++.+| +.+|||++|++..+. .. ++
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~l~~f~~~~~~-------------~~----------~~- 56 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLP-GDRVGLVSFSDSSRT-------------LS----------PL- 56 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHT-TSEEEEEEESTSCEE-------------EE----------EE-
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCC-CCEEEEEEecccccc-------------cc----------cc-
Confidence 689999999862 47888999999998887 449999999985321 00 11
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEe
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~ 276 (457)
...++.+.+.++.+..... . .....++.|+..|.+++..... ....|++|+
T Consensus 57 ------------t~~~~~~~~~l~~~~~~~~---~-----------~~~t~~~~al~~a~~~~~~~~~---~~~~iv~iT 107 (172)
T PF13519_consen 57 ------------TSDKDELKNALNKLSPQGM---P-----------GGGTNLYDALQEAAKMLASSDN---RRRAIVLIT 107 (172)
T ss_dssp ------------ESSHHHHHHHHHTHHHHG----------------SSS--HHHHHHHHHHHHHC-SS---EEEEEEEEE
T ss_pred ------------cccHHHHHHHhhccccccc---C-----------ccCCcHHHHHHHHHHHHHhCCC---CceEEEEec
Confidence 1133444555555542100 0 1356799999999999986541 125778888
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (457)
+|.++ .+ ..+.++.+.+.+|.+.++.++.+...-..|..+++.|||..+
T Consensus 108 DG~~~--------~~-----------------------~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~ 156 (172)
T PF13519_consen 108 DGEDN--------SS-----------------------DIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYF 156 (172)
T ss_dssp S-TTH--------CH-----------------------HHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEE
T ss_pred CCCCC--------cc-----------------------hhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEE
Confidence 87543 00 013677788999999999888776655679999999999977
Q ss_pred Ee
Q 012724 357 LY 358 (457)
Q Consensus 357 ~~ 358 (457)
..
T Consensus 157 ~~ 158 (172)
T PF13519_consen 157 HV 158 (172)
T ss_dssp EE
T ss_pred Ee
Confidence 76
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=98.34 E-value=2.5e-05 Score=71.34 Aligned_cols=158 Identities=16% Similarity=0.116 Sum_probs=90.6
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHHHhC-CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccccc
Q 012724 123 VYVAAVDLSSSEE-FLELTRSALQAALEAV-PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDVMP 200 (457)
Q Consensus 123 ~~vFvID~s~~~~-~l~~~~~~l~~~l~~l-~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~~p 200 (457)
-.+|+||.|.+.+ ......+.++..++.+ .++.|||||+|++..++. . ++.
T Consensus 6 Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~-------------~----------~l~---- 58 (185)
T cd01474 6 DLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKI-------------L----------PLT---- 58 (185)
T ss_pred eEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEE-------------E----------ecc----
Confidence 4799999999853 2222334555555543 356899999999864321 0 111
Q ss_pred ccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhcc--ccCCCccccEEEEEecC
Q 012724 201 LSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGS--EYGNTFALARVFAFLSG 278 (457)
Q Consensus 201 ~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~--~~~~~~~~gkIi~f~~g 278 (457)
. ..+.+.+.++.|..... ...+.+|.||..|.+.|.. .++.. ..-.|+++++|
T Consensus 59 --~-------~~~~~~~~l~~l~~~~~---------------~g~T~~~~aL~~a~~~l~~~~~~~r~-~~~~villTDG 113 (185)
T cd01474 59 --D-------DSSAIIKGLEVLKKVTP---------------SGQTYIHEGLENANEQIFNRNGGGRE-TVSVIIALTDG 113 (185)
T ss_pred --c-------cHHHHHHHHHHHhccCC---------------CCCCcHHHHHHHHHHHHHhhccCCCC-CCeEEEEEcCC
Confidence 1 11123444544543311 1357899999999987732 22211 01348888889
Q ss_pred CCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE-E
Q 012724 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF-L 357 (457)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~-~ 357 (457)
.++-..+.-. ...++.+.+.|+.|-.+.. ...+..+|..++..++ .+| .
T Consensus 114 ~~~~~~~~~~---------------------------~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~~~~-~~f~~ 163 (185)
T cd01474 114 QLLLNGHKYP---------------------------EHEAKLSRKLGAIVYCVGV--TDFLKSQLINIADSKE-YVFPV 163 (185)
T ss_pred CcCCCCCcch---------------------------HHHHHHHHHcCCEEEEEee--chhhHHHHHHHhCCCC-eeEec
Confidence 8742111000 1235567778876555544 6678888999998775 444 3
Q ss_pred eCCCC
Q 012724 358 YSSTD 362 (457)
Q Consensus 358 ~~~~~ 362 (457)
..+|+
T Consensus 164 ~~~~~ 168 (185)
T cd01474 164 TSGFQ 168 (185)
T ss_pred CccHH
Confidence 34454
No 32
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.33 E-value=2.4e-05 Score=73.86 Aligned_cols=156 Identities=22% Similarity=0.268 Sum_probs=99.4
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 123 VYVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
-.+|+||.|.+. ..++.+++.++..++.+ ++.+|||||+|++.+++.- ++.
T Consensus 4 DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~-----------------------~l~- 59 (224)
T cd01475 4 DLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF-----------------------PLG- 59 (224)
T ss_pred cEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe-----------------------ccc-
Confidence 479999999985 46888899999888876 3578999999999765310 111
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhh-ccccCCCc-c---ccEE
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYL-GSEYGNTF-A---LARV 272 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL-~~~~~~~~-~---~gkI 272 (457)
.+ ..++.+.+.|+.++... ..+.+|.||..|...+ ....+.+. . ...|
T Consensus 60 -----~~-----~~~~~l~~~i~~i~~~~-----------------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvv 112 (224)
T cd01475 60 -----RF-----KSKADLKRAVRRMEYLE-----------------TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVG 112 (224)
T ss_pred -----cc-----CCHHHHHHHHHhCcCCC-----------------CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEE
Confidence 10 12344566677665431 2356899999888653 22111110 0 1246
Q ss_pred EEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCc
Q 012724 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (457)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (457)
+++++|.++-. ..+.+.++.+.||.| |+.+-...+..+|..++..++
T Consensus 113 illTDG~s~~~-------------------------------~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~~ias~~~ 159 (224)
T cd01475 113 IVVTDGRPQDD-------------------------------VSEVAAKARALGIEM--FAVGVGRADEEELREIASEPL 159 (224)
T ss_pred EEEcCCCCccc-------------------------------HHHHHHHHHHCCcEE--EEEeCCcCCHHHHHHHhCCCc
Confidence 78888864210 135677888888655 544445578888999998765
Q ss_pred -cEEEEeCCCC
Q 012724 353 -GSLFLYSSTD 362 (457)
Q Consensus 353 -G~v~~~~~~~ 362 (457)
+.++..++|+
T Consensus 160 ~~~~f~~~~~~ 170 (224)
T cd01475 160 ADHVFYVEDFS 170 (224)
T ss_pred HhcEEEeCCHH
Confidence 4666666665
No 33
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=98.31 E-value=5.4e-05 Score=68.70 Aligned_cols=159 Identities=16% Similarity=0.197 Sum_probs=100.1
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
++|+||.|.+. ..++.+++.++..++.+. +++|||+|+|++..++. . ++.+
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~-------------~----------~l~~- 58 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTE-------------F----------TLNE- 58 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEE-------------E----------ecCc-
Confidence 68999999985 467888888888888764 47899999999975431 0 1111
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhc-cccC-CCccccEEEEEe
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLG-SEYG-NTFALARVFAFL 276 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~-~~~~-~~~~~gkIi~f~ 276 (457)
+ .....+.++++.++... ..+.+|.||..|.+.+- ...| ......-+++++
T Consensus 59 -----~-----~~~~~~~~~i~~~~~~~-----------------g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illT 111 (177)
T cd01469 59 -----Y-----RTKEEPLSLVKHISQLL-----------------GLTNTATAIQYVVTELFSESNGARKDATKVLVVIT 111 (177)
T ss_pred -----c-----CCHHHHHHHHHhCccCC-----------------CCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEe
Confidence 1 01222445565554321 23679999999988762 2211 111123578888
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCc---cCccccccccccCcc
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEY---TDLASLKFLSIESGG 353 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~---~~l~~l~~l~~~TGG 353 (457)
+|.++-|+-. ++.++.+.+.||.|-.+..+... .+..+|..++..+++
T Consensus 112 DG~~~~~~~~-----------------------------~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~ 162 (177)
T cd01469 112 DGESHDDPLL-----------------------------KDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPE 162 (177)
T ss_pred CCCCCCcccc-----------------------------HHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcH
Confidence 8876543210 24566677788877777665542 246788888888764
Q ss_pred -EEEEeCCCC
Q 012724 354 -SLFLYSSTD 362 (457)
Q Consensus 354 -~v~~~~~~~ 362 (457)
++|..++|+
T Consensus 163 ~h~f~~~~~~ 172 (177)
T cd01469 163 EHFFNVTDFA 172 (177)
T ss_pred HhEEEecCHH
Confidence 666666664
No 34
>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=98.27 E-value=3.3e-05 Score=70.48 Aligned_cols=150 Identities=18% Similarity=0.084 Sum_probs=91.5
Q ss_pred EEEEEECCCCh--hH-HHHHHHHHHHHHHhCC---CCcEEEEEEecceeEE-EEccCCCcceeeeeeCCCCCcccccccc
Q 012724 124 YVAAVDLSSSE--EF-LELTRSALQAALEAVP---SGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 124 ~vFvID~s~~~--~~-l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~-y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
++|+||.|.+. .. ++.+++.+...++.++ ++.+||+|+|++..+. +++...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 68999999985 33 7788898888888774 5789999999987553 112110
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCC-CccccEEEEE
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGN-TFALARVFAF 275 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~-~~~~gkIi~f 275 (457)
....+..+.++++.+.... . . ...+.++.||..|.+.+....+. ......|+++
T Consensus 61 -----------~~~~~~~~~~~i~~l~~~~-~--~-----------~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~vill 115 (186)
T cd01471 61 -----------NSTNKDLALNAIRALLSLY-Y--P-----------NGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIM 115 (186)
T ss_pred -----------cccchHHHHHHHHHHHhCc-C--C-----------CCCccHHHHHHHHHHHhhccCCCcccCceEEEEE
Confidence 0011222233444433221 0 0 13578999999999988753111 1112468888
Q ss_pred ecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCcccccccccc
Q 012724 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (457)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (457)
++|.++-++.. .+.++++.+.|+.+-++.++. ..|...|..|+..
T Consensus 116 TDG~~~~~~~~-----------------------------~~~a~~l~~~gv~v~~igiG~-~~d~~~l~~ia~~ 160 (186)
T cd01471 116 TDGIPDSKFRT-----------------------------LKEARKLRERGVIIAVLGVGQ-GVNHEENRSLVGC 160 (186)
T ss_pred ccCCCCCCcch-----------------------------hHHHHHHHHCCCEEEEEEeeh-hhCHHHHHHhcCC
Confidence 98987532110 135667777887766666543 4666777776654
No 35
>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=98.22 E-value=0.00012 Score=65.53 Aligned_cols=153 Identities=24% Similarity=0.255 Sum_probs=93.2
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
++|++|.|.+. ..++.+++.++..++.+ +++.+||||+|++..++. . ++.
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~-------------~----------~l~-- 57 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTE-------------F----------DLN-- 57 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEE-------------E----------ecC--
Confidence 68999999985 35677888888877765 467899999999965321 0 111
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHh-hccccC-CCccccEEEEEe
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNY-LGSEYG-NTFALARVFAFL 276 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~l-L~~~~~-~~~~~gkIi~f~ 276 (457)
.+ . ..+.+.+.|+.++.. ...+.+|.||..|... +....+ .......|++|+
T Consensus 58 ----~~----~-~~~~l~~~l~~~~~~-----------------~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillT 111 (164)
T cd01482 58 ----AY----T-SKEDVLAAIKNLPYK-----------------GGNTRTGKALTHVREKNFTPDAGARPGVPKVVILIT 111 (164)
T ss_pred ----CC----C-CHHHHHHHHHhCcCC-----------------CCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEc
Confidence 11 0 223345555555421 1346799999987754 443211 100123588888
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCcc-EE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGG-SL 355 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG-~v 355 (457)
+|.++-. .++.++++.+.||.+-. ++.+..+...|..++..+.+ ++
T Consensus 112 DG~~~~~-------------------------------~~~~a~~lk~~gi~i~~--ig~g~~~~~~L~~ia~~~~~~~~ 158 (164)
T cd01482 112 DGKSQDD-------------------------------VELPARVLRNLGVNVFA--VGVKDADESELKMIASKPSETHV 158 (164)
T ss_pred CCCCCch-------------------------------HHHHHHHHHHCCCEEEE--EecCcCCHHHHHHHhCCCchheE
Confidence 8875310 13567788888875444 44455667788888888654 45
Q ss_pred EEeCC
Q 012724 356 FLYSS 360 (457)
Q Consensus 356 ~~~~~ 360 (457)
+...+
T Consensus 159 ~~~~d 163 (164)
T cd01482 159 FNVAD 163 (164)
T ss_pred EEcCC
Confidence 44443
No 36
>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=7.6e-05 Score=68.69 Aligned_cols=155 Identities=18% Similarity=0.196 Sum_probs=90.2
Q ss_pred cEEEEEEECCCCh--hHHHHHHHHHHHHHHhC---------CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcc
Q 012724 122 PVYVAAVDLSSSE--EFLELTRSALQAALEAV---------PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (457)
Q Consensus 122 p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l---------~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~ 190 (457)
-=.||+||.|.+. ..++.+++.+...+..+ |..+|||||+|++..++.-
T Consensus 20 ~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~~-------------------- 79 (193)
T cd01477 20 LDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVVA-------------------- 79 (193)
T ss_pred eeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEEE--------------------
Confidence 3489999999984 56787888887766543 3468999999999765411
Q ss_pred ccccccccccccccccchHhHHHHHHHHHHh-cCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccc-cCCCcc
Q 012724 191 LSLELEDVMPLSQFLAPVETFKENITSALET-LRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE-YGNTFA 268 (457)
Q Consensus 191 v~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~-~~~~~~ 268 (457)
+|.+. . ....+.+.++. +..... ..++.+|.||..|.++|... .+.+..
T Consensus 80 ---~L~d~----------~-~~~~~~~ai~~~~~~~~~---------------~ggT~ig~aL~~A~~~l~~~~~~~R~~ 130 (193)
T cd01477 80 ---DLNDL----------Q-SFDDLYSQIQGSLTDVSS---------------TNASYLDTGLQAAEQMLAAGKRTSREN 130 (193)
T ss_pred ---ecccc----------c-CHHHHHHHHHHHhhcccc---------------CCcchHHHHHHHHHHHHHhhhccccCC
Confidence 11110 0 12223333442 222100 12467999999999999743 111101
Q ss_pred ccE-EEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccc
Q 012724 269 LAR-VFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFL 347 (457)
Q Consensus 269 ~gk-Ii~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l 347 (457)
..| +|++++|..+.|.+. ..+.++++.+.||.+..+.++. ..|...|..|
T Consensus 131 v~kvvIllTDg~~~~~~~~----------------------------~~~~a~~l~~~GI~i~tVGiG~-~~d~~~~~~L 181 (193)
T cd01477 131 YKKVVIVFASDYNDEGSND----------------------------PRPIAARLKSTGIAIITVAFTQ-DESSNLLDKL 181 (193)
T ss_pred CCeEEEEEecCccCCCCCC----------------------------HHHHHHHHHHCCCEEEEEEeCC-CCCHHHHHHH
Confidence 136 666666632211000 1357888999999988888765 3443345555
Q ss_pred cccCccE
Q 012724 348 SIESGGS 354 (457)
Q Consensus 348 ~~~TGG~ 354 (457)
++..++.
T Consensus 182 ~~ias~~ 188 (193)
T cd01477 182 GKIASPG 188 (193)
T ss_pred HHhcCCC
Confidence 5554443
No 37
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=98.13 E-value=0.00019 Score=77.64 Aligned_cols=186 Identities=18% Similarity=0.223 Sum_probs=113.3
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
+.-++|+||+|.++ ..++.+++++..+|..|+++.+++||+|++.++.+.- ..
T Consensus 271 p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~--~~----------------------- 325 (596)
T TIGR03788 271 PRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP--VP----------------------- 325 (596)
T ss_pred CceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEecc--cc-----------------------
Confidence 44699999999986 4577789999999999999999999999998764310 00
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecC
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g 278 (457)
.+. -.+....+.+.++.|... .++.+..||+.|+......+.. ...+|+++++|
T Consensus 326 ~~~------~~~~~~~a~~~i~~l~a~------------------GgT~l~~aL~~a~~~~~~~~~~--~~~~iillTDG 379 (596)
T TIGR03788 326 VPA------TAHNLARARQFVAGLQAD------------------GGTEMAGALSAALRDDGPESSG--ALRQVVFLTDG 379 (596)
T ss_pred ccC------CHHHHHHHHHHHhhCCCC------------------CCccHHHHHHHHHHhhcccCCC--ceeEEEEEeCC
Confidence 000 011233344455555432 3467999999998775332211 12479999998
Q ss_pred CCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEe
Q 012724 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLY 358 (457)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~ 358 (457)
..+ . + ....+.+ +. ...++.+..|.++.+ .+-..|..|++.+||..++.
T Consensus 380 ~~~----~----~--------------------~~~~~~~-~~-~~~~~ri~tvGiG~~-~n~~lL~~lA~~g~G~~~~i 428 (596)
T TIGR03788 380 AVG----N----E--------------------DALFQLI-RT-KLGDSRLFTVGIGSA-PNSYFMRKAAQFGRGSFTFI 428 (596)
T ss_pred CCC----C----H--------------------HHHHHHH-HH-hcCCceEEEEEeCCC-cCHHHHHHHHHcCCCEEEEC
Confidence 531 0 0 0111222 11 224566777766554 56678999999999986665
Q ss_pred CCCCC-CcHHHHHHHHhccCcceeeEEEEEc
Q 012724 359 SSTDD-STLPQDIYRMLSRPYAFNCIMRLRT 388 (457)
Q Consensus 359 ~~~~~-~~l~~dl~~~l~~~~~~~~~lrvR~ 388 (457)
.+-+. ..-..++...+..+..-+..+++..
T Consensus 429 ~~~~~~~~~~~~~l~~~~~p~l~~v~v~~~~ 459 (596)
T TIGR03788 429 GSTDEVQRKMSQLFAKLEQPALTDIALTFDN 459 (596)
T ss_pred CCHHHHHHHHHHHHHhhcCeEEEEEEEEEcC
Confidence 43221 1112334444556666777777643
No 38
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=98.08 E-value=9.6e-05 Score=79.44 Aligned_cols=177 Identities=13% Similarity=0.113 Sum_probs=113.9
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHh-CCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEA-VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~-l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
.-.++|+||+|.++ ..++.+|.++...+.. +.++.+||||+|++...- +.+
T Consensus 407 ~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~------------~~l-------------- 460 (589)
T TIGR02031 407 GRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAE------------VLL-------------- 460 (589)
T ss_pred CceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCce------------EEC--------------
Confidence 44688999999987 3578888888887764 556779999999864311 111
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEec
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~ 277 (457)
|. ......+...|+.|+.. .++.++.||..|...+....... .--.|+++++
T Consensus 461 --p~-------t~~~~~~~~~L~~l~~g------------------GgTpL~~gL~~A~~~~~~~~~~~-~~~~ivllTD 512 (589)
T TIGR02031 461 --PP-------SRSVEQAKRRLDVLPGG------------------GGTPLAAGLAAAFQTALQARSSG-GTPTIVLITD 512 (589)
T ss_pred --CC-------CCCHHHHHHHHhcCCCC------------------CCCcHHHHHHHHHHHHHHhcccC-CceEEEEECC
Confidence 10 00122234456655432 34679999999998886432110 0137999999
Q ss_pred CCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEE
Q 012724 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (457)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (457)
|.+|.|-+.....+. .. ..+..+-...++..+.+.||.+-++-+...+.+..-+..|++..||..++
T Consensus 513 G~~nv~~~~~~~~~~-~~------------~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~ 579 (589)
T TIGR02031 513 GRGNIPLDGDPESIK-AD------------REQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIY 579 (589)
T ss_pred CCCCCCCCccccccc-cc------------chhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEe
Confidence 999987532100000 00 00122333567888999998877776666677666689999999999998
Q ss_pred eCCCCCC
Q 012724 358 YSSTDDS 364 (457)
Q Consensus 358 ~~~~~~~ 364 (457)
.++-+..
T Consensus 580 l~~~~a~ 586 (589)
T TIGR02031 580 LPNATAA 586 (589)
T ss_pred CCCCChh
Confidence 8876543
No 39
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=98.07 E-value=0.00017 Score=77.09 Aligned_cols=173 Identities=15% Similarity=0.133 Sum_probs=111.7
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHH-hCCCCcEEEEEEecce-eEEEEccCCCcceeeeeeCCCCCcccccccc
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~-~l~~~~~vglItf~~~-V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
.-.++||||+|.++ ..+..+|.++...|+ .+.++.+|+||+|+.. .. +.+
T Consensus 401 ~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~-------------~~l------------- 454 (584)
T PRK13406 401 ETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAE-------------LLL------------- 454 (584)
T ss_pred CccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCcee-------------EEc-------------
Confidence 45799999999986 567888888888775 4677889999999764 21 111
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEe
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~ 276 (457)
|.. .+...+...|+.|+.. .++.++.||..|..++....... .--.|++++
T Consensus 455 ---ppT-------~~~~~~~~~L~~l~~g------------------GgTpL~~gL~~A~~~l~~~~~~~-~~~~iVLlT 505 (584)
T PRK13406 455 ---PPT-------RSLVRAKRSLAGLPGG------------------GGTPLAAGLDAAAALALQVRRKG-MTPTVVLLT 505 (584)
T ss_pred ---CCC-------cCHHHHHHHHhcCCCC------------------CCChHHHHHHHHHHHHHHhccCC-CceEEEEEe
Confidence 100 0222334455555432 35679999999998876432110 125899999
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (457)
+|.+|.|-+.-..+.. +..+ =..++..+.+.+|.+-++-+.... ...+..|++.+||+.|
T Consensus 506 DG~~n~~~~~~~~~~~-----------------~~~~-~~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~~gg~y~ 565 (584)
T PRK13406 506 DGRANIARDGTAGRAQ-----------------AEED-ALAAARALRAAGLPALVIDTSPRP--QPQARALAEAMGARYL 565 (584)
T ss_pred CCCCCCCccccccccc-----------------hhhH-HHHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHhcCCeEE
Confidence 9999987542111110 0000 035677888888776666554443 3457999999999999
Q ss_pred EeCCCCCCcHHH
Q 012724 357 LYSSTDDSTLPQ 368 (457)
Q Consensus 357 ~~~~~~~~~l~~ 368 (457)
..+.-+...+.+
T Consensus 566 ~l~~~~a~~~~~ 577 (584)
T PRK13406 566 PLPRADAGRLSQ 577 (584)
T ss_pred ECCCCCHHHHHH
Confidence 999887766643
No 40
>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=98.07 E-value=0.00019 Score=63.20 Aligned_cols=148 Identities=20% Similarity=0.267 Sum_probs=98.1
Q ss_pred EEEEEECCCChh--HHHHHHHHHHHHHHhCC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSEE--FLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~~--~l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
++|++|+|.+.. .++.++.++...+..+. ++.+++|++|++..... + ++.
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~-------------~----------~~~-- 57 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVE-------------F----------SLN-- 57 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEE-------------E----------ECC--
Confidence 579999999852 57778888888887765 47899999999853321 0 111
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccC-CCccccEEEEEec
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYG-NTFALARVFAFLS 277 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~-~~~~~gkIi~f~~ 277 (457)
.. . .++.+.+.++.+..... ..+.++.||..|.+.+....+ .......|++|++
T Consensus 58 ----~~----~-~~~~~~~~i~~~~~~~~----------------~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTD 112 (161)
T cd01450 58 ----DY----K-SKDDLLKAVKNLKYLGG----------------GGTNTGKALQYALEQLFSESNARENVPKVIIVLTD 112 (161)
T ss_pred ----CC----C-CHHHHHHHHHhcccCCC----------------CCccHHHHHHHHHHHhcccccccCCCCeEEEEECC
Confidence 00 0 23344555665543210 146799999999998876531 0012357999999
Q ss_pred CCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCc
Q 012724 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (457)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (457)
|.++.++ + ..++.+.+.+.++.+..+.++. .+...|..|+..+|
T Consensus 113 G~~~~~~------~-----------------------~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~~~ 156 (161)
T cd01450 113 GRSDDGG------D-----------------------PKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASCPS 156 (161)
T ss_pred CCCCCCc------c-----------------------hHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCCCC
Confidence 9887643 0 1356777778888888887755 67888999998883
No 41
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.01 E-value=0.00032 Score=62.88 Aligned_cols=154 Identities=18% Similarity=0.202 Sum_probs=95.0
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC---CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP---SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
.+|+||.|.+- ..++.+++.++..++.++ +.+|||+|+|++..+.. + ++.+
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~------------~-----------~l~~- 58 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPE------------F-----------YLNT- 58 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEE------------E-----------eccc-
Confidence 58999999974 577888888888888774 57899999998865321 0 1111
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHh-hccccCCCcc---ccEEEE
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNY-LGSEYGNTFA---LARVFA 274 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~l-L~~~~~~~~~---~gkIi~ 274 (457)
+ ..+..+.+.++.++-... ..+.+|.||..+... +...+|.+.+ .=.+++
T Consensus 59 -----~-----~~~~~l~~~i~~i~~~~g----------------~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vv 112 (165)
T cd01481 59 -----H-----STKADVLGAVRRLRLRGG----------------SQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVL 112 (165)
T ss_pred -----c-----CCHHHHHHHHHhcccCCC----------------CcccHHHHHHHHHHhhcCccccCCccCCCCeEEEE
Confidence 1 023345556666643210 135689999987754 4433332110 013567
Q ss_pred EecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccE
Q 012724 275 FLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGS 354 (457)
Q Consensus 275 f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~ 354 (457)
+++|..+ +-..+-|+.+.+.|| .+|..+....|..+|..++... -.
T Consensus 113 iTdG~s~-------------------------------d~~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~~ias~p-~~ 158 (165)
T cd01481 113 ITGGKSQ-------------------------------DDVERPAVALKRAGI--VPFAIGARNADLAELQQIAFDP-SF 158 (165)
T ss_pred EeCCCCc-------------------------------chHHHHHHHHHHCCc--EEEEEeCCcCCHHHHHHHhCCC-cc
Confidence 7777532 012356777888885 5677776668888888888665 35
Q ss_pred EEEeCCC
Q 012724 355 LFLYSST 361 (457)
Q Consensus 355 v~~~~~~ 361 (457)
++..++|
T Consensus 159 vf~v~~f 165 (165)
T cd01481 159 VFQVSDF 165 (165)
T ss_pred EEEecCC
Confidence 5555443
No 42
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.97 E-value=0.00035 Score=73.18 Aligned_cols=165 Identities=14% Similarity=0.091 Sum_probs=96.9
Q ss_pred CcEEEEEEECCCChh---HHHHHHHHHHHHHHhC---CCCcEEEEEEecceeEE-EEccCCCcceeeeeeCCCCCccccc
Q 012724 121 RPVYVAAVDLSSSEE---FLELTRSALQAALEAV---PSGALFGLATFSHKIGL-YDVQGAIPVVKNVFIPSDTEDTLSL 193 (457)
Q Consensus 121 ~p~~vFvID~s~~~~---~l~~~~~~l~~~l~~l---~~~~~vglItf~~~V~~-y~l~~~~~~~~~v~~~~~~~~~v~~ 193 (457)
.--++|+||+|.+.+ +++.++..+..++..+ ++.++||+|+|++..+. +.+....
T Consensus 42 ~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~~------------------ 103 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSGA------------------ 103 (576)
T ss_pred CceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCCc------------------
Confidence 346899999999863 4566777777777766 35679999999987542 2221100
Q ss_pred cccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEE
Q 012724 194 ELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVF 273 (457)
Q Consensus 194 dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi 273 (457)
...+..+..+|..|..... . ...+.+|.||..|...+...+......+.||
T Consensus 104 ---------------s~Dk~~aL~~I~sL~~~~~---p-----------gGgTnig~AL~~Aae~L~sr~~R~nvpKVVI 154 (576)
T PTZ00441 104 ---------------SKDKEQALIIVKSLRKTYL---P-----------YGKTNMTDALLEVRKHLNDRVNRENAIQLVI 154 (576)
T ss_pred ---------------cccHHHHHHHHHHHHhhcc---C-----------CCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence 0011223333433322100 0 1346799999998888865432212236899
Q ss_pred EEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCcccccccc----c
Q 012724 274 AFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLS----I 349 (457)
Q Consensus 274 ~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~----~ 349 (457)
++++|.++-+. +. .+.++++.+.||.|-+|.++. ..+...+..|+ .
T Consensus 155 LLTDG~sns~~----------------------------dv-leaAq~LR~~GVeI~vIGVG~-g~n~e~LrlIAgC~p~ 204 (576)
T PTZ00441 155 LMTDGIPNSKY----------------------------RA-LEESRKLKDRNVKLAVIGIGQ-GINHQFNRLLAGCRPR 204 (576)
T ss_pred EEecCCCCCcc----------------------------cH-HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHHHhccCCC
Confidence 99998764210 00 134667778888766666643 35555555555 3
Q ss_pred cCccEEEEeCCCC
Q 012724 350 ESGGSLFLYSSTD 362 (457)
Q Consensus 350 ~TGG~v~~~~~~~ 362 (457)
..+|.+|...+|+
T Consensus 205 ~g~c~~Y~vadf~ 217 (576)
T PTZ00441 205 EGKCKFYSDADWE 217 (576)
T ss_pred CCCCceEEeCCHH
Confidence 3456777777774
No 43
>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=97.96 E-value=0.00058 Score=60.68 Aligned_cols=108 Identities=19% Similarity=0.209 Sum_probs=66.7
Q ss_pred EEEEEECCCCh-hHHHHHHHHHHHHHHhCC---CCcEEEEEEecce--eEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 124 YVAAVDLSSSE-EFLELTRSALQAALEAVP---SGALFGLATFSHK--IGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 124 ~vFvID~s~~~-~~l~~~~~~l~~~l~~l~---~~~~vglItf~~~--V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
++|++|+|.+. +.++..++.++.+++.+. +..+||+|+|++. .++. . .+.
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~-------------~----------~l~- 58 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVR-------------F----------NLP- 58 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEE-------------e----------cCC-
Confidence 68999999985 345566777888777764 4789999999883 2221 0 011
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCC-CccccEEEEEe
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGN-TFALARVFAFL 276 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~-~~~~gkIi~f~ 276 (457)
.. ..++.+.+.++.++.. ...+.+|.||..|..++....+. ......|++++
T Consensus 59 -----~~-----~~~~~l~~~i~~l~~~-----------------gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villT 111 (163)
T cd01476 59 -----KH-----NDGEELLEKVDNLRFI-----------------GGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLT 111 (163)
T ss_pred -----CC-----CCHHHHHHHHHhCccC-----------------CCCccHHHHHHHHHHHhccccCCCCCCCeEEEEEC
Confidence 00 1233455566665421 12467999999999998522111 00124688888
Q ss_pred cCCCCC
Q 012724 277 SGPPDH 282 (457)
Q Consensus 277 ~g~pt~ 282 (457)
+|.++.
T Consensus 112 DG~~~~ 117 (163)
T cd01476 112 DGRSHD 117 (163)
T ss_pred CCCCCC
Confidence 887653
No 44
>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=97.94 E-value=0.00017 Score=64.59 Aligned_cols=158 Identities=21% Similarity=0.270 Sum_probs=95.4
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhC---CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l---~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
.+|+||.|.+. ..++.+++.+...++.+ +++.|||+|+|++..+.+- ++.+
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~-----------------------~~~~- 57 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLF-----------------------SLTD- 57 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEE-----------------------ETTS-
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeeccccccc-----------------------cccc-
Confidence 58999999986 35888999999998855 5688999999999876211 1110
Q ss_pred ccccccccchHhHHHHHHHHH-HhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccc--cCCCccccEEEEE
Q 012724 199 MPLSQFLAPVETFKENITSAL-ETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSE--YGNTFALARVFAF 275 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~--~~~~~~~gkIi~f 275 (457)
. .....+.+.+ ..++.. ...+.+|.||..|...+... |+......-|+++
T Consensus 58 ---------~-~~~~~~~~~i~~~~~~~-----------------~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iili 110 (178)
T PF00092_consen 58 ---------Y-QSKNDLLNAINDSIPSS-----------------GGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILI 110 (178)
T ss_dssp ---------H-SSHHHHHHHHHTTGGCC-----------------BSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEE
T ss_pred ---------c-ccccccccccccccccc-----------------chhhhHHHHHhhhhhcccccccccccccccceEEE
Confidence 0 0112222333 333221 14567999999999998654 1111122458888
Q ss_pred ecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCcccccccccc--Ccc
Q 012724 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE--SGG 353 (457)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~--TGG 353 (457)
++|.++.++-. ...+..+.+. ..+.+|..+.+..+...|..|+.. .+|
T Consensus 111 TDG~~~~~~~~-----------------------------~~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~~~~~~~ 160 (178)
T PF00092_consen 111 TDGNSNDSDSP-----------------------------SEEAANLKKS-NGIKVIAIGIDNADNEELRELASCPTSEG 160 (178)
T ss_dssp ESSSSSSHSGH-----------------------------HHHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSHSSTCHH
T ss_pred EeecccCCcch-----------------------------HHHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhCCCCCCC
Confidence 88877543210 1112222221 456677666677888889999855 447
Q ss_pred EEEEeCCCC
Q 012724 354 SLFLYSSTD 362 (457)
Q Consensus 354 ~v~~~~~~~ 362 (457)
.+++..+++
T Consensus 161 ~~~~~~~~~ 169 (178)
T PF00092_consen 161 HVFYLADFS 169 (178)
T ss_dssp HEEEESSHH
T ss_pred cEEEcCCHH
Confidence 777776653
No 45
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.94 E-value=0.00027 Score=66.44 Aligned_cols=171 Identities=16% Similarity=0.139 Sum_probs=113.1
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccc
Q 012724 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
.-.+|||||.|.++ ..++++|-++...|. ....+.||++|+|... + ..++
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~--------~----A~ll-------------- 131 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGE--------K----AELL-------------- 131 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCC--------c----ceEE--------------
Confidence 34689999999986 357777877777664 5667889999998642 0 1122
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCC-ccccEEEEE
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNT-FALARVFAF 275 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~-~~~gkIi~f 275 (457)
+|...+-+.+.+.|+.|+.- ..+=+..||..|.+++....... ..--.+++.
T Consensus 132 ---------l~pT~sv~~~~~~L~~l~~G------------------G~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vvi 184 (261)
T COG1240 132 ---------LPPTSSVELAERALERLPTG------------------GKTPLADALRQAYEVLAREKRRGPDRRPVMVVI 184 (261)
T ss_pred ---------eCCcccHHHHHHHHHhCCCC------------------CCCchHHHHHHHHHHHHHhhccCCCcceEEEEE
Confidence 12222345566677777643 22348999999999997554100 011479999
Q ss_pred ecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEE
Q 012724 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSL 355 (457)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v 355 (457)
++|.||.+.+.=+..+ -.+.+.++...++-+=+.-+-.+++.+.-...||+..||.+
T Consensus 185 TDGr~n~~~~~~~~~e-----------------------~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~ 241 (261)
T COG1240 185 TDGRANVPIPLGPKAE-----------------------TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEY 241 (261)
T ss_pred eCCccCCCCCCchHHH-----------------------HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeE
Confidence 9999988765321100 02456666667765555555566677777789999999999
Q ss_pred EEeCCCCCCcHH
Q 012724 356 FLYSSTDDSTLP 367 (457)
Q Consensus 356 ~~~~~~~~~~l~ 367 (457)
++.+......+.
T Consensus 242 ~~L~~l~~~~i~ 253 (261)
T COG1240 242 YHLDDLSDDSIV 253 (261)
T ss_pred EecccccchHHH
Confidence 998877665554
No 46
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=97.92 E-value=0.0002 Score=77.78 Aligned_cols=160 Identities=17% Similarity=0.190 Sum_probs=103.8
Q ss_pred CcEEEEEEECCCCh---hHHHHHHHHHHHHHH-hCCCCcEEEEEEecce-eEEEEccCCCcceeeeeeCCCCCccccccc
Q 012724 121 RPVYVAAVDLSSSE---EFLELTRSALQAALE-AVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLEL 195 (457)
Q Consensus 121 ~p~~vFvID~s~~~---~~l~~~~~~l~~~l~-~l~~~~~vglItf~~~-V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl 195 (457)
...++|+||+|.++ ..++.++.++...+. .+..+.+||||+|+.. .. +.+
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~-------------~~~------------ 519 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAE-------------VLL------------ 519 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCce-------------EEc------------
Confidence 44688999999986 356777777777664 4567789999999753 11 111
Q ss_pred cccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhcc---ccCCCccccEE
Q 012724 196 EDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGS---EYGNTFALARV 272 (457)
Q Consensus 196 ~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~---~~~~~~~~gkI 272 (457)
| .......+...|+.|+.. .++.++.||..|..++.. .++. ..+.|
T Consensus 520 ----p-------~t~~~~~~~~~L~~l~~g------------------G~Tpl~~aL~~A~~~l~~~~~~~~~--~~~~v 568 (633)
T TIGR02442 520 ----P-------PTSSVELAARRLEELPTG------------------GRTPLAAGLLKAAEVLSNELLRDDD--GRPLL 568 (633)
T ss_pred ----C-------CCCCHHHHHHHHHhCCCC------------------CCCCHHHHHHHHHHHHHHhhccCCC--CceEE
Confidence 1 111223334456655431 346799999999988873 1111 12689
Q ss_pred EEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCc
Q 012724 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESG 352 (457)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TG 352 (457)
+++++|.+|.|.+. . . +..+ -..++..+.+.+|.+.++-+...+++..-+..||+.+|
T Consensus 569 vliTDG~~n~~~~~--~-~------------------~~~~-~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~g 626 (633)
T TIGR02442 569 VVITDGRANVADGG--E-P------------------PTDD-ARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALG 626 (633)
T ss_pred EEECCCCCCCCCCC--C-C------------------hHHH-HHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhC
Confidence 99999999986211 0 0 0011 13567777777877666655556677778999999999
Q ss_pred cEEEEe
Q 012724 353 GSLFLY 358 (457)
Q Consensus 353 G~v~~~ 358 (457)
|+.+..
T Consensus 627 g~y~~l 632 (633)
T TIGR02442 627 GEYVRL 632 (633)
T ss_pred CeEEec
Confidence 997653
No 47
>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=97.88 E-value=0.00097 Score=59.44 Aligned_cols=155 Identities=24% Similarity=0.234 Sum_probs=102.6
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~---~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
-++|+||+|.+. ..++.+++.+...+..+.. ..+||+++|++..+.+. .+
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~-----------------------~~-- 57 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLF-----------------------PL-- 57 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEE-----------------------cc--
Confidence 478999999986 5677788888888887765 88999999998433211 00
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhcccc--CCCccccEEEEE
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEY--GNTFALARVFAF 275 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~--~~~~~~gkIi~f 275 (457)
. .....+.+.+.++.+... . ....-++.|+..|...+.... ......-.|++|
T Consensus 58 ----~-----~~~~~~~~~~~i~~~~~~-----~-----------~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~ivii 112 (177)
T smart00327 58 ----N-----DSRSKDALLEALASLSYK-----L-----------GGGTNLGAALQYALENLFSKSAGSRRGAPKVLILI 112 (177)
T ss_pred ----c-----ccCCHHHHHHHHHhcCCC-----C-----------CCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEE
Confidence 0 011234455666666531 0 123568999999998875221 110002368888
Q ss_pred ecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEE
Q 012724 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSL 355 (457)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v 355 (457)
++|.++.+ ..+.+...++.+.+|.+..+.++... +...+..++..++|..
T Consensus 113 tDg~~~~~-----------------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~~~~~~~ 162 (177)
T smart00327 113 TDGESNDG-----------------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLASAPGGVY 162 (177)
T ss_pred cCCCCCCC-----------------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhCCCcceE
Confidence 88877643 12356777888888888888776543 6778999999999986
Q ss_pred EE
Q 012724 356 FL 357 (457)
Q Consensus 356 ~~ 357 (457)
.+
T Consensus 163 ~~ 164 (177)
T smart00327 163 VF 164 (177)
T ss_pred Ee
Confidence 54
No 48
>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=97.71 E-value=0.0017 Score=56.26 Aligned_cols=149 Identities=23% Similarity=0.315 Sum_probs=96.3
Q ss_pred EEEEEEECCCCh--hHHHHHHHHHHHHHHhCCC---CcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 123 VYVAAVDLSSSE--EFLELTRSALQAALEAVPS---GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 123 ~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~---~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
.++|+||.|.+. ..++.+++.+...+..++. ..+++++.|+...+.+ . ++.+
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~-------------~----------~~~~ 58 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVV-------------L----------PLTT 58 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCcccee-------------e----------cccc
Confidence 378999999985 6778888888888888875 7899999999832221 0 0100
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEec
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~ 277 (457)
. ...+.+...++.+... . .....+..|+..+.+.+..... ......|+++++
T Consensus 59 ------~-----~~~~~~~~~~~~~~~~--~--------------~~~t~~~~al~~~~~~~~~~~~-~~~~~~lvvitD 110 (161)
T cd00198 59 ------D-----TDKADLLEAIDALKKG--L--------------GGGTNIGAALRLALELLKSAKR-PNARRVIILLTD 110 (161)
T ss_pred ------c-----CCHHHHHHHHHhcccC--C--------------CCCccHHHHHHHHHHHhcccCC-CCCceEEEEEeC
Confidence 0 0233445556655430 0 1345688999999998875310 011357888888
Q ss_pred CCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccC
Q 012724 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIES 351 (457)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~T 351 (457)
|.++.++ . -..+..+.+.+.++.+.++.++. ..+-..+..|+..+
T Consensus 111 g~~~~~~-----~-----------------------~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 111 GEPNDGP-----E-----------------------LLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred CCCCCCc-----c-----------------------hhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 8765443 0 01245667777799998887765 34456688888877
No 49
>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=97.65 E-value=0.00031 Score=63.54 Aligned_cols=44 Identities=20% Similarity=0.159 Sum_probs=35.4
Q ss_pred EEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEEEecceeE
Q 012724 124 YVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIG 167 (457)
Q Consensus 124 ~vFvID~s~~~--~~l~~~~~~l~~~l~~l~------~~~~vglItf~~~V~ 167 (457)
++|+||+|.+. ..++.++++++..++.+. ++.+|+||+|++..+
T Consensus 6 v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~ 57 (176)
T cd01464 6 IYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAAR 57 (176)
T ss_pred EEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCce
Confidence 57999999985 457778888888887764 356999999999754
No 50
>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=97.63 E-value=0.00061 Score=62.17 Aligned_cols=163 Identities=14% Similarity=0.177 Sum_probs=103.0
Q ss_pred EEECCCCh-------hHHHHHHHHHHHHHHhC---CCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccc
Q 012724 127 AVDLSSSE-------EFLELTRSALQAALEAV---PSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 127 vID~s~~~-------~~l~~~~~~l~~~l~~l---~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
|||.|... .+++++.+.+...++.+ +|=+.+|||+..+.+. .. +.++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a------------~~----------ls~l- 57 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRA------------ER----------LSEL- 57 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeeccee------------EE----------eeec-
Confidence 57888764 46777777777776542 3457999998765321 00 0111
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEe
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFL 276 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~ 276 (457)
+.+-....+.|.++.... + .....+-.||+.|...|+...+.+ .=.|+++.
T Consensus 58 ------------sgn~~~h~~~L~~~~~~~----~-----------~G~~SLqN~Le~A~~~L~~~p~~~--srEIlvi~ 108 (193)
T PF04056_consen 58 ------------SGNPQEHIEALKKLRKLE----P-----------SGEPSLQNGLEMARSSLKHMPSHG--SREILVIF 108 (193)
T ss_pred ------------CCCHHHHHHHHHHhccCC----C-----------CCChhHHHHHHHHHHHHhhCcccc--ceEEEEEE
Confidence 112222344555554321 1 135679999999999998553211 12677777
Q ss_pred cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEE
Q 012724 277 SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLF 356 (457)
Q Consensus 277 ~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~ 356 (457)
++.-|.-||.+ .+..+.+.+.+|-|+++.++.+ +..+..+|+.|||...
T Consensus 109 gSl~t~Dp~di----------------------------~~ti~~l~~~~IrvsvI~laaE---v~I~k~i~~~T~G~y~ 157 (193)
T PF04056_consen 109 GSLTTCDPGDI----------------------------HETIESLKKENIRVSVISLAAE---VYICKKICKETGGTYG 157 (193)
T ss_pred eecccCCchhH----------------------------HHHHHHHHHcCCEEEEEEEhHH---HHHHHHHHHhhCCEEE
Confidence 88777776632 2678899999999999988775 6678999999999532
Q ss_pred EeCCCCCCcHHHHHHHHh
Q 012724 357 LYSSTDDSTLPQDIYRML 374 (457)
Q Consensus 357 ~~~~~~~~~l~~dl~~~l 374 (457)
. .-|+..|.+-|..+.
T Consensus 158 V--~lde~H~~~lL~~~~ 173 (193)
T PF04056_consen 158 V--ILDEDHFKELLMEHV 173 (193)
T ss_pred E--ecCHHHHHHHHHhhC
Confidence 2 234556765444443
No 51
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=97.54 E-value=0.0059 Score=56.13 Aligned_cols=151 Identities=11% Similarity=0.035 Sum_probs=91.3
Q ss_pred EEEEEECCCChh--HHH-HHHHHHHHHHHhCC---CCcEEEEEEecceeEEE-EccCCCcceeeeeeCCCCCcccccccc
Q 012724 124 YVAAVDLSSSEE--FLE-LTRSALQAALEAVP---SGALFGLATFSHKIGLY-DVQGAIPVVKNVFIPSDTEDTLSLELE 196 (457)
Q Consensus 124 ~vFvID~s~~~~--~l~-~~~~~l~~~l~~l~---~~~~vglItf~~~V~~y-~l~~~~~~~~~v~~~~~~~~~v~~dl~ 196 (457)
.+|+||.|.+.+ ..+ .+++.++..++.+. .++|||+|+|++..++. .+...
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~~---------------------- 60 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSDE---------------------- 60 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCcc----------------------
Confidence 589999999853 244 46777888887764 57899999999876432 11100
Q ss_pred ccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcc-ccEEEEE
Q 012724 197 DVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFA-LARVFAF 275 (457)
Q Consensus 197 ~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~-~gkIi~f 275 (457)
....+..+.+.++.++..... ...+.+|.||+.|.+.+...++.+.. .--+|++
T Consensus 61 -----------~~~~~~~l~~~i~~l~~~~~~--------------~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~Ill 115 (192)
T cd01473 61 -----------ERYDKNELLKKINDLKNSYRS--------------GGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLF 115 (192)
T ss_pred -----------cccCHHHHHHHHHHHHhccCC--------------CCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEE
Confidence 011234455566666532110 13567999999998887543321100 1236777
Q ss_pred ecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCcccccccccc
Q 012724 276 LSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (457)
Q Consensus 276 ~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (457)
|+|..+-+- ..--.+.++.+.+.||.+-.+..+. .+-.+|..++..
T Consensus 116 TDG~s~~~~---------------------------~~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~~ 161 (192)
T cd01473 116 TDGNDTSAS---------------------------KKELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAGC 161 (192)
T ss_pred ecCCCCCcc---------------------------hhhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcCC
Confidence 777543210 0001356788888998877776654 456778887764
No 52
>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=97.53 E-value=0.0059 Score=54.99 Aligned_cols=146 Identities=18% Similarity=0.161 Sum_probs=86.8
Q ss_pred EEEEEEECCCCh---hHHHHHHHHHHHHHHhCCC-CcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccccccccc
Q 012724 123 VYVAAVDLSSSE---EFLELTRSALQAALEAVPS-GALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELEDV 198 (457)
Q Consensus 123 ~~vFvID~s~~~---~~l~~~~~~l~~~l~~l~~-~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~~ 198 (457)
.++|+||+|.++ ..++.+++++...++.+.+ +.++||++|++... ..... .+.. ..+.+
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~~------~~~~~-~~~~--------~~~~~-- 64 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDAG------GRERV-RWIK--------IKDFD-- 64 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC------Cccce-EEEE--------ecCcc--
Confidence 478999999985 3678888888877777764 78999999988630 00000 0000 00111
Q ss_pred ccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEecC
Q 012724 199 MPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSG 278 (457)
Q Consensus 199 ~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g 278 (457)
.. . ...+...|..+... ..+.+|.||..|...+...... ...|+++++|
T Consensus 65 ----~~---~---~~~~~~~l~~~~~~------------------g~T~~~~al~~a~~~l~~~~~~---~~~iiliTDG 113 (174)
T cd01454 65 ----ES---L---HERARKRLAALSPG------------------GNTRDGAAIRHAAERLLARPEK---RKILLVISDG 113 (174)
T ss_pred ----cc---c---chhHHHHHHccCCC------------------CCCcHHHHHHHHHHHHhcCCCc---CcEEEEEeCC
Confidence 00 0 11223344444321 2467999999999888753221 2578999999
Q ss_pred CCCCCCCccccccccCccCCCCccccccCCCcchHHHHHH---HHHHHHcceEEEEeeecCCc
Q 012724 279 PPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDL---AAVAVQAGVCVDIFAITNEY 338 (457)
Q Consensus 279 ~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~l---a~~~~~~~isvdlf~~~~~~ 338 (457)
.|+.+...-.. ....++. +.++.+.||.+..+.++.+.
T Consensus 114 ~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 114 EPNDLDYYEGN----------------------VFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred CcCcccccCcc----------------------hhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 99866421000 0011223 77788889988877766553
No 53
>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=97.51 E-value=0.0036 Score=58.73 Aligned_cols=158 Identities=16% Similarity=0.246 Sum_probs=87.5
Q ss_pred EEEEEEECCCCh---------hHHHHHHHHHHHHHHh---CCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcc
Q 012724 123 VYVAAVDLSSSE---------EFLELTRSALQAALEA---VPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDT 190 (457)
Q Consensus 123 ~~vFvID~s~~~---------~~l~~~~~~l~~~l~~---l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~ 190 (457)
..+|+||+|.++ ..|+.+++++...++. -.++.+||||.|++.-+--. .+ ..++.
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~--~~---~~~i~-------- 69 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP--VG---YENIY-------- 69 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc--CC---CCceE--------
Confidence 479999999853 4577788888888875 24667999999987532100 00 00111
Q ss_pred ccccccccccccccccchHhHHHHHHHHHHhcCCCCC-cccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccc
Q 012724 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTS-WERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFAL 269 (457)
Q Consensus 191 v~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~ 269 (457)
++.++. .+ ..+.+..+++.+..... .....+ ...+..++.||.+|..++..... ....
T Consensus 70 v~~~l~---------~~---~~~~l~~l~~~~~~~~~~~~~~~~--------~~~~~~l~~aL~~a~~~~~~~~~-~~~~ 128 (218)
T cd01458 70 VLLDLD---------TP---GAERVEDLKELIEPGGLSFAGQVG--------DSGQVSLSDALWVCLDLFSKGKK-KKSH 128 (218)
T ss_pred EeecCC---------CC---CHHHHHHHHHHhhcchhhhcccCC--------CCCCccHHHHHHHHHHHHHhccc-cccc
Confidence 111111 00 12233333333322100 000000 01457899999999999986211 1112
Q ss_pred cEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCC
Q 012724 270 ARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNE 337 (457)
Q Consensus 270 gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~ 337 (457)
-+|++||+|--..|.... ...-..+++.++.+.||.+.+|.+...
T Consensus 129 k~IvL~TDg~~p~~~~~~-----------------------~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 129 KRIFLFTNNDDPHGGDSI-----------------------KDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred cEEEEECCCCCCCCCCHH-----------------------HHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 489999998644431000 012235688889889999999876443
No 54
>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=97.24 E-value=0.016 Score=50.85 Aligned_cols=42 Identities=21% Similarity=0.067 Sum_probs=30.6
Q ss_pred EEEEEECCCChhH--HHHHHHHHHHHHHhCC-CCcEEEEEEecce
Q 012724 124 YVAAVDLSSSEEF--LELTRSALQAALEAVP-SGALFGLATFSHK 165 (457)
Q Consensus 124 ~vFvID~s~~~~~--l~~~~~~l~~~l~~l~-~~~~vglItf~~~ 165 (457)
++|+||+|.+... ++..+..+...++.+. ++.++++|+|++.
T Consensus 3 v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~ 47 (152)
T cd01462 3 VILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSE 47 (152)
T ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCC
Confidence 6899999998632 4455666655555554 4779999999987
No 55
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.053 Score=49.52 Aligned_cols=148 Identities=16% Similarity=0.223 Sum_probs=92.0
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHH----hCCCCcEEEEEEecc-eeEEEEccCCCcceeeeeeCCCCCcc
Q 012724 123 VYVAAVDLSSSE-------EFLELTRSALQAALE----AVPSGALFGLATFSH-KIGLYDVQGAIPVVKNVFIPSDTEDT 190 (457)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~----~l~~~~~vglItf~~-~V~~y~l~~~~~~~~~v~~~~~~~~~ 190 (457)
+-+.+||-|..+ ..+++=++++..... +-|+| -|||||... .+.+. +
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEn-tvGiitla~a~~~vL-------------s------- 63 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPEN-TVGIITLANASVQVL-------------S------- 63 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCccc-ceeeEeccCCCceee-------------e-------
Confidence 457889987643 567776777665443 23444 799998765 33221 1
Q ss_pred ccccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCcccc
Q 012724 191 LSLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALA 270 (457)
Q Consensus 191 v~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~g 270 (457)
.+...+..|...+..++.. .+.-+..+|+.|..+|+..-+... --
T Consensus 64 ----------------T~T~d~gkils~lh~i~~~------------------g~~~~~~~i~iA~lalkhRqnk~~-~~ 108 (259)
T KOG2884|consen 64 ----------------TLTSDRGKILSKLHGIQPH------------------GKANFMTGIQIAQLALKHRQNKNQ-KQ 108 (259)
T ss_pred ----------------eccccchHHHHHhcCCCcC------------------CcccHHHHHHHHHHHHHhhcCCCc-ce
Confidence 0111234455556555432 345699999999999986543211 15
Q ss_pred EEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCcccccccccc
Q 012724 271 RVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIE 350 (457)
Q Consensus 271 kIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~ 350 (457)
||++|.++|-. +.|+ -.-++|+++.++++.||++.++-..-+-.-+......
T Consensus 109 riVvFvGSpi~--------------------e~ek--------eLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida 160 (259)
T KOG2884|consen 109 RIVVFVGSPIE--------------------ESEK--------ELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDA 160 (259)
T ss_pred EEEEEecCcch--------------------hhHH--------HHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHH
Confidence 99999998631 1111 2247999999999999999998665553445555555
Q ss_pred CccE
Q 012724 351 SGGS 354 (457)
Q Consensus 351 TGG~ 354 (457)
++|.
T Consensus 161 ~N~~ 164 (259)
T KOG2884|consen 161 LNGK 164 (259)
T ss_pred hcCC
Confidence 5553
No 56
>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=95.48 E-value=0.69 Score=44.64 Aligned_cols=45 Identities=22% Similarity=0.253 Sum_probs=33.2
Q ss_pred CCcEEEEEEECCCCh-------hHHHHHHHHHHHHHHhCCCCcEEEEEEeccee
Q 012724 120 ARPVYVAAVDLSSSE-------EFLELTRSALQAALEAVPSGALFGLATFSHKI 166 (457)
Q Consensus 120 ~~p~~vFvID~s~~~-------~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V 166 (457)
...-++++||.|.++ ..++ .+..|..+++.++. -+||++.|+..+
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~-g~vgVv~Fg~~~ 110 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEV-GQLGVCSFGEDV 110 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcC-CcEEEEEeCCCc
Confidence 456799999999985 2355 34456667777765 499999999864
No 57
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=95.44 E-value=0.029 Score=50.25 Aligned_cols=48 Identities=21% Similarity=0.259 Sum_probs=38.9
Q ss_pred CcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCC------CCcEEEEEEecceeEEE
Q 012724 121 RPVYVAAVDLSSSE--EFLELTRSALQAALEAVP------SGALFGLATFSHKIGLY 169 (457)
Q Consensus 121 ~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~------~~~~vglItf~~~V~~y 169 (457)
-|+ +|++|+|.+. +.++++..+|+..++.|. +...++|||||+.++++
T Consensus 4 lP~-~lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~ 59 (207)
T COG4245 4 LPC-YLLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVI 59 (207)
T ss_pred CCE-EEEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEE
Confidence 454 5789999986 678899999999988774 35799999999976654
No 58
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=94.66 E-value=1.6 Score=39.93 Aligned_cols=78 Identities=18% Similarity=0.092 Sum_probs=51.3
Q ss_pred HHHHHHHHhhc-cccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHH-HHHHHHcce
Q 012724 250 LAMESLFNYLG-SEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDL-AAVAVQAGV 327 (457)
Q Consensus 250 ~Al~~a~~lL~-~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~l-a~~~~~~~i 327 (457)
.||..|++-|. ..-.. .--||+++.|--|.| .+.+ .++ ++.+.+.||
T Consensus 95 dAi~~av~rl~~~~~a~---~kvvILLTDG~n~~~--~i~P--------------------------~~aAa~lA~~~gV 143 (191)
T cd01455 95 EATEFAIKELAAKEDFD---EAIVIVLSDANLERY--GIQP--------------------------KKLADALAREPNV 143 (191)
T ss_pred HHHHHHHHHHHhcCcCC---CcEEEEEeCCCcCCC--CCCh--------------------------HHHHHHHHHhCCC
Confidence 88999988885 33211 135777777765432 2222 234 456667888
Q ss_pred EEEEeeecCCccCccccccccccCccEEEEeCC
Q 012724 328 CVDIFAITNEYTDLASLKFLSIESGGSLFLYSS 360 (457)
Q Consensus 328 svdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~ 360 (457)
-+..+.++. .|-.++..+++.|||+-|...+
T Consensus 144 ~iytIgiG~--~d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 144 NAFVIFIGS--LSDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred EEEEEEecC--CCHHHHHHHHhCCCCcEEEeCC
Confidence 887776654 3567799999999999777654
No 59
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=94.19 E-value=1 Score=41.44 Aligned_cols=43 Identities=19% Similarity=0.108 Sum_probs=30.6
Q ss_pred EEEEEEECCCChh---------HHHHHHHHHHHHHHhCC--CCcEEEEEEecce
Q 012724 123 VYVAAVDLSSSEE---------FLELTRSALQAALEAVP--SGALFGLATFSHK 165 (457)
Q Consensus 123 ~~vFvID~s~~~~---------~l~~~~~~l~~~l~~l~--~~~~vglItf~~~ 165 (457)
-++|+||.|.+++ .++.+++++...++.+. +..++++++|++.
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~ 57 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGD 57 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCC
Confidence 4789999999863 35777887777666543 2446888888554
No 60
>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=93.86 E-value=4.6 Score=39.25 Aligned_cols=98 Identities=20% Similarity=0.181 Sum_probs=60.7
Q ss_pred cchHHHHHHHHHhhccccC-----CCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHH
Q 012724 246 RGFGLAMESLFNYLGSEYG-----NTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (457)
Q Consensus 246 ~~~G~Al~~a~~lL~~~~~-----~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~ 320 (457)
+.+..||..|+-.+..... +....+||+++.++-+.. . .+--=+-+..-
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~----------~----------------~QYi~~MN~iF 169 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDS----------S----------------SQYIPLMNCIF 169 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCc----------c----------------HHHHHHHHHHH
Confidence 5688888888866643310 011237999964432211 0 01112346678
Q ss_pred HHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHHHHH
Q 012724 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRM 373 (457)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~ 373 (457)
.|.+.+|.||++..+. -+-.-|++.+..|||.-...+.. +.|.+-|-..
T Consensus 170 aAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~~--~~l~q~L~~~ 218 (276)
T PF03850_consen 170 AAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSKP--EGLLQYLLTA 218 (276)
T ss_pred HHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCcc--ccHHHHHHHh
Confidence 8889999999998865 44566899999999996665543 3354544333
No 61
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=93.07 E-value=1.6 Score=42.42 Aligned_cols=96 Identities=17% Similarity=0.198 Sum_probs=64.4
Q ss_pred CcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHH
Q 012724 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQ 324 (457)
Q Consensus 245 ~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~ 324 (457)
...+-.||+.|...|+..-+.. .=.|++..++..|.-||.+ | +..+.+.+
T Consensus 142 ~fSLqNaLe~a~~~Lk~~p~H~--sREVLii~sslsT~DPgdi---------------------------~-~tI~~lk~ 191 (378)
T KOG2807|consen 142 DFSLQNALELAREVLKHMPGHV--SREVLIIFSSLSTCDPGDI---------------------------Y-ETIDKLKA 191 (378)
T ss_pred ChHHHHHHHHHHHHhcCCCccc--ceEEEEEEeeecccCcccH---------------------------H-HHHHHHHh
Confidence 4568889999999998763211 1257777788888877743 2 35567888
Q ss_pred cceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHHHHHhcc
Q 012724 325 AGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSR 376 (457)
Q Consensus 325 ~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~ 376 (457)
..|-|.++..+.+ +..-..||+.|||. |+=..|+..|+ +|.+-.+.
T Consensus 192 ~kIRvsvIgLsaE---v~icK~l~kaT~G~--Y~V~lDe~Hlk-eLl~e~~~ 237 (378)
T KOG2807|consen 192 YKIRVSVIGLSAE---VFICKELCKATGGR--YSVALDEGHLK-ELLLEHTH 237 (378)
T ss_pred hCeEEEEEeechh---HHHHHHHHHhhCCe--EEEEeCHHHHH-HHHHhcCC
Confidence 8999999987665 56678899999993 33234554553 44444433
No 62
>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=92.96 E-value=2.7 Score=45.48 Aligned_cols=73 Identities=12% Similarity=0.145 Sum_probs=43.5
Q ss_pred cchHHHHHHHHHhhccccCCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHc
Q 012724 246 RGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQA 325 (457)
Q Consensus 246 ~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~ 325 (457)
..+..||.+|.+++...+.. +..=||++||+----.+..+ .. ..-=...|.++...
T Consensus 117 ~~l~daL~~~~~~f~~~~~k-~~~kRI~lfTd~D~P~~~~~---------------~~--------~~~a~~~a~dl~~~ 172 (584)
T TIGR00578 117 YSLSEVLWVCANLFSDVQFR-MSHKRIMLFTNEDNPHGNDS---------------AK--------ASRARTKAGDLRDT 172 (584)
T ss_pred CcHHHHHHHHHHHHHhcchh-hcCcEEEEECCCCCCCCCch---------------hH--------HHHHHHHHHHHHhc
Confidence 47899999999999753221 22247999997532221100 00 00002358889999
Q ss_pred ceEEEEeeec-CCccCcc
Q 012724 326 GVCVDIFAIT-NEYTDLA 342 (457)
Q Consensus 326 ~isvdlf~~~-~~~~~l~ 342 (457)
||.+++|..+ .+.+|..
T Consensus 173 gi~ielf~l~~~~~Fd~s 190 (584)
T TIGR00578 173 GIFLDLMHLKKPGGFDIS 190 (584)
T ss_pred CeEEEEEecCCCCCCChh
Confidence 9999998653 2334444
No 63
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=91.92 E-value=7.9 Score=34.89 Aligned_cols=131 Identities=19% Similarity=0.241 Sum_probs=80.1
Q ss_pred EEEEEEECCCCh-------hHHHHHHHHHHHHHH-hCC--CCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCcccc
Q 012724 123 VYVAAVDLSSSE-------EFLELTRSALQAALE-AVP--SGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLS 192 (457)
Q Consensus 123 ~~vFvID~s~~~-------~~l~~~~~~l~~~l~-~l~--~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~ 192 (457)
+.|.+||-|..+ ..+++=++++..+++ +.. +..-||||+.... . + .|
T Consensus 5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a---------~--p-~v----------- 61 (243)
T COG5148 5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQA---------Q--P-NV----------- 61 (243)
T ss_pred eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccC---------C--c-ch-----------
Confidence 568899987754 466777777776664 232 2347888864321 0 0 11
Q ss_pred ccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEE
Q 012724 193 LELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARV 272 (457)
Q Consensus 193 ~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkI 272 (457)
|......+..|...|..++-. ++.-++.+|+.|..+|+..-... .--||
T Consensus 62 ------------lsT~T~~~gkilt~lhd~~~~------------------g~a~~~~~lqiaql~lkhR~nk~-q~qri 110 (243)
T COG5148 62 ------------LSTPTKQRGKILTFLHDIRLH------------------GGADIMRCLQIAQLILKHRDNKG-QRQRI 110 (243)
T ss_pred ------------hccchhhhhHHHHHhcccccc------------------CcchHHHHHHHHHHHHhcccCCc-cceEE
Confidence 111122456667777665432 23448889999999998653210 01599
Q ss_pred EEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeec
Q 012724 273 FAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAIT 335 (457)
Q Consensus 273 i~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~ 335 (457)
++|.++|-. .+ + +-.-.+++.+.++++.+|++-++
T Consensus 111 VaFvgSpi~------es--------------e--------deLirlak~lkknnVAidii~fG 145 (243)
T COG5148 111 VAFVGSPIQ------ES--------------E--------DELIRLAKQLKKNNVAIDIIFFG 145 (243)
T ss_pred EEEecCccc------cc--------------H--------HHHHHHHHHHHhcCeeEEEEehh
Confidence 999998631 11 1 11226899999999999998764
No 64
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=90.70 E-value=7.8 Score=44.68 Aligned_cols=203 Identities=19% Similarity=0.208 Sum_probs=113.3
Q ss_pred ccccEEEEecCC---CCccccCCCCcEEEEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeEEEEccCC
Q 012724 100 ISSFIDLDLPLE---GSEEETMQARPVYVAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIGLYDVQGA 174 (457)
Q Consensus 100 ~~~~ve~~~~~~---~~~~~~~~~~p~~vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~~y~l~~~ 174 (457)
..+++|+-.... |... ...+--.+|++|+|.+. ..+..++..+.++|+.|.++..|-++||++.++.-..
T Consensus 203 ~~~~idl~D~R~r~Wyi~a--At~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~v~p--- 277 (1104)
T KOG2353|consen 203 TDNSIDLYDCRNRSWYIQA--ATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNPVSP--- 277 (1104)
T ss_pred CCCcceeeecccccccccc--cCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCcccc---
Confidence 455666655432 2211 12334589999999984 5677889999999999999999999999997653221
Q ss_pred CcceeeeeeCCCCCccccccccccccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHH
Q 012724 175 IPVVKNVFIPSDTEDTLSLELEDVMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMES 254 (457)
Q Consensus 175 ~~~~~~v~~~~~~~~~v~~dl~~~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~ 254 (457)
... +.++.---..+..|.++++.+... ...-+-.|++.
T Consensus 278 -------------------c~~-----~~lvqAt~~nk~~~~~~i~~l~~k------------------~~a~~~~~~e~ 315 (1104)
T KOG2353|consen 278 -------------------CFN-----GTLVQATMRNKKVFKEAIETLDAK------------------GIANYTAALEY 315 (1104)
T ss_pred -------------------ccc-----CceeecchHHHHHHHHHHhhhccc------------------cccchhhhHHH
Confidence 000 111111122455666677766522 11235667788
Q ss_pred HHHhhccccCCCc------cccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHH--Hcc
Q 012724 255 LFNYLGSEYGNTF------ALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAV--QAG 326 (457)
Q Consensus 255 a~~lL~~~~~~~~------~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~--~~~ 326 (457)
|+++|...+.+++ +.=-|++|+.|.+. .++++-++-. ...
T Consensus 316 aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~~--------------------------------~~~~If~~yn~~~~~ 363 (1104)
T KOG2353|consen 316 AFSLLRDYNDSRANTQRSPCNQAIMLITDGVDE--------------------------------NAKEIFEKYNWPDKK 363 (1104)
T ss_pred HHHHHHHhccccccccccccceeeEEeecCCcc--------------------------------cHHHHHHhhccCCCc
Confidence 8877764332111 01135555555431 1111111111 233
Q ss_pred eEEEEeeecCCccCccccccccccCccEEEEeCCC-CCCcHHHHHHHHhccCccee
Q 012724 327 VCVDIFAITNEYTDLASLKFLSIESGGSLFLYSST-DDSTLPQDIYRMLSRPYAFN 381 (457)
Q Consensus 327 isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~-~~~~l~~dl~~~l~~~~~~~ 381 (457)
|-|=-|+.+.+-.++..+..++=..-|..++-.+. +......+...++.|+.++.
T Consensus 364 Vrvftflig~~~~~~~~~~wmac~n~gyy~~I~~~~~v~~~~~~y~~vlsRp~vl~ 419 (1104)
T KOG2353|consen 364 VRVFTFLIGDEVYDLDEIQWMACANKGYYVHIISIADVRENVLEYLDVLSRPLVLQ 419 (1104)
T ss_pred eEEEEEEecccccccccchhhhhhCCCceEeccchhhcChHhhhhhhhhccceeec
Confidence 33444455666677777777655554544444444 23345566777888887766
No 65
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.55 E-value=18 Score=35.23 Aligned_cols=99 Identities=14% Similarity=0.122 Sum_probs=61.5
Q ss_pred cchHHHHHHHHHhhcccc----CCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHH
Q 012724 246 RGFGLAMESLFNYLGSEY----GNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAV 321 (457)
Q Consensus 246 ~~~G~Al~~a~~lL~~~~----~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~ 321 (457)
..+..||..|+-.+.... .....-+||+++..++- ... +-.=+-+....
T Consensus 119 s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~-----------~~~----------------qYi~~mn~Ifa 171 (279)
T TIGR00627 119 TVLAGALSDALGYINRSEQSETASEKLKSRILVISITPD-----------MAL----------------QYIPLMNCIFS 171 (279)
T ss_pred ccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCC-----------chH----------------HHHHHHHHHHH
Confidence 457778888877764321 01112379999987531 110 11112377889
Q ss_pred HHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCCCCcHHHHHHHHh
Q 012724 322 AVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRML 374 (457)
Q Consensus 322 ~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l 374 (457)
|.+.+|.||++..+.+ -+..-++++++.|||...... +...|.+-|...+
T Consensus 172 aqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~--~~~~L~q~L~~~~ 221 (279)
T TIGR00627 172 AQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVK--KPQGLLQYLMTNM 221 (279)
T ss_pred HHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccC--CHhHHHHHHHHhc
Confidence 9999999999988543 357779999999999643333 3334555554444
No 66
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=87.85 E-value=37 Score=35.24 Aligned_cols=266 Identities=17% Similarity=0.169 Sum_probs=119.2
Q ss_pred CcE-EEEEEECCCCh-hHHH---HHHHHHHHHHHhCCCCcEEEEEEecce-eEEEEccCCCcceeeeeeCCCCCcccccc
Q 012724 121 RPV-YVAAVDLSSSE-EFLE---LTRSALQAALEAVPSGALFGLATFSHK-IGLYDVQGAIPVVKNVFIPSDTEDTLSLE 194 (457)
Q Consensus 121 ~p~-~vFvID~s~~~-~~l~---~~~~~l~~~l~~l~~~~~vglItf~~~-V~~y~l~~~~~~~~~v~~~~~~~~~v~~d 194 (457)
-|+ ..|++|+|.++ ..++ .+...|...|..+-.+.|+||=+|=+. |. .+... ....
T Consensus 101 yPvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~--P~~~~----------------~p~~ 162 (426)
T PF00362_consen 101 YPVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVM--PFVST----------------TPEK 162 (426)
T ss_dssp --EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSST--TTST-----------------SSHC
T ss_pred cceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhcccccC--CcccC----------------Chhh
Confidence 344 78999999986 3333 445677788888889999999888443 21 11000 0011
Q ss_pred cccc--------c-ccc-ccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHH--Hhhccc
Q 012724 195 LEDV--------M-PLS-QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLF--NYLGSE 262 (457)
Q Consensus 195 l~~~--------~-p~~-~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~--~lL~~~ 262 (457)
+.++ . |+. .-..++.+....+.+.+++..- +++. | .+...|=+-+++|+ +.+. .
T Consensus 163 l~~pc~~~~~~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~i--s~n~--------D---~PEgg~dal~Qa~vC~~~ig-W 228 (426)
T PF00362_consen 163 LKNPCPSKNPNCQPPFSFRHVLSLTDDITEFNEEVNKQKI--SGNL--------D---APEGGLDALMQAAVCQEEIG-W 228 (426)
T ss_dssp HHSTSCCTTS--B---SEEEEEEEES-HHHHHHHHHTS----B--S--------S---SSBSHHHHHHHHHH-HHHHT--
T ss_pred hcCcccccCCCCCCCeeeEEeecccchHHHHHHhhhhccc--cCCC--------C---CCccccchheeeeecccccC-c
Confidence 1111 1 110 1123555566666777765432 1221 1 14456666777765 2222 1
Q ss_pred cCCCccccEEEEEecCCC--CCCCCccccccccCccCCCCccccccCC---CcchHHHHHHHHHHHHcceEEEEeeecCC
Q 012724 263 YGNTFALARVFAFLSGPP--DHGAGQLDTRRYGEQYASKGEDADRALL---PEQTPFYKDLAAVAVQAGVCVDIFAITNE 337 (457)
Q Consensus 263 ~~~~~~~gkIi~f~~g~p--t~GpG~l~~~~~~~~~~~~~~~~~~~~~---~~~~~fY~~la~~~~~~~isvdlf~~~~~ 337 (457)
.. ..-||++|++-.+ ..|-|++..--..+....|-.+. ..|. ...-.-..+|.+.+.+++|.+ ||+.+..
T Consensus 229 r~---~a~~llv~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~-~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~ 303 (426)
T PF00362_consen 229 RN---EARRLLVFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDN-GMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKD 303 (426)
T ss_dssp -S---TSEEEEEEEESS-B--TTGGGGGT--S---SS--BSTT-SBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGG
T ss_pred cc---CceEEEEEEcCCccccccccccceeeecCCCceEECCC-CcccccccccCCCHHHHHHHHHHcCCEE-EEEEchh
Confidence 11 1248888887554 45777765433322222221111 0111 112334567888888888764 7877776
Q ss_pred ccCccccccccccC-ccEEEEeCCCCCC---cHHHHHHHHhccCcceeeEEEEEc-CCCeeEeEeeeccccCCCCCCceE
Q 012724 338 YTDLASLKFLSIES-GGSLFLYSSTDDS---TLPQDIYRMLSRPYAFNCIMRLRT-SSEFKPGHSYGHFFPDPQYENVQH 412 (457)
Q Consensus 338 ~~~l~~l~~l~~~T-GG~v~~~~~~~~~---~l~~dl~~~l~~~~~~~~~lrvR~-S~gl~i~~~~G~~~~~~~~~~~~~ 412 (457)
..++. ..|+..- |+.+-.... +.+ .+..+-+..+.+ .+.|+... ++++++ .+..+|.........-.
T Consensus 304 ~~~~Y--~~L~~~i~~s~vg~L~~-dSsNIv~LI~~aY~~i~s----~V~L~~~~~p~~v~v-~y~s~C~~~~~~~~~~~ 375 (426)
T PF00362_consen 304 VYSIY--EELSNLIPGSSVGELSS-DSSNIVQLIKEAYNKISS----KVELKHDNAPDGVKV-SYTSNCPNGSTVPGTNE 375 (426)
T ss_dssp GHHHH--HHHHHHSTTEEEEEEST-TSHTHHHHHHHHHHHHCT----EEEEEECS--TTEEE-EEEEEESSSEEEECCEE
T ss_pred hhhHH--HHHhhcCCCceeccccc-CchhHHHHHHHHHHHHhh----eEEEEecCCCCcEEE-EEEEEccCCcccCcCcc
Confidence 55533 3333332 444433332 222 233444444433 34444222 345655 44444443211111122
Q ss_pred EeeeCCCceEEEEEEEecC
Q 012724 413 IICCDSYATYAYDFDFANA 431 (457)
Q Consensus 413 ~~~~~~~~s~~~~~~~~~~ 431 (457)
...+...+++.|.+.+...
T Consensus 376 C~~V~iG~~V~F~VtVta~ 394 (426)
T PF00362_consen 376 CSNVKIGDTVTFNVTVTAK 394 (426)
T ss_dssp ECSE-TT-EEEEEEEEEES
T ss_pred ccCEecCCEEEEEEEEEEe
Confidence 3345556666666666543
No 67
>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=86.67 E-value=41 Score=34.60 Aligned_cols=272 Identities=17% Similarity=0.167 Sum_probs=126.7
Q ss_pred cE-EEEEEECCCCh----hHHHHHHHHHHHHHHhCCCCcEEEEEEe-cceeEEEEccCCCcceeeeeeCCCCCccccccc
Q 012724 122 PV-YVAAVDLSSSE----EFLELTRSALQAALEAVPSGALFGLATF-SHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLEL 195 (457)
Q Consensus 122 p~-~vFvID~s~~~----~~l~~~~~~l~~~l~~l~~~~~vglItf-~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl 195 (457)
|+ ..|+.|+|.++ ..|+.+...|...|..+-.+.|+||=+| |+.|.=|-...+. ...-| -...
T Consensus 99 PvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~----~l~~P-------C~~~ 167 (423)
T smart00187 99 PVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPE----KLENP-------CPNY 167 (423)
T ss_pred ccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHH----HhcCC-------CcCC
Confidence 44 78999999996 3344555666667777888999999888 4434222211000 00000 0000
Q ss_pred -cccc-ccc-ccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEE
Q 012724 196 -EDVM-PLS-QFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARV 272 (457)
Q Consensus 196 -~~~~-p~~-~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkI 272 (457)
..-. |++ .-..++.+....+.+.+...+-. .+ .+ .+...+-+-+++|+-- +..|=. ...-|+
T Consensus 168 ~~~c~p~f~f~~~L~LT~~~~~F~~~V~~~~iS--gN--------~D---~PEgG~DAimQaaVC~-~~IGWR-~~a~rl 232 (423)
T smart00187 168 NLTCEPPYGFKHVLSLTDDTDEFNEEVKKQRIS--GN--------LD---APEGGFDAIMQAAVCT-EQIGWR-EDARRL 232 (423)
T ss_pred CCCcCCCcceeeeccCCCCHHHHHHHHhhceee--cC--------Cc---CCcccHHHHHHHHhhc-cccccC-CCceEE
Confidence 0001 111 11345665556666666654332 11 11 1445676777777411 112200 012489
Q ss_pred EEEecCCCC--CCCCcccc---ccccC-ccCCCCc-cccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccc
Q 012724 273 FAFLSGPPD--HGAGQLDT---RRYGE-QYASKGE-DADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLK 345 (457)
Q Consensus 273 i~f~~g~pt--~GpG~l~~---~~~~~-~~~~~~~-~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~ 345 (457)
++|++-.+- -|-|+|.. +.+++ ++...+. .....+ .-.--.+|++++.+++|-+ ||+.+..+.++. .
T Consensus 233 lv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~Yt~s~~~---DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y--~ 306 (423)
T smart00187 233 LVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNGEYTMSTTQ---DYPSIGQLNQKLAENNINP-IFAVTKKQVSLY--K 306 (423)
T ss_pred EEEEcCCCccccCCcceeeEecCCCCcceeCCCCCcCccCcC---CCCCHHHHHHHHHhcCceE-EEEEcccchhHH--H
Confidence 998876553 37777643 22222 1211110 000000 0112357888899888864 788877776654 3
Q ss_pred cccccCccEEEEeCCCCCCc---HHHHHHHHhccCcceeeEEEEEc-CCCeeEeEeeeccccCCCCCCceEEeeeCCCce
Q 012724 346 FLSIESGGSLFLYSSTDDST---LPQDIYRMLSRPYAFNCIMRLRT-SSEFKPGHSYGHFFPDPQYENVQHIICCDSYAT 421 (457)
Q Consensus 346 ~l~~~TGG~v~~~~~~~~~~---l~~dl~~~l~~~~~~~~~lrvR~-S~gl~i~~~~G~~~~~~~~~~~~~~~~~~~~~s 421 (457)
.|+.+-.|...=-=+-|.+. |..|-+..+. -.++|+... +.+++++-. -.|.........-....+.-...
T Consensus 307 ~Ls~lipgs~vg~Ls~DSsNIv~LI~~aY~~i~----S~V~l~~~~~p~~v~~~y~-s~C~~g~~~~~~~~C~~v~iG~~ 381 (423)
T smart00187 307 ELSALIPGSSVGVLSEDSSNVVELIKDAYNKIS----SRVELEDNSLPEGVSVTYT-SSCPGGVVGPGTRKCEGVKIGDT 381 (423)
T ss_pred HHHHhcCcceeeecccCcchHHHHHHHHHHhhc----eEEEEecCCCCCcEEEEEE-eeCCCCCcccCCcccCCcccCCE
Confidence 34433333321111122222 3333333332 345555553 557766533 23322110011112334455566
Q ss_pred EEEEEEEec
Q 012724 422 YAYDFDFAN 430 (457)
Q Consensus 422 ~~~~~~~~~ 430 (457)
+.|..++.-
T Consensus 382 V~F~v~vta 390 (423)
T smart00187 382 VSFEVTVTA 390 (423)
T ss_pred EEEEEEEEe
Confidence 666666653
No 68
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=85.18 E-value=5.5 Score=41.10 Aligned_cols=149 Identities=18% Similarity=0.149 Sum_probs=85.1
Q ss_pred CcEEEEEEECCCCh-hHHHHHHHHHHHHHH--hCCCCcEEEEEEecceeEEEEccCCCcceeeeeeCCCCCccccccccc
Q 012724 121 RPVYVAAVDLSSSE-EFLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDVQGAIPVVKNVFIPSDTEDTLSLELED 197 (457)
Q Consensus 121 ~p~~vFvID~s~~~-~~l~~~~~~l~~~l~--~l~~~~~vglItf~~~V~~y~l~~~~~~~~~v~~~~~~~~~v~~dl~~ 197 (457)
.| ++.+||.|.++ |.-+....|+..+|- .+-+|.++.++.||+.++=|.+.++
T Consensus 273 Gp-villlD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k----------------------- 328 (437)
T COG2425 273 GP-VILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEK----------------------- 328 (437)
T ss_pred CC-EEEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCC-----------------------
Confidence 44 67799999996 555544445555443 4678889999999994332222211
Q ss_pred cccccccccchHhHHHHHHHHHHhcCCCCCcccccccccCCCCcccCCcchHHHHHHHHHhhccccCCCccccEEEEEec
Q 012724 198 VMPLSQFLAPVETFKENITSALETLRPTTSWERTAGAAQGLDGVLMGGRGFGLAMESLFNYLGSEYGNTFALARVFAFLS 277 (457)
Q Consensus 198 ~~p~~~~l~~~~~~~~~i~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~ 277 (457)
..+ +.++++.|...+. .++-+-.||..|++.++...- ..+.|++.|+
T Consensus 329 ----------~~~----~~e~i~fL~~~f~----------------GGTD~~~~l~~al~~~k~~~~---~~adiv~ITD 375 (437)
T COG2425 329 ----------KID----IEELIEFLSYVFG----------------GGTDITKALRSALEDLKSREL---FKADIVVITD 375 (437)
T ss_pred ----------ccC----HHHHHHHHhhhcC----------------CCCChHHHHHHHHHHhhcccc---cCCCEEEEec
Confidence 001 1233444433321 235688899999999885432 1379999999
Q ss_pred CCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEE
Q 012724 278 GPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (457)
Q Consensus 278 g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (457)
|-.-. . ..|-.+..+.......=+.-++++... -+++..++..+ ++.
T Consensus 376 g~~~~---------------------------~-~~~~~~v~e~~k~~~~rl~aV~I~~~~--~~~l~~Isd~~---i~~ 422 (437)
T COG2425 376 GEDER---------------------------L-DDFLRKVKELKKRRNARLHAVLIGGYG--KPGLMRISDHI---IYR 422 (437)
T ss_pred cHhhh---------------------------h-hHHHHHHHHHHHHhhceEEEEEecCCC--Ccccceeeeee---EEe
Confidence 84310 1 345556666665566666665554433 23344444443 444
Q ss_pred eC
Q 012724 358 YS 359 (457)
Q Consensus 358 ~~ 359 (457)
++
T Consensus 423 ~~ 424 (437)
T COG2425 423 VE 424 (437)
T ss_pred eC
Confidence 44
No 69
>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=84.25 E-value=35 Score=31.59 Aligned_cols=103 Identities=20% Similarity=0.243 Sum_probs=57.6
Q ss_pred CcchHHHHHHHHHhhccccCCCccccEEEEEe--cCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHHHH
Q 012724 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFL--SGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAAVA 322 (457)
Q Consensus 245 ~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~--~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~ 322 (457)
.++.|.||..+..+|...+. .+.|-++=. .|+.|.|+.-. +..-..+
T Consensus 94 ~Taig~Al~~a~~ll~~~~~---~~~RrVIDvSGDG~~N~G~~p~----------------------------~~ard~~ 142 (205)
T PF06707_consen 94 RTAIGSALDFAAALLAQNPF---ECWRRVIDVSGDGPNNQGPRPV----------------------------TSARDAA 142 (205)
T ss_pred CchHHHHHHHHHHHHHhCCC---CCceEEEEECCCCCCCCCCCcc----------------------------HHHHHHH
Confidence 38999999999999986542 123444444 35666665322 1122345
Q ss_pred HHcceEEEEeeecCCcc----CccccccccccCccEEEEeCCCCCCcHHHHHHHHhccCc
Q 012724 323 VQAGVCVDIFAITNEYT----DLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSRPY 378 (457)
Q Consensus 323 ~~~~isvdlf~~~~~~~----~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~~~ 378 (457)
...||.|+=+.+....- ++...-.=+=..|-.-|..+.-+.+.|.+-|+|-|.+|.
T Consensus 143 ~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~df~~AirrKL~rEi 202 (205)
T PF06707_consen 143 VAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFEDFAEAIRRKLIREI 202 (205)
T ss_pred HHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHHHHHHHHHHHHHHHh
Confidence 56899999988765543 333322211122222233333334457777777776653
No 70
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=84.00 E-value=3.1 Score=35.36 Aligned_cols=41 Identities=27% Similarity=0.222 Sum_probs=31.0
Q ss_pred EEEEECCCCh--hHHHHHHHHHHHHHHhCCCCcEEEEEEecceeE
Q 012724 125 VAAVDLSSSE--EFLELTRSALQAALEAVPSGALFGLATFSHKIG 167 (457)
Q Consensus 125 vFvID~s~~~--~~l~~~~~~l~~~l~~l~~~~~vglItf~~~V~ 167 (457)
+++||+|.+. +.|+...+-+...++.. +.+|-+|.||..|+
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~ 44 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQ 44 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEee
Confidence 6899999984 56666666666666666 55688999999875
No 71
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=83.76 E-value=0.57 Score=33.50 Aligned_cols=34 Identities=24% Similarity=0.617 Sum_probs=23.8
Q ss_pred CCCCCCCcCcceEEecCce--EeCceEEEccCCCCC
Q 012724 47 GHMLPRCENCYAYFNTYCE--LEQWAWTCSLCGSLN 80 (457)
Q Consensus 47 ~~~p~RC~~C~aYiNp~~~--~~~~~w~C~~C~~~N 80 (457)
+..++-|++|+.----+-+ +..-+|+|+.|+..|
T Consensus 19 ~r~aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 19 NRYALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred CceeEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 3456779999985433322 233699999999987
No 72
>PRK10997 yieM hypothetical protein; Provisional
Probab=83.65 E-value=12 Score=39.39 Aligned_cols=49 Identities=27% Similarity=0.309 Sum_probs=32.3
Q ss_pred EEEEEEECCCChh-HHHHHHHHHHHHHH--hCCCCcEEEEEEecceeEEEEc
Q 012724 123 VYVAAVDLSSSEE-FLELTRSALQAALE--AVPSGALFGLATFSHKIGLYDV 171 (457)
Q Consensus 123 ~~vFvID~s~~~~-~l~~~~~~l~~~l~--~l~~~~~vglItf~~~V~~y~l 171 (457)
-++++||+|.+.. .-+....++..++- .+.++.++++|.|++.+.-|.+
T Consensus 325 piII~VDtSGSM~G~ke~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~~l 376 (487)
T PRK10997 325 PFIVCVDTSGSMGGFNEQCAKAFCLALMRIALAENRRCYIMLFSTEVVTYEL 376 (487)
T ss_pred cEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEEecCCceeecc
Confidence 4799999999863 32222233434332 4567789999999997765543
No 73
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=83.13 E-value=3.4 Score=43.52 Aligned_cols=47 Identities=15% Similarity=0.259 Sum_probs=30.1
Q ss_pred ccCccccccccccCccEEEEeCCCCCCcHHHHHHHHhccCcceeeEEEEE
Q 012724 338 YTDLASLKFLSIESGGSLFLYSSTDDSTLPQDIYRMLSRPYAFNCIMRLR 387 (457)
Q Consensus 338 ~~~l~~l~~l~~~TGG~v~~~~~~~~~~l~~dl~~~l~~~~~~~~~lrvR 387 (457)
.+|-..+..+|+.|||+-|..- ....+.+.|..++.+ .-|.++++.-
T Consensus 191 p~Dds~IermCevTGGRSysV~--Spr~lnqciesLvqk-vQ~gVvv~FE 237 (888)
T KOG3768|consen 191 PIDDSVIERMCEVTGGRSYSVV--SPRQLNQCIESLVQK-VQYGVVVRFE 237 (888)
T ss_pred CCCchhhHHhhhhcCCceeeee--CHHHHHHHHHHHHHh-hccCeEEEee
Confidence 3566779999999999976553 334466666555554 3444555443
No 74
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=81.19 E-value=53 Score=31.54 Aligned_cols=45 Identities=16% Similarity=0.252 Sum_probs=35.7
Q ss_pred HHHHHHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCC
Q 012724 315 YKDLAAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD 362 (457)
Q Consensus 315 Y~~la~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~ 362 (457)
|-+.--.+.+++|.||++....+ -..|.+.|..|||.....+.-+
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~~ 229 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKPD 229 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCcc
Confidence 34667788899999999998776 3458999999999977766443
No 75
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=80.08 E-value=1 Score=30.90 Aligned_cols=28 Identities=21% Similarity=0.419 Sum_probs=20.1
Q ss_pred CCCCcCcceEEecCceEeC--ceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~N~ 81 (457)
..+|.+|++-+- ++. ..+.|+.||....
T Consensus 3 ~y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVE----LDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEE----ECCCCCceECCCCCCeEE
Confidence 368999999542 232 2799999997654
No 76
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=77.76 E-value=1.7 Score=27.25 Aligned_cols=30 Identities=20% Similarity=0.399 Sum_probs=20.0
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v 82 (457)
++|..|+.-+--- .....++|.+|+..|.+
T Consensus 2 ~~C~~C~t~L~yP--~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 2 VVCGGCRTLLMYP--RGASSVRCALCQTVNLV 31 (31)
T ss_pred cCcCCCCcEeecC--CCCCeEECCCCCeEecC
Confidence 5788888865110 11268999999887753
No 77
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=75.73 E-value=0.56 Score=34.92 Aligned_cols=30 Identities=27% Similarity=0.684 Sum_probs=19.1
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~ 83 (457)
+.|| +|+.|+ |.+-....-+| .||....+.
T Consensus 3 ifrC-~Cgr~l--ya~e~~kTkkC-~CG~~l~vk 32 (68)
T PF09082_consen 3 IFRC-DCGRYL--YAKEGAKTKKC-VCGKTLKVK 32 (68)
T ss_dssp EEEE-TTS--E--EEETT-SEEEE-TTTEEEE--
T ss_pred EEEe-cCCCEE--EecCCcceeEe-cCCCeeeee
Confidence 5799 799987 33333478899 999887765
No 78
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=68.26 E-value=2.3 Score=25.47 Aligned_cols=23 Identities=26% Similarity=0.504 Sum_probs=15.6
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
+|..|++-++--.+ .|+.||+..
T Consensus 2 ~CP~C~~~V~~~~~------~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAK------FCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcC------cCCCCCCCC
Confidence 57788876644333 788888753
No 79
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=67.77 E-value=4.4 Score=26.32 Aligned_cols=28 Identities=18% Similarity=0.432 Sum_probs=22.6
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
..+|..|++. +...+++.|.|.=||+.-
T Consensus 8 ~~~C~~C~~~---~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 8 NEPCPVCGSR---WFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred CCcCCCCCCe---EeEccCCEEEhhhCceEc
Confidence 3579999998 556667999999999853
No 80
>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=67.18 E-value=12 Score=34.84 Aligned_cols=67 Identities=12% Similarity=0.133 Sum_probs=37.1
Q ss_pred CcchHHHHHHHHHhhccc-cCCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHH-HHHHH
Q 012724 245 GRGFGLAMESLFNYLGSE-YGNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKD-LAAVA 322 (457)
Q Consensus 245 ~~~~G~Al~~a~~lL~~~-~~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~-la~~~ 322 (457)
...+..||.+|..++... +......-||++||..--..+ ..+. . ..-.++ .+..+
T Consensus 104 ~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~-----~~~~----------~--------~~~~~~l~~~Dl 160 (224)
T PF03731_consen 104 EGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHE-----DDDE----------L--------ERIIQKLKAKDL 160 (224)
T ss_dssp ---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT------CCC----------H--------HHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCC-----CHHH----------H--------HHHHHhhccccc
Confidence 356889999999999752 222222358888886531111 0000 0 011111 27778
Q ss_pred HHcceEEEEeee
Q 012724 323 VQAGVCVDIFAI 334 (457)
Q Consensus 323 ~~~~isvdlf~~ 334 (457)
...+|.+++|..
T Consensus 161 ~~~~i~~~~~~l 172 (224)
T PF03731_consen 161 QDNGIEIELFFL 172 (224)
T ss_dssp HHHTEEEEEEEC
T ss_pred hhcCcceeEeec
Confidence 899999999976
No 81
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=63.49 E-value=1.8 Score=30.21 Aligned_cols=34 Identities=21% Similarity=0.480 Sum_probs=23.9
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~ 83 (457)
-+||.+|+-.+--.-.+..-.-+|+=|++.|.+.
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN~~~ 37 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTINHVR 37 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccceEe
Confidence 3799999876633222233468999999999874
No 82
>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=63.30 E-value=18 Score=33.86 Aligned_cols=33 Identities=18% Similarity=0.282 Sum_probs=21.9
Q ss_pred CCcchHHHHHHHHHhhccccCCCccccEEEEEecCC
Q 012724 244 GGRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGP 279 (457)
Q Consensus 244 ~~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~ 279 (457)
.++.+|.||..+.+.+.... .....|+++.+|.
T Consensus 128 GgTdi~~aL~~~~~~~~~~~---~~~t~vvIiSDg~ 160 (222)
T PF05762_consen 128 GGTDIGQALREFLRQYARPD---LRRTTVVIISDGW 160 (222)
T ss_pred CccHHHHHHHHHHHHhhccc---ccCcEEEEEeccc
Confidence 45678999999888776321 0124788888774
No 83
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=62.79 E-value=4.5 Score=28.24 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=21.4
Q ss_pred CCcCcceEEecCceEeC-ceEEEccCCCCCCCC
Q 012724 52 RCENCYAYFNTYCELEQ-WAWTCSLCGSLNGLS 83 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~-~~w~C~~C~~~N~v~ 83 (457)
.|..|+..+-+- ..++ ..|+|+-||+.-.+.
T Consensus 2 FCp~Cg~~l~~~-~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK-EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc-cCCCCCEEECCcCCCeEECC
Confidence 589999966222 1223 489999999876554
No 84
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=62.16 E-value=4.5 Score=25.60 Aligned_cols=23 Identities=26% Similarity=0.875 Sum_probs=13.5
Q ss_pred CCcCcceEEecCceEeCceEEEccCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~ 78 (457)
+|..|+=...+- ..-|.|+.|+.
T Consensus 3 ~C~~CGy~y~~~----~~~~~CP~Cg~ 25 (33)
T cd00350 3 VCPVCGYIYDGE----EAPWVCPVCGA 25 (33)
T ss_pred ECCCCCCEECCC----cCCCcCcCCCC
Confidence 566676332221 15688888876
No 85
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=61.23 E-value=3.7 Score=28.83 Aligned_cols=27 Identities=26% Similarity=0.775 Sum_probs=17.8
Q ss_pred CCcCcceEEecCc-----------eEe--CceEEEccCCC
Q 012724 52 RCENCYAYFNTYC-----------ELE--QWAWTCSLCGS 78 (457)
Q Consensus 52 RC~~C~aYiNp~~-----------~~~--~~~w~C~~C~~ 78 (457)
+|..|+=..+|-- .|+ ...|+|+.|+.
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCC
Confidence 6888886666542 233 25789999985
No 86
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=58.51 E-value=7.8 Score=31.68 Aligned_cols=29 Identities=24% Similarity=0.484 Sum_probs=21.2
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
.|.|.+|.+ -|.--++..|+|+-|++.-.
T Consensus 2 lp~CP~C~s---eytY~dg~~~iCpeC~~EW~ 30 (109)
T TIGR00686 2 LPPCPKCNS---EYTYHDGTQLICPSCLYEWN 30 (109)
T ss_pred CCcCCcCCC---cceEecCCeeECcccccccc
Confidence 477888886 23444667899999998653
No 87
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=57.25 E-value=9.3 Score=26.13 Aligned_cols=26 Identities=19% Similarity=0.496 Sum_probs=19.2
Q ss_pred CCCcCcceEEecCceEe-CceEEEccCCC
Q 012724 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~-~~~w~C~~C~~ 78 (457)
+.|.+|++- . +..+. .+.|.|.-|++
T Consensus 19 ~~CP~Cg~~-~-~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST-K-HYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe-e-eEEeCCCCeEECCCCCC
Confidence 669999986 2 33333 48999999986
No 88
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=56.91 E-value=4.9 Score=23.26 Aligned_cols=21 Identities=33% Similarity=0.751 Sum_probs=10.7
Q ss_pred CCcCcceEEecCceEeCceEEEccCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~ 78 (457)
+|.+|++-+..-.+ .|+-||+
T Consensus 1 ~Cp~CG~~~~~~~~------fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAK------FCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCc------chhhhCC
Confidence 46666665443333 2555654
No 89
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=56.33 E-value=6.8 Score=32.84 Aligned_cols=31 Identities=19% Similarity=0.510 Sum_probs=25.7
Q ss_pred CCCCcCcceEEecCceEeC---ceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQ---WAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~---~~w~C~~C~~~N 80 (457)
...|..|+-.+..-|.... ..|.|++|....
T Consensus 71 ~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 71 GRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQR 104 (118)
T ss_dssp CEEETTTTEEEETTSEEETSSSCCEEEHHHHHHH
T ss_pred CCcCCcCCccccCccCCcCCCCCCEEChhhHHHH
Confidence 3789999999999998873 689999997644
No 90
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=56.22 E-value=4.4 Score=28.05 Aligned_cols=28 Identities=25% Similarity=0.731 Sum_probs=15.6
Q ss_pred CCcCcceEEecCce-----------EeC--ceEEEccCCCC
Q 012724 52 RCENCYAYFNTYCE-----------LEQ--WAWTCSLCGSL 79 (457)
Q Consensus 52 RC~~C~aYiNp~~~-----------~~~--~~w~C~~C~~~ 79 (457)
+|..|+-..+|--- |+. ..|+|+.|+..
T Consensus 3 ~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 3 QCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred CCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 57777765555442 332 57888888753
No 91
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=55.58 E-value=5 Score=33.50 Aligned_cols=27 Identities=22% Similarity=0.493 Sum_probs=19.7
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
-.||.+|+....+ ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~----~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP----EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec----CCcCccCcCCcCCC
Confidence 4699999954432 23468999999876
No 92
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=55.21 E-value=5 Score=33.41 Aligned_cols=28 Identities=18% Similarity=0.366 Sum_probs=19.4
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
-.||..|+.... .....|.|+-||..+.
T Consensus 70 ~~~C~~Cg~~~~----~~~~~~~CP~Cgs~~~ 97 (113)
T PRK12380 70 QAWCWDCSQVVE----IHQHDAQCPHCHGERL 97 (113)
T ss_pred EEEcccCCCEEe----cCCcCccCcCCCCCCc
Confidence 469999995332 2235678999997653
No 93
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=52.07 E-value=22 Score=34.91 Aligned_cols=30 Identities=30% Similarity=0.439 Sum_probs=26.9
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEecc
Q 012724 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (457)
Q Consensus 135 ~~l~~~~~~l~~~l~~l~~~~~vglItf~~ 164 (457)
.+|+.++++|.++++.|.++-|+++|||-+
T Consensus 218 dEL~~L~~~L~~a~~~L~~gGRl~VIsFHS 247 (314)
T COG0275 218 DELEELEEALEAALDLLKPGGRLAVISFHS 247 (314)
T ss_pred hHHHHHHHHHHHHHHhhCCCcEEEEEEecc
Confidence 578889999999999999999999998854
No 94
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=52.00 E-value=12 Score=23.77 Aligned_cols=30 Identities=27% Similarity=0.396 Sum_probs=20.4
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
.+.+|..|++-. -..-++...+|.+|+...
T Consensus 2 ~~~~C~~C~~~~--i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 2 NLKKCSKCGGNG--IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred CceEcCCCCCCe--EEEecCCeEEcccCCcEe
Confidence 357899999854 111234689999999764
No 95
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=51.58 E-value=8.6 Score=34.74 Aligned_cols=25 Identities=28% Similarity=0.608 Sum_probs=20.3
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
.||++|++-|= .++++.+|+-||..
T Consensus 150 A~CsrC~~~L~----~~~~~l~Cp~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLV----KKGNMLKCPNCGNT 174 (188)
T ss_pred EEccCCCcceE----EcCcEEECCCCCCE
Confidence 58999999762 26789999999963
No 96
>PHA00626 hypothetical protein
Probab=50.56 E-value=12 Score=26.71 Aligned_cols=30 Identities=17% Similarity=0.278 Sum_probs=19.9
Q ss_pred CcCcce---EEecCceEeCceEEEccCCCCCCC
Q 012724 53 CENCYA---YFNTYCELEQWAWTCSLCGSLNGL 82 (457)
Q Consensus 53 C~~C~a---YiNp~~~~~~~~w~C~~C~~~N~v 82 (457)
|.+|+. +-|..|+-..+.++|+-||....-
T Consensus 3 CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~ 35 (59)
T PHA00626 3 CPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSK 35 (59)
T ss_pred CCCCCCceeeeeceecccCcceEcCCCCCeech
Confidence 666665 333344444578999999987754
No 97
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=50.29 E-value=23 Score=39.27 Aligned_cols=113 Identities=16% Similarity=0.239 Sum_probs=63.9
Q ss_pred CCCcCcceEE-ecCceE--e----CceEEEccCCCCCCCChhhhcccCCCCCccccccccEEEEecCCC-C---ccccCC
Q 012724 51 PRCENCYAYF-NTYCEL--E----QWAWTCSLCGSLNGLSSQAIARYTHPQSCAEMISSFIDLDLPLEG-S---EEETMQ 119 (457)
Q Consensus 51 ~RC~~C~aYi-Np~~~~--~----~~~w~C~~C~~~N~v~~~y~~~~~~~~~~pEL~~~~ve~~~~~~~-~---~~~~~~ 119 (457)
..|++|+-.+ +|.|.. . .+.-.|..||+.-.+|.. .|+-.+...-+..+..- . .+.--+
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~----------Cp~Cgs~~L~~~G~GterieeeL~~~FP 505 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQS----------CPECGSEHLRAVGPGTERIEEELKRLFP 505 (730)
T ss_pred eecccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCC----------CCCCCCCeeEEecccHHHHHHHHHHHCC
Confidence 4566666543 344432 1 379999999999877743 45533333333332210 0 011135
Q ss_pred CCcEEEEEEECCCChhHHHHHHHHHHHH----------H---HhCCCCcEEEEEEecceeEEEEccC
Q 012724 120 ARPVYVAAVDLSSSEEFLELTRSALQAA----------L---EAVPSGALFGLATFSHKIGLYDVQG 173 (457)
Q Consensus 120 ~~p~~vFvID~s~~~~~l~~~~~~l~~~----------l---~~l~~~~~vglItf~~~V~~y~l~~ 173 (457)
..+++.|--|+....+.++.+...+..- | ..+|.=+.|||+-=|..+..-|++.
T Consensus 506 ~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA 572 (730)
T COG1198 506 GARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRA 572 (730)
T ss_pred CCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcch
Confidence 6788888888888766555544433321 1 1234456788887777776666654
No 98
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=49.08 E-value=6.4 Score=32.82 Aligned_cols=28 Identities=25% Similarity=0.408 Sum_probs=19.1
Q ss_pred CCCCcCcceEEecCceEeC-ceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQ-WAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~-~~w~C~~C~~~N~ 81 (457)
-.||.+|+.+.. ... ..|.|+-||..+.
T Consensus 70 ~~~C~~Cg~~~~----~~~~~~~~CP~Cgs~~~ 98 (114)
T PRK03681 70 ECWCETCQQYVT----LLTQRVRRCPQCHGDML 98 (114)
T ss_pred EEEcccCCCeee----cCCccCCcCcCcCCCCc
Confidence 468999996432 222 3488999997763
No 99
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=47.84 E-value=6.9 Score=32.78 Aligned_cols=29 Identities=24% Similarity=0.455 Sum_probs=18.8
Q ss_pred CCCCCcCcceEEecCceEeCc-eEEEccCCCCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQW-AWTCSLCGSLNG 81 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~-~w~C~~C~~~N~ 81 (457)
...||.+|+.+. ..+.. .+.|+-||..+.
T Consensus 70 ~~~~C~~Cg~~~----~~~~~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 70 VELECKDCSHVF----KPNALDYGVCEKCHSKNV 99 (117)
T ss_pred CEEEhhhCCCcc----ccCCccCCcCcCCCCCce
Confidence 346999999432 22233 345999998763
No 100
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=47.53 E-value=12 Score=27.75 Aligned_cols=29 Identities=21% Similarity=0.377 Sum_probs=22.0
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
--.|..|+...-. ....+.|.|+-||..-
T Consensus 28 Sq~C~~CG~~~~~--~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 28 SQTCPRCGHRNKK--RRSGRVFTCPNCGFEM 56 (69)
T ss_pred ccCccCccccccc--ccccceEEcCCCCCEE
Confidence 3579999987655 3445899999999864
No 101
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=47.17 E-value=8.9 Score=26.79 Aligned_cols=30 Identities=27% Similarity=0.517 Sum_probs=20.2
Q ss_pred CCCcCcceEEecCceEe-CceEEEccCCCCC
Q 012724 51 PRCENCYAYFNTYCELE-QWAWTCSLCGSLN 80 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~-~~~w~C~~C~~~N 80 (457)
.||.+|+....-+.... .....|+-||..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSDDPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCCCCCCCCCCCCCCc
Confidence 48999998555443333 3567899999854
No 102
>PRK12722 transcriptional activator FlhC; Provisional
Probab=46.50 E-value=9.9 Score=34.56 Aligned_cols=28 Identities=21% Similarity=0.624 Sum_probs=19.7
Q ss_pred CCCCCcCcce-EEecCceEe-CceEEEccCCC
Q 012724 49 MLPRCENCYA-YFNTYCELE-QWAWTCSLCGS 78 (457)
Q Consensus 49 ~p~RC~~C~a-YiNp~~~~~-~~~w~C~~C~~ 78 (457)
...+|.+|++ ||-..- + ...++|++|+-
T Consensus 133 ~l~~C~~Cgg~fv~~~~--e~~~~f~CplC~~ 162 (187)
T PRK12722 133 QLSSCNCCGGHFVTHAH--DPVGSFVCGLCQP 162 (187)
T ss_pred eeccCCCCCCCeecccc--ccCCCCcCCCCCC
Confidence 4678999997 452211 2 36899999987
No 103
>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=46.04 E-value=2.6e+02 Score=26.31 Aligned_cols=88 Identities=13% Similarity=0.120 Sum_probs=54.6
Q ss_pred chHHHHHHHHHhhcccc------CCCccccEEEEEecCCCCCCCCccccccccCccCCCCccccccCCCcchHHHHHHHH
Q 012724 247 GFGLAMESLFNYLGSEY------GNTFALARVFAFLSGPPDHGAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDLAA 320 (457)
Q Consensus 247 ~~G~Al~~a~~lL~~~~------~~~~~~gkIi~f~~g~pt~GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~ 320 (457)
+..-+|.+|+.++.... +....-=+.|+.+.++|..=| ..+. . .-...-+++++.
T Consensus 111 ~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p----~~~~------------~---~~~~~~~d~la~ 171 (226)
T PF11265_consen 111 AIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLP----VNEC------------P---QYSGKTCDQLAV 171 (226)
T ss_pred hHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCcccc----ccCC------------C---cccCCCHHHHHH
Confidence 36677888888776311 100001256777788774332 1110 0 112345689999
Q ss_pred HHHHcceEEEEeeecCCccCccccccccccCccEEEE
Q 012724 321 VAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFL 357 (457)
Q Consensus 321 ~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~ 357 (457)
.+.+++|.+.+++ +. -++.|..|-+..+|....
T Consensus 172 ~~~~~~I~LSiis-Pr---klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 172 LISERNISLSIIS-PR---KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred HHHhcCceEEEEc-Cc---cCHHHHHHHHhcCCCccc
Confidence 9999999999985 33 267788888888887654
No 104
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=45.78 E-value=10 Score=39.77 Aligned_cols=30 Identities=23% Similarity=0.647 Sum_probs=22.4
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCCCChh
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~~ 85 (457)
.-+|++|+. +.....|+|+-|+..|.+.++
T Consensus 7 ~y~C~~Cg~------~~~~~~g~Cp~C~~w~t~~~~ 36 (454)
T TIGR00416 7 KFVCQHCGA------DSPKWQGKCPACHAWNTITEE 36 (454)
T ss_pred eEECCcCCC------CCccccEECcCCCCccccchh
Confidence 468999985 112358999999999998753
No 105
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=45.77 E-value=7.2 Score=23.94 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=12.5
Q ss_pred ceEEEccCCCCCCCC
Q 012724 69 WAWTCSLCGSLNGLS 83 (457)
Q Consensus 69 ~~w~C~~C~~~N~v~ 83 (457)
+.|.|+.|...|...
T Consensus 3 g~W~C~~C~~~N~~~ 17 (30)
T PF00641_consen 3 GDWKCPSCTFMNPAS 17 (30)
T ss_dssp SSEEETTTTEEEESS
T ss_pred cCccCCCCcCCchHH
Confidence 579999999999643
No 106
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=45.44 E-value=15 Score=24.93 Aligned_cols=26 Identities=19% Similarity=0.284 Sum_probs=13.5
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
+|.+|++-+..- ....-+|+-||+.-
T Consensus 4 ~C~~Cg~~~~~~---~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK---SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC---CCCceECCCCCceE
Confidence 566666643322 12456666666543
No 107
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=45.41 E-value=9.4 Score=25.59 Aligned_cols=29 Identities=31% Similarity=0.606 Sum_probs=21.3
Q ss_pred CCCcCcceEEecCceEeC-ceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCELEQ-WAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~-~~w~C~~C~~~ 79 (457)
-||..|+....-.....+ ....|+-||..
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISEDDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCCCCCCcCCCCCCC
Confidence 589999977666555544 67899999873
No 108
>PRK10220 hypothetical protein; Provisional
Probab=44.63 E-value=17 Score=29.75 Aligned_cols=29 Identities=24% Similarity=0.591 Sum_probs=20.6
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
.|.|.+|.+- |.--++..|+|+-|++.-.
T Consensus 3 lP~CP~C~se---ytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 3 LPHCPKCNSE---YTYEDNGMYICPECAHEWN 31 (111)
T ss_pred CCcCCCCCCc---ceEcCCCeEECCcccCcCC
Confidence 4678888762 3334567899999998654
No 109
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=44.41 E-value=8.7 Score=32.54 Aligned_cols=32 Identities=19% Similarity=0.441 Sum_probs=20.0
Q ss_pred CCCCCcCcceEEecC-ceEeCc--eEEEccCCCCCC
Q 012724 49 MLPRCENCYAYFNTY-CELEQW--AWTCSLCGSLNG 81 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~-~~~~~~--~w~C~~C~~~N~ 81 (457)
.-.|| +|+.+..+- ...+.. .|.|+-||..+.
T Consensus 69 ~~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 69 VEIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eeEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 34699 999764432 122222 378999997664
No 110
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=43.78 E-value=15 Score=22.82 Aligned_cols=27 Identities=26% Similarity=0.581 Sum_probs=14.1
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
.+.|..|++=- .-.|+..++|+-|++.
T Consensus 2 ~p~Cp~C~se~---~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 2 LPKCPLCGSEY---TYEDGELLVCPECGHE 28 (30)
T ss_dssp S---TTT--------EE-SSSEEETTTTEE
T ss_pred CCCCCCCCCcc---eeccCCEEeCCccccc
Confidence 36788888732 2267789999999863
No 111
>PRK11823 DNA repair protein RadA; Provisional
Probab=43.68 E-value=9.8 Score=39.75 Aligned_cols=29 Identities=34% Similarity=0.718 Sum_probs=22.0
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
.-+|++|+. +.....|+|+-|+..|.+.+
T Consensus 7 ~y~C~~Cg~------~~~~~~g~Cp~C~~w~t~~e 35 (446)
T PRK11823 7 AYVCQECGA------ESPKWLGRCPECGAWNTLVE 35 (446)
T ss_pred eEECCcCCC------CCcccCeeCcCCCCccceee
Confidence 468999985 11235899999999999865
No 112
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=42.57 E-value=11 Score=38.28 Aligned_cols=27 Identities=30% Similarity=0.684 Sum_probs=20.7
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
+|++|+.- .-...|+|+-|+..|.+.+
T Consensus 2 ~c~~cg~~------~~~~~g~cp~c~~w~~~~e 28 (372)
T cd01121 2 VCSECGYV------SPKWLGKCPECGEWNTLVE 28 (372)
T ss_pred CCCCCCCC------CCCccEECcCCCCceeeee
Confidence 79999851 1135799999999999865
No 113
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=42.43 E-value=16 Score=25.60 Aligned_cols=26 Identities=23% Similarity=0.635 Sum_probs=18.8
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
..|.+|++ . ++.....+|.|.=|+..
T Consensus 21 ~fCP~Cg~--~-~m~~~~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGS--G-FMAEHLDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCc--c-hheccCCcEECCCcCCE
Confidence 47999997 1 44444579999999863
No 114
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=42.18 E-value=14 Score=31.61 Aligned_cols=33 Identities=24% Similarity=0.551 Sum_probs=22.6
Q ss_pred CCCcCcceEEecCceEeC--ceEEEccCCCCCCCChh
Q 012724 51 PRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSSQ 85 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~N~v~~~ 85 (457)
++|.-|+..- ....++ +.|.|+-|+..|.+..+
T Consensus 1 v~C~fC~~~s--~~~~~~~~~~w~C~~C~q~N~f~e~ 35 (131)
T PF09779_consen 1 VNCWFCGQNS--KVPYDNRNSNWTCPHCEQYNGFDED 35 (131)
T ss_pred CeeccCCCCC--CCCCCCCCCeeECCCCCCccCcccc
Confidence 4688787642 222333 45999999999988754
No 115
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=42.02 E-value=35 Score=33.72 Aligned_cols=30 Identities=27% Similarity=0.328 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEecc
Q 012724 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (457)
Q Consensus 135 ~~l~~~~~~l~~~l~~l~~~~~vglItf~~ 164 (457)
.+|+.+..+|..+.+.|.++-|+++|||.+
T Consensus 214 ~EL~~L~~~L~~~~~~L~~gGrl~VISfHS 243 (305)
T TIGR00006 214 DELEELEEALQFAPNLLAPGGRLSIISFHS 243 (305)
T ss_pred HhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 678888999999999999999999998854
No 116
>PRK03954 ribonuclease P protein component 4; Validated
Probab=41.78 E-value=12 Score=31.50 Aligned_cols=32 Identities=25% Similarity=0.546 Sum_probs=23.8
Q ss_pred CCcCcceEEecC--ce--EeCc-----eEEEccCCCCCCCC
Q 012724 52 RCENCYAYFNTY--CE--LEQW-----AWTCSLCGSLNGLS 83 (457)
Q Consensus 52 RC~~C~aYiNp~--~~--~~~~-----~w~C~~C~~~N~v~ 83 (457)
-|.+|.+|+=|- +. +..+ .++|..||+..-.|
T Consensus 66 ~CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~kR~P 106 (121)
T PRK03954 66 YCKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIMRYP 106 (121)
T ss_pred HhhcCCCeeecCCceEEEEecCCcceEEEECccCCCEEeec
Confidence 499999999774 33 3332 35999999988776
No 117
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.31 E-value=12 Score=31.65 Aligned_cols=31 Identities=19% Similarity=0.560 Sum_probs=19.0
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v 82 (457)
+-.|.||++-+..-. ..-.|+||+|...-.+
T Consensus 89 ~r~CARCGGrv~lrs--NKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 89 TRFCARCGGRVSLRS--NKVMWVCNLCRKQQEI 119 (169)
T ss_pred hhHHHhcCCeeeecc--CceEEeccCCcHHHHH
Confidence 344677777542211 1248999999976553
No 118
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=40.95 E-value=20 Score=26.47 Aligned_cols=26 Identities=19% Similarity=0.452 Sum_probs=18.2
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
.-|.+|+...+ .. +|+.||..+..++
T Consensus 6 ~AC~~C~~i~~------~~--~Cp~Cgs~~~S~~ 31 (64)
T PRK06393 6 RACKKCKRLTP------EK--TCPVHGDEKTTTE 31 (64)
T ss_pred hhHhhCCcccC------CC--cCCCCCCCcCCcC
Confidence 34899987662 12 8999999865443
No 119
>PRK00420 hypothetical protein; Validated
Probab=40.92 E-value=16 Score=30.26 Aligned_cols=30 Identities=20% Similarity=0.383 Sum_probs=23.9
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCCCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~ 83 (457)
-.|..|++ |+.++.++.-.|+.||..-.+.
T Consensus 24 ~~CP~Cg~---pLf~lk~g~~~Cp~Cg~~~~v~ 53 (112)
T PRK00420 24 KHCPVCGL---PLFELKDGEVVCPVHGKVYIVK 53 (112)
T ss_pred CCCCCCCC---cceecCCCceECCCCCCeeeec
Confidence 57999994 6777767899999999966554
No 120
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=40.75 E-value=14 Score=24.82 Aligned_cols=25 Identities=24% Similarity=0.604 Sum_probs=17.1
Q ss_pred CCcCcceEEecCceEe--CceEEEccCCCC
Q 012724 52 RCENCYAYFNTYCELE--QWAWTCSLCGSL 79 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~--~~~w~C~~C~~~ 79 (457)
+|..|++-- ..+| .+.++|.-||..
T Consensus 2 ~Cp~Cg~~~---~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE---IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE---EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc---eEEcCCCCeEECCCCCCE
Confidence 688998832 3455 368999999964
No 121
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=40.57 E-value=13 Score=24.06 Aligned_cols=26 Identities=19% Similarity=0.522 Sum_probs=11.9
Q ss_pred CcCcceEEecCceEeCceEEEccCCC
Q 012724 53 CENCYAYFNTYCELEQWAWTCSLCGS 78 (457)
Q Consensus 53 C~~C~aYiNp~~~~~~~~w~C~~C~~ 78 (457)
|..|++..|-...--....+|..||.
T Consensus 4 C~~Cg~~Yh~~~~pP~~~~~Cd~cg~ 29 (36)
T PF05191_consen 4 CPKCGRIYHIEFNPPKVEGVCDNCGG 29 (36)
T ss_dssp ETTTTEEEETTTB--SSTTBCTTTTE
T ss_pred cCCCCCccccccCCCCCCCccCCCCC
Confidence 55555555544333333445555553
No 122
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=40.54 E-value=1.4e+02 Score=30.78 Aligned_cols=99 Identities=17% Similarity=0.184 Sum_probs=64.0
Q ss_pred CcchHHHHHHHHHhhccccCCCccccEEEEEecCCCCC----CCCccccccccCccCCCCccccccCCCcchHHHHHH--
Q 012724 245 GRGFGLAMESLFNYLGSEYGNTFALARVFAFLSGPPDH----GAGQLDTRRYGEQYASKGEDADRALLPEQTPFYKDL-- 318 (457)
Q Consensus 245 ~~~~G~Al~~a~~lL~~~~~~~~~~gkIi~f~~g~pt~----GpG~l~~~~~~~~~~~~~~~~~~~~~~~~~~fY~~l-- 318 (457)
++.+--||..|-.+|+...+. .-.|++.+.|.||- |-|.+.-.+ + ++| | ..-.+.+
T Consensus 532 gTNlhhaL~LA~r~l~Rh~~~---~~~il~vTDGePtAhle~~DG~~~~f~----y---p~D-------P-~t~~~Tvr~ 593 (652)
T COG4867 532 GTNLHHALALAGRHLRRHAGA---QPVVLVVTDGEPTAHLEDGDGTSVFFD----Y---PPD-------P-RTIAHTVRG 593 (652)
T ss_pred ccchHHHHHHHHHHHHhCccc---CceEEEEeCCCccccccCCCCceEecC----C---CCC-------h-hHHHHHHHH
Confidence 466778899999999876543 35899999999974 223221111 1 111 1 1111222
Q ss_pred HHHHHHcceEEEEeeecCCccCccccccccccCccEEEEeCCCC
Q 012724 319 AAVAVQAGVCVDIFAITNEYTDLASLKFLSIESGGSLFLYSSTD 362 (457)
Q Consensus 319 a~~~~~~~isvdlf~~~~~~~~l~~l~~l~~~TGG~v~~~~~~~ 362 (457)
-..|.+.|+-+.+|..+.+.-=..=+..+++.++|+++. ++.+
T Consensus 594 ~d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~-pdld 636 (652)
T COG4867 594 FDDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVV-PDLD 636 (652)
T ss_pred HHHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEe-cCcc
Confidence 246788999999999888753334478899999999965 4443
No 123
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=40.30 E-value=15 Score=20.39 Aligned_cols=13 Identities=23% Similarity=0.726 Sum_probs=7.9
Q ss_pred EEEccCCCCCCCC
Q 012724 71 WTCSLCGSLNGLS 83 (457)
Q Consensus 71 w~C~~C~~~N~v~ 83 (457)
|.|++|+....-.
T Consensus 1 ~~C~~C~~~~~~~ 13 (24)
T PF13894_consen 1 FQCPICGKSFRSK 13 (24)
T ss_dssp EE-SSTS-EESSH
T ss_pred CCCcCCCCcCCcH
Confidence 7899998766543
No 124
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=39.88 E-value=53 Score=28.39 Aligned_cols=26 Identities=23% Similarity=0.459 Sum_probs=19.6
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
-.||.+|+.+.=| -+-.|+-|+..+.
T Consensus 29 g~kC~~CG~v~~P------Pr~~Cp~C~~~~~ 54 (140)
T COG1545 29 GTKCKKCGRVYFP------PRAYCPKCGSETE 54 (140)
T ss_pred EEEcCCCCeEEcC------CcccCCCCCCCCc
Confidence 3699999997544 3447999999863
No 125
>PF02905 EBV-NA1: Epstein Barr virus nuclear antigen-1, DNA-binding domain; InterPro: IPR004186 The Epstein-Barr virus (strain GD1) nuclear antigen 1 (EBNA1) binds to and activates DNA replication from the latent origin of replication. The crystal structure of the DNA-binding and dimerization domains were solved [], and it was found that EBNA1 appears to bind DNA via two independent regions, the core and the flanking DNA-binding domains. This DNA-binding domain has a ferredoxin-like fold.; GO: 0003677 DNA binding, 0003688 DNA replication origin binding, 0006260 DNA replication, 0006275 regulation of DNA replication, 0045893 positive regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1B3T_B 1VHI_B.
Probab=39.67 E-value=42 Score=28.15 Aligned_cols=33 Identities=15% Similarity=0.287 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHHHHHhCCC---CcEEEEEEecceeE
Q 012724 135 EFLELTRSALQAALEAVPS---GALFGLATFSHKIG 167 (457)
Q Consensus 135 ~~l~~~~~~l~~~l~~l~~---~~~vglItf~~~V~ 167 (457)
-+.+.+++||+.-+..-|. +++|-+++||+.|-
T Consensus 110 ~fAe~vkDAi~Dyi~T~P~PT~~~~Vt~~~Fd~~V~ 145 (146)
T PF02905_consen 110 LFAECVKDAIRDYIMTRPQPTCNTQVTVCSFDDGVM 145 (146)
T ss_dssp HHHHHHHHHHHHHHCTS-TTGGGEEEEEEEEEEEE-
T ss_pred HHHHHHHHHHHHHhcCCCCCCcceEEEEEeCCCCCc
Confidence 3457788888887766553 67999999998774
No 126
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=39.23 E-value=17 Score=23.58 Aligned_cols=29 Identities=28% Similarity=0.575 Sum_probs=15.6
Q ss_pred CCCcCcceEEecCc-eEe--CceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYC-ELE--QWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~-~~~--~~~w~C~~C~~~ 79 (457)
++|.+|++-.+-=- ++. +++.+|+-|++.
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~ 34 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHV 34 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcE
Confidence 56777776543322 121 256677777664
No 127
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=38.91 E-value=14 Score=24.14 Aligned_cols=28 Identities=32% Similarity=0.650 Sum_probs=17.9
Q ss_pred CCCcCcceEEecCceEe-CceEEEccCCC
Q 012724 51 PRCENCYAYFNTYCELE-QWAWTCSLCGS 78 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~-~~~w~C~~C~~ 78 (457)
.||..|+.......... .....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISDDPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCCCCCCCCCCCCC
Confidence 47888887655444332 35677888876
No 128
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=38.75 E-value=12 Score=23.00 Aligned_cols=27 Identities=19% Similarity=0.639 Sum_probs=13.8
Q ss_pred CCcCcceEEecCceEeCceEEEccCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGS 78 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~ 78 (457)
.|.+|+.++-....-....+.|+-|..
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rCq~ 29 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRCQK 29 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTTCC
T ss_pred cCccCCCcceEeEecCCCCeECcCCcC
Confidence 589999986332221125799999864
No 129
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=38.50 E-value=21 Score=22.85 Aligned_cols=28 Identities=18% Similarity=0.438 Sum_probs=13.4
Q ss_pred CCcCcceEEecCceE-eC-ceEEEccCCCC
Q 012724 52 RCENCYAYFNTYCEL-EQ-WAWTCSLCGSL 79 (457)
Q Consensus 52 RC~~C~aYiNp~~~~-~~-~~w~C~~C~~~ 79 (457)
.|..|++=+.--.-- |+ .+|+|+-|+..
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCE
Confidence 488888865332221 22 58999999864
No 130
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=38.48 E-value=23 Score=21.05 Aligned_cols=10 Identities=20% Similarity=0.534 Sum_probs=5.1
Q ss_pred ceEEEccCCC
Q 012724 69 WAWTCSLCGS 78 (457)
Q Consensus 69 ~~w~C~~C~~ 78 (457)
..++|..|++
T Consensus 15 ~sVrCa~C~~ 24 (25)
T PF06943_consen 15 PSVRCACCHT 24 (25)
T ss_pred CCeECCccCc
Confidence 3455555543
No 131
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=37.58 E-value=16 Score=21.69 Aligned_cols=8 Identities=50% Similarity=0.795 Sum_probs=5.0
Q ss_pred CCCcCcce
Q 012724 51 PRCENCYA 58 (457)
Q Consensus 51 ~RC~~C~a 58 (457)
..|.+|++
T Consensus 3 ~~Cp~Cg~ 10 (26)
T PF13248_consen 3 MFCPNCGA 10 (26)
T ss_pred CCCcccCC
Confidence 45666666
No 132
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=37.15 E-value=22 Score=22.40 Aligned_cols=14 Identities=21% Similarity=0.278 Sum_probs=9.9
Q ss_pred CCCCCCCcCcceEE
Q 012724 47 GHMLPRCENCYAYF 60 (457)
Q Consensus 47 ~~~p~RC~~C~aYi 60 (457)
..+++||..|+.-|
T Consensus 14 ~~~~irC~~CG~RI 27 (32)
T PF03604_consen 14 PGDPIRCPECGHRI 27 (32)
T ss_dssp TSSTSSBSSSS-SE
T ss_pred CCCcEECCcCCCeE
Confidence 46788999998643
No 133
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=36.95 E-value=46 Score=32.71 Aligned_cols=30 Identities=30% Similarity=0.434 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEecc
Q 012724 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (457)
Q Consensus 135 ~~l~~~~~~l~~~l~~l~~~~~vglItf~~ 164 (457)
.+|+.+...|.++.+.|.++-++++|||.+
T Consensus 210 ~El~~L~~~L~~~~~~L~~gGrl~visfHS 239 (296)
T PRK00050 210 DELEELERALEAALDLLKPGGRLAVISFHS 239 (296)
T ss_pred hhHHHHHHHHHHHHHHhcCCCEEEEEecCc
Confidence 578888899999989999999999998854
No 134
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=36.93 E-value=17 Score=32.70 Aligned_cols=29 Identities=17% Similarity=0.654 Sum_probs=10.6
Q ss_pred CCCCCcCcce-EEecCceEeCceEEEccCCC
Q 012724 49 MLPRCENCYA-YFNTYCELEQWAWTCSLCGS 78 (457)
Q Consensus 49 ~p~RC~~C~a-YiNp~~~~~~~~w~C~~C~~ 78 (457)
...+|.+|++ |+...-. ....++|+||+-
T Consensus 133 ~l~~C~~C~~~fv~~~~~-~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 133 QLAPCRRCGGHFVTHAHD-PRHSFVCPFCQP 162 (175)
T ss_dssp EEEE-TTT--EEEEESS---SS----TT---
T ss_pred cccCCCCCCCCeECcCCC-CCcCcCCCCCCC
Confidence 3568999997 5543211 136899999993
No 135
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=36.01 E-value=15 Score=21.51 Aligned_cols=14 Identities=43% Similarity=0.850 Sum_probs=11.6
Q ss_pred eEEEccCCCCCCCC
Q 012724 70 AWTCSLCGSLNGLS 83 (457)
Q Consensus 70 ~w~C~~C~~~N~v~ 83 (457)
.|.|..|...|...
T Consensus 2 ~W~C~~C~~~N~~~ 15 (26)
T smart00547 2 DWECPACTFLNFAS 15 (26)
T ss_pred cccCCCCCCcChhh
Confidence 69999999999643
No 136
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=34.42 E-value=22 Score=30.92 Aligned_cols=31 Identities=26% Similarity=0.701 Sum_probs=21.9
Q ss_pred CCCCcCcceEEecCceEe-------------CceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELE-------------QWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~-------------~~~w~C~~C~~~N 80 (457)
..||..|.+-+-+-.+-+ ..-|+|+-||+.-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiy 134 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIY 134 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEe
Confidence 479999999665543211 1479999999865
No 137
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=34.30 E-value=29 Score=25.07 Aligned_cols=27 Identities=30% Similarity=0.519 Sum_probs=20.1
Q ss_pred CCCCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 48 HMLPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 48 ~~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
..+..|..|+.+.=| .-+|+.||..+.
T Consensus 25 ~~l~~C~~CG~~~~~-------H~vC~~CG~Y~g 51 (57)
T PRK12286 25 PGLVECPNCGEPKLP-------HRVCPSCGYYKG 51 (57)
T ss_pred CcceECCCCCCccCC-------eEECCCCCcCCC
Confidence 356789999997644 568999997654
No 138
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=34.26 E-value=43 Score=31.83 Aligned_cols=36 Identities=17% Similarity=0.451 Sum_probs=31.0
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
..+.|+-|++-||---+..+...+|+-|+..+++-+
T Consensus 64 p~v~CrVCq~~I~i~gk~~QhVVkC~~CnEATPIr~ 99 (256)
T PF09788_consen 64 PVVTCRVCQSLIDIEGKMHQHVVKCSVCNEATPIRN 99 (256)
T ss_pred ceEEeecCCceecccCccceeeEECCCCCccccccC
Confidence 457899999999988888888999999999888753
No 139
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=34.15 E-value=23 Score=28.70 Aligned_cols=27 Identities=19% Similarity=0.486 Sum_probs=21.6
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCCCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGL 82 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v 82 (457)
.|.+|++.|.|- +..+.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~----~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK----NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC----CCeEECcCCCCcccc
Confidence 599999999652 468999999987654
No 140
>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=33.61 E-value=95 Score=28.64 Aligned_cols=43 Identities=14% Similarity=0.069 Sum_probs=28.6
Q ss_pred EEEEEEECCCCh------hHHHHHHHHHHHHHHhCCCCcEEEEEEecce
Q 012724 123 VYVAAVDLSSSE------EFLELTRSALQAALEAVPSGALFGLATFSHK 165 (457)
Q Consensus 123 ~~vFvID~s~~~------~~l~~~~~~l~~~l~~l~~~~~vglItf~~~ 165 (457)
...+|||.|.++ |..+.+.+-+...--.+.++-.|=+.+|++.
T Consensus 3 rV~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~~~DdDG~i~v~~Fs~~ 51 (200)
T PF10138_consen 3 RVYLVLDISGSMRPLYKDGTVQRVVERILALAAQFDDDGEIDVWFFSTE 51 (200)
T ss_pred EEEEEEeCCCCCchhhhCccHHHHHHHHHHHHhhcCCCCceEEEEeCCC
Confidence 367899999986 5566666666554446777666666666553
No 141
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=33.32 E-value=19 Score=25.08 Aligned_cols=26 Identities=31% Similarity=0.643 Sum_probs=16.4
Q ss_pred CCCcCcceEEecCceEe--CceEEEccCCCCC
Q 012724 51 PRCENCYAYFNTYCELE--QWAWTCSLCGSLN 80 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~--~~~w~C~~C~~~N 80 (457)
-+|.+|++-+ +.+ ...-.|+-||+.-
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 4677777765 322 2567777777654
No 142
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=32.68 E-value=15 Score=25.72 Aligned_cols=10 Identities=30% Similarity=1.185 Sum_probs=4.0
Q ss_pred ceEEEccCCC
Q 012724 69 WAWTCSLCGS 78 (457)
Q Consensus 69 ~~w~C~~C~~ 78 (457)
+.|.|++|++
T Consensus 40 ~~W~CPiC~~ 49 (50)
T PF02891_consen 40 PKWKCPICNK 49 (50)
T ss_dssp ---B-TTT--
T ss_pred CCeECcCCcC
Confidence 5799999986
No 143
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=32.67 E-value=24 Score=30.29 Aligned_cols=32 Identities=22% Similarity=0.469 Sum_probs=20.6
Q ss_pred CCCCCcCcceEEecCc---e----------E----eCceEEEccCCCCC
Q 012724 49 MLPRCENCYAYFNTYC---E----------L----EQWAWTCSLCGSLN 80 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~---~----------~----~~~~w~C~~C~~~N 80 (457)
...||..|+.....-- + + ....+.|+-||..+
T Consensus 69 ~~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 69 AVLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred eEEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 3468999996554431 0 0 13468899999776
No 144
>COG1773 Rubredoxin [Energy production and conversion]
Probab=32.37 E-value=23 Score=25.32 Aligned_cols=25 Identities=32% Similarity=0.680 Sum_probs=16.4
Q ss_pred CCCCCcCcceEEecCceEeC--ceEEEccCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~ 78 (457)
+.++|..|.+ ..|++ -.|.|+.|+.
T Consensus 18 Gdp~~gi~pg-----T~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 18 GDPRCGIAPG-----TPFEDLPDDWVCPECGV 44 (55)
T ss_pred CCccCCCCCC-----CchhhCCCccCCCCCCC
Confidence 3455554444 44653 6899999996
No 145
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=32.10 E-value=16 Score=35.19 Aligned_cols=33 Identities=27% Similarity=0.589 Sum_probs=26.0
Q ss_pred CCCCcCcceEEecCce-EeCceEEEccCCCCCCCCh
Q 012724 50 LPRCENCYAYFNTYCE-LEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~-~~~~~w~C~~C~~~N~v~~ 84 (457)
=..|..|+..+ |.+ +..+.|+|+-|++...+..
T Consensus 28 w~KCp~c~~~~--y~~eL~~n~~vcp~c~~h~ri~A 61 (294)
T COG0777 28 WTKCPSCGEML--YRKELESNLKVCPKCGHHMRISA 61 (294)
T ss_pred eeECCCcccee--eHHHHHhhhhcccccCcccccCH
Confidence 46899999977 332 3357999999999998864
No 146
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=32.07 E-value=22 Score=22.66 Aligned_cols=12 Identities=33% Similarity=1.315 Sum_probs=9.8
Q ss_pred eEEEccCCCCCC
Q 012724 70 AWTCSLCGSLNG 81 (457)
Q Consensus 70 ~w~C~~C~~~N~ 81 (457)
.|+|..||..-.
T Consensus 2 ~~~C~~CG~i~~ 13 (34)
T cd00729 2 VWVCPVCGYIHE 13 (34)
T ss_pred eEECCCCCCEeE
Confidence 699999998743
No 147
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=31.24 E-value=20 Score=26.24 Aligned_cols=28 Identities=25% Similarity=0.493 Sum_probs=19.1
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCCCCChh
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~~ 85 (457)
-|.+|+..++.= .=+|+.||...-..++
T Consensus 6 AC~~Ck~l~~~d------~e~CP~Cgs~~~te~W 33 (64)
T COG2093 6 ACKNCKRLTPED------TEICPVCGSTDLTEEW 33 (64)
T ss_pred HHhhccccCCCC------CccCCCCCCcccchhh
Confidence 488888765443 4489999987655444
No 148
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=31.16 E-value=26 Score=22.64 Aligned_cols=29 Identities=31% Similarity=0.608 Sum_probs=14.1
Q ss_pred CCCcCcceEEecCce-Ee--CceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCE-LE--QWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~-~~--~~~w~C~~C~~~ 79 (457)
++|.+|++-.+-=-+ +- +++.+|.-|++.
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~ 34 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHV 34 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCE
Confidence 456666664322211 11 246666666653
No 149
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=31.07 E-value=18 Score=28.15 Aligned_cols=15 Identities=20% Similarity=0.627 Sum_probs=6.7
Q ss_pred ceEEEccCCCCCCCC
Q 012724 69 WAWTCSLCGSLNGLS 83 (457)
Q Consensus 69 ~~w~C~~C~~~N~v~ 83 (457)
..|.|+||++.+.+.
T Consensus 21 ~~F~CPfC~~~~sV~ 35 (81)
T PF05129_consen 21 KVFDCPFCNHEKSVS 35 (81)
T ss_dssp S----TTT--SS-EE
T ss_pred ceEcCCcCCCCCeEE
Confidence 689999999999874
No 150
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=30.95 E-value=39 Score=19.86 Aligned_cols=23 Identities=22% Similarity=0.609 Sum_probs=11.3
Q ss_pred CcCcceEEecCceEeCceEEEccCC
Q 012724 53 CENCYAYFNTYCELEQWAWTCSLCG 77 (457)
Q Consensus 53 C~~C~aYiNp~~~~~~~~w~C~~C~ 77 (457)
|.+|+.-|-|--+ ...|.|+=||
T Consensus 1 C~sC~~~i~~r~~--~v~f~CPnCG 23 (24)
T PF07754_consen 1 CTSCGRPIAPREQ--AVPFPCPNCG 23 (24)
T ss_pred CccCCCcccCccc--CceEeCCCCC
Confidence 5555554433211 2356666665
No 151
>PF12773 DZR: Double zinc ribbon
Probab=30.31 E-value=24 Score=24.27 Aligned_cols=32 Identities=22% Similarity=0.326 Sum_probs=23.2
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCCCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~ 83 (457)
+-..|.+|++-+. .-+...++|+-|++.|...
T Consensus 11 ~~~fC~~CG~~l~---~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 11 DAKFCPHCGTPLP---PPDQSKKICPNCGAENPPN 42 (50)
T ss_pred cccCChhhcCChh---hccCCCCCCcCCcCCCcCC
Confidence 4578999998876 2234678999999987543
No 152
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=30.02 E-value=18 Score=26.27 Aligned_cols=11 Identities=27% Similarity=0.631 Sum_probs=5.3
Q ss_pred CCCCcCcceEE
Q 012724 50 LPRCENCYAYF 60 (457)
Q Consensus 50 p~RC~~C~aYi 60 (457)
+++|..|+.-|
T Consensus 9 ~~~CtSCg~~i 19 (61)
T COG2888 9 PPVCTSCGREI 19 (61)
T ss_pred CceeccCCCEe
Confidence 44455555444
No 153
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=29.98 E-value=26 Score=34.74 Aligned_cols=30 Identities=23% Similarity=0.640 Sum_probs=22.3
Q ss_pred CCCCCCCcCcceEEecCceEeC--ceEEEccCCCCCCCCh
Q 012724 47 GHMLPRCENCYAYFNTYCELEQ--WAWTCSLCGSLNGLSS 84 (457)
Q Consensus 47 ~~~p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~~N~v~~ 84 (457)
....-||++|+ |.. -.|-||-|+..-.+.+
T Consensus 351 ~~~~YRC~~CG--------F~a~~l~W~CPsC~~W~TikP 382 (389)
T COG2956 351 RKPRYRCQNCG--------FTAHTLYWHCPSCRAWETIKP 382 (389)
T ss_pred hcCCceecccC--------CcceeeeeeCCCcccccccCC
Confidence 34457999998 332 4799999999877654
No 154
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=29.95 E-value=34 Score=29.14 Aligned_cols=25 Identities=20% Similarity=0.526 Sum_probs=18.6
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
.-|..|+.=+ .+ -.+.-.|+.|++.
T Consensus 29 ~hCp~Cg~PL---F~-KdG~v~CPvC~~~ 53 (131)
T COG1645 29 KHCPKCGTPL---FR-KDGEVFCPVCGYR 53 (131)
T ss_pred hhCcccCCcc---ee-eCCeEECCCCCce
Confidence 4699999844 44 3478999999953
No 155
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=29.86 E-value=41 Score=24.21 Aligned_cols=27 Identities=26% Similarity=0.664 Sum_probs=20.6
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCCCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~ 83 (457)
.+-+|.+|+.|= + +-+|+.||..+..+
T Consensus 4 ~mr~C~~CgvYT-----L---k~~CP~CG~~t~~~ 30 (56)
T PRK13130 4 KIRKCPKCGVYT-----L---KEICPVCGGKTKNP 30 (56)
T ss_pred cceECCCCCCEE-----c---cccCcCCCCCCCCC
Confidence 467899999985 2 45899999877654
No 156
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=29.53 E-value=18 Score=26.27 Aligned_cols=9 Identities=44% Similarity=1.184 Sum_probs=4.6
Q ss_pred eEEEccCCC
Q 012724 70 AWTCSLCGS 78 (457)
Q Consensus 70 ~w~C~~C~~ 78 (457)
.++|+-||.
T Consensus 48 ~Y~CP~CGF 56 (59)
T PRK14890 48 PYTCPKCGF 56 (59)
T ss_pred ceECCCCCC
Confidence 345555554
No 157
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=28.87 E-value=30 Score=33.52 Aligned_cols=27 Identities=19% Similarity=0.541 Sum_probs=18.5
Q ss_pred CCCcCcceEEecCceEeC-ceEEEccCCC
Q 012724 51 PRCENCYAYFNTYCELEQ-WAWTCSLCGS 78 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~-~~w~C~~C~~ 78 (457)
--|.+|++-|--- ++.+ ..|.|+-|++
T Consensus 246 epC~~CGt~I~k~-~~~gR~t~~CP~CQ~ 273 (273)
T COG0266 246 EPCRRCGTPIEKI-KLGGRSTFYCPVCQK 273 (273)
T ss_pred CCCCccCCEeEEE-EEcCCcCEeCCCCCC
Confidence 4499999987221 1223 5899999974
No 158
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=28.54 E-value=29 Score=31.82 Aligned_cols=36 Identities=19% Similarity=0.317 Sum_probs=23.1
Q ss_pred CCCCcCcceEEecCceEe--CceEEEccCCCCCCCChh
Q 012724 50 LPRCENCYAYFNTYCELE--QWAWTCSLCGSLNGLSSQ 85 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~--~~~w~C~~C~~~N~v~~~ 85 (457)
-+.|++|.-=-+.+.--+ -..++|.+|++.|+.+.+
T Consensus 192 alIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 192 ALICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hhccccccccccccccccccchheecccchhhcCcccc
Confidence 356887765333332222 247999999999987654
No 159
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.05 E-value=33 Score=33.73 Aligned_cols=25 Identities=24% Similarity=0.603 Sum_probs=20.4
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
--.|..|+. +..+.|.|+-||+..+
T Consensus 309 S~~C~~cg~-------~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 309 SKTCPCCGH-------LSGRLFKCPRCGFVHD 333 (364)
T ss_pred cccccccCC-------ccceeEECCCCCCeeh
Confidence 368999998 5568999999998654
No 160
>PRK12496 hypothetical protein; Provisional
Probab=27.65 E-value=24 Score=31.40 Aligned_cols=25 Identities=24% Similarity=0.537 Sum_probs=15.3
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
.||..|+.+.+--- ..=.|+.||+.
T Consensus 128 ~~C~gC~~~~~~~~----~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPEDY----PDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCCC----CCCcCCCCCCh
Confidence 57999987543111 11269999964
No 161
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=27.64 E-value=27 Score=38.59 Aligned_cols=39 Identities=18% Similarity=0.513 Sum_probs=31.4
Q ss_pred CCCCCCCCcCcceEEecCceEe--------CceEEEccCCCCCCCCh
Q 012724 46 DGHMLPRCENCYAYFNTYCELE--------QWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 46 ~~~~p~RC~~C~aYiNp~~~~~--------~~~w~C~~C~~~N~v~~ 84 (457)
......||.-|.-..+.+..+. .|-|+||+||.....+.
T Consensus 349 ~~~~khkCr~CakvfgS~SaLqiHlRSHTGERPfqCnvCG~~FSTkG 395 (958)
T KOG1074|consen 349 KPFFKHKCRFCAKVFGSDSALQIHLRSHTGERPFQCNVCGNRFSTKG 395 (958)
T ss_pred cccccchhhhhHhhcCchhhhhhhhhccCCCCCeeeccccccccccc
Confidence 3456789999999999998765 26799999998877654
No 162
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=27.32 E-value=36 Score=19.38 Aligned_cols=14 Identities=14% Similarity=0.541 Sum_probs=9.8
Q ss_pred EEEccCCCCCCCCh
Q 012724 71 WTCSLCGSLNGLSS 84 (457)
Q Consensus 71 w~C~~C~~~N~v~~ 84 (457)
|.|.+|+..-.-+.
T Consensus 1 ~~C~~C~~~f~s~~ 14 (25)
T PF12874_consen 1 FYCDICNKSFSSEN 14 (25)
T ss_dssp EEETTTTEEESSHH
T ss_pred CCCCCCCCCcCCHH
Confidence 78999987654443
No 163
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=26.78 E-value=25 Score=23.37 Aligned_cols=9 Identities=44% Similarity=1.198 Sum_probs=7.2
Q ss_pred CCCcCcceE
Q 012724 51 PRCENCYAY 59 (457)
Q Consensus 51 ~RC~~C~aY 59 (457)
.||.+|++|
T Consensus 2 ~kC~~CG~~ 10 (40)
T PF15288_consen 2 VKCKNCGAF 10 (40)
T ss_pred ccccccccc
Confidence 578888885
No 164
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=26.63 E-value=17 Score=30.25 Aligned_cols=27 Identities=30% Similarity=0.816 Sum_probs=16.5
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
-.||..|+.-..+- ...+.|+.||..+
T Consensus 70 ~~~C~~Cg~~~~~~----~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 70 RARCRDCGHEFEPD----EFDFSCPRCGSPD 96 (113)
T ss_dssp EEEETTTS-EEECH----HCCHH-SSSSSS-
T ss_pred cEECCCCCCEEecC----CCCCCCcCCcCCC
Confidence 36899999854332 2346799999886
No 165
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=26.48 E-value=33 Score=25.14 Aligned_cols=26 Identities=23% Similarity=0.501 Sum_probs=17.8
Q ss_pred CCcCcceEEecCceEeCceEEEccCCCCCCCChh
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCGSLNGLSSQ 85 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~~ 85 (457)
-|.+|+.... .. +|+.||...-..++
T Consensus 5 AC~~C~~i~~------~~--~CP~Cgs~~~T~~W 30 (61)
T PRK08351 5 ACRHCHYITT------ED--RCPVCGSRDLSDEW 30 (61)
T ss_pred hhhhCCcccC------CC--cCCCCcCCcccccc
Confidence 4888987662 12 69999997744433
No 166
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=26.43 E-value=45 Score=32.97 Aligned_cols=30 Identities=23% Similarity=0.301 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHHHHhCCCCcEEEEEEecc
Q 012724 135 EFLELTRSALQAALEAVPSGALFGLATFSH 164 (457)
Q Consensus 135 ~~l~~~~~~l~~~l~~l~~~~~vglItf~~ 164 (457)
.+|+.+..+|.++.+.|.++-|+++|||.+
T Consensus 215 ~EL~~L~~~L~~a~~~L~~gGrl~VISFHS 244 (310)
T PF01795_consen 215 DELEELERGLEAAPDLLKPGGRLVVISFHS 244 (310)
T ss_dssp THHHHHHHHHHHHHHHEEEEEEEEEEESSH
T ss_pred cHHHHHHHHHHHHHHHhcCCcEEEEEEecc
Confidence 578888888888888898999999999964
No 167
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=26.43 E-value=31 Score=34.05 Aligned_cols=35 Identities=20% Similarity=0.362 Sum_probs=25.3
Q ss_pred CCCCcCcceEEecCce--EeCceEEEccCCCCCCCCh
Q 012724 50 LPRCENCYAYFNTYCE--LEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~--~~~~~w~C~~C~~~N~v~~ 84 (457)
-..|+.|+.==+.+-. +..-.|+|.+|++.|+-..
T Consensus 220 ALIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~k 256 (328)
T KOG2846|consen 220 ALICSQCHHHNGLARKEEYEYITFRCPHCNALNPAKK 256 (328)
T ss_pred hhcchhhccccCcCChhhcCceEEECccccccCCCcC
Confidence 4569999886444443 3346899999999998653
No 168
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=25.87 E-value=48 Score=21.28 Aligned_cols=24 Identities=29% Similarity=0.419 Sum_probs=12.0
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSL 79 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~ 79 (457)
.-||..|+.+.=| -+-.|+-|+..
T Consensus 11 ~~rC~~Cg~~~~p------Pr~~Cp~C~s~ 34 (37)
T PF12172_consen 11 GQRCRDCGRVQFP------PRPVCPHCGSD 34 (37)
T ss_dssp EEE-TTT--EEES--------SEETTTT--
T ss_pred EEEcCCCCCEecC------CCcCCCCcCcc
Confidence 4689999997422 23678888754
No 169
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=24.92 E-value=45 Score=22.32 Aligned_cols=23 Identities=22% Similarity=0.550 Sum_probs=16.2
Q ss_pred CCcCcceEEecCceEeCceEEEccCC
Q 012724 52 RCENCYAYFNTYCELEQWAWTCSLCG 77 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~~~w~C~~C~ 77 (457)
.|..|+ .|.++..++.-.|..|+
T Consensus 19 ~Cp~C~---~PL~~~k~g~~~Cv~C~ 41 (41)
T PF06677_consen 19 HCPDCG---TPLMRDKDGKIYCVSCG 41 (41)
T ss_pred ccCCCC---CeeEEecCCCEECCCCC
Confidence 578886 46666445678898885
No 170
>PRK12860 transcriptional activator FlhC; Provisional
Probab=24.75 E-value=33 Score=31.26 Aligned_cols=28 Identities=25% Similarity=0.710 Sum_probs=19.6
Q ss_pred CCCCCCcCcce-EEecCceEe-CceEEEccCC
Q 012724 48 HMLPRCENCYA-YFNTYCELE-QWAWTCSLCG 77 (457)
Q Consensus 48 ~~p~RC~~C~a-YiNp~~~~~-~~~w~C~~C~ 77 (457)
-...+|.+|++ ||-.. . + ...++|++|.
T Consensus 132 L~l~~C~~Cgg~fv~~~-~-e~~~~f~CplC~ 161 (189)
T PRK12860 132 LQLARCCRCGGKFVTHA-H-DLRHNFVCGLCQ 161 (189)
T ss_pred eeeccCCCCCCCeeccc-c-ccCCCCcCCCCC
Confidence 35679999998 45221 1 3 3689999999
No 171
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=24.16 E-value=10 Score=26.70 Aligned_cols=30 Identities=27% Similarity=0.593 Sum_probs=20.0
Q ss_pred CCCCcCcceEEecCceEeC---ceEEEccCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQ---WAWTCSLCGSLNGL 82 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~---~~w~C~~C~~~N~v 82 (457)
-+||.+|+-.+ .+... -.-+|+-|...|.+
T Consensus 4 tiRC~~CnKlL---a~a~~~~yle~KCPrCK~vN~~ 36 (60)
T COG4416 4 TIRCAKCNKLL---AEAEGQAYLEKKCPRCKEVNEF 36 (60)
T ss_pred eeehHHHhHHH---HhcccceeeeecCCccceeeee
Confidence 37999987544 12221 25789999999975
No 172
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=24.05 E-value=1.5e+02 Score=30.05 Aligned_cols=45 Identities=22% Similarity=0.154 Sum_probs=24.9
Q ss_pred CCCcEEEEEEECCCChhHHHHHHHHHHHHHHhCCCCcEEEEEEecce
Q 012724 119 QARPVYVAAVDLSSSEEFLELTRSALQAALEAVPSGALFGLATFSHK 165 (457)
Q Consensus 119 ~~~p~~vFvID~s~~~~~l~~~~~~l~~~l~~l~~~~~vglItf~~~ 165 (457)
..+|-.|++.|||.+..-.-.+-=.|..++.....+.+ +.+|++.
T Consensus 216 ~~~~~lvvL~DVSGSm~~ys~~~L~l~hAl~q~~~R~~--~F~F~TR 260 (395)
T COG3552 216 RRKPPLVVLCDVSGSMSGYSRIFLHLLHALRQQRSRVH--VFLFGTR 260 (395)
T ss_pred cCCCCeEEEEecccchhhhHHHHHHHHHHHHhccccee--EEEeech
Confidence 35677899999999963322222223344444444433 5556554
No 173
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=23.99 E-value=44 Score=23.91 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=18.2
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
.+..|..|+.+.= ...+|..||+.+
T Consensus 25 ~l~~C~~cG~~~~-------~H~vc~~cG~Y~ 49 (55)
T TIGR01031 25 TLVVCPNCGEFKL-------PHRVCPSCGYYK 49 (55)
T ss_pred cceECCCCCCccc-------CeeECCccCeEC
Confidence 5678999998643 356788888654
No 174
>PF03660 PHF5: PHF5-like protein; InterPro: IPR005345 Phf5 is a member of a novel murine multigene family that is highly conserved during evolution and belongs to the superfamily of PHD-finger proteins. At least one example, from Mus musculus (Mouse), may act as a chromatin-associated protein []. The Schizosaccharomyces pombe (Fission yeast) ini1 gene is essential, required for splicing []. It is localised in the nucleus, but not detected in the nucleolus and can be complemented by human ini1 []. The proteins of this family contain five CXXC motifs.; PDB: 2K0A_A.
Probab=23.66 E-value=25 Score=28.53 Aligned_cols=38 Identities=24% Similarity=0.535 Sum_probs=17.2
Q ss_pred CCCcCcceEEecCceEe--------CceEEEccCCCCCCCChhhhc
Q 012724 51 PRCENCYAYFNTYCELE--------QWAWTCSLCGSLNGLSSQAIA 88 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~--------~~~w~C~~C~~~N~v~~~y~~ 88 (457)
-||.-|-+|+.|..++- ...-+|-+||....+.+.|++
T Consensus 28 GkCpiCDS~Vrp~~~VrICdeCs~G~~~~rCIiCg~~~g~sdAYYC 73 (106)
T PF03660_consen 28 GKCPICDSYVRPCTKVRICDECSFGSLQGRCIICGSGPGVSDAYYC 73 (106)
T ss_dssp T--TTT-------EE-EEEHHHHTSSTTSB-TTTSSSB--EE-EE-
T ss_pred CcccccCCccCCcceEEECCcCCCCCcCceEEEecCCCCcccceeh
Confidence 58899999999966553 147889999987777777764
No 175
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=23.56 E-value=54 Score=29.21 Aligned_cols=13 Identities=23% Similarity=0.621 Sum_probs=11.6
Q ss_pred ceEEEccCCCCCC
Q 012724 69 WAWTCSLCGSLNG 81 (457)
Q Consensus 69 ~~w~C~~C~~~N~ 81 (457)
..|.|+-||.+|.
T Consensus 27 ~sf~C~~CGyr~~ 39 (163)
T TIGR00340 27 STYICEKCGYRST 39 (163)
T ss_pred EEEECCCCCCchh
Confidence 6899999998875
No 176
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=23.31 E-value=53 Score=22.23 Aligned_cols=22 Identities=9% Similarity=0.294 Sum_probs=15.5
Q ss_pred CCCcCcceEEecCceEeCceEEEccCC
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCG 77 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~ 77 (457)
+.|..|+.+ .+.+.+|+|..|.
T Consensus 1 I~CDgCg~~-----PI~G~RykC~~C~ 22 (43)
T cd02342 1 IQCDGCGVL-----PITGPRYKSKVKE 22 (43)
T ss_pred CCCCCCCCC-----cccccceEeCCCC
Confidence 367777753 2567889999885
No 177
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.87 E-value=31 Score=27.30 Aligned_cols=34 Identities=21% Similarity=0.260 Sum_probs=20.9
Q ss_pred CCCCCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 49 MLPRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 49 ~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
.|+||.+||--.++ .-...--+|+-|...-.-++
T Consensus 57 ~Pa~CkkCGfef~~--~~ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 57 RPARCKKCGFEFRD--DKIKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cChhhcccCccccc--cccCCcccCCcchhhcccCC
Confidence 57899999864433 00113467898987654443
No 178
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=22.74 E-value=41 Score=37.35 Aligned_cols=33 Identities=21% Similarity=0.533 Sum_probs=21.5
Q ss_pred CCCCCCCcCcceEEecCceEeCceEEEccCCCCCC
Q 012724 47 GHMLPRCENCYAYFNTYCELEQWAWTCSLCGSLNG 81 (457)
Q Consensus 47 ~~~p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~ 81 (457)
+...-+|..|+ | ..-.+.+.+.|.|+-||..++
T Consensus 638 n~~~~~C~~CG-~-~Ge~~~~~~~~~CP~CG~~~~ 670 (711)
T PRK09263 638 NTPIDECYECG-F-TGEFECTEKGFTCPKCGNHDP 670 (711)
T ss_pred CCCCcccCCCC-C-CccccCCCCCCcCcCCCCCCC
Confidence 34456899999 3 222222445699999998763
No 179
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=22.65 E-value=53 Score=23.10 Aligned_cols=29 Identities=21% Similarity=0.318 Sum_probs=21.7
Q ss_pred CCCCcCcceEEecCceEeC--ceEEEccCCC
Q 012724 50 LPRCENCYAYFNTYCELEQ--WAWTCSLCGS 78 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~--~~w~C~~C~~ 78 (457)
+.+|.+|+.--.|..+-.. ..-.||-|+.
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl 33 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGL 33 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccH
Confidence 5789999987776665432 4689999995
No 180
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=22.56 E-value=19 Score=35.15 Aligned_cols=32 Identities=22% Similarity=0.522 Sum_probs=24.9
Q ss_pred CCCCcCcceEEecCce-EeCceEEEccCCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCE-LEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~-~~~~~w~C~~C~~~N~v~ 83 (457)
-.+|.+|+..+ |.+ +..+.++|+-|++...+.
T Consensus 26 ~~~c~~c~~~~--~~~~l~~~~~vc~~c~~h~rl~ 58 (285)
T TIGR00515 26 WTKCPKCGQVL--YTKELERNLEVCPKCDHHMRMD 58 (285)
T ss_pred eeECCCCcchh--hHHHHHhhCCCCCCCCCcCcCC
Confidence 57999999977 332 345679999999998765
No 181
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=22.42 E-value=56 Score=27.15 Aligned_cols=34 Identities=21% Similarity=0.324 Sum_probs=27.8
Q ss_pred CCCcCcceEEecCceEeCceEEEccCCCCCCCCh
Q 012724 51 PRCENCYAYFNTYCELEQWAWTCSLCGSLNGLSS 84 (457)
Q Consensus 51 ~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N~v~~ 84 (457)
..|.+|++.|=|.-.-.+..+.|.-||...++..
T Consensus 3 ~FCp~Cgsll~p~~~~~~~~l~C~kCgye~~~~~ 36 (113)
T COG1594 3 RFCPKCGSLLYPKKDDEGGKLVCRKCGYEEEASN 36 (113)
T ss_pred cccCCccCeeEEeEcCCCcEEECCCCCcchhccc
Confidence 4699999999776655567999999999888764
No 182
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=22.30 E-value=19 Score=35.22 Aligned_cols=32 Identities=34% Similarity=0.658 Sum_probs=24.7
Q ss_pred CCCCcCcceEEecCce-EeCceEEEccCCCCCCCC
Q 012724 50 LPRCENCYAYFNTYCE-LEQWAWTCSLCGSLNGLS 83 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~-~~~~~w~C~~C~~~N~v~ 83 (457)
-.+|.+|+..+ |.+ +..+.|+|+-|++...+.
T Consensus 38 w~kc~~C~~~~--~~~~l~~~~~vcp~c~~h~rlt 70 (296)
T CHL00174 38 WVQCENCYGLN--YKKFLKSKMNICEQCGYHLKMS 70 (296)
T ss_pred eeECCCccchh--hHHHHHHcCCCCCCCCCCcCCC
Confidence 57999999976 322 334689999999988876
No 183
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=22.16 E-value=37 Score=21.86 Aligned_cols=9 Identities=33% Similarity=0.907 Sum_probs=4.2
Q ss_pred eEEEccCCC
Q 012724 70 AWTCSLCGS 78 (457)
Q Consensus 70 ~w~C~~C~~ 78 (457)
...|+-|++
T Consensus 25 ~v~C~~C~~ 33 (38)
T TIGR02098 25 KVRCGKCGH 33 (38)
T ss_pred EEECCCCCC
Confidence 344544443
No 184
>smart00778 Prim_Zn_Ribbon Zinc-binding domain of primase-helicase. This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Probab=21.83 E-value=71 Score=20.89 Aligned_cols=25 Identities=32% Similarity=0.971 Sum_probs=15.5
Q ss_pred CCcCcceEEecCceEeC----ceEEEccCCC
Q 012724 52 RCENCYAYFNTYCELEQ----WAWTCSLCGS 78 (457)
Q Consensus 52 RC~~C~aYiNp~~~~~~----~~w~C~~C~~ 78 (457)
-|..|++ ---|- +++ ..|+|+-|+.
T Consensus 5 pCP~CGG-~DrFr-~~d~~g~G~~~C~~Cg~ 33 (37)
T smart00778 5 PCPNCGG-SDRFR-FDDKDGRGTWFCSVCGA 33 (37)
T ss_pred CCCCCCC-ccccc-cccCCCCcCEEeCCCCC
Confidence 3667776 11222 443 6899999986
No 185
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=21.14 E-value=40 Score=30.33 Aligned_cols=25 Identities=32% Similarity=0.604 Sum_probs=19.2
Q ss_pred CCCCcCcceEEecCceEeCceEEEccCCCCC
Q 012724 50 LPRCENCYAYFNTYCELEQWAWTCSLCGSLN 80 (457)
Q Consensus 50 p~RC~~C~aYiNp~~~~~~~~w~C~~C~~~N 80 (457)
-.||..|+-... ...=.|+.||+.-
T Consensus 139 ~~rC~GC~~~f~------~~~~~Cp~CG~~~ 163 (177)
T COG1439 139 RLRCHGCKRIFP------EPKDFCPICGSPL 163 (177)
T ss_pred eEEEecCceecC------CCCCcCCCCCCce
Confidence 469999998776 3345899999873
No 186
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=20.86 E-value=69 Score=26.21 Aligned_cols=32 Identities=22% Similarity=0.508 Sum_probs=24.6
Q ss_pred CCcCcceEEecCceE----eC--ceEEEccCCCCCCCC
Q 012724 52 RCENCYAYFNTYCEL----EQ--WAWTCSLCGSLNGLS 83 (457)
Q Consensus 52 RC~~C~aYiNp~~~~----~~--~~w~C~~C~~~N~v~ 83 (457)
-|.+|.+.+=|.... .. -.|+|--||+.--.|
T Consensus 58 ~CkkC~t~Lvpg~n~rvR~~~~~v~vtC~~CG~~~R~p 95 (105)
T COG2023 58 ICKKCYTPLVPGKNARVRLRKGRVVVTCLECGTIRRYP 95 (105)
T ss_pred hccccCcccccCcceEEEEcCCeEEEEecCCCcEEEec
Confidence 499999988777543 33 379999999987665
No 187
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=20.74 E-value=53 Score=21.85 Aligned_cols=25 Identities=24% Similarity=0.788 Sum_probs=12.9
Q ss_pred CcCcceEEecCceEeC----ceEEEccCCC
Q 012724 53 CENCYAYFNTYCELEQ----WAWTCSLCGS 78 (457)
Q Consensus 53 C~~C~aYiNp~~~~~~----~~w~C~~C~~ 78 (457)
|..|++ -.-|..+++ ..|+|+-|+.
T Consensus 6 CP~CGG-~DrFri~~d~~~~G~~~C~~C~~ 34 (40)
T PF08273_consen 6 CPICGG-KDRFRIFDDKDGRGTWICRQCGG 34 (40)
T ss_dssp -TTTT--TTTEEEETT----S-EEETTTTB
T ss_pred CCCCcC-ccccccCcCcccCCCEECCCCCC
Confidence 566666 222332443 6899999943
No 188
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=20.54 E-value=82 Score=24.19 Aligned_cols=28 Identities=21% Similarity=0.602 Sum_probs=16.1
Q ss_pred CCCcCcceEEecCc----eEe-----C--ceEEEccCCC
Q 012724 51 PRCENCYAYFNTYC----ELE-----Q--WAWTCSLCGS 78 (457)
Q Consensus 51 ~RC~~C~aYiNp~~----~~~-----~--~~w~C~~C~~ 78 (457)
.-|++|++++=|-. ++. . -.|.|..||+
T Consensus 47 ~~Ck~C~~~liPG~~~~vri~~~~~~~~~l~~~C~~C~~ 85 (85)
T PF04032_consen 47 TICKKCGSLLIPGVNCSVRIRKKKKKKNFLVYTCLNCGH 85 (85)
T ss_dssp TB-TTT--B--CTTTEEEEEE---SSS-EEEEEETTTTE
T ss_pred ccccCCCCEEeCCCccEEEEEecCCCCCEEEEEccccCC
Confidence 46999999987763 233 1 2799999985
Done!