Query 004188
Match_columns 770
No_of_seqs 188 out of 750
Neff 8.0
Searched_HMMs 46136
Date Thu Mar 28 19:04:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004188.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004188hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00162 transport protein sec 100.0 4E-170 8E-175 1489.8 77.2 747 1-770 1-761 (761)
2 KOG1986 Vesicle coat complex C 100.0 6E-164 1E-168 1329.8 63.2 742 1-770 1-744 (745)
3 COG5047 SEC23 Vesicle coat com 100.0 3E-155 6E-160 1228.6 50.7 743 1-769 1-753 (755)
4 KOG1984 Vesicle coat complex C 100.0 7E-131 2E-135 1086.5 54.8 664 6-769 284-1004(1007)
5 KOG1985 Vesicle coat complex C 100.0 2E-129 3E-134 1075.8 51.4 661 5-769 166-887 (887)
6 PTZ00395 Sec24-related protein 100.0 5E-117 1E-121 1016.4 59.3 692 5-769 648-1555(1560)
7 COG5028 Vesicle coat complex C 100.0 2E-115 4E-120 956.2 51.2 652 5-768 146-860 (861)
8 cd01478 Sec23-like Sec23-like: 100.0 1.3E-55 2.8E-60 459.7 25.2 253 145-402 1-267 (267)
9 cd01479 Sec24-like Sec24-like: 100.0 2E-46 4.4E-51 387.9 22.2 231 145-407 1-243 (244)
10 cd01468 trunk_domain trunk dom 100.0 1.1E-45 2.5E-50 382.8 22.1 227 145-401 1-238 (239)
11 PF04811 Sec23_trunk: Sec23/Se 100.0 5.8E-44 1.3E-48 371.5 18.7 233 145-404 1-243 (243)
12 PF08033 Sec23_BS: Sec23/Sec24 99.9 5.6E-22 1.2E-26 175.3 11.7 96 415-516 1-96 (96)
13 PF04815 Sec23_helical: Sec23/ 99.8 2.9E-19 6.4E-24 160.0 8.5 98 529-629 1-103 (103)
14 PF04810 zf-Sec23_Sec24: Sec23 99.6 2E-16 4.3E-21 114.7 1.5 40 52-91 1-40 (40)
15 cd01463 vWA_VGCC_like VWA Volt 98.5 3E-06 6.4E-11 84.9 16.3 167 145-391 11-189 (190)
16 cd01465 vWA_subgroup VWA subgr 98.5 3.1E-06 6.7E-11 82.8 15.6 158 150-391 3-163 (170)
17 cd01451 vWA_Magnesium_chelatas 98.5 3.6E-06 7.8E-11 83.4 15.8 164 150-398 3-174 (178)
18 PRK13685 hypothetical protein; 98.5 4.4E-06 9.5E-11 90.9 16.6 161 147-390 88-275 (326)
19 cd01453 vWA_transcription_fact 98.4 4.6E-06 9.9E-11 83.0 15.2 162 149-402 5-177 (183)
20 PF00626 Gelsolin: Gelsolin re 98.4 4E-07 8.7E-12 76.6 5.9 71 642-728 5-76 (76)
21 cd01466 vWA_C3HC4_type VWA C3H 98.4 5.2E-06 1.1E-10 80.2 13.4 148 150-388 3-154 (155)
22 cd01456 vWA_ywmD_type VWA ywmD 98.4 8E-06 1.7E-10 82.9 14.7 170 145-385 18-196 (206)
23 TIGR00868 hCaCC calcium-activa 98.3 0.0002 4.3E-09 85.7 27.0 168 146-403 303-476 (863)
24 cd01467 vWA_BatA_type VWA BatA 98.3 2.1E-05 4.6E-10 77.7 16.1 155 149-390 4-176 (180)
25 cd01470 vWA_complement_factors 98.3 3.4E-05 7.3E-10 77.8 16.5 167 150-391 3-190 (198)
26 cd01472 vWA_collagen von Wille 98.2 6E-05 1.3E-09 73.4 16.4 151 150-390 3-163 (164)
27 TIGR03436 acidobact_VWFA VWFA- 98.1 0.0001 2.2E-09 79.2 17.2 49 146-194 52-102 (296)
28 cd01480 vWA_collagen_alpha_1-V 98.1 0.0001 2.2E-09 73.5 15.3 158 149-392 4-173 (186)
29 PF13519 VWA_2: von Willebrand 98.0 7.6E-05 1.7E-09 72.5 13.7 162 150-401 2-170 (172)
30 cd01452 VWA_26S_proteasome_sub 98.0 0.00012 2.5E-09 72.6 14.4 140 149-377 5-157 (187)
31 cd01461 vWA_interalpha_trypsin 98.0 0.00023 4.9E-09 69.6 16.3 159 147-391 2-162 (171)
32 TIGR03788 marine_srt_targ mari 98.0 0.0055 1.2E-07 72.5 30.5 186 145-422 269-457 (596)
33 cd01474 vWA_ATR ATR (Anthrax T 98.0 0.00037 8E-09 69.4 17.1 155 148-392 5-168 (185)
34 PF13768 VWA_3: von Willebrand 97.9 0.00016 3.6E-09 69.6 13.4 151 150-386 3-154 (155)
35 cd01475 vWA_Matrilin VWA_Matri 97.9 0.00029 6.3E-09 72.5 15.1 155 148-392 3-170 (224)
36 cd01482 vWA_collagen_alphaI-XI 97.8 0.00057 1.2E-08 66.6 15.7 150 150-389 3-162 (164)
37 cd01469 vWA_integrins_alpha_su 97.8 0.00078 1.7E-08 66.6 15.9 156 150-392 3-172 (177)
38 cd01471 vWA_micronemal_protein 97.8 0.00079 1.7E-08 67.0 15.8 148 150-380 3-160 (186)
39 cd01481 vWA_collagen_alpha3-VI 97.7 0.0014 3E-08 64.1 15.2 149 150-391 3-165 (165)
40 cd01450 vWFA_subfamily_ECM Von 97.7 0.0013 2.7E-08 63.2 14.7 146 150-383 3-157 (161)
41 TIGR02031 BchD-ChlD magnesium 97.6 0.0015 3.2E-08 76.8 16.1 175 147-394 407-586 (589)
42 PRK13406 bchD magnesium chelat 97.5 0.003 6.6E-08 73.6 17.8 176 146-401 400-580 (584)
43 cd01477 vWA_F09G8-8_type VWA F 97.5 0.0028 6.1E-08 63.5 14.5 50 146-195 18-78 (193)
44 smart00327 VWA von Willebrand 97.4 0.0078 1.7E-07 58.5 16.8 153 149-387 3-164 (177)
45 PF00092 VWA: von Willebrand f 97.4 0.0026 5.6E-08 62.2 12.6 157 150-393 2-170 (178)
46 cd01476 VWA_integrin_invertebr 97.3 0.0053 1.2E-07 59.5 14.4 41 150-190 3-47 (163)
47 smart00262 GEL Gelsolin homolo 97.2 0.0012 2.7E-08 57.3 7.9 69 645-729 16-85 (90)
48 TIGR02442 Cob-chelat-sub cobal 97.1 0.01 2.2E-07 70.6 16.2 160 147-388 465-632 (633)
49 COG1240 ChlD Mg-chelatase subu 97.1 0.017 3.6E-07 59.2 14.9 170 147-398 78-254 (261)
50 cd00198 vWFA Von Willebrand fa 97.1 0.019 4.2E-07 54.2 15.0 148 149-381 2-155 (161)
51 cd01473 vWA_CTRP CTRP for CS 97.0 0.021 4.5E-07 57.3 15.4 149 150-380 3-161 (192)
52 PF04056 Ssl1: Ssl1-like; Int 97.0 0.012 2.7E-07 58.3 12.7 98 274-406 78-175 (193)
53 cd01458 vWA_ku Ku70/Ku80 N-ter 96.9 0.047 1E-06 55.9 16.7 154 149-366 3-172 (218)
54 PTZ00441 sporozoite surface pr 96.8 0.038 8.3E-07 63.2 16.6 164 146-392 41-217 (576)
55 COG4245 TerY Uncharacterized p 96.6 0.017 3.7E-07 55.8 10.4 50 145-195 2-59 (207)
56 cd01454 vWA_norD_type norD typ 96.1 0.19 4.2E-06 49.2 14.9 148 149-367 2-153 (174)
57 cd01462 VWA_YIEM_type VWA YIEM 96.0 0.22 4.8E-06 47.5 14.5 100 150-307 3-105 (152)
58 smart00187 INB Integrin beta s 95.4 3.2 7E-05 46.1 22.3 279 147-478 99-389 (423)
59 KOG0443 Actin regulatory prote 94.2 0.049 1.1E-06 63.4 4.6 85 627-724 616-706 (827)
60 TIGR00578 ku70 ATP-dependent D 93.6 3.6 7.7E-05 48.6 18.7 73 275-372 116-190 (584)
61 KOG2884 26S proteasome regulat 93.2 2.5 5.4E-05 42.1 13.6 79 275-383 84-163 (259)
62 cd01464 vWA_subfamily VWA subf 92.8 0.15 3.3E-06 50.1 5.0 45 150-194 6-58 (176)
63 cd01460 vWA_midasin VWA_Midasi 92.8 4.2 9.2E-05 42.8 15.8 46 145-192 58-110 (266)
64 PF00362 Integrin_beta: Integr 92.6 11 0.00024 42.5 19.8 280 147-479 102-393 (426)
65 KOG0444 Cytoskeletal regulator 92.3 0.2 4.3E-06 57.1 5.5 89 632-736 623-716 (1255)
66 COG5148 RPN10 26S proteasome r 89.5 7.7 0.00017 37.8 12.4 131 147-365 3-145 (243)
67 KOG0443 Actin regulatory prote 88.3 0.9 2E-05 53.3 6.4 92 630-737 254-357 (827)
68 cd01455 vWA_F11C1-5a_type Von 83.9 42 0.00092 33.4 14.8 111 253-405 75-187 (191)
69 PF03731 Ku_N: Ku70/Ku80 N-ter 83.9 4.3 9.2E-05 41.5 8.3 43 149-191 1-54 (224)
70 PF10058 DUF2296: Predicted in 82.9 0.74 1.6E-05 35.8 1.6 33 53-85 22-54 (54)
71 KOG2807 RNA polymerase II tran 81.9 28 0.00061 37.0 12.9 94 276-404 143-236 (378)
72 TIGR01053 LSD1 zinc finger dom 80.6 1.6 3.6E-05 29.7 2.4 30 54-87 2-31 (31)
73 PF03850 Tfb4: Transcription f 79.6 64 0.0014 34.3 15.2 85 276-390 116-207 (276)
74 PRK00398 rpoP DNA-directed RNA 79.2 1.6 3.4E-05 32.7 2.2 29 54-86 4-32 (46)
75 KOG0444 Cytoskeletal regulator 73.6 6 0.00013 45.7 5.8 52 626-677 729-789 (1255)
76 TIGR00627 tfb4 transcription f 73.3 29 0.00063 36.8 10.6 99 274-404 117-221 (279)
77 PRK10997 yieM hypothetical pro 72.6 1E+02 0.0022 35.4 15.3 49 149-197 325-376 (487)
78 PF09967 DUF2201: VWA-like dom 70.3 10 0.00022 35.2 5.7 42 151-194 2-45 (126)
79 smart00661 RPOL9 RNA polymeras 65.2 4.2 9.1E-05 31.0 1.7 32 55-88 2-33 (52)
80 PF09723 Zn-ribbon_8: Zinc rib 61.0 4.5 9.7E-05 29.7 1.1 30 54-84 6-35 (42)
81 cd00350 rubredoxin_like Rubred 60.7 5.5 0.00012 27.5 1.5 24 55-84 3-26 (33)
82 cd00730 rubredoxin Rubredoxin; 58.4 5.1 0.00011 30.6 1.1 30 55-84 3-43 (50)
83 PRK03954 ribonuclease P protei 58.3 6.7 0.00015 35.9 2.0 34 55-88 66-106 (121)
84 PRK12380 hydrogenase nickel in 57.7 5.8 0.00013 36.0 1.5 27 53-85 70-96 (113)
85 KOG2487 RNA polymerase II tran 56.9 1.4E+02 0.003 31.3 11.1 44 345-391 185-228 (314)
86 PF13719 zinc_ribbon_5: zinc-r 56.7 6.5 0.00014 27.9 1.3 32 54-85 3-35 (37)
87 PF08271 TF_Zn_Ribbon: TFIIB z 56.5 14 0.0003 27.1 3.1 27 55-84 2-28 (43)
88 TIGR00100 hypA hydrogenase nic 54.9 7.1 0.00015 35.6 1.6 27 53-85 70-96 (115)
89 PF06707 DUF1194: Protein of u 54.3 1.1E+02 0.0023 31.0 9.9 121 253-407 75-201 (205)
90 TIGR02605 CxxC_CxxC_SSSS putat 53.4 7.3 0.00016 29.8 1.2 31 54-85 6-36 (52)
91 COG1198 PriA Primosomal protei 51.4 47 0.001 40.1 8.0 115 53-199 444-572 (730)
92 PF13240 zinc_ribbon_2: zinc-r 50.0 7.2 0.00016 24.6 0.6 21 55-83 1-21 (23)
93 KOG2353 L-type voltage-depende 49.7 1E+02 0.0022 39.0 10.8 51 144-194 222-274 (1104)
94 COG1996 RPC10 DNA-directed RNA 49.6 8.7 0.00019 29.1 1.1 28 54-85 7-34 (49)
95 PRK03681 hypA hydrogenase nick 49.3 9.9 0.00021 34.6 1.6 28 53-85 70-97 (114)
96 cd01457 vWA_ORF176_type VWA OR 49.2 19 0.00042 35.9 3.9 44 149-192 4-58 (199)
97 PF13717 zinc_ribbon_4: zinc-r 47.7 12 0.00025 26.5 1.4 31 54-84 3-34 (36)
98 smart00834 CxxC_CXXC_SSSS Puta 47.1 10 0.00022 27.2 1.1 29 54-83 6-34 (41)
99 PF09779 Ima1_N: Ima1 N-termin 46.9 14 0.0003 34.6 2.2 35 54-90 1-35 (131)
100 PF11265 Med25_VWA: Mediator c 46.7 3.4E+02 0.0074 27.9 14.9 106 254-387 91-204 (226)
101 KOG3799 Rab3 effector RIM1 and 46.2 9.6 0.00021 34.9 1.0 31 52-86 88-118 (169)
102 PF10122 Mu-like_Com: Mu-like 45.4 9.1 0.0002 29.2 0.6 33 53-87 4-36 (51)
103 PF02318 FYVE_2: FYVE-type zin 45.4 11 0.00023 34.6 1.2 32 53-84 71-103 (118)
104 PF06943 zf-LSD1: LSD1 zinc fi 44.7 23 0.00049 23.0 2.2 24 56-83 1-24 (25)
105 PF08792 A2L_zn_ribbon: A2L zi 44.5 23 0.00051 24.5 2.5 29 53-85 3-31 (33)
106 PF00301 Rubredoxin: Rubredoxi 43.9 7 0.00015 29.5 -0.2 30 55-84 3-43 (47)
107 PF14803 Nudix_N_2: Nudix N-te 43.6 9.4 0.0002 26.7 0.4 30 55-84 2-31 (34)
108 PF05762 VWA_CoxE: VWA domain 43.3 43 0.00094 34.2 5.5 45 145-192 54-100 (222)
109 PF07282 OrfB_Zn_ribbon: Putat 42.3 18 0.00038 29.4 1.9 28 54-85 29-56 (69)
110 COG1096 Predicted RNA-binding 41.8 14 0.00031 36.2 1.5 25 54-84 150-174 (188)
111 PRK00564 hypA hydrogenase nick 41.5 11 0.00023 34.6 0.5 29 53-86 71-99 (117)
112 PF07754 DUF1610: Domain of un 39.9 24 0.00053 22.6 1.8 24 56-83 1-24 (24)
113 PF12760 Zn_Tnp_IS1595: Transp 38.9 38 0.00082 25.2 3.1 27 54-83 19-45 (46)
114 PRK00432 30S ribosomal protein 38.7 16 0.00036 27.9 1.1 25 54-84 21-46 (50)
115 PRK06393 rpoE DNA-directed RNA 38.6 17 0.00036 29.3 1.2 23 55-87 7-29 (64)
116 PF01927 Mut7-C: Mut7-C RNAse 38.2 20 0.00044 34.1 1.9 33 53-85 91-134 (147)
117 smart00659 RPOLCX RNA polymera 37.5 27 0.00058 25.9 2.0 26 55-85 4-29 (44)
118 TIGR02098 MJ0042_CXXC MJ0042 f 36.9 23 0.00049 25.1 1.6 31 54-84 3-34 (38)
119 PRK03824 hypA hydrogenase nick 36.9 19 0.00041 33.8 1.5 33 53-85 70-117 (135)
120 PRK00762 hypA hydrogenase nick 35.9 16 0.00035 33.7 0.8 33 53-86 70-103 (124)
121 TIGR00686 phnA alkylphosphonat 35.9 32 0.00069 30.7 2.6 28 53-85 2-29 (109)
122 TIGR00311 aIF-2beta translatio 35.6 34 0.00075 32.0 2.9 31 54-87 98-130 (133)
123 PRK08351 DNA-directed RNA poly 35.4 23 0.00049 28.3 1.5 24 55-88 5-28 (61)
124 COG2425 Uncharacterized protei 34.9 2E+02 0.0044 32.5 9.3 101 147-306 273-376 (437)
125 PRK12860 transcriptional activ 34.8 19 0.00042 35.6 1.2 28 52-82 133-161 (189)
126 PF11781 RRN7: RNA polymerase 34.8 38 0.00081 24.0 2.3 26 54-84 9-34 (36)
127 PRK12722 transcriptional activ 34.6 20 0.00042 35.5 1.2 30 52-84 133-163 (187)
128 COG5415 Predicted integral mem 34.1 22 0.00047 35.3 1.4 37 54-90 193-229 (251)
129 PF09082 DUF1922: Domain of un 33.9 18 0.0004 29.4 0.7 30 53-88 3-32 (68)
130 COG2051 RPS27A Ribosomal prote 33.1 39 0.00085 27.3 2.4 33 53-88 19-51 (67)
131 PF10571 UPF0547: Uncharacteri 33.0 20 0.00044 23.4 0.7 23 55-85 2-24 (26)
132 PF12773 DZR: Double zinc ribb 33.0 26 0.00057 26.4 1.5 35 52-91 11-45 (50)
133 PRK13130 H/ACA RNA-protein com 32.6 41 0.0009 26.4 2.5 34 52-95 4-39 (56)
134 smart00132 LIM Zinc-binding do 32.0 36 0.00078 23.5 2.0 29 55-83 1-35 (39)
135 PF01155 HypA: Hydrogenase exp 31.5 12 0.00025 34.1 -0.9 26 54-85 71-96 (113)
136 PF05280 FlhC: Flagellar trans 30.9 22 0.00048 34.9 0.9 28 53-83 134-162 (175)
137 COG0275 Predicted S-adenosylme 30.6 62 0.0013 34.6 4.2 28 162-189 219-246 (314)
138 PRK14890 putative Zn-ribbon RN 30.0 22 0.00049 28.0 0.6 12 73-84 46-57 (59)
139 smart00401 ZnF_GATA zinc finge 29.1 32 0.0007 26.5 1.4 32 53-84 3-34 (52)
140 PF13894 zf-C2H2_4: C2H2-type 28.9 29 0.00062 21.0 0.9 11 76-86 1-11 (24)
141 COG3357 Predicted transcriptio 28.6 28 0.00061 29.8 1.0 34 52-89 57-90 (97)
142 PF00641 zf-RanBP: Zn-finger i 28.4 18 0.0004 24.2 -0.1 16 75-90 4-19 (30)
143 PHA00626 hypothetical protein 28.3 56 0.0012 25.5 2.4 30 55-86 2-34 (59)
144 TIGR01384 TFS_arch transcripti 28.1 37 0.0008 30.1 1.8 27 55-87 2-28 (104)
145 PF02891 zf-MIZ: MIZ/SP-RING z 27.5 22 0.00047 27.2 0.1 18 66-83 32-49 (50)
146 PRK12286 rpmF 50S ribosomal pr 26.9 52 0.0011 25.9 2.2 26 52-86 26-51 (57)
147 PRK10220 hypothetical protein; 26.4 58 0.0013 29.1 2.6 29 53-86 3-31 (111)
148 PF08274 PhnA_Zn_Ribbon: PhnA 26.0 33 0.00071 23.3 0.8 25 54-83 3-27 (30)
149 PRK07111 anaerobic ribonucleos 25.7 47 0.001 40.4 2.6 25 52-85 679-703 (735)
150 COG2888 Predicted Zn-ribbon RN 25.2 58 0.0013 25.8 2.1 29 52-84 8-36 (61)
151 COG2956 Predicted N-acetylgluc 25.1 37 0.0008 36.5 1.4 28 52-87 353-380 (389)
152 PRK08270 anaerobic ribonucleos 24.7 54 0.0012 39.3 2.8 24 52-84 625-648 (656)
153 PRK00420 hypothetical protein; 24.6 52 0.0011 29.8 2.0 29 54-87 24-52 (112)
154 PF14353 CpXC: CpXC protein 24.3 73 0.0016 29.3 3.1 35 54-88 2-51 (128)
155 cd02342 ZZ_UBA_plant Zinc fing 24.1 55 0.0012 24.2 1.7 22 54-82 1-22 (43)
156 PF05129 Elf1: Transcription e 23.9 29 0.00062 29.5 0.3 15 74-88 21-35 (81)
157 KOG2846 Predicted membrane pro 23.8 38 0.00081 36.3 1.2 35 54-88 221-255 (328)
158 PF09297 zf-NADH-PPase: NADH p 23.4 89 0.0019 21.2 2.6 26 55-84 5-30 (32)
159 TIGR00416 sms DNA repair prote 23.1 42 0.00092 38.3 1.5 28 54-89 8-35 (454)
160 smart00547 ZnF_RBZ Zinc finger 23.0 36 0.00079 21.7 0.6 14 75-88 2-15 (26)
161 cd01464 vWA_subfamily VWA subf 22.9 98 0.0021 30.0 3.9 37 273-309 76-120 (176)
162 PRK14873 primosome assembly pr 22.5 38 0.00082 40.6 1.0 30 52-85 391-420 (665)
163 PF04032 Rpr2: RNAse P Rpr2/Rp 22.4 51 0.0011 27.8 1.5 30 54-83 47-85 (85)
164 COG1592 Rubrerythrin [Energy p 22.1 48 0.001 32.2 1.4 13 73-85 132-144 (166)
165 COG1645 Uncharacterized Zn-fin 21.6 64 0.0014 30.0 2.1 25 54-84 29-53 (131)
166 TIGR00006 S-adenosyl-methyltra 21.4 1E+02 0.0022 33.2 3.9 28 162-189 215-242 (305)
167 PF03604 DNA_RNApol_7kD: DNA d 21.4 33 0.00072 23.6 0.1 10 52-61 16-25 (32)
168 COG2023 RPR2 RNase P subunit R 21.4 51 0.0011 29.3 1.3 34 55-88 58-95 (105)
169 COG1773 Rubredoxin [Energy pro 21.1 45 0.00098 26.0 0.8 15 69-83 30-44 (55)
170 COG0675 Transposase and inacti 21.0 51 0.0011 35.6 1.6 24 54-86 310-333 (364)
171 TIGR00354 polC DNA polymerase, 21.0 48 0.001 40.5 1.4 25 53-87 625-649 (1095)
172 PRK11823 DNA repair protein Ra 20.9 47 0.001 37.9 1.3 28 54-89 8-35 (446)
173 cd00729 rubredoxin_SM Rubredox 20.9 52 0.0011 22.9 1.0 11 75-85 2-12 (34)
174 COG1066 Sms Predicted ATP-depe 20.8 48 0.001 36.9 1.2 28 54-91 8-37 (456)
175 COG1545 Predicted nucleic-acid 20.7 1.5E+02 0.0033 28.0 4.5 24 54-85 30-53 (140)
176 COG1656 Uncharacterized conser 20.3 51 0.0011 31.8 1.2 71 21-91 54-146 (165)
177 PRK12366 replication factor A; 20.2 72 0.0016 38.2 2.7 26 53-84 532-557 (637)
No 1
>PLN00162 transport protein sec23; Provisional
Probab=100.00 E-value=3.9e-170 Score=1489.76 Aligned_cols=747 Identities=57% Similarity=0.982 Sum_probs=707.3
Q ss_pred CCcccccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCCCCCCCCCCCCccCCCCCeeEcCceEEecCCCeEEecC
Q 004188 1 MDFTELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQSSEIPVLPYDPLICSKCGAVLNPYGRVDYASRIWTCPF 80 (770)
Q Consensus 1 ~~~~~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~ip~~~~~p~RC~~C~ayiNp~~~~~~~~~~w~C~~ 80 (770)
|||+|+|+.++||+|||+||.|+.++++++|||||+|+||++.+++|+++++|+||++|+|||||||+|+.+|++|+|||
T Consensus 1 ~~~~~~e~~~gvR~s~n~~P~t~~~~~~~~iPlg~v~tPl~~~~~vp~v~~~pvRC~~CraylNPf~~~d~~~~~W~C~~ 80 (761)
T PLN00162 1 MDFAELEAIDGVRMSWNVWPSSKIEASKCVIPLAALYTPLKPLPELPVLPYDPLRCRTCRAVLNPYCRVDFQAKIWICPF 80 (761)
T ss_pred CchhhhcccCceEeeeecCCCCHHHHhcCCCCeEEEEecCCcCCCCCcCCCCCCccCCCcCEECCceEEecCCCEEEccC
Confidence 89999999999999999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred CCCCCCCCcCCCCCCCCCCCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEEEEEecCcch
Q 004188 81 CYGKNPFPRSYSSIAETNLPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFVFVVDGCMEE 160 (770)
Q Consensus 81 C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~vFvID~s~~~ 160 (770)
|+..|.+|++|.+++++++||||.|+++||||++|+ |+.++ +.||+|+||||+|..+
T Consensus 81 C~~~N~~P~~Y~~~~~~~~p~EL~p~~~TvEY~~p~-~~~~~----------------------~~pp~fvFvID~s~~~ 137 (761)
T PLN00162 81 CFQRNHFPPHYSSISETNLPAELFPQYTTVEYTLPP-GSGGA----------------------PSPPVFVFVVDTCMIE 137 (761)
T ss_pred CCCCCCCchHhcccCccCCChhhcCCceeEEEECCC-CCCCC----------------------CCCcEEEEEEecchhH
Confidence 999999999998788889999998889999999997 66554 8899999999999999
Q ss_pred hHHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhccccccccc-C------
Q 004188 161 SEIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCAKQHQ-L------ 233 (770)
Q Consensus 161 ~~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~~~~~-~------ 233 (770)
++++.++++|+++|+.||++++|||||||+.||||+|+.+++++++||+|+++++.+|+++++++.+..... +
T Consensus 138 ~~l~~lk~sl~~~L~~LP~~a~VGlITF~s~V~~~~L~~~~~~~~~Vf~g~k~~t~~~l~~~l~l~~~~~~~~~~~~~~~ 217 (761)
T PLN00162 138 EELGALKSALLQAIALLPENALVGLITFGTHVHVHELGFSECSKSYVFRGNKEVSKDQILEQLGLGGKKRRPAGGGIAGA 217 (761)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCCCcceEEecCCccCCHHHHHHHhccccccccccccccccc
Confidence 999999999999999999999999999999999999998889999999999999999999998875533210 0
Q ss_pred -CCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCC-CCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCC
Q 004188 234 -GKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRT-PGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMG 311 (770)
Q Consensus 234 -~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~G 311 (770)
...+.|..++||+|++||+..|+++||+|++++|++ .++++.||+|+||++|..+|+.+.++.||||++|++||||.|
T Consensus 218 ~~~~~~p~~~~fLvpl~e~~~~i~~lLe~L~~~~~~~~~~~rp~r~tG~AL~vA~~lL~~~~~~~gGrI~~F~sgppT~G 297 (761)
T PLN00162 218 RDGLSSSGVNRFLLPASECEFTLNSALEELQKDPWPVPPGHRPARCTGAALSVAAGLLGACVPGTGARIMAFVGGPCTEG 297 (761)
T ss_pred cccccCCCccceeEEHHHHHHHHHHHHHhhhccccccCCCCCCCccHHHHHHHHHHHHhhccCCCceEEEEEeCCCCCCC
Confidence 012456678999999999999999999999999887 788999999999999999999877789999999999999999
Q ss_pred CCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCC
Q 004188 312 PGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETF 391 (770)
Q Consensus 312 pG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f 391 (770)
||+|+.+++++++|+|+|++++++++++++.+||++||.+|+++||+||+|+++.+|+|++||+.|++.|||.+++|++|
T Consensus 298 pG~v~~r~~~~~~rsh~di~k~~~~~~~~a~~fY~~la~~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF 377 (761)
T PLN00162 298 PGAIVSKDLSEPIRSHKDLDKDAAPYYKKAVKFYEGLAKQLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESF 377 (761)
T ss_pred CceeecccccccccCccccccchhhhcchHHHHHHHHHHHHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCc
Confidence 99999999999999999999998899999999999999999999999999999999999999999999999999999999
Q ss_pred ChhHHHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccceeeecCCCCceE
Q 004188 392 ESDQFRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMWKLNTLASKTCI 471 (770)
Q Consensus 392 ~~~~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~~l~~~~~~~si 471 (770)
+.+.|+++++|+|+|+.++++++||+|+||||||+|++|.+++||++...+++.+++|+++|.|+|+.|+++++++++|+
T Consensus 378 ~~~~f~~~l~r~~~r~~~~~~~~gf~a~~~VrtS~glkv~g~~G~~~s~~~~~~~vsd~~iG~g~T~~w~l~~l~~~~t~ 457 (761)
T PLN00162 378 GHSVFKDSLRRVFERDGEGSLGLSFNGTFEVNCSKDVKVQGAIGPCASLEKKGPSVSDTEIGEGGTTAWKLCGLDKKTSL 457 (761)
T ss_pred ChHHHHHHHHHHhcccccccccccceeEEEEEecCCeEEeeeEcCcccccccCCccccccccCCCCceeeecCcCcCCEE
Confidence 99999999999999987888889999999999999999999999999888888899999999999999999999999999
Q ss_pred EEEEEeccCC---cCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccC-CChHHHHhccCHHHHHHHHHHHHHHHHhhC
Q 004188 472 AFFFQVSDEQ---KAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVG-KQSPEIAAGFDQEAAAAIMARLAIHRAETC 547 (770)
Q Consensus 472 ~~~f~~~~~~---~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~-~~~~~v~~~~D~ea~~~llar~a~~~~~~~ 547 (770)
+|+|++++.. ++.+...+||||+++||+.+|+|||||||++++++. +++.+++++|||||++++|||+|+.+++++
T Consensus 458 av~f~~~~~~~~~~~~~~~~~~iQ~a~lYt~~~G~rRiRV~T~~~~~~~~~~~~~v~~~fDqeA~a~llaR~av~k~~~~ 537 (761)
T PLN00162 458 AVFFEVANSGQSNPQPPGQQFFLQFLTRYQHSNGQTRLRVTTVTRRWVEGSSSEELVAGFDQEAAAVVMARLASHKMETE 537 (761)
T ss_pred EEEEEEccccccCCCCCCceEEEEEEEEEEcCCCCEEEEEEccccCccCCCCHHHHHHhcCHHHHHHHHHHHHHHHHhhC
Confidence 9999998653 334567899999999999999999999999999762 378899999999999999999999999999
Q ss_pred ChHHHHHHHHHHHHHHHHHhcccCCCCCCCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHHHHHhcCChHHHHH
Q 004188 548 YSRDVVRWLDDTLIRFTSKFGDYVPEDPSSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFRLMLNREGVVGSLI 627 (770)
Q Consensus 548 ~~~~~~~~l~~~l~~~~~~~~~yr~~~~~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~ 627 (770)
+..|+++||+++|+++|++|+.|||+++++|+||++|++||+|||+|+||++|+++|+|||||+|+|++++++++++++.
T Consensus 538 ~~~d~~r~ld~~li~~~~~f~~Yrk~~~~s~~Lp~~~~~lP~f~~~LrRS~~l~~~n~spDera~~r~~l~~~~~~~sl~ 617 (761)
T PLN00162 538 EEFDATRWLDRALIRLCSKFGDYRKDDPSSFRLSPNFSLYPQFMFNLRRSQFVQVFNNSPDETAYFRMMLNRENVTNSLV 617 (761)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhhcccCCccccCCHHHHHHHHHHHHHhhhhhccCCCCCchHHHHHHHHHhcCCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccccccccCCCCcccccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHHH
Q 004188 628 MIQPTLFQYSFDGPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLVA 707 (770)
Q Consensus 628 ~iyP~L~~~~~~~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~ 707 (770)
||||+|++||++++|+|++||+++|++|+|||||+|++|+||+|+++++|+++|||++|||++++++|++|+++|++|++
T Consensus 618 mI~P~L~sy~~~~~P~pv~Ld~~si~~d~ilLLD~~f~vvi~~G~~ia~w~~~~~~~~~~~~~~~~~l~~p~~~a~~~~~ 697 (761)
T PLN00162 618 MIQPTLISYSFNGPPEPVLLDVASIAADRILLLDSYFSVVIFHGSTIAQWRKAGYHNQPEHEAFAQLLEAPQADAQAIIK 697 (761)
T ss_pred hhCCeEEEecCCCCCcceecchhhccCCceEEEeCCCEEEEEecCcccchhhcCCCCCcchhhHHHHHHhHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcEEEEEccCCChHHHHHHhhCCCCCCCCccC-CCCcccccCCCcHHHHHHHHHHHHhcC
Q 004188 708 ERIPAPKIIKCDQHGSQARFLLAKLNPSVTQDSMYK-EGSDVIFTDDLSLEVFIDHLQTLAVQG 770 (770)
Q Consensus 708 ~R~~~p~~~~~~~g~~~~r~l~~~L~~~~~~~~~~~-~~~~~~~t~~~S~~~fl~~l~~~~~~~ 770 (770)
+|+|+||+++|+||+||+|||++||||+++|++... .+++.++|||+|++.||+||+|++|++
T Consensus 698 ~Rfp~Pr~i~~~~~~SqaRfl~~klnPs~~~~~~~~~~~~~~~~tdd~sl~~f~~~l~~~~v~~ 761 (761)
T PLN00162 698 ERFPVPRLVVCDQHGSQARFLLAKLNPSATYNSANAMGGSDIIFTDDVSLQVFMEHLQRLAVQS 761 (761)
T ss_pred cCCCCCeEEEeCCCCcHHHHHHHhcCCcccccCCCCCCCCCeeecCCcCHHHHHHHHHHHhcCC
Confidence 999999999999999999999999999999966543 366789999999999999999999985
No 2
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=6.3e-164 Score=1329.82 Aligned_cols=742 Identities=52% Similarity=0.935 Sum_probs=708.3
Q ss_pred CCcccccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCCCCCCCCCCCCccCCCCCeeEcCceEEecCCCeEEecC
Q 004188 1 MDFTELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQSSEIPVLPYDPLICSKCGAVLNPYGRVDYASRIWTCPF 80 (770)
Q Consensus 1 ~~~~~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~ip~~~~~p~RC~~C~ayiNp~~~~~~~~~~w~C~~ 80 (770)
|.++++|+.++||+|||+||+++....++.+|++|+|+||.+...+|++.|+|+||.+|+||+||||.++.+.+.|.|+|
T Consensus 1 ~~~~~~e~~dGvR~twnvwPs~~~~~~~~vvPla~lytPl~e~~~~~~~~y~P~~C~~C~AvlNPyc~vd~~a~~W~Cpf 80 (745)
T KOG1986|consen 1 EFIEDIEEIDGVRFTWNVWPSTRAEASRTVVPLACLYTPLKERPDLPPIQYDPLRCSKCGAVLNPYCSVDFRAKSWICPF 80 (745)
T ss_pred CcccccccCCCcccccccCCCcccccccccccHHHhccccccCCCCCccCCCCchhccchhhcCcceeecccCceEeccc
Confidence 45677999999999999999999999999999999999999877789999999999999999999999999999999999
Q ss_pred CCCCCCCCcCCCCCCCCCCCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEEEEEecCcch
Q 004188 81 CYGKNPFPRSYSSIAETNLPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFVFVVDGCMEE 160 (770)
Q Consensus 81 C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~vFvID~s~~~ 160 (770)
|..+|.+|++|.++..+|.|+||.|+++||||.+++ .. ..||+|+||||++..+
T Consensus 81 C~qrN~~p~~Y~~is~~n~P~el~Pq~stvEy~l~~---~~-----------------------~~ppvf~fVvDtc~~e 134 (745)
T KOG1986|consen 81 CNQRNPFPPHYSGISENNLPPELLPQYSTVEYTLSP---GR-----------------------VSPPVFVFVVDTCMDE 134 (745)
T ss_pred cccCCCCChhhcccCccCCChhhcCCcceeEEecCC---CC-----------------------CCCceEEEEEeeccCh
Confidence 999999999999999999999999999999999886 22 5689999999999999
Q ss_pred hHHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccccccccCCCCCCCC
Q 004188 161 SEIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCAKQHQLGKTPVIQ 240 (770)
Q Consensus 161 ~~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~~~~~~~~~~~~~ 240 (770)
++++.++++|+.+|+.||++++||||||++.|++|+|+..++++++||+|+|+++.+|++++|+.+..... |.. +...
T Consensus 135 eeL~~LkssL~~~l~lLP~~alvGlItfg~~v~v~el~~~~~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~-~~~-~~~~ 212 (745)
T KOG1986|consen 135 EELQALKSSLKQSLSLLPENALVGLITFGTMVQVHELGFEECSKSYVFSGNKEYSAKQLLDLLGLSGGAGK-GSE-NQSA 212 (745)
T ss_pred HHHHHHHHHHHHHHhhCCCcceEEEEEecceEEEEEcCCCcccceeEEeccccccHHHHHHHhcCCccccc-CCc-cccc
Confidence 99999999999999999999999999999999999999999999999999999999999999988762221 211 2234
Q ss_pred CCcceEechhcHHHHHHHHHHhhcccCCC-CCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCCCCcccccc
Q 004188 241 KQGFLLPVSECEFNVTTAIEEINSLTQRT-PGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMGPGIIVDTE 319 (770)
Q Consensus 241 ~~~~l~~~~e~~~~i~~ll~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~GpG~l~~~~ 319 (770)
..+||.|+++|+..+.++|++|.++.|++ +++|+.||||+||++|+.||++|++++|+||++|++||||.|||.+++++
T Consensus 213 ~~rFL~P~~~c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~e 292 (745)
T KOG1986|consen 213 SNRFLLPAQECEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRE 292 (745)
T ss_pred chhhhccHHHHHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchh
Confidence 57899999999999999999999999999 89999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCCChhHHHHH
Q 004188 320 FSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFESDQFRKC 399 (770)
Q Consensus 320 ~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~ 399 (770)
.++++|+|+|+++++++|++++.+||++||++++.+|++||||+++.||+|+++|++|++.|||.+.+.++|+.+.|+++
T Consensus 293 l~~piRshhdi~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~s 372 (745)
T KOG1986|consen 293 LKEPIRSHHDIEKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQS 372 (745)
T ss_pred hcCCCcCcccccCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccceeeecCCCCceEEEEEEecc
Q 004188 400 MRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMWKLNTLASKTCIAFFFQVSD 479 (770)
Q Consensus 400 l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~~l~~~~~~~si~~~f~~~~ 479 (770)
++|+|+|+.+|++.+||+|.|+|+||++++|++.+||+.+.++|+++|+|++||.|+|..|+++.+++.+++++.|++..
T Consensus 373 fqR~f~~d~~~~l~~~fn~~leV~tSkdlkI~g~IGp~~Sl~~k~~~vsdt~ig~g~t~~wkm~~ls~~t~~s~~fei~~ 452 (745)
T KOG1986|consen 373 FQRIFTRDGEGDLKMGFNGTLEVKTSKDLKIQGVIGPCVSLNKKGPNVSDTEIGEGNTSAWKMCGLSPSTTLSLFFEISN 452 (745)
T ss_pred HHHHhccccccchhhhcCceEEEEecCCcEEEecccccccccCCCCccccceeccccccceeeeccCCCceEEEEEEecc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCcCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHHHHHHHhhCChHHHHHHHHHH
Q 004188 480 EQKAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARLAIHRAETCYSRDVVRWLDDT 559 (770)
Q Consensus 480 ~~~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~a~~~~~~~~~~~~~~~l~~~ 559 (770)
...++.+..+||||+++|.+++|++|+||+|+++++++....++..+|||||++++|||+++.++.+++..|+++|+|+.
T Consensus 453 ~~~~~~~~~~~iQFiT~Yq~s~g~~riRVtT~~r~~~d~~~~~i~~~FDqEaaAV~mAR~~~~kae~e~~~d~~rwlDr~ 532 (745)
T KOG1986|consen 453 QHNIPQSGQGYIQFITQYQHSSGQKRIRVTTLARPWADSGSPEISQSFDQEAAAVLMARLALLKAETEDGPDVLRWLDRN 532 (745)
T ss_pred ccCCCCCCeeEEEEEEEEEcCCCcEEEEEEEeehhhccccchHhhhccchHHHHHHHHHHHHHhhhccccchHHHHHHHH
Confidence 64444567999999999999999999999999999995444799999999999999999999999999999999999999
Q ss_pred HHHHHHHhcccCCCCCCCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHHHHHhcCChHHHHHhhcccccccccC
Q 004188 560 LIRFTSKFGDYVPEDPSSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFRLMLNREGVVGSLIMIQPTLFQYSFD 639 (770)
Q Consensus 560 l~~~~~~~~~yr~~~~~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iyP~L~~~~~~ 639 (770)
|+++|++|+.|+|+.|++|.|+++|.++|+|||+||||++|+.+|.|||||+|++|+|++.++.+++.||+|+|++|+++
T Consensus 533 Lirlc~kFg~y~k~dPssf~l~~~fsl~PQfmfhLRRS~fLqvfNnSPDEt~~yrhll~~e~v~~sliMIqP~L~sySf~ 612 (745)
T KOG1986|consen 533 LIRLCQKFGDYRKDDPSSFRLSPNFSLYPQFMFHLRRSPFLQVFNNSPDETAYYRHLLNREDVDNSLIMIQPTLLSYSFN 612 (745)
T ss_pred HHHHHHHHhccCCCCchhhcCChhhhhhHHHHHhhccchhhhccCCCcchHHHHHHHHhhccchhhhheecceeeeeecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHHHcCCCCcEEEEEc
Q 004188 640 GPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLVAERIPAPKIIKCD 719 (770)
Q Consensus 640 ~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~R~~~p~~~~~~ 719 (770)
+.|+|++||..+|.+|.|+|||++++|+||+|+.+++|+++|||++|||+.++++|++|+.+|++|+.+|||.|++++|+
T Consensus 613 g~~epvlLD~~Si~~D~iLLlDt~f~i~i~hG~tIaqWR~~gy~~~pe~~~f~~LL~ap~~dA~el~~~RFP~PR~v~~~ 692 (745)
T KOG1986|consen 613 GPPEPVLLDVASILADRILLLDTYFTIVIFHGSTIAQWRKAGYHEQPEYENFKELLEAPREDAQELLLERFPMPRYVVTD 692 (745)
T ss_pred CCCceeEecccccCCceEEEeecceEEEEECCchHHHHHhcccccChhhHHHHHHHHhHHHHHHHHHHhhCCCCeEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCChHHHHHHhhCCCCCCCCccC-CCCcccccCCCcHHHHHHHHHHHHhcC
Q 004188 720 QHGSQARFLLAKLNPSVTQDSMYK-EGSDVIFTDDLSLEVFIDHLQTLAVQG 770 (770)
Q Consensus 720 ~g~~~~r~l~~~L~~~~~~~~~~~-~~~~~~~t~~~S~~~fl~~l~~~~~~~ 770 (770)
||+||+|||++||||+.+|++... +.++.+.|||+||++||+||+|++|++
T Consensus 693 q~GSQARFLlsklnPS~t~~~~~~~~~s~~I~TDDvSlq~fm~hLkklav~~ 744 (745)
T KOG1986|consen 693 QGGSQARFLLSKLNPSETHNNLTAHGGSSIILTDDVSLQVFMEHLKKLAVSS 744 (745)
T ss_pred CCccHHHhhhhhcCcchhccchhhccCCCeeeeccccHHHHHHHHHhhcCCC
Confidence 999999999999999998888653 226789999999999999999999874
No 3
>COG5047 SEC23 Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.9e-155 Score=1228.58 Aligned_cols=743 Identities=44% Similarity=0.787 Sum_probs=705.5
Q ss_pred CCcccccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCCCCCCCCCCCCccCCC-CCeeEcCceEEecCCCeEEec
Q 004188 1 MDFTELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQSSEIPVLPYDPLICSK-CGAVLNPYGRVDYASRIWTCP 79 (770)
Q Consensus 1 ~~~~~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~~~ip~~~~~p~RC~~-C~ayiNp~~~~~~~~~~w~C~ 79 (770)
|||+++|+.++||+|||+||+|+..+.++.+|++|+|+||++.+++++..++|+.|.. |+||+||||.++.+++.|.|+
T Consensus 1 m~fe~iee~dgir~twnvfpat~~da~~~~iPia~lY~Pl~e~~~~~v~~yepv~C~~pC~avlnpyC~id~r~~~W~Cp 80 (755)
T COG5047 1 MNFEIIEENDGIRLTWNVFPATRGDATRTVIPIACLYTPLHEDDALTVNYYEPVKCTAPCKAVLNPYCHIDERNQSWICP 80 (755)
T ss_pred CchhhhccccceEEEEecccCCccccccccccHHHhccccccccccCcccCCCceecccchhhcCcceeeccCCceEecc
Confidence 8999999999999999999999999999999999999999988889999999999999 999999999999999999999
Q ss_pred CCCCCCCCCcCCCCCCCCCCCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEEEEEecCcc
Q 004188 80 FCYGKNPFPRSYSSIAETNLPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFVFVVDGCME 159 (770)
Q Consensus 80 ~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~vFvID~s~~ 159 (770)
||+..|.+|++|.++++.++|+||-|+++|+||++++ +. ..||+|+||||++.+
T Consensus 81 fCnqrn~lp~qy~~iS~~~LplellpqssTiey~lsk---p~-----------------------~~ppvf~fvvD~~~D 134 (755)
T COG5047 81 FCNQRNTLPPQYRDISNANLPLELLPQSSTIEYTLSK---PV-----------------------ILPPVFFFVVDACCD 134 (755)
T ss_pred eecCCCCCChhhcCCCcccCCccccCCCceEEEEccC---Cc-----------------------cCCceEEEEEEeecC
Confidence 9999999999999999999999999999999999987 32 789999999999999
Q ss_pred hhHHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccccccccCCCCC--
Q 004188 160 ESEIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCAKQHQLGKTP-- 237 (770)
Q Consensus 160 ~~~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~~~~~~~~~~-- 237 (770)
.+++..++++|+..|..+|+++.||||||++.|++|+++...+.+++||+|+++|+.+.+++|+..+....+.|.+.-
T Consensus 135 ~e~l~~LkdslivslsllppeaLvglItygt~i~v~el~ae~~~r~~VF~g~~eyt~~~L~~ll~~~~~~~~~~~es~is 214 (755)
T COG5047 135 EEELTALKDSLIVSLSLLPPEALVGLITYGTSIQVHELNAENHRRSYVFSGNKEYTKENLQELLALSKPTKSGGFESKIS 214 (755)
T ss_pred HHHHHHHHHHHHHHHhcCCccceeeEEEecceeEEEeccccccCcceeecchHHHHHHHHHHHhcccCCCCcchhhhhcc
Confidence 999999999999999999999999999999999999999999999999999999999999999887632222111111
Q ss_pred ---CCCCCcceEechhcHHHHHHHHHHhhcccCCC-CCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCCCC
Q 004188 238 ---VIQKQGFLLPVSECEFNVTTAIEEINSLTQRT-PGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMGPG 313 (770)
Q Consensus 238 ---~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~GpG 313 (770)
.....+|+.|+.+|+..+.++|++|.++.|++ .++|+.||||+||.+|..||+.|+++.|+||++|++||||.|||
T Consensus 215 ~~~~~~~~rFl~p~q~ce~~L~n~le~L~pd~~~v~~~~Rp~RCTGsAl~ias~Ll~~~~p~~~~~i~lF~~GPcTvGpG 294 (755)
T COG5047 215 GIGQFASSRFLLPTQQCEFKLLNILEQLQPDPWPVPAGKRPLRCTGSALNIASSLLEQCFPNAGCHIVLFAGGPCTVGPG 294 (755)
T ss_pred cccccchhhhhccHHHHHHHHHHHHHHhCCCCccCCCCCCCccccchhHHHHHHHHHhhccCcceeEEEEcCCCccccCc
Confidence 11235699999999999999999999999998 89999999999999999999999999999999999999999999
Q ss_pred ccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCCCh
Q 004188 314 IIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFES 393 (770)
Q Consensus 314 ~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~ 393 (770)
.|++++.++++|+|+|++++.+++.+++.+||++||++.+.+|.++|+|+.+.+|+|+.+|++|...|||.+.+.++|+.
T Consensus 295 ~Vvs~elkEpmRshH~ie~d~aqh~kka~KFY~~laeR~a~~gh~~DifagcldqIGI~eM~~L~~sTgg~lvlsdsF~t 374 (755)
T COG5047 295 TVVSTELKEPMRSHHDIESDSAQHSKKATKFYKGLAERVANQGHALDIFAGCLDQIGIMEMEPLTTSTGGALVLSDSFTT 374 (755)
T ss_pred eeeehhhcccccccccccccchhhccchHHHHHHHHHHHhccchhHHHHHHHHHhhhhhcchhhccCCcceEEEeccccH
Confidence 99999999999999999999899999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccceeeecCCCCceEEE
Q 004188 394 DQFRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMWKLNTLASKTCIAF 473 (770)
Q Consensus 394 ~~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~~l~~~~~~~si~~ 473 (770)
++|+++++|+|.++.+|+|++||+|.|+|.||+++++++++|+....+|++.+|+|.+||.|.|+.|++++++|.+++++
T Consensus 375 ~ifkqSfqrif~~d~~g~l~~gfNa~m~V~TsKnl~~~g~ig~a~~~~k~~~ni~~~eigi~~t~swkm~slsPk~nyal 454 (755)
T COG5047 375 SIFKQSFQRIFNRDSEGYLKMGFNANMEVKTSKNLKIKGLIGHAVSVKKKANNISDSEIGIGATNSWKMASLSPKSNYAL 454 (755)
T ss_pred HHHHHHHHHHhCcCcccchhhhhccceeEeeccCceeeeeecceeeecccccccccccccccccccccccccCCCcceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeccCCcC---CCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHHHHHHHhhCChH
Q 004188 474 FFQVSDEQKA---QPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARLAIHRAETCYSR 550 (770)
Q Consensus 474 ~f~~~~~~~l---~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~a~~~~~~~~~~ 550 (770)
.|++....+- +....+||||.++|.+++|..||||+|++..+++.....++++|||||+++++||+++.++..++..
T Consensus 455 ~fei~~~~~~~~~~~~~~a~iQfiT~yQhss~t~riRVtTvar~f~~~~~p~i~~SFdqEaaaV~~aR~a~~K~~~ed~~ 534 (755)
T COG5047 455 YFEIALGAASGSAQRPAEAYIQFITTYQHSSGTYRIRVTTVARMFTDGGLPKINRSFDQEAAAVFMARIAAFKAETEDII 534 (755)
T ss_pred EEEeccccCCCccCCcccchhhhhhhhhccCCcEEEEEeehhhhhccCCChhhhhcchhhHHHHHHHHHHHhhcccccch
Confidence 9999865221 1236899999999999999999999999999997778899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCCCCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHHHHHhcCChHHHHHhhc
Q 004188 551 DVVRWLDDTLIRFTSKFGDYVPEDPSSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFRLMLNREGVVGSLIMIQ 630 (770)
Q Consensus 551 ~~~~~l~~~l~~~~~~~~~yr~~~~~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~~~~~~~~~iy 630 (770)
|+.+|+|+.|+++|+.|+.|+|+.|++|.|+++|.++|+|||+|+||++|+++|.|||||+||+|++.+.++.+++.||+
T Consensus 535 Dv~rw~dr~lirlcq~fa~y~k~dpssfrl~~~f~lypqf~y~lrRSpfL~vfNnSPDEt~fyrh~l~~~dv~~sLimiq 614 (755)
T COG5047 535 DVFRWIDRNLIRLCQKFADYRKDDPSSFRLDPNFTLYPQFMYHLRRSPFLSVFNNSPDETAFYRHMLNNADVNDSLIMIQ 614 (755)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCCCchhhcCCcchhhhhHHHhhhhccceeeccCCCcchHHHHHHHHhcccccchhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCcccccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHHHcCC
Q 004188 631 PTLFQYSFDGPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLVAERI 710 (770)
Q Consensus 631 P~L~~~~~~~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~R~ 710 (770)
|+|.+|++++.+.||.||+-+++||.|+|||++++|.||.|+.+++|+++||+++|+|..+++++++|+.+|.+++.+||
T Consensus 615 PtL~Sys~~~~~~pVlLDs~svkpdviLLlDtff~Ili~hG~~iaqwr~agyq~qpey~~lK~Ll~~p~~ea~ell~dRf 694 (755)
T COG5047 615 PTLQSYSFEKGGVPVLLDSVSVKPDVILLLDTFFHILIFHGSYIAQWRNAGYQEQPEYLNLKELLEAPRLEAAELLQDRF 694 (755)
T ss_pred chheeeeccCCCceEEEeccccCCCeEEEeeceeEEEEECChHHHHHHhhhhhcCchhhhHHHHhhchhhHHHHHHHhhC
Confidence 99999999888999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcEEEEEccCCChHHHHHHhhCCCCCCCCccCCCCcccccCCCcHHHHHHHHHHHHhc
Q 004188 711 PAPKIIKCDQHGSQARFLLAKLNPSVTQDSMYKEGSDVIFTDDLSLEVFIDHLQTLAVQ 769 (770)
Q Consensus 711 ~~p~~~~~~~g~~~~r~l~~~L~~~~~~~~~~~~~~~~~~t~~~S~~~fl~~l~~~~~~ 769 (770)
|.|++++|+||+||+|||++|+||+..++....++++.+.|||++|++||.||+|++|.
T Consensus 695 P~Prfi~teqggSQaRfLlskinPsd~~~~~~~~~s~tilTddv~lq~fm~hl~~lav~ 753 (755)
T COG5047 695 PIPRFIVTEQGGSQARFLLSKINPSDITNKMSGGGSETILTDDVNLQKFMNHLRKLAVS 753 (755)
T ss_pred CCCeEEEecCCccHHHHHHhhcCccccccccccCccceeeecccCHHHHHHHHHHHhcc
Confidence 99999999999999999999999998776554455678899999999999999999986
No 4
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=7e-131 Score=1086.53 Aligned_cols=664 Identities=21% Similarity=0.271 Sum_probs=607.5
Q ss_pred ccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCC----CCCCCCCC---CCccCCCCCeeEcCceEEecCCCeEEe
Q 004188 6 LEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQS----SEIPVLPY---DPLICSKCGAVLNPYGRVDYASRIWTC 78 (770)
Q Consensus 6 ~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~----~~ip~~~~---~p~RC~~C~ayiNp~~~~~~~~~~w~C 78 (770)
||+|+|||+|+|++|.|.++++.++||||++|+||+.. +++|+|+. +|+||+||+||||||++|+.+|++|+|
T Consensus 284 N~sPr~mr~T~Y~iP~T~Dl~~as~iPLalvIqPfa~l~p~E~~~~vVd~g~sgPvRC~RCkaYinPFmqF~~~gr~f~C 363 (1007)
T KOG1984|consen 284 NCSPRFMRCTMYTIPCTNDLLKASQIPLALVIQPFATLTPNEAPVPVVDLGESGPVRCNRCKAYINPFMQFIDGGRKFIC 363 (1007)
T ss_pred CCCcchheeecccCCccHhHHHhcCCcceeEecccccCCcccCCCceecCCCCCCcchhhhhhhcCcceEEecCCceEEe
Confidence 99999999999999999999999999999999999964 35788885 699999999999999999999999999
Q ss_pred cCCCCCCCCCcCC-CCCCCCC------CCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEE
Q 004188 79 PFCYGKNPFPRSY-SSIAETN------LPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFV 151 (770)
Q Consensus 79 ~~C~~~N~~p~~y-~~~~~~~------~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~v 151 (770)
|||+.+|++|++| +++++.+ .||||+ .|||||+++++|+.+ .+.+.||+||
T Consensus 364 n~C~~~n~vp~~yf~~L~~~grr~D~~erpEL~--~Gt~dfvatk~Y~~~--------------------~k~p~ppafv 421 (1007)
T KOG1984|consen 364 NFCGSKNQVPDDYFNHLGPTGRRVDVEERPELC--LGTVDFVATKDYCRK--------------------TKPPKPPAFV 421 (1007)
T ss_pred cCCCccccCChhhcccCCCcccccccccCchhc--ccccceeeehhhhhc--------------------CCCCCCceEE
Confidence 9999999999999 7887654 479999 999999999999976 2459999999
Q ss_pred EEEecCcchhH---HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcc
Q 004188 152 FVVDGCMEESE---IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGI 225 (770)
Q Consensus 152 FvID~s~~~~~---l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v 225 (770)
|+||||+++++ ..+++++|++.|+.+| ++.+|||||||++|||||++++ ++ .++|+++
T Consensus 422 FmIDVSy~Ai~~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd~tvhFfnl~s~---------------L~-qp~mliV 485 (1007)
T KOG1984|consen 422 FMIDVSYNAISNGAVKAACEAIKSVLEDLPREEPNIRVGIVTFDKTVHFFNLSSN---------------LA-QPQMLIV 485 (1007)
T ss_pred EEEEeehhhhhcchHHHHHHHHHHHHhhcCccCCceEEEEEEecceeEeeccCcc---------------cc-CceEEEe
Confidence 99999999998 7899999999999998 3799999999999999999874 23 3689999
Q ss_pred cccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEec
Q 004188 226 RCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTS 305 (770)
Q Consensus 226 ~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~s 305 (770)
+|++++ |+|..+++||+..|++..|+.+|++|+.++. .++.+++|+|+||++|..+|++ ..|||+++|++
T Consensus 486 sdv~dv-----fvPf~~g~~V~~~es~~~i~~lLd~Ip~mf~--~sk~pes~~g~alqaa~lalk~---~~gGKl~vF~s 555 (1007)
T KOG1984|consen 486 SDVDDV-----FVPFLDGLFVNPNESRKVIELLLDSIPTMFQ--DSKIPESVFGSALQAAKLALKA---ADGGKLFVFHS 555 (1007)
T ss_pred eccccc-----ccccccCeeccchHHHHHHHHHHHHhhhhhc--cCCCCchhHHHHHHHHHHHHhc---cCCceEEEEec
Confidence 999998 9999999999999999999999999999997 7788999999999999999994 23999999999
Q ss_pred CCCCCCCC-ccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCccee
Q 004188 306 GPATMGPG-IIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGF 384 (770)
Q Consensus 306 g~pt~GpG-~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~ 384 (770)
.+||.|.| ++..|++.+.+++ +|| ++++.++++.|++||++|++.|||||+|+++..|+|+|+++.+++.|||+
T Consensus 556 ~Lpt~g~g~kl~~r~D~~l~~t----~ke-k~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~ 630 (1007)
T KOG1984|consen 556 VLPTAGAGGKLSNRDDRRLIGT----DKE-KNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQ 630 (1007)
T ss_pred ccccccCcccccccchhhhhcc----cch-hhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCce
Confidence 99999976 9999998888875 344 57999999999999999999999999999999999999999999999999
Q ss_pred EEEeCCCChh----HHHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccce
Q 004188 385 IMIGETFESD----QFRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMW 460 (770)
Q Consensus 385 v~~~~~f~~~----~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~ 460 (770)
+|+|.+|... +|.+||.|.+++. .||+|+||||||+||++.+|+|++..+ ++++.
T Consensus 631 vy~Y~~F~a~~D~~rl~nDL~~~vtk~------~gf~a~mrvRtStGirv~~f~Gnf~~~---------------~~tDi 689 (1007)
T KOG1984|consen 631 VYKYYPFQALTDGPRLLNDLVRNVTKK------QGFDAVMRVRTSTGIRVQDFYGNFLMR---------------NPTDI 689 (1007)
T ss_pred eEEecchhhcccHHHHHHHHHHhcccc------eeeeeEEEEeecCceeeeeeechhhhc---------------CCCCc
Confidence 9999999864 7999999999986 899999999999999999999999976 56889
Q ss_pred eeecCCCCceEEEEEEeccCCcCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHHH
Q 004188 461 KLNTLASKTCIAFFFQVSDEQKAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARLA 540 (770)
Q Consensus 461 ~l~~~~~~~si~~~f~~~~~~~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~a 540 (770)
+++.+|.|++++++|+|| +||+++..++||+|++||+.+|+||+||+|+++++| +++.++|+++|+|+++++|+|.|
T Consensus 690 ela~lD~dkt~~v~fkhD--dkLq~~s~~~fQ~AlLYTti~G~RR~Rv~Nlsl~~t-s~l~~lyr~~~~d~l~a~maK~a 766 (1007)
T KOG1984|consen 690 ELAALDCDKTLTVEFKHD--DKLQDGSDVHFQTALLYTTIDGQRRLRVLNLSLAVT-SQLSELYRSADTDPLIAIMAKQA 766 (1007)
T ss_pred cccccccCceeEEEEecc--ccccCCcceeEEEEEEEeccCCceeEEEEecchhhh-hhHHHHHHhcCccHHHHHHHHHH
Confidence 999999999999999999 679888999999999999999999999999999999 99999999999999999999999
Q ss_pred HHHHhhCChHHHHHHHHHHHHHHHHHhcccCCCCC-----CCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHHH
Q 004188 541 IHRAETCYSRDVVRWLDDTLIRFTSKFGDYVPEDP-----SSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFRL 615 (770)
Q Consensus 541 ~~~~~~~~~~~~~~~l~~~l~~~~~~~~~yr~~~~-----~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~~ 615 (770)
+..+..+.+.++|+.|++.++++ |+.|||.|+ +||+|||+||+||+|+++++||.+|++.+++.|+|+|.+.
T Consensus 767 ~~~i~~~~lk~vre~l~~~~~~i---L~~YRk~cas~~ssgQLILPeslKLlPly~la~lKs~~l~~~~~~~DdRi~~~~ 843 (1007)
T KOG1984|consen 767 AKAILDKPLKEVREQLVSQCAQI---LASYRKNCASPASSGQLILPESLKLLPLYMLALLKSSALRPQEIRTDDRIYQLQ 843 (1007)
T ss_pred HHhcccccHHHHHHHHHHHHHHH---HHHHHHhhcCCCCcccEechhhhHHHHHHHHHHHHhhcccccccccchhHHHHH
Confidence 99999999999999999999998 999999984 7999999999999999999999999999999999999999
Q ss_pred HHhcCChHHHHHhhccccccccc----C----CCCcccccccccccCCeeEEEeCCcEEEEEEcCchh-hHhh--CCCCC
Q 004188 616 MLNREGVVGSLIMIQPTLFQYSF----D----GPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIA-QWKK--HGYDK 684 (770)
Q Consensus 616 ~l~~~~~~~~~~~iyP~L~~~~~----~----~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~-~~~~--~g~~~ 684 (770)
++.++++++++.++||||+++|. + ..|.+|++|.+.|+.+||||||||..+|||+|++++ .|++ .++..
T Consensus 844 ~v~sl~v~~~~~~~YPrl~p~hdl~i~dtl~~~~p~~VraS~e~l~negiYll~nG~~~ylwvg~sv~~~llQ~lf~V~s 923 (1007)
T KOG1984|consen 844 LVTSLSVEQLMPFFYPRLLPFHDLDIEDTLEFVLPKAVRASSEFLSNEGIYLLDNGQKIYLWVGESVDPDLLQDLFSVSS 923 (1007)
T ss_pred HhhcccHHhhhhhhccceeeeeccccccccccccccceecchhhccCCceEEEecCcEEEEEecCCCCHHHHHHHhcCcc
Confidence 99999999999999999999984 1 368999999999999999999999999999999998 6765 24432
Q ss_pred ---------------CCcchhHHHHHhccHHHHHHHHHcCCCCcEEEEEccCCChH-HHHHHhhCCCCCCCCccCCCCcc
Q 004188 685 ---------------DPNHENLRKLLEAPETDAEQLVAERIPAPKIIKCDQHGSQA-RFLLAKLNPSVTQDSMYKEGSDV 748 (770)
Q Consensus 685 ---------------~~~~~~~~~~~~~~~~~~~~l~~~R~~~p~~~~~~~g~~~~-r~l~~~L~~~~~~~~~~~~~~~~ 748 (770)
++.+..+++++ +.+++.|....+++++++|.... .++.+.|+|+.+
T Consensus 924 ~~~i~s~~~~Lpe~dn~lS~k~r~~i-------~~i~~~r~~~l~v~~~k~g~~~~~~~~~~~lved~~----------- 985 (1007)
T KOG1984|consen 924 FEQIDSQSGVLPELDNPLSRKVRNVI-------SLIRRQRSSELPVVLVKQGLDGSEVEFSEYLVEDRG----------- 985 (1007)
T ss_pred ccccccccccccccCcHHHHHHHHHH-------HHHHhccccccccEEEecCCCchhhhhhhhhhcccc-----------
Confidence 22224444444 47888899999999999998775 788888999742
Q ss_pred cccCCCcHHHHHHHHHHHHhc
Q 004188 749 IFTDDLSLEVFIDHLQTLAVQ 769 (770)
Q Consensus 749 ~~t~~~S~~~fl~~l~~~~~~ 769 (770)
.+..||.+|||.|||.|.+
T Consensus 986 --~~~~sY~dyL~~~H~ki~~ 1004 (1007)
T KOG1984|consen 986 --RNISSYVDYLCELHKKIQQ 1004 (1007)
T ss_pred --cCccccchHHHHHHHHHHh
Confidence 1579999999999999976
No 5
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.5e-129 Score=1075.78 Aligned_cols=661 Identities=20% Similarity=0.315 Sum_probs=596.6
Q ss_pred cccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCC---CCCCCCC-CCCccCCCCCeeEcCceEEecCCCeEEecC
Q 004188 5 ELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQS---SEIPVLP-YDPLICSKCGAVLNPYGRVDYASRIWTCPF 80 (770)
Q Consensus 5 ~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~---~~ip~~~-~~p~RC~~C~ayiNp~~~~~~~~~~w~C~~ 80 (770)
-||+|+|+|+|++++|.+.+++++++||||++|+||+++ ++.|++. ..++||++||+|||||+.|++.|++|+||+
T Consensus 166 ~nc~p~y~RsTl~~iP~t~sLl~kskLPlglvv~Pf~~~~d~~~~p~~~~~~IvRCr~CRtYiNPFV~fid~gr~WrCNl 245 (887)
T KOG1985|consen 166 SNCSPSYVRSTLSAIPQTQSLLKKSKLPLGLVVHPFAHLDDIDPLPVITSTLIVRCRRCRTYINPFVEFIDQGRRWRCNL 245 (887)
T ss_pred cCCCHHHHHHHHHhCCccHHHHHhcCCCceEEEeecccccccCCCCcccCCceeeehhhhhhcCCeEEecCCCceeeech
Confidence 399999999999999999999999999999999999954 4556554 479999999999999999999999999999
Q ss_pred CCCCCCCCcCCCCC--C----CCCCCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEEEEE
Q 004188 81 CYGKNPFPRSYSSI--A----ETNLPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFVFVV 154 (770)
Q Consensus 81 C~~~N~~p~~y~~~--~----~~~~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~vFvI 154 (770)
|+..|++|.+|..- . ....|||+. +++|||++|.||+.|| |+|++|||+|
T Consensus 246 C~~~NdvP~~f~~~~~t~~~~~~~~RpEl~--~s~vE~iAP~eYmlR~----------------------P~Pavy~Fli 301 (887)
T KOG1985|consen 246 CGRVNDVPDDFDWDPLTGAYGDPYSRPELT--SSVVEFIAPSEYMLRP----------------------PQPAVYVFLI 301 (887)
T ss_pred hhhhcCCcHHhhcCccccccCCcccCcccc--ceeEEEecCcccccCC----------------------CCCceEEEEE
Confidence 99999999998421 1 123589999 9999999999999987 9999999999
Q ss_pred ecCcchhH---HHHHHHHHHHHhhcCC--CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccccc
Q 004188 155 DGCMEESE---IRAVKHELLRVMEQLP--ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCAK 229 (770)
Q Consensus 155 D~s~~~~~---l~~~~~~i~~~l~~lp--~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~~ 229 (770)
|||.++++ ++.++++|+..|+.|| ++++|||||||++||||++..+ . . .++|++++|++
T Consensus 302 DVS~~a~ksG~L~~~~~slL~~LD~lpgd~Rt~igfi~fDs~ihfy~~~~~-------------~--~-qp~mm~vsdl~ 365 (887)
T KOG1985|consen 302 DVSISAIKSGYLETVARSLLENLDALPGDPRTRIGFITFDSTIHFYSVQGD-------------L--N-QPQMMIVSDLD 365 (887)
T ss_pred EeehHhhhhhHHHHHHHHHHHhhhcCCCCCcceEEEEEeeceeeEEecCCC-------------c--C-CCceeeecccc
Confidence 99999987 8999999999999999 6899999999999999999764 1 1 36788999999
Q ss_pred cccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCC
Q 004188 230 QHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPAT 309 (770)
Q Consensus 230 ~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt 309 (770)
|+ |+|.+++||||++|||+.|+.+|++|+.++. .++..++|+|+||++|..+|+ ..||||++|++++||
T Consensus 366 d~-----flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~--~~~~t~~alGpALkaaf~li~----~~GGri~vf~s~lPn 434 (887)
T KOG1985|consen 366 DP-----FLPMPDSLLVPLKECKDLIETLLKTLPEMFQ--DTRSTGSALGPALKAAFNLIG----STGGRISVFQSTLPN 434 (887)
T ss_pred cc-----ccCCchhheeeHHHHHHHHHHHHHHHHHHHh--hccCcccccCHHHHHHHHHHh----hcCCeEEEEeccCCC
Confidence 99 9998899999999999999999999999996 677789999999999999998 899999999999999
Q ss_pred CCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeC
Q 004188 310 MGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGE 389 (770)
Q Consensus 310 ~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~ 389 (770)
.|.|+|+.||+.+..++ +++.+++.+++.|||+||.+|++.|||||+|+++.+|.|+|+++.|++.|||.+|+|+
T Consensus 435 lG~G~L~~rEdp~~~~s-----~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y~YP 509 (887)
T KOG1985|consen 435 LGAGKLKPREDPNVRSS-----DEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVYYYP 509 (887)
T ss_pred CCccccccccccccccc-----hhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeEEcc
Confidence 99999999987766554 3346789999999999999999999999999999999999999999999999999999
Q ss_pred CCChh------HHHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccceeee
Q 004188 390 TFESD------QFRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMWKLN 463 (770)
Q Consensus 390 ~f~~~------~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~~l~ 463 (770)
+|+.. +|.++|.|.++|+ +||+|+||||||+|+++..+||||+.+ +++++.++
T Consensus 510 ~f~~s~p~~~~Kf~~el~r~Ltr~------~~feaVmRiR~S~gl~~~~f~GnFF~R---------------StDLla~~ 568 (887)
T KOG1985|consen 510 SFDGSNPHDVLKFARELARYLTRK------IGFEAVMRIRCSTGLRMSSFFGNFFVR---------------STDLLALP 568 (887)
T ss_pred CCCCCCHHHHHHHHHHHHHHhhhh------hhhheeEEeeccccccccceecccccC---------------cHHHhccc
Confidence 99875 7999999999997 999999999999999999999999987 57899999
Q ss_pred cCCCCceEEEEEEeccCCcCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHHHHHH
Q 004188 464 TLASKTCIAFFFQVSDEQKAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARLAIHR 543 (770)
Q Consensus 464 ~~~~~~si~~~f~~~~~~~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~a~~~ 543 (770)
++.+|++++|++++++. + .....+||.|++||...|||||||||++++++ +++.++|.++|++|++.+++++|+++
T Consensus 569 ~v~~D~sy~~qisiEes--l-~~~~~~fQvAlLyT~~~GERRIRV~T~~lpt~-~sl~evY~saD~~AI~~lla~~Av~k 644 (887)
T KOG1985|consen 569 NVNPDQSYAFQISIEES--L-TTGFCVFQVALLYTLSKGERRIRVHTLCLPTV-SSLNEVYASADQEAIASLLAKKAVEK 644 (887)
T ss_pred CCCCCccceEEEEeehh--c-CCceeEEEeeeeecccCCceeEEEEEeecccc-ccHHHHHhhcCHHHHHHHHHHHHHHH
Confidence 99999999999999953 4 35677899999999999999999999999999 99999999999999999999999999
Q ss_pred HhhCChHHHHHHHHHHHHHHHHHhcccCCCCCC------CcccCcccccHHHHHHHhhccccCCC-CCCChhHHHHHHHH
Q 004188 544 AETCYSRDVVRWLDDTLIRFTSKFGDYVPEDPS------SFRLSSNFSLYPQFMFYLRRSQFIDV-FNCTPDETAFFRLM 616 (770)
Q Consensus 544 ~~~~~~~~~~~~l~~~l~~~~~~~~~yr~~~~~------~l~lp~~lk~lP~~~~~L~ks~~l~~-~~~s~Der~~~~~~ 616 (770)
..+..+.|+|+.|.+.++++ |+.|++.... .+.+|.+|++||+|+++|+|+++|+. ..++.|+|++++.+
T Consensus 645 sl~ssL~dardal~~~~~D~---l~aYk~~~~~~~~~~~~l~~p~~LrllPllvlALlK~~~fr~g~~~~lD~R~~a~~~ 721 (887)
T KOG1985|consen 645 SLSSSLSDARDALTNAVVDI---LNAYKKLVSNQNGQGITLSLPASLRLLPLLVLALLKHPAFRPGTGTRLDYRAYAMCL 721 (887)
T ss_pred HHHhhhhhHHHHHHHHHHHH---HHHHHHHhcccccCCcceecCcchhhhHHHHHHHhcCCcccCCCCCCchHHHHHHHH
Confidence 99999999999999999998 8899887644 88999999999999999999999995 58999999999999
Q ss_pred HhcCChHHHHHhhccccccccc--C--------C---CCcccccccccccCCeeEEEeCCcEEEEEEcCchh-hHhh--C
Q 004188 617 LNREGVVGSLIMIQPTLFQYSF--D--------G---PPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIA-QWKK--H 680 (770)
Q Consensus 617 l~~~~~~~~~~~iyP~L~~~~~--~--------~---~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~-~~~~--~ 680 (770)
+..+++..++++|||+||++|. + + .|+++.|+++.+++.|+||||+|..+|+|+|++++ ++.. .
T Consensus 722 ~~~lpl~~L~k~IYP~Lysl~~l~~ea~~~~~d~~~~~p~~L~ltae~l~~~GlyL~D~g~~lfl~vg~~a~P~ll~~vf 801 (887)
T KOG1985|consen 722 MSTLPLKYLMKYIYPTLYSLHDLDDEAGLPIHDQTVVLPPPLNLTAELLSRRGLYLMDTGTTLFLWVGSNADPSLLFDVF 801 (887)
T ss_pred hhcCCHHHHHhhhcccceeccccccccCcccccccccCCCccchHHHHhccCceEEEecCcEEEEEEcCCCCcccccccc
Confidence 9999999999999999999984 1 1 36889999999999999999999999999999997 4432 1
Q ss_pred CCC---------------CCCcchhHHHHHhccHHHHHHHHHcCCCCcEEEEEccCC-ChH-HHHHHhhCCCCCCCCccC
Q 004188 681 GYD---------------KDPNHENLRKLLEAPETDAEQLVAERIPAPKIIKCDQHG-SQA-RFLLAKLNPSVTQDSMYK 743 (770)
Q Consensus 681 g~~---------------~~~~~~~~~~~~~~~~~~~~~l~~~R~~~p~~~~~~~g~-~~~-r~l~~~L~~~~~~~~~~~ 743 (770)
|+. ++++.++++.+++ .+|++|...|.++++|+++ +.+ -||+++|+||+++
T Consensus 802 g~~~~adi~~~~~~lp~~~n~~s~r~~~fI~-------~lR~d~~~~p~~~ivr~~~~s~~k~~f~~~lvEDrs~----- 869 (887)
T KOG1985|consen 802 GVSTLADIPIGKYTLPELDNEESDRVRRFIK-------KLRDDRTYFPNLYIVRGDDNSPLKAWFFSRLVEDRSE----- 869 (887)
T ss_pred CcchHhhcccccccCcccccchhHHHHHHHH-------HhhcCCcccceEEEEecCCCchHHHHHHHHHHhhhhc-----
Confidence 322 4455556666554 9999999999999999664 334 5888999999753
Q ss_pred CCCcccccCCCcHHHHHHHHHHHHhc
Q 004188 744 EGSDVIFTDDLSLEVFIDHLQTLAVQ 769 (770)
Q Consensus 744 ~~~~~~~t~~~S~~~fl~~l~~~~~~ 769 (770)
...||.+||+|||++|.+
T Consensus 870 --------~~~SY~efLq~lk~qv~~ 887 (887)
T KOG1985|consen 870 --------NSPSYYEFLQHLKAQVSK 887 (887)
T ss_pred --------CcHHHHHHHHHHHHHhcC
Confidence 478999999999999864
No 6
>PTZ00395 Sec24-related protein; Provisional
Probab=100.00 E-value=5.2e-117 Score=1016.42 Aligned_cols=692 Identities=16% Similarity=0.197 Sum_probs=572.6
Q ss_pred cccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCC---CCCCCCC-----------CCCccCCCCCeeEcCceEEe
Q 004188 5 ELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQS---SEIPVLP-----------YDPLICSKCGAVLNPYGRVD 70 (770)
Q Consensus 5 ~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~---~~ip~~~-----------~~p~RC~~C~ayiNp~~~~~ 70 (770)
-+|+|+|||+|||.+|.+.++++.+.||||++++||+.+ ++||.++ .+|+||.+|++|+|+++.++
T Consensus 648 gn~dP~~~r~tmY~iP~~~~~~~~~~iP~gi~v~Pfa~~~~~e~~~~~~~~~~~~d~~~~~~~~rc~~c~~y~~~~~~~~ 727 (1560)
T PTZ00395 648 GKADPRFLKSTLYQIPLFSETLKLSQIPFGIIVNPFACLNEGEGIDKIDMKDIINDKEENIEILRCPKCLGYLHATILED 727 (1560)
T ss_pred CCCChhhhhhhhhcCcchHHHHHhcCCCceeecchhhhcCCCCCCcccchhhcccchhhccceeecchhHhhhcchheec
Confidence 389999999999999999999999999999999999975 4577654 26899999999999999999
Q ss_pred cCCCeEEecCCCCCCCCCcC-------CC-CCCC-----C---C-CCccccCCCceEEEEecCCCCCCCCC---------
Q 004188 71 YASRIWTCPFCYGKNPFPRS-------YS-SIAE-----T---N-LPAELFPTYSSVEYAAAHDHLPNTLG--------- 124 (770)
Q Consensus 71 ~~~~~w~C~~C~~~N~~p~~-------y~-~~~~-----~---~-~~pEL~~~~~tvey~~~~~y~~~~~~--------- 124 (770)
-. ++++|+||+..+.+.+. |. .+.. . + ..| |. .|+||+++|.-|..+-.+
T Consensus 728 ~~-~~~~c~~c~~~~~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~ 803 (1560)
T PTZ00395 728 IS-SSVQCVFCDTDFLINENVLFDIFQYNEKIGHKESDHNEHGNSLSP-LL--KGSVDIIIPPIYYHNVNKFKLTYTYLN 803 (1560)
T ss_pred cc-ceEEEEecCCcchhhHHHHHHHHHHhhhhccccccccccccccch-hh--cCceeEEccchhhccCCccceeeehhh
Confidence 75 89999999999998543 21 1211 1 1 123 33 899999999876422100
Q ss_pred ----------------------------Ccc--------------------------------cccc---------c---
Q 004188 125 ----------------------------SAK--------------------------------SFSS---------M--- 132 (770)
Q Consensus 125 ----------------------------~~~--------------------------------~~~~---------~--- 132 (770)
+.+ +|+. .
T Consensus 804 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 883 (1560)
T PTZ00395 804 KNINQTAFMITNKIMSFTKHISNSLVANDSKGGNKATSASAFGDSGDANFLAGGGYTNYGGAGGYNTYDNQSGYNNHDVV 883 (1560)
T ss_pred cchhhhhhhhhhhhhhhhhhhcchheecccccccccchhhhccccccccccccccccccccccccccccccccccccccc
Confidence 000 0000 0
Q ss_pred -----ccccc-----------------C------------------C--------------CCCCCCCCcEEEEEEecCc
Q 004188 133 -----ASFSS-----------------V------------------S--------------SGGGGVLGPAFVFVVDGCM 158 (770)
Q Consensus 133 -----~~~~~-----------------~------------------~--------------~~~~~~~~p~~vFvID~s~ 158 (770)
..++. . . ...+.++||+|+||||||.
T Consensus 884 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~PP~YvFLIDVS~ 963 (1560)
T PTZ00395 884 NNRGGSGAGNHLYGKDHDVQNFDNVMDNANFTIHDMKNLICEKNGEPDSAKIRRNSFLAKYPQVKNMLPPYFVFVVECSY 963 (1560)
T ss_pred ccccccCcCcccccCcccccchhhhccCCceeeecchhhhhcccCCchhhhhhccchhhccccccCCCCCEEEEEEECCH
Confidence 00000 0 0 0235688999999999999
Q ss_pred chhH---HHHHHHHHHHHhhcCC-CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccccccccCC
Q 004188 159 EESE---IRAVKHELLRVMEQLP-ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCAKQHQLG 234 (770)
Q Consensus 159 ~~~~---l~~~~~~i~~~l~~lp-~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~~~~~~~ 234 (770)
.+++ +++++++|+++|+.|+ +++||||||||+.||||+|++.......-=.|... .+ .+||++|+|++|+
T Consensus 964 ~AVkSGLl~tacesIK~sLDsL~dpRTRVGIITFDSsLHFYNLks~l~~~~~~~~~~~~--l~-qPQMLVVSDLDDP--- 1037 (1560)
T PTZ00395 964 NAIYNNITYTILEGIRYAVQNVKCPQTKIAIITFNSSIYFYHCKGGKGVSGEEGDGGGG--SG-NHQVIVMSDVDDP--- 1037 (1560)
T ss_pred HHHhhChHHHHHHHHHHHHhcCCCCCcEEEEEEecCcEEEEecCccccccccccccccc--CC-CceEEeecCCccC---
Confidence 9998 7899999999999997 57999999999999999997530000000000111 12 3689999999999
Q ss_pred CCCCCCC-CcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCCCC
Q 004188 235 KTPVIQK-QGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMGPG 313 (770)
Q Consensus 235 ~~~~~~~-~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~GpG 313 (770)
|+|.+ +++||++.|+++.|+.+|+.|+.++. ....++.|+|+||++|..+|+. .+.||||++|++++|++|||
T Consensus 1038 --FLPlP~ddLLVnL~ESRevIe~LLDkLPemFt--~t~~~esCLGSALqAA~~aLk~--~GGGGKIiVF~SSLPniGpG 1111 (1560)
T PTZ00395 1038 --FLPLPLEDLFFGCVEEIDKINTLIDTIKSVST--TMQSYGSCGNSALKIAMDMLKE--RNGLGSICMFYTTTPNCGIG 1111 (1560)
T ss_pred --cCCCCccCeeechHHHHHHHHHHHHHHHHHhh--ccCCCcccHHHHHHHHHHHHHh--cCCCceEEEEEcCCCCCCCC
Confidence 99975 89999999999999999999999885 4566889999999999999982 12359999999999999999
Q ss_pred ccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccC--cccccccccCcceeEEEeCCC
Q 004188 314 IIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVG--VAELKVPVEKSGGFIMIGETF 391 (770)
Q Consensus 314 ~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~--l~~~~~l~~~TGG~v~~~~~f 391 (770)
+|+.++.. .++ ..++.++.+||++||.+|++++||||+|+++..++| +++|+.|++.|||++++|+.|
T Consensus 1112 aLK~Re~~---------~KE-k~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYPnF 1181 (1560)
T PTZ00395 1112 AIKELKKD---------LQE-NFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVENF 1181 (1560)
T ss_pred cccccccc---------ccc-ccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEEEeCCC
Confidence 99976411 133 456788999999999999999999999999998876 799999999999999999999
Q ss_pred Chh----HHHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeec--CccccccCCCCcCCCccCCCCccceeeecC
Q 004188 392 ESD----QFRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALG--PCVSLKKKNNLVSDSETGEGGTYMWKLNTL 465 (770)
Q Consensus 392 ~~~----~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G--~~~~~~k~~~~vsd~~~g~g~t~~~~l~~~ 465 (770)
+.. +|.++|.+.|+++ .+||+|+||||||+||+|+++|| +++.... +++++.++.+
T Consensus 1182 na~rD~~KL~~DL~r~LTre-----~iGyEAVMRVRCS~GLrVs~fyG~GnnF~s~r-------------StDLLaLP~I 1243 (1560)
T PTZ00395 1182 LWQKDYKEIYMNIMDTLTSE-----DIAYCCELKLRYSHHMSVKKLFCCNNNFNSII-------------SVDTIKIPKI 1243 (1560)
T ss_pred cccccHHHHHHHHHHHhhcc-----ceeeEEEEEEECCCCeEEEEEeccCCcccccc-------------cccccccccc
Confidence 865 6888999999873 28999999999999999999994 4442211 4578899999
Q ss_pred CCCceEEEEEEeccCCcCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHHHHHHHh
Q 004188 466 ASKTCIAFFFQVSDEQKAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARLAIHRAE 545 (770)
Q Consensus 466 ~~~~si~~~f~~~~~~~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~a~~~~~ 545 (770)
++|+||+|+|+++ +++.+...+|||+|++||+.+|+|||||||+++||| +++.++|+++|++|++.+|+|+|+.++.
T Consensus 1244 d~DqSfaVeLk~D--EkL~~~~~AYFQaALLYTSssGERRIRVHTLALPVT-SsLseVFrsADqdAIvslLAK~AV~~aL 1320 (1560)
T PTZ00395 1244 RHDQTFAFLLNYS--DISESKKQIYFQCACIYTNLWGDRFVRLHTTHMNLT-SSLSTVFRYTDAEALMNILIKQLCTNIL 1320 (1560)
T ss_pred CCCceEEEEEEec--cccCCCCcEEEEEEEeeccCCCcEEEEEEeeeeccc-CCHHHHHHhhcHHHHHHHHHHHHHHHhc
Confidence 9999999999999 557767899999999999999999999999999999 9999999999999999999999999998
Q ss_pred hCChHHHHHHHHHHHHHHHHHhcccCCCC-----CCCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHHHHHhcC
Q 004188 546 TCYSRDVVRWLDDTLIRFTSKFGDYVPED-----PSSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFRLMLNRE 620 (770)
Q Consensus 546 ~~~~~~~~~~l~~~l~~~~~~~~~yr~~~-----~~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~~~l~~~ 620 (770)
+. .++|+.|.+.++++ |..||+.| ++||+|||+||+||+|+++|+||++|+ ..+++|+|++.+++++++
T Consensus 1321 ss--sdARe~L~dklVdI---LtaYRK~CAsssssgQLILPESLKLLPLYILSLLKS~AfR-t~I~sDeRVyaL~rL~Sm 1394 (1560)
T PTZ00395 1321 HN--DNYSKIIIDNLAAI---LFSYRINCASSAHSGQLILPDTLKLLPLFTSSLLKHNVTK-KEILHDLKVYSLIKLLSM 1394 (1560)
T ss_pred cc--HHHHHHHHHHHHHH---HHHHHHHhhccCCCccccchhHHHHHHHHHHHHhcccccc-CCCCccHHHHHHHHHhCC
Confidence 77 38999999999998 88899876 478999999999999999999999998 478999999999999999
Q ss_pred ChHHHHHhhcccccccccC---------------CCCcccccccccccCCeeEEEeCCcEEEEEEcCchh-hHhh--CCC
Q 004188 621 GVVGSLIMIQPTLFQYSFD---------------GPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIA-QWKK--HGY 682 (770)
Q Consensus 621 ~~~~~~~~iyP~L~~~~~~---------------~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~-~~~~--~g~ 682 (770)
++..++.++||+||++|.- ..|++++||.++|.++||||||+|..+|+|+|++++ +|++ .|.
T Consensus 1395 PI~~Li~yLYPRLYpLHdL~~e~e~d~~d~d~~ivLPp~LrLS~ErLesdGIYLLDNGe~IyLWVG~~V~PqLLqDLFGv 1474 (1560)
T PTZ00395 1395 PIISSLLYVYPVMYVIHIKGKTNEIDSMDVDDDLFIPKTIPSSAEKIYSNGIYLLDACTHFYLYFGFHSDANFAKEIVGD 1474 (1560)
T ss_pred CHHHHHhhhcCceEEcccccccccCCccCCCCccccCCcccchHHHhcCCcEEEEECCCEEEEEECCCCCHHHHHHHcCC
Confidence 9999999999999999841 148899999999999999999999999999999997 8876 364
Q ss_pred C------------CCCcchhHHHHHhccHHHHHHHHHcC--CCCcEEEEEccCCChHHHHHHhhCCCCCCCCccCCCCcc
Q 004188 683 D------------KDPNHENLRKLLEAPETDAEQLVAER--IPAPKIIKCDQHGSQARFLLAKLNPSVTQDSMYKEGSDV 748 (770)
Q Consensus 683 ~------------~~~~~~~~~~~~~~~~~~~~~l~~~R--~~~p~~~~~~~g~~~~r~l~~~L~~~~~~~~~~~~~~~~ 748 (770)
. +++...+++++++ .|++.| .+++++++++++++.+.+|++.|+||++
T Consensus 1475 ~~~~~~~~eLPelDT~iS~RVrnII~-------~LR~~r~~~~Y~pL~IVRqgDp~E~~F~s~LVEDRs----------- 1536 (1560)
T PTZ00395 1475 IPTEKNAHELNLTDTPNAQKVQRIIK-------NLSRIHHFNKYVPLVMVAPKSNEEEHLISLCVEDKA----------- 1536 (1560)
T ss_pred CccccccccccCCCCHHHHHHHHHHH-------HHHHhccCCCcceEEEEeCCCchHHHHHHhCeecCC-----------
Confidence 2 1222456666665 787775 4778888999999999999999999863
Q ss_pred cccCCCcHHHHHHHHHHHHhc
Q 004188 749 IFTDDLSLEVFIDHLQTLAVQ 769 (770)
Q Consensus 749 ~~t~~~S~~~fl~~l~~~~~~ 769 (770)
.+.+||.+||++|||+|.+
T Consensus 1537 --~g~~SYvDFLc~LHKqIq~ 1555 (1560)
T PTZ00395 1537 --DKEYSYVNFLCFIHKLVHK 1555 (1560)
T ss_pred --CCCCCHHHHHHHHHHHHHH
Confidence 1479999999999999975
No 7
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.7e-115 Score=956.19 Aligned_cols=652 Identities=20% Similarity=0.302 Sum_probs=584.8
Q ss_pred cccCCCeeeeeccccCCCHhhhhhcCCCeeEEEccCCCC-C---CCCCCCC-CCccCCCCCeeEcCceEEecCCCeEEec
Q 004188 5 ELEAIEGLRWSWNSWPSTKSDAVSLIIPLSLLHTPLMQS-S---EIPVLPY-DPLICSKCGAVLNPYGRVDYASRIWTCP 79 (770)
Q Consensus 5 ~~~~~~~vR~t~~~~P~t~~~~~~~~lPlg~~v~P~~~~-~---~ip~~~~-~p~RC~~C~ayiNp~~~~~~~~~~w~C~ 79 (770)
-||+|+|||+|+|++|.+.+++++++||||+||+||.++ + .+|++.. .|+||++||+|+|||++|+++|++|+||
T Consensus 146 ~n~~p~yvrsT~yaiP~t~dl~~~skiPfgLVI~Pf~~l~~e~~~vpl~~d~~ivRCrrCrsYiNPfv~fi~~g~kw~CN 225 (861)
T COG5028 146 SNCSPKYVRSTMYAIPETNDLLKKSKIPFGLVIRPFLELYPEEDPVPLVEDGSIVRCRRCRSYINPFVQFIEQGRKWRCN 225 (861)
T ss_pred CCCCHHHHHHHHhhCCCchhHHHhcCCCceEEeehhhhcCccCCCCccCCCCcchhhhhhHhhcCceEEEecCCcEEEEe
Confidence 399999999999999999999999999999999999986 2 3565544 4899999999999999999999999999
Q ss_pred CCCCCCCCCcCCC-CCCC------CCCCccccCCCceEEEEecCCCCCCCCCCccccccccccccCCCCCCCCCCcEEEE
Q 004188 80 FCYGKNPFPRSYS-SIAE------TNLPAELFPTYSSVEYAAAHDHLPNTLGSAKSFSSMASFSSVSSGGGGVLGPAFVF 152 (770)
Q Consensus 80 ~C~~~N~~p~~y~-~~~~------~~~~pEL~~~~~tvey~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~vF 152 (770)
+|+..|++|.++. +..+ ...|+||. +++|||++|++|+.+. +.||+|||
T Consensus 226 iC~~kN~vp~~~~~~~~~~~~r~d~~~r~El~--~~vvdf~ap~~Y~~~~----------------------p~P~~yvF 281 (861)
T COG5028 226 ICRSKNDVPEGFDNPSGPNDPRSDRYSRPELK--SGVVDFLAPKEYSLRQ----------------------PPPPVYVF 281 (861)
T ss_pred eccccccCcccccCcCCCCCccccccccchhh--ceeeEEecccceeecc----------------------CCCCEEEE
Confidence 9999999998874 2221 23589999 9999999999998763 77999999
Q ss_pred EEecCcchhH---HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhccc
Q 004188 153 VVDGCMEESE---IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIR 226 (770)
Q Consensus 153 vID~s~~~~~---l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~ 226 (770)
+||||.++.+ +.++.++|+..|+.+| +++|||||.||+.|||++++.+ . + .+|++++
T Consensus 282 lIDVS~~a~~~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD~sl~ffk~s~d-------------~--~--~~~~~vs 344 (861)
T COG5028 282 LIDVSFEAIKNGLVKAAIRAILENLDQIPNFDPRTKIAIICFDSSLHFFKLSPD-------------L--D--EQMLIVS 344 (861)
T ss_pred EEEeehHhhhcchHHHHHHHHHhhccCCCCCCCcceEEEEEEcceeeEEecCCC-------------C--c--cceeeec
Confidence 9999999987 6788888888888886 5899999999999999999864 1 1 2678999
Q ss_pred ccccccCCCCCCCCC-CcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEec
Q 004188 227 CAKQHQLGKTPVIQK-QGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTS 305 (770)
Q Consensus 227 d~~~~~~~~~~~~~~-~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~s 305 (770)
|+++| |+|.. ..|++|+.+|+..++.||++++.++. .++.++.|+|+||++|..+++ .+||||++|.+
T Consensus 345 dld~p-----FlPf~s~~fv~pl~~~k~~~etLl~~~~~If~--d~~~pk~~~G~aLk~a~~l~g----~~GGkii~~~s 413 (861)
T COG5028 345 DLDEP-----FLPFPSGLFVLPLKSCKQIIETLLDRVPRIFQ--DNKSPKNALGPALKAAKSLIG----GTGGKIIVFLS 413 (861)
T ss_pred ccccc-----cccCCcchhcccHHHHHHHHHHHHHHhhhhhc--ccCCCccccCHHHHHHHHHhh----ccCceEEEEee
Confidence 99999 88876 68999999999999899999999997 788899999999999999998 89999999999
Q ss_pred CCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeE
Q 004188 306 GPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFI 385 (770)
Q Consensus 306 g~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v 385 (770)
..||.|.|+|..|+++ + ..++.+.+.||+++|.+|.+.||+||+|+++.+|+|++|++.|++.|||.+
T Consensus 414 tlPn~G~Gkl~~r~d~-----------e-~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~ 481 (861)
T COG5028 414 TLPNMGIGKLQLREDK-----------E-SSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQT 481 (861)
T ss_pred cCCCcccccccccccc-----------h-hhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcce
Confidence 9999999999988742 2 237889999999999999999999999999999999999999999999999
Q ss_pred EEeCCCChhH------HHHHHHHHhccCcccccceeeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccc
Q 004188 386 MIGETFESDQ------FRKCMRHIFGHDEEGNLKMYFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYM 459 (770)
Q Consensus 386 ~~~~~f~~~~------~~~~l~~~l~~~~~~~l~~~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~ 459 (770)
++|++|+..+ |.++|.+.+.++ .||+++||||||+|+++.++|||++.+ +.++
T Consensus 482 ~~Yp~f~~~~~~d~~kl~~dL~~~ls~~------~gy~~~~rvR~S~glr~s~fyGnf~~r---------------s~dl 540 (861)
T COG5028 482 YFYPNFSATRPNDATKLANDLVSHLSME------IGYEAVMRVRCSTGLRVSSFYGNFFNR---------------SSDL 540 (861)
T ss_pred EEcCCcccCCchhHHHHHHHHHHhhhhh------hhhheeeEeeccCceehhhhhcccccc---------------Cccc
Confidence 9999999875 999999999886 899999999999999999999999987 4578
Q ss_pred eeeecCCCCceEEEEEEeccCCcCCCCCeEEEEEEEEEEecCCcEEEEEEeccccccCCChHHHHhccCHHHHHHHHHHH
Q 004188 460 WKLNTLASKTCIAFFFQVSDEQKAQPGSAFFIQFITRYRHGNMNIRKRVTTAARRWVGKQSPEIAAGFDQEAAAAIMARL 539 (770)
Q Consensus 460 ~~l~~~~~~~si~~~f~~~~~~~l~~~~~~~iQ~al~Yt~~~G~rriRV~T~~~~vt~~~~~~v~~~~D~ea~~~llar~ 539 (770)
..++.+++|+|+.|+|+++ +++.. ..+|||.|++||..+|+|||||.|++++++ +++.++|+++|++|++.+|+|+
T Consensus 541 ~~F~tm~rd~Sl~~~~sid--~~l~~-~~v~fQvAlL~T~~~GeRRiRVvn~s~~~s-s~~~evyasadq~aIa~~lak~ 616 (861)
T COG5028 541 CAFSTMPRDTSLLVEFSID--EKLMT-SDVYFQVALLYTLNDGERRIRVVNLSLPTS-SSIREVYASADQLAIACILAKK 616 (861)
T ss_pred ccccccCCCceEEEEEEec--ccccC-CceEEEEEEEeeccCCceEEEEEEeccccc-hhHHHHHHhccHHHHHHHHHHH
Confidence 9999999999999999999 45654 899999999999999999999999999999 9999999999999999999999
Q ss_pred HHHHHhhCChHHHHHHHHHHHHHHHHHhcccCCC-----CCCCcccCcccccHHHHHHHhhccccCCCCCCChhHHHHHH
Q 004188 540 AIHRAETCYSRDVVRWLDDTLIRFTSKFGDYVPE-----DPSSFRLSSNFSLYPQFMFYLRRSQFIDVFNCTPDETAFFR 614 (770)
Q Consensus 540 a~~~~~~~~~~~~~~~l~~~l~~~~~~~~~yr~~-----~~~~l~lp~~lk~lP~~~~~L~ks~~l~~~~~s~Der~~~~ 614 (770)
|+.++......++|+.|++.+++| |..|||. .+++++||++|++||++|++|.||.+|+...++.|.|++..
T Consensus 617 a~~~~~~~s~~~~r~~i~~s~~~I---L~~Ykk~~~~snt~tql~Lp~nL~lLPll~lal~Ks~~~rs~~~~sD~r~~~L 693 (861)
T COG5028 617 ASTKALNSSLKEARVLINKSMVDI---LKAYKKELVKSNTSTQLPLPANLKLLPLLMLALLKSSAFRSGSTPSDIRISAL 693 (861)
T ss_pred HHHHhhhhhHHHHHHHHHHHHHHH---HHHHHHHHhhccCCccccchhhhHHHHHHHHHHhhhcccccCCCccchhHHHH
Confidence 999999888999999999999998 8889984 36799999999999999999999999997778889999999
Q ss_pred HHHhcCChHHHHHhhccccccccc----C--------CCCcccccccccccCCeeEEEeCCcEEEEEEcCchh-hHhh--
Q 004188 615 LMLNREGVVGSLIMIQPTLFQYSF----D--------GPPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIA-QWKK-- 679 (770)
Q Consensus 615 ~~l~~~~~~~~~~~iyP~L~~~~~----~--------~~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~-~~~~-- 679 (770)
..+.++++.+.++.|||+||++|. . ..|.|+.++.+.++++|+||+|+|..+|+|+|+++. .++.
T Consensus 694 ~~l~~~p~~~l~~~iYP~lyalHdm~~e~~l~~~~~~~~~~piNaT~s~le~~GlYLidtg~~iflw~g~d~~p~Ll~dl 773 (861)
T COG5028 694 NRLTSLPLKQLMRNIYPTLYALHDMPIEAGLPDEGLLVLPSPINATSSLLESGGLYLIDTGQKIFLWFGKDAVPSLLQDL 773 (861)
T ss_pred HHhhcCCHHHHHHhhccceeeecccccccCCCcccccccccchhhhHHHHhcCCeEEEEcCCEEEEEecCCCCHHHHHHh
Confidence 999999999999999999999992 1 147889999999999999999999999999999986 5544
Q ss_pred CCCC---------------CCCcchhHHHHHhccHHHHHHHHH-cCCCCcEEEEEccCCChH--HHHHHhhCCCCCCCCc
Q 004188 680 HGYD---------------KDPNHENLRKLLEAPETDAEQLVA-ERIPAPKIIKCDQHGSQA--RFLLAKLNPSVTQDSM 741 (770)
Q Consensus 680 ~g~~---------------~~~~~~~~~~~~~~~~~~~~~l~~-~R~~~p~~~~~~~g~~~~--r~l~~~L~~~~~~~~~ 741 (770)
.|+. .++..++++++++ ++|+ .+..++.++++|+|+.+. -|+.+.|+||+++
T Consensus 774 f~~~~~~~I~~~k~~~p~~~n~~n~~v~~iI~-------~lrs~~~~~tl~lvlVR~~~d~s~~~~~~s~lVEDk~~--- 843 (861)
T COG5028 774 FGVDSLSDIPSGKFTLPPTGNEFNERVRNIIG-------ELRSVNDDSTLPLVLVRGGGDPSLRLWFFSTLVEDKTL--- 843 (861)
T ss_pred cCcchhhhccccccccCCcCCHHHHHHHHHHH-------HHHhhCCCCccceEEEecCCCcchhhheehheeccccc---
Confidence 2442 3455677778887 8887 777888899998887664 6899999999753
Q ss_pred cCCCCcccccCCCcHHHHHHHHHHHHh
Q 004188 742 YKEGSDVIFTDDLSLEVFIDHLQTLAV 768 (770)
Q Consensus 742 ~~~~~~~~~t~~~S~~~fl~~l~~~~~ 768 (770)
+-.||.+||+-||+.|.
T Consensus 844 ----------n~~SY~~yL~~lh~ki~ 860 (861)
T COG5028 844 ----------NIPSYLDYLQILHEKIK 860 (861)
T ss_pred ----------CCccHHHHHHHHHHHhc
Confidence 47899999999999875
No 8
>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=1.3e-55 Score=459.69 Aligned_cols=253 Identities=44% Similarity=0.825 Sum_probs=237.4
Q ss_pred CCCcEEEEEEecCcchhHHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 145 VLGPAFVFVVDGCMEESEIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
|.||+|+||||+|.++++++.++++|+++|+.||++++|||||||++||||+|+..++++++||+|+++|+.+|+++||+
T Consensus 1 p~pp~~vFviDvs~~~~el~~l~~sl~~~L~~lP~~a~VGlITfd~~V~~~~L~~~~~~~~~vf~g~~~~~~~~~~~~l~ 80 (267)
T cd01478 1 TSPPVFLFVVDTCMDEEELDALKESLIMSLSLLPPNALVGLITFGTMVQVHELGFEECSKSYVFRGNKDYTAKQIQDMLG 80 (267)
T ss_pred CCCCEEEEEEECccCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECCEEEEEEcCCCcCceeeeccCCccCCHHHHHHHhc
Confidence 56899999999999999999999999999999999999999999999999999988999999999999999999999988
Q ss_pred cccc------------ccccCCCCCCC-CCCcceEechhcHHHHHHHHHHhhcccCCC-CCCCCCcchHHHHHHHHHHhh
Q 004188 225 IRCA------------KQHQLGKTPVI-QKQGFLLPVSECEFNVTTAIEEINSLTQRT-PGHRPQRCTGAAISAAVGLLE 290 (770)
Q Consensus 225 v~d~------------~~~~~~~~~~~-~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~ 290 (770)
+++. +++ +.| +.++||+|++||++.|+++|++|++++|+. +++++.||+|+||++|..+|+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~-----~~p~~~~~flvpl~e~~~~i~~lLe~L~~~~~~~~~~~r~~r~~G~Al~~A~~ll~ 155 (267)
T cd01478 81 LGGPAMRPSASQHPGAGNP-----LPSAAASRFLLPVSQCEFTLTDLLEQLQPDPWPVPAGHRPLRCTGVALSIAVGLLE 155 (267)
T ss_pred cccccccccccCcCCcccc-----ccccccccEEEEHHHHHHHHHHHHHhCcccccccCCCCCCCCchHHHHHHHHHHHH
Confidence 7542 233 445 447999999999999999999999999877 788999999999999999999
Q ss_pred cccCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccC
Q 004188 291 GCSVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVG 370 (770)
Q Consensus 291 ~~~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~ 370 (770)
.+.++.||||++|++||||.|||+|+.|+.++.+|+|.|++++++++++++.+||++||.+|+++||+||+|+++.+|+|
T Consensus 156 ~~~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~~~~vsvDlF~~s~d~vg 235 (267)
T cd01478 156 ACFPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLAANGHAVDIFAGCLDQVG 235 (267)
T ss_pred hhcCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHHhCCeEEEEEeccccccC
Confidence 77778999999999999999999999999999999999999988889999999999999999999999999999999999
Q ss_pred cccccccccCcceeEEEeCCCChhHHHHHHHH
Q 004188 371 VAELKVPVEKSGGFIMIGETFESDQFRKCMRH 402 (770)
Q Consensus 371 l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~ 402 (770)
++||+.|++.|||.+++|++|+.+.|+++++|
T Consensus 236 laem~~l~~~TGG~v~~~~~f~~~~f~~s~~~ 267 (267)
T cd01478 236 LLEMKVLVNSTGGHVVLSDSFTTSIFKQSFQR 267 (267)
T ss_pred HHHHHHHHHhcCcEEEEeCCcchHHHHHHhcC
Confidence 99999999999999999999999999998864
No 9
>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=2e-46 Score=387.89 Aligned_cols=231 Identities=25% Similarity=0.366 Sum_probs=206.9
Q ss_pred CCCcEEEEEEecCcchhH---HHHHHHHHHHHhhcCCCC---cEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHh
Q 004188 145 VLGPAFVFVVDGCMEESE---IRAVKHELLRVMEQLPEN---ALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQ 218 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~~---l~~~~~~i~~~l~~lp~~---~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~ 218 (770)
|+||+|+||||+|..+++ +++++++|+++|+.+|++ ++|||||||+.||||++++. .++
T Consensus 1 p~pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd~~v~~y~l~~~---------------~~~ 65 (244)
T cd01479 1 PQPAVYVFLIDVSYNAIKSGLLATACEALLSNLDNLPGDDPRTRVGFITFDSTLHFFNLKSS---------------LEQ 65 (244)
T ss_pred CCCCEEEEEEEccHHHHhhChHHHHHHHHHHHHHhcCCCCCCeEEEEEEECCeEEEEECCCC---------------CCC
Confidence 578999999999999986 899999999999999976 99999999999999999753 112
Q ss_pred hhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCc
Q 004188 219 IQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGS 298 (770)
Q Consensus 219 ~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gG 298 (770)
++|++++|++++ |.|.+++||++++||++.|.++|++|+..+. +++++.+|+|+||++|..+|+ +.||
T Consensus 66 -~q~~vv~dl~d~-----f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~--~~~~~~~c~G~Al~~A~~lL~----~~GG 133 (244)
T cd01479 66 -PQMMVVSDLDDP-----FLPLPDGLLVNLKESRQVIEDLLDQIPEMFQ--DTKETESALGPALQAAFLLLK----ETGG 133 (244)
T ss_pred -CeEEEeeCcccc-----cCCCCcceeecHHHHHHHHHHHHHHHHHHHh--cCCCCcccHHHHHHHHHHHHH----hcCC
Confidence 457788999988 8888899999999999999999999987654 678899999999999999998 8999
Q ss_pred EEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccc
Q 004188 299 RIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPV 378 (770)
Q Consensus 299 kI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~ 378 (770)
||++|++|+||.|||+|+.++.++. ++|. ++ +++++++.+||++||.+|+++||+||+|+++.+++|+++|+.|+
T Consensus 134 kIi~f~s~~pt~GpG~l~~~~~~~~-~~~~---~e-~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~ 208 (244)
T cd01479 134 KIIVFQSSLPTLGAGKLKSREDPKL-LSTD---KE-KQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLS 208 (244)
T ss_pred EEEEEeCCCCCcCCcccccCccccc-cCch---hh-hhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhh
Confidence 9999999999999999999987664 4432 22 47899999999999999999999999999999999999999999
Q ss_pred cCcceeEEEeC--CCCh----hHHHHHHHHHhccC
Q 004188 379 EKSGGFIMIGE--TFES----DQFRKCMRHIFGHD 407 (770)
Q Consensus 379 ~~TGG~v~~~~--~f~~----~~~~~~l~~~l~~~ 407 (770)
+.|||.+++|+ +|+. .+|.++|+|.++|+
T Consensus 209 ~~TGG~v~~y~~~~~~~~~d~~kl~~dl~~~ltr~ 243 (244)
T cd01479 209 RLTGGQVYYYPSFNFSAPNDVEKLVNELARYLTRK 243 (244)
T ss_pred hhcCceEEEECCccCCchhhHHHHHHHHHHHhccc
Confidence 99999999999 6653 37999999999885
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=1.1e-45 Score=382.77 Aligned_cols=227 Identities=35% Similarity=0.576 Sum_probs=205.2
Q ss_pred CCCcEEEEEEecCcchh---HHHHHHHHHHHHhhcCC--CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhh
Q 004188 145 VLGPAFVFVVDGCMEES---EIRAVKHELLRVMEQLP--ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQI 219 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~---~l~~~~~~i~~~l~~lp--~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~ 219 (770)
|+||+|+||||+|.+++ ++++++++|+++|+.|| ++++|||||||++||||++++.. . .
T Consensus 1 p~pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~~lp~~~~~~igiITf~~~V~~~~~~~~~---------------~-~ 64 (239)
T cd01468 1 PQPPVFVFVIDVSYEAIKEGLLQALKESLLASLDLLPGDPRARVGLITYDSTVHFYNLSSDL---------------A-Q 64 (239)
T ss_pred CCCCEEEEEEEcchHhccccHHHHHHHHHHHHHHhCCCCCCcEEEEEEeCCeEEEEECCCCC---------------C-C
Confidence 57999999999999954 49999999999999999 99999999999999999997531 0 1
Q ss_pred hhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCC--C
Q 004188 220 QHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNT--G 297 (770)
Q Consensus 220 ~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~--g 297 (770)
+++++++|.+++ |.|.++++|+++.|+++.|.++|++|+++++...++++.||+|+||++|..+|+ .. |
T Consensus 65 ~~~~v~~dl~d~-----f~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~----~~~~g 135 (239)
T cd01468 65 PKMYVVSDLKDV-----FLPLPDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLK----GTFAG 135 (239)
T ss_pred CeEEEeCCCccC-----cCCCcCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHh----hcCCC
Confidence 356788898887 888888999999999999999999999998632278899999999999999998 44 9
Q ss_pred cEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccc
Q 004188 298 SRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVP 377 (770)
Q Consensus 298 GkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l 377 (770)
|||++|++|+||.|||+|+.++.++.+|+|. ++++++++.+||++||.+|+++||+||+|+++.+++|+++|++|
T Consensus 136 GkI~~f~sg~pt~GpG~l~~~~~~~~~~~~~-----e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l 210 (239)
T cd01468 136 GRIIVFQGGLPTVGPGKLKSREDKEPIRSHD-----EAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQL 210 (239)
T ss_pred ceEEEEECCCCCCCCCccccCcccccCCCcc-----chhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhh
Confidence 9999999999999999999999999999872 36899999999999999999999999999999999999999999
Q ss_pred ccCcceeEEEeCCC----ChhHHHHHHH
Q 004188 378 VEKSGGFIMIGETF----ESDQFRKCMR 401 (770)
Q Consensus 378 ~~~TGG~v~~~~~f----~~~~~~~~l~ 401 (770)
++.|||.+++|++| +.++|.++|+
T Consensus 211 ~~~TGG~v~~y~~f~~~~~~~~~~~~l~ 238 (239)
T cd01468 211 AKSTGGQVYLYDSFQAPNDGSKFKQDLQ 238 (239)
T ss_pred hhcCCceEEEeCCCCCcccHHHHHHHhc
Confidence 99999999999999 6667777775
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=5.8e-44 Score=371.48 Aligned_cols=233 Identities=33% Similarity=0.535 Sum_probs=186.2
Q ss_pred CCCcEEEEEEecCcchhH---HHHHHHHHHHHhhcCC--CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhh
Q 004188 145 VLGPAFVFVVDGCMEESE---IRAVKHELLRVMEQLP--ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQI 219 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~~---l~~~~~~i~~~l~~lp--~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~ 219 (770)
|+||+|+||||+|.++++ ++.++++|+++|+.|| ++++|||||||+.||||+++.+. . .
T Consensus 1 P~pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~l~~~~~~~vgiitfd~~V~~y~l~~~~---------------~-~ 64 (243)
T PF04811_consen 1 PQPPVYVFVIDVSYEAVQSGLLQSLIESLKSALDSLPGDERTRVGIITFDSSVHFYNLSSSL---------------S-Q 64 (243)
T ss_dssp -S--EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCTSSTSTT-EEEEEEESSSEEEEETTTTS---------------S-S
T ss_pred CCCCEEEEEEECchhhhhccHHHHHHHHHHHHHHhccCCCCcEEEEEEeCCEEEEEECCCCc---------------C-C
Confidence 579999999999999665 8999999999999999 89999999999999999998641 1 1
Q ss_pred hhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcE
Q 004188 220 QHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSR 299 (770)
Q Consensus 220 ~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGk 299 (770)
.++++++|++++ +.|..++||+++.|+++.|.++|++|++.+....++++.+|+|+||++|..+|+. ...|||
T Consensus 65 ~~~~v~~dl~~~-----~~p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~--~~~gGk 137 (243)
T PF04811_consen 65 PQMIVVSDLDDP-----FIPLPDGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSS--RNTGGK 137 (243)
T ss_dssp TEEEEEHHTTSH-----HSSTSSSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHH--HTS-EE
T ss_pred CcccchHHHhhc-----ccCCcccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhc--cccCCE
Confidence 456788899988 7887799999999999999999999999653213478999999999999999983 248999
Q ss_pred EEEEecCCCCCCC-CccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccc
Q 004188 300 IMVFTSGPATMGP-GIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPV 378 (770)
Q Consensus 300 I~~F~sg~pt~Gp-G~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~ 378 (770)
|++|++|+||.|| |++..++.. .|.+.+++.+.+++++.+||++||.+|+++||+||+|+++.+++|+++|+.|+
T Consensus 138 I~~F~s~~pt~G~Gg~l~~~~~~----~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~ 213 (243)
T PF04811_consen 138 ILVFTSGPPTYGPGGSLKKREDS----SHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLA 213 (243)
T ss_dssp EEEEESS---SSSTTSS-SBTTS----CCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHH
T ss_pred EEEEeccCCCCCCCceecccccc----cccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHH
Confidence 9999999999999 666666544 34556666677888999999999999999999999999999999999999999
Q ss_pred cCcceeEEEeCCCC----hhHHHHHHHHHh
Q 004188 379 EKSGGFIMIGETFE----SDQFRKCMRHIF 404 (770)
Q Consensus 379 ~~TGG~v~~~~~f~----~~~~~~~l~~~l 404 (770)
+.|||.+++|++|+ ..+|.++|+|++
T Consensus 214 ~~TGG~l~~y~~f~~~~~~~~l~~dl~r~~ 243 (243)
T PF04811_consen 214 RYTGGSLYYYPNFNAERDGEKLRQDLKRLV 243 (243)
T ss_dssp HCTT-EEEEETTTTCHHHHHHHHHHHHHHH
T ss_pred HhCceeEEEeCCCCCchhHHHHHHHHHHhC
Confidence 99999999999999 456888887764
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=99.87 E-value=5.6e-22 Score=175.29 Aligned_cols=96 Identities=38% Similarity=0.607 Sum_probs=86.6
Q ss_pred eeeEEEEEEEcCCceEeeeecCccccccCCCCcCCCccCCCCccceeeecCCCCceEEEEEEeccCCcCCCCCeEEEEEE
Q 004188 415 YFDATIEVVTTRDIKICGALGPCVSLKKKNNLVSDSETGEGGTYMWKLNTLASKTCIAFFFQVSDEQKAQPGSAFFIQFI 494 (770)
Q Consensus 415 ~~~a~l~vr~S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~g~t~~~~l~~~~~~~si~~~f~~~~~~~l~~~~~~~iQ~a 494 (770)
||+|+||||||+|++|.+++||++.. .+++|.++|.++++.|++++++++++++|+|++++ ++...+.+|||++
T Consensus 1 g~~~~l~vr~S~gl~v~~~~G~~~~~----~~~s~~~~g~~~~~~~~~~~l~~~~s~~~~~~~~~--~~~~~~~~~iQ~~ 74 (96)
T PF08033_consen 1 GFNAVLRVRCSKGLKVSGVIGPCFNR----SSVSDNEIGEGDTTRWKLPSLDPDTSFAFEFEIDE--DLPNGSQAYIQFA 74 (96)
T ss_dssp EEEEEEEEEE-TTEEEEEEESSSEES----STBESSECSBSSCSEEEEEEEETT--EEEEEEESS--BTBTTSEEEEEEE
T ss_pred CceEEEEEEECCCeEEEEEEcCcccc----ccccceeeccCCccEEEecccCCCCEEEEEEEECC--CCCCCCeEEEEEE
Confidence 79999999999999999999999986 36889999999999999999999999999999984 3666789999999
Q ss_pred EEEEecCCcEEEEEEecccccc
Q 004188 495 TRYRHGNMNIRKRVTTAARRWV 516 (770)
Q Consensus 495 l~Yt~~~G~rriRV~T~~~~vt 516 (770)
++||+.+|+||+||+|+++|+|
T Consensus 75 ~~Yt~~~G~r~iRV~T~~l~vt 96 (96)
T PF08033_consen 75 LLYTDSNGERRIRVTTLSLPVT 96 (96)
T ss_dssp EEEEETTSEEEEEEEEEEEEEE
T ss_pred EEEECCCCCEEEEEEeeccccC
Confidence 9999999999999999999986
No 13
>PF04815 Sec23_helical: Sec23/Sec24 helical domain; InterPro: IPR006900 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, and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_B 2NUP_B 2NUT_B 3EGX_B 3EH2_C 3EH1_A 3EFO_B 3EG9_B 2QTV_A 1M2O_C ....
Probab=99.78 E-value=2.9e-19 Score=159.99 Aligned_cols=98 Identities=27% Similarity=0.376 Sum_probs=89.2
Q ss_pred HHHHHHHHHHHHHHHHhhCChHHHHHHHHHHHHHHHHHhcccCCCC-----CCCcccCcccccHHHHHHHhhccccCCCC
Q 004188 529 QEAAAAIMARLAIHRAETCYSRDVVRWLDDTLIRFTSKFGDYVPED-----PSSFRLSSNFSLYPQFMFYLRRSQFIDVF 603 (770)
Q Consensus 529 ~ea~~~llar~a~~~~~~~~~~~~~~~l~~~l~~~~~~~~~yr~~~-----~~~l~lp~~lk~lP~~~~~L~ks~~l~~~ 603 (770)
|||++++++|+++.++.+++..++|++++++++++ +..||++| ++||+|||+||+||+|+++|+||++|++.
T Consensus 1 Qda~~~llak~ai~~~~~~~l~~~r~~l~~~~v~i---l~~Yr~~~~~~~~~~qLilPe~lklLPly~l~llKs~alr~~ 77 (103)
T PF04815_consen 1 QDAITSLLAKQAIDKALSSSLKDARESLDNRLVDI---LAAYRKNCASSSSSGQLILPESLKLLPLYILALLKSPALRPT 77 (103)
T ss_dssp HHHHHHHHHHHHHHHHCCS-HHHHHHHHHHHHHHH---HHHHHHHCTTECCCTEEEEEGGGTTHHHHHHHHHTSTTTSCS
T ss_pred CHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHH---HHHHHhhccCCCCchhhhCCHHHHHHHHHHHHHHcchhhcCC
Confidence 79999999999999999999999999999999999 66777765 26899999999999999999999999999
Q ss_pred CCChhHHHHHHHHHhcCChHHHHHhh
Q 004188 604 NCTPDETAFFRLMLNREGVVGSLIMI 629 (770)
Q Consensus 604 ~~s~Der~~~~~~l~~~~~~~~~~~i 629 (770)
++++|||+|+++++++++++.++.||
T Consensus 78 ~v~~D~R~~~~~~~~~~~~~~~~~~i 103 (103)
T PF04815_consen 78 NVSPDERAYAMHLLLSMPVDSLLRMI 103 (103)
T ss_dssp TS-HHHHHHHHHHHHHS-HHHHHHHH
T ss_pred CCCCcHHHHHHHHHHCCCHHHHHhhC
Confidence 99999999999999999999999886
No 14
>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=99.60 E-value=2e-16 Score=114.73 Aligned_cols=40 Identities=43% Similarity=1.052 Sum_probs=29.1
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCcCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPRSY 91 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y 91 (770)
+|+||++|+||||||++|+.++++|+|+||++.|++|++|
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 5899999999999999999999999999999999999887
No 15
>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=98.53 E-value=3e-06 Score=84.91 Aligned_cols=167 Identities=11% Similarity=0.114 Sum_probs=106.0
Q ss_pred CCCcEEEEEEecCcchh--HHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEE-cCCCCceeeeeecCCccCChHhhhh
Q 004188 145 VLGPAFVFVVDGCMEES--EIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHD-LGFSECCRVLVFHGGRELSSEQIQH 221 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~--~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~-l~~~~~~~~~v~~g~~~~~~~~~~~ 221 (770)
..|-.++||||+|.++. .++.+++++...++.++++.+||||+|++.++..- ...
T Consensus 11 ~~p~~vv~llD~SgSM~~~~l~~ak~~~~~ll~~l~~~d~v~lv~F~~~~~~~~~~~~---------------------- 68 (190)
T cd01463 11 TSPKDIVILLDVSGSMTGQRLHLAKQTVSSILDTLSDNDFFNIITFSNEVNPVVPCFN---------------------- 68 (190)
T ss_pred cCCceEEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCCCEEEEEEeCCCeeEEeeecc----------------------
Confidence 45667899999999874 38889999999999999999999999999876531 000
Q ss_pred hhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc--------
Q 004188 222 LMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS-------- 293 (770)
Q Consensus 222 ~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-------- 293 (770)
..++....+.+..+...|+.|+. ...+.++.||..|...+....
T Consensus 69 --------------------~~~~~~~~~~~~~~~~~l~~l~~--------~G~T~~~~al~~a~~~l~~~~~~~~~~~~ 120 (190)
T cd01463 69 --------------------DTLVQATTSNKKVLKEALDMLEA--------KGIANYTKALEFAFSLLLKNLQSNHSGSR 120 (190)
T ss_pred --------------------cceEecCHHHHHHHHHHHhhCCC--------CCcchHHHHHHHHHHHHHHhhhccccccc
Confidence 00111111223334444444432 134689999999998887310
Q ss_pred CCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHH-HHHhCCcEEEEEeecCCccCcc
Q 004188 294 VNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSD-RLIKSSIVLDLFACSLDQVGVA 372 (770)
Q Consensus 294 ~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~-~~~~~~isvdlf~~~~~~~~l~ 372 (770)
......|++++.|.++.+.- ...++.. .....++.|..|.++.+..|..
T Consensus 121 ~~~~~~iillTDG~~~~~~~------------------------------~~~~~~~~~~~~~~v~i~tigiG~~~~d~~ 170 (190)
T cd01463 121 SQCNQAIMLITDGVPENYKE------------------------------IFDKYNWDKNSEIPVRVFTYLIGREVTDRR 170 (190)
T ss_pred CCceeEEEEEeCCCCCcHhH------------------------------HHHHhcccccCCCcEEEEEEecCCccccch
Confidence 11234689999997653210 0111100 0111246566666666656888
Q ss_pred cccccccCcceeEEEeCCC
Q 004188 373 ELKVPVEKSGGFIMIGETF 391 (770)
Q Consensus 373 ~~~~l~~~TGG~v~~~~~f 391 (770)
.|..|+..+||..++.++.
T Consensus 171 ~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 171 EIQWMACENKGYYSHIQSL 189 (190)
T ss_pred HHHHHHhhcCCeEEEcccC
Confidence 9999999999998877653
No 16
>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=98.51 E-value=3.1e-06 Score=82.80 Aligned_cols=158 Identities=19% Similarity=0.208 Sum_probs=108.9
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccc
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRC 227 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d 227 (770)
++||+|+|.++.. ++.+++++...++.++++.+||+|+|++..+..-- + .
T Consensus 3 ~~~vlD~S~SM~~~~~~~~k~a~~~~~~~l~~~~~v~li~f~~~~~~~~~------------------------~-~--- 54 (170)
T cd01465 3 LVFVIDRSGSMDGPKLPLVKSALKLLVDQLRPDDRLAIVTYDGAAETVLP------------------------A-T--- 54 (170)
T ss_pred EEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEecCCccEEec------------------------C-c---
Confidence 6899999998754 78888899999999988899999999976543200 0 0
Q ss_pred cccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccC-CCCcEEEEEecC
Q 004188 228 AKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSV-NTGSRIMVFTSG 306 (770)
Q Consensus 228 ~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~-~~gGkI~~F~sg 306 (770)
+. ..+..+...++.+.. ...+-++.||..|...+..... ..-.+|++|++|
T Consensus 55 -------------------~~-~~~~~l~~~l~~~~~--------~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG 106 (170)
T cd01465 55 -------------------PV-RDKAAILAAIDRLTA--------GGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDG 106 (170)
T ss_pred -------------------cc-chHHHHHHHHHcCCC--------CCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCC
Confidence 00 011233344444332 2346789999999888863221 112679999999
Q ss_pred CCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEE
Q 004188 307 PATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIM 386 (770)
Q Consensus 307 ~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~ 386 (770)
.++.|+.. .+-+.+....+.+.++.|+.+.++ +..+...|..++..++|..+
T Consensus 107 ~~~~~~~~---------------------------~~~~~~~~~~~~~~~v~i~~i~~g-~~~~~~~l~~ia~~~~g~~~ 158 (170)
T cd01465 107 DFNVGETD---------------------------PDELARLVAQKRESGITLSTLGFG-DNYNEDLMEAIADAGNGNTA 158 (170)
T ss_pred CCCCCCCC---------------------------HHHHHHHHHHhhcCCeEEEEEEeC-CCcCHHHHHHHHhcCCceEE
Confidence 88876421 012234455566789999999988 67888899999999999977
Q ss_pred EeCCC
Q 004188 387 IGETF 391 (770)
Q Consensus 387 ~~~~f 391 (770)
+.++.
T Consensus 159 ~~~~~ 163 (170)
T cd01465 159 YIDNL 163 (170)
T ss_pred EeCCH
Confidence 76554
No 17
>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=98.49 E-value=3.6e-06 Score=83.37 Aligned_cols=164 Identities=20% Similarity=0.183 Sum_probs=110.9
Q ss_pred EEEEEecCcchh---HHHHHHHHHHHHhhc-CCCCcEEEEEEECCE-EEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 150 FVFVVDGCMEES---EIRAVKHELLRVMEQ-LPENALVGLVVFDSM-VYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 150 ~vFvID~s~~~~---~l~~~~~~i~~~l~~-lp~~~~VglITf~~~-V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
++|+||+|.++. .++.+++++...+.. ++++.+||+|+|++. .++. +
T Consensus 3 v~lvlD~SgSM~~~~rl~~ak~a~~~~~~~~~~~~d~v~lv~F~~~~~~~~-~--------------------------- 54 (178)
T cd01451 3 VIFVVDASGSMAARHRMAAAKGAVLSLLRDAYQRRDKVALIAFRGTEAEVL-L--------------------------- 54 (178)
T ss_pred EEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE-e---------------------------
Confidence 579999999875 478888888877754 567889999999864 2211 0
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCC--CcEEEE
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNT--GSRIMV 302 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~--gGkI~~ 302 (770)
|....+..+...|+.++. ...+.++.||..|...++...... ...|++
T Consensus 55 ----------------------~~t~~~~~~~~~l~~l~~--------~G~T~l~~aL~~a~~~l~~~~~~~~~~~~ivl 104 (178)
T cd01451 55 ----------------------PPTRSVELAKRRLARLPT--------GGGTPLAAGLLAAYELAAEQARDPGQRPLIVV 104 (178)
T ss_pred ----------------------CCCCCHHHHHHHHHhCCC--------CCCCcHHHHHHHHHHHHHHHhcCCCCceEEEE
Confidence 000111223344444432 234789999999999882111112 258999
Q ss_pred EecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHH-HHHHHHHHhCCcEEEEEeecCCccCcccccccccCc
Q 004188 303 FTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFY-KQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKS 381 (770)
Q Consensus 303 F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY-~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~T 381 (770)
++.|.++.|.... ..- .+++.++.+.||.+..+.+..+..+-..|..|++.|
T Consensus 105 iTDG~~~~g~~~~---------------------------~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~t 157 (178)
T cd01451 105 ITDGRANVGPDPT---------------------------ADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARAL 157 (178)
T ss_pred ECCCCCCCCCCch---------------------------hHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHc
Confidence 9999888764200 011 456777888899887776666666778899999999
Q ss_pred ceeEEEeCCCChhHHHH
Q 004188 382 GGFIMIGETFESDQFRK 398 (770)
Q Consensus 382 GG~v~~~~~f~~~~~~~ 398 (770)
||..++.++.+...|..
T Consensus 158 gG~~~~~~d~~~~~~~~ 174 (178)
T cd01451 158 GGQYVRLPDLSADAIAS 174 (178)
T ss_pred CCeEEEcCcCCHHHHHH
Confidence 99999999888766654
No 18
>PRK13685 hypothetical protein; Provisional
Probab=98.45 E-value=4.4e-06 Score=90.95 Aligned_cols=161 Identities=16% Similarity=0.206 Sum_probs=113.2
Q ss_pred CcEEEEEEecCcchh-------HHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhh
Q 004188 147 GPAFVFVVDGCMEES-------EIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQI 219 (770)
Q Consensus 147 ~p~~vFvID~s~~~~-------~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~ 219 (770)
+...+||||+|.++. .++.++++++..++.++++.+||+|+|++..++.
T Consensus 88 ~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l~~~d~vglv~Fa~~a~~~------------------------ 143 (326)
T PRK13685 88 RAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADELTPGINLGLIAFAGTATVL------------------------ 143 (326)
T ss_pred CceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhCCCCCeEEEEEEcCceeec------------------------
Confidence 346899999999975 4889999999999999888999999999865421
Q ss_pred hhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc-------
Q 004188 220 QHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC------- 292 (770)
Q Consensus 220 ~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~------- 292 (770)
+ |+...++.+...|+.+... ..++.|.|+..|...+...
T Consensus 144 -----~---------------------p~t~d~~~l~~~l~~l~~~--------~~T~~g~al~~A~~~l~~~~~~~~~~ 189 (326)
T PRK13685 144 -----V---------------------SPTTNREATKNAIDKLQLA--------DRTATGEAIFTALQAIATVGAVIGGG 189 (326)
T ss_pred -----C---------------------CCCCCHHHHHHHHHhCCCC--------CCcchHHHHHHHHHHHHhhhcccccc
Confidence 0 1112345566777766532 2457899999998877521
Q ss_pred cCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCc----
Q 004188 293 SVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQ---- 368 (770)
Q Consensus 293 ~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~---- 368 (770)
.....++|+++++|-.+.|...... ... .+.+..+.+.||.|..+.++.+.
T Consensus 190 ~~~~~~~IILlTDG~~~~~~~~~~~---------------------~~~----~~aa~~a~~~gi~i~~Ig~G~~~g~~~ 244 (326)
T PRK13685 190 DTPPPARIVLMSDGKETVPTNPDNP---------------------RGA----YTAARTAKDQGVPISTISFGTPYGSVE 244 (326)
T ss_pred cCCCCCEEEEEcCCCCCCCCCCCCc---------------------ccH----HHHHHHHHHcCCeEEEEEECCCCCCcC
Confidence 1123478999999977655321000 000 13456677889999999888642
Q ss_pred ---------cCcccccccccCcceeEEEeCC
Q 004188 369 ---------VGVAELKVPVEKSGGFIMIGET 390 (770)
Q Consensus 369 ---------~~l~~~~~l~~~TGG~v~~~~~ 390 (770)
.|-..|..+++.|||..++.++
T Consensus 245 ~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~ 275 (326)
T PRK13685 245 INGQRQPVPVDDESLKKIAQLSGGEFYTAAS 275 (326)
T ss_pred cCCceeeecCCHHHHHHHHHhcCCEEEEcCC
Confidence 5678899999999998776654
No 19
>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=98.45 E-value=4.6e-06 Score=82.95 Aligned_cols=162 Identities=12% Similarity=0.133 Sum_probs=105.1
Q ss_pred EEEEEEecCcchh-------HHHHHHHHHHHHhhcC---CCCcEEEEEEE-CCEEEEEEcCCCCceeeeeecCCccCChH
Q 004188 149 AFVFVVDGCMEES-------EIRAVKHELLRVMEQL---PENALVGLVVF-DSMVYVHDLGFSECCRVLVFHGGRELSSE 217 (770)
Q Consensus 149 ~~vFvID~s~~~~-------~l~~~~~~i~~~l~~l---p~~~~VglITf-~~~V~~y~l~~~~~~~~~v~~g~~~~~~~ 217 (770)
-.+++||+|.++. +++.+++.+...++.+ .++.+||||+| ++.-++-
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~---------------------- 62 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKL---------------------- 62 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEE----------------------
Confidence 3689999999975 4889999998887754 34679999999 4433221
Q ss_pred hhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCC
Q 004188 218 QIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTG 297 (770)
Q Consensus 218 ~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~g 297 (770)
+|+......+...|+.+ +. . ...+.++.||..|...++.......
T Consensus 63 ----------------------------~PlT~D~~~~~~~L~~~--~~---~--~G~t~l~~aL~~A~~~l~~~~~~~~ 107 (183)
T cd01453 63 ----------------------------TDLTGNPRKHIQALKTA--RE---C--SGEPSLQNGLEMALESLKHMPSHGS 107 (183)
T ss_pred ----------------------------ECCCCCHHHHHHHhhcc--cC---C--CCchhHHHHHHHHHHHHhcCCccCc
Confidence 11111112233344433 11 1 1347899999999999973111234
Q ss_pred cEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccc
Q 004188 298 SRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVP 377 (770)
Q Consensus 298 GkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l 377 (770)
++|+++.++.-+.+|+ -+.++++.+.+.||.|++..++. +...|+.+
T Consensus 108 ~~iiil~sd~~~~~~~------------------------------~~~~~~~~l~~~~I~v~~IgiG~---~~~~L~~i 154 (183)
T cd01453 108 REVLIIFSSLSTCDPG------------------------------NIYETIDKLKKENIRVSVIGLSA---EMHICKEI 154 (183)
T ss_pred eEEEEEEcCCCcCChh------------------------------hHHHHHHHHHHcCcEEEEEEech---HHHHHHHH
Confidence 6788887652211110 12457888889999999999874 45689999
Q ss_pred ccCcceeEEEeCCCChhHHHHHHHH
Q 004188 378 VEKSGGFIMIGETFESDQFRKCMRH 402 (770)
Q Consensus 378 ~~~TGG~v~~~~~f~~~~~~~~l~~ 402 (770)
|+.|||+.|...+ ...+.+-+.+
T Consensus 155 a~~tgG~~~~~~~--~~~l~~~~~~ 177 (183)
T cd01453 155 CKATNGTYKVILD--ETHLKELLLE 177 (183)
T ss_pred HHHhCCeeEeeCC--HHHHHHHHHh
Confidence 9999999776543 3456655544
No 20
>PF00626 Gelsolin: Gelsolin repeat; InterPro: IPR007123 Gelsolin is a cytoplasmic, calcium-regulated, actin-modulating protein that binds to the barbed ends of actin filaments, preventing monomer exchange (end-blocking or capping) []. It can promote nucleation (the assembly of monomers into filaments), as well as sever existing filaments. In addition, this protein binds with high affinity to fibronectin. Plasma gelsolin and cytoplasmic gelsolin are derived from a single gene by alternate initiation sites and differential splicing. Sequence comparisons indicate an evolutionary relationship between gelsolin, villin, fragmin and severin []. Six large repeating segments occur in gelsolin and villin, and 3 similar segments in severin and fragmin. While the multiple repeats have yet to be related to any known function of the actin-severing proteins, the superfamily appears to have evolved from an ancestral sequence of 120 to 130 amino acid residues [].; PDB: 3FG6_F 1RGI_G 2FGH_A 1D0N_B 3EGD_B 2NUP_B 2NUT_B 3EGX_B 1JHW_A 1J72_A ....
Probab=98.42 E-value=4e-07 Score=76.59 Aligned_cols=71 Identities=27% Similarity=0.458 Sum_probs=57.6
Q ss_pred CcccccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHH-HcCCCCcEEEEEcc
Q 004188 642 PVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLV-AERIPAPKIIKCDQ 720 (770)
Q Consensus 642 p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~-~~R~~~p~~~~~~~ 720 (770)
|++++++.+.|.++++||||+|..||+|+|++... . .+ ......|+.+. .+|.+.|+++++.+
T Consensus 5 ~~~~~~s~~~L~s~~~yIld~~~~i~vW~G~~~~~----------~----e~--~~a~~~a~~~~~~~~~~~~~~~~~~e 68 (76)
T PF00626_consen 5 PEQVPLSQSSLNSDDCYILDCGYEIFVWVGKKSSP----------E----EK--AFAAQLAQELLSEERPPLPEVIRVEE 68 (76)
T ss_dssp EEEESSSGGGEETTSEEEEEESSEEEEEEHTTSHH----------H----HH--HHHHHHHHHHHHHHTTTTSEEEEEET
T ss_pred CCcCCCCHHHcCCCCEEEEEeCCCcEEEEeccCCH----------H----HH--HHHHHHHHHhhhhcCCCCCEEEEecC
Confidence 56788999999999999999999999999987331 0 11 11345567888 88999999999999
Q ss_pred CCChHHHH
Q 004188 721 HGSQARFL 728 (770)
Q Consensus 721 g~~~~r~l 728 (770)
|...++|+
T Consensus 69 g~E~~~F~ 76 (76)
T PF00626_consen 69 GKEPAEFL 76 (76)
T ss_dssp THHHHHHH
T ss_pred CCCChHHC
Confidence 99888885
No 21
>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=98.38 E-value=5.2e-06 Score=80.24 Aligned_cols=148 Identities=18% Similarity=0.208 Sum_probs=102.1
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhcccc
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRC 227 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d 227 (770)
.+|+||.|.++.. ++.+++++...++.|+++.+||||+|++..+.. . .+.
T Consensus 3 v~~vlD~S~SM~~~rl~~ak~a~~~l~~~l~~~~~~~li~F~~~~~~~--~-------------------------~~~- 54 (155)
T cd01466 3 LVAVLDVSGSMAGDKLQLVKHALRFVISSLGDADRLSIVTFSTSAKRL--S-------------------------PLR- 54 (155)
T ss_pred EEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcceEEEEEecCCcccc--C-------------------------CCc-
Confidence 4799999998763 788999999999999998999999999865432 0 000
Q ss_pred cccccCCCCCCCCCCcceEech-hcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc-CCCCcEEEEEec
Q 004188 228 AKQHQLGKTPVIQKQGFLLPVS-ECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS-VNTGSRIMVFTS 305 (770)
Q Consensus 228 ~~~~~~~~~~~~~~~~~l~~~~-e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-~~~gGkI~~F~s 305 (770)
+.. ..+..+.+.++.+.. ...++++.||..|..++.... ......|+++++
T Consensus 55 -------------------~~~~~~~~~~~~~i~~~~~--------~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTD 107 (155)
T cd01466 55 -------------------RMTAKGKRSAKRVVDGLQA--------GGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSD 107 (155)
T ss_pred -------------------ccCHHHHHHHHHHHHhccC--------CCCccHHHHHHHHHHHHhhcccCCCceEEEEEcC
Confidence 000 123344555555432 245799999999999986321 133468999999
Q ss_pred CCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeE
Q 004188 306 GPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFI 385 (770)
Q Consensus 306 g~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v 385 (770)
|.++.|+. . .++.+.++.|..+.++. ..+..+|..||..|||+.
T Consensus 108 G~~~~~~~---------~--------------------------~~~~~~~v~v~~igig~-~~~~~~l~~iA~~t~G~~ 151 (155)
T cd01466 108 GQDNHGAV---------V--------------------------LRADNAPIPIHTFGLGA-SHDPALLAFIAEITGGTF 151 (155)
T ss_pred CCCCcchh---------h--------------------------hcccCCCceEEEEecCC-CCCHHHHHHHHhccCceE
Confidence 98776510 0 01123578888877764 467788999999999987
Q ss_pred EEe
Q 004188 386 MIG 388 (770)
Q Consensus 386 ~~~ 388 (770)
++.
T Consensus 152 ~~~ 154 (155)
T cd01466 152 SYV 154 (155)
T ss_pred EEe
Confidence 653
No 22
>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=98.35 E-value=8e-06 Score=82.88 Aligned_cols=170 Identities=19% Similarity=0.244 Sum_probs=109.1
Q ss_pred CCCcEEEEEEecCcchh--------HHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCCh
Q 004188 145 VLGPAFVFVVDGCMEES--------EIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSS 216 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~--------~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~ 216 (770)
..|..++||||+|.++. .++.+++++...++.++++.+||+++|++.++-. . ++
T Consensus 18 ~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l~~~~~v~lv~F~~~~~~~---~-------------~~-- 79 (206)
T cd01456 18 QLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANALPDGTRLGLWTFSGDGDNP---L-------------DV-- 79 (206)
T ss_pred CCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhCCCCceEEEEEecCCCCCC---c-------------cc--
Confidence 56788999999999976 3889999999999999989999999999854210 0 00
Q ss_pred HhhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCC
Q 004188 217 EQIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNT 296 (770)
Q Consensus 217 ~~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ 296 (770)
.. .++- .+ .......+. ...+..+.+.|+.+.. ....+.++.||..|..++. ...
T Consensus 80 ---~~--~~p~--~~-----~~~~~~~~~---~~~~~~l~~~i~~i~~-------~~G~T~l~~aL~~a~~~l~---~~~ 134 (206)
T cd01456 80 ---RV--LVPK--GC-----LTAPVNGFP---SAQRSALDAALNSLQT-------PTGWTPLAAALAEAAAYVD---PGR 134 (206)
T ss_pred ---cc--cccc--cc-----cccccCCCC---cccHHHHHHHHHhhcC-------CCCcChHHHHHHHHHHHhC---CCC
Confidence 00 0000 00 000000000 0234556667776651 1234789999999999885 133
Q ss_pred CcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHH-HHhCCcEEEEEeecCCccCccccc
Q 004188 297 GSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDR-LIKSSIVLDLFACSLDQVGVAELK 375 (770)
Q Consensus 297 gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~-~~~~~isvdlf~~~~~~~~l~~~~ 375 (770)
...|+++++|.++.|+... +..+++... ....+|.|+++.++.+ .+...|.
T Consensus 135 ~~~iillTDG~~~~~~~~~---------------------------~~~~~~~~~~~~~~~i~i~~igiG~~-~~~~~l~ 186 (206)
T cd01456 135 VNVVVLITDGEDTCGPDPC---------------------------EVARELAKRRTPAPPIKVNVIDFGGD-ADRAELE 186 (206)
T ss_pred cceEEEEcCCCccCCCCHH---------------------------HHHHHHHHhcCCCCCceEEEEEecCc-ccHHHHH
Confidence 3789999999776553100 011122211 0235899999988765 6778899
Q ss_pred ccccCcceeE
Q 004188 376 VPVEKSGGFI 385 (770)
Q Consensus 376 ~l~~~TGG~v 385 (770)
.++..|||..
T Consensus 187 ~iA~~tgG~~ 196 (206)
T cd01456 187 AIAEATGGTY 196 (206)
T ss_pred HHHHhcCCeE
Confidence 9999999986
No 23
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.31 E-value=0.0002 Score=85.65 Aligned_cols=168 Identities=15% Similarity=0.243 Sum_probs=108.7
Q ss_pred CCcEEEEEEecCcchh---HHHHHHHHHHHHh-hcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhh
Q 004188 146 LGPAFVFVVDGCMEES---EIRAVKHELLRVM-EQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQH 221 (770)
Q Consensus 146 ~~p~~vFvID~s~~~~---~l~~~~~~i~~~l-~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~ 221 (770)
.+..+++|||+|.++. .++.++++++..+ +.++++.+||||+|++..++.. .
T Consensus 303 ~~r~VVLVLDvSGSM~g~dRL~~lkqAA~~fL~~~l~~~DrVGLVtFsssA~vl~------------------------p 358 (863)
T TIGR00868 303 RQRIVCLVLDKSGSMTVEDRLKRMNQAAKLFLLQTVEKGSWVGMVTFDSAAYIKN------------------------E 358 (863)
T ss_pred CCceEEEEEECCccccccCHHHHHHHHHHHHHHHhCCCCCEEEEEEECCceeEee------------------------c
Confidence 3456899999999985 3777888877665 4578889999999999875431 0
Q ss_pred hhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc-CCCCcEE
Q 004188 222 LMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS-VNTGSRI 300 (770)
Q Consensus 222 ~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-~~~gGkI 300 (770)
+..+. + ...++ .+...|+.. ....++++.||..|..+|.... ...++.|
T Consensus 359 Lt~It--------------------s-~~dr~---aL~~~L~~~------A~GGT~I~~GL~~Alq~L~~~~~~~~~~~I 408 (863)
T TIGR00868 359 LIQIT--------------------S-SAERD---ALTANLPTA------ASGGTSICSGLKAAFQVIKKSYQSTDGSEI 408 (863)
T ss_pred cccCC--------------------c-HHHHH---HHHHhhccc------cCCCCcHHHHHHHHHHHHHhcccccCCCEE
Confidence 00000 0 01122 233333211 1246899999999999998432 1356789
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEK 380 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~ 380 (770)
+++++|-++.+ ..+...+.+.||.|..+.++.+.- ..|..||+.
T Consensus 409 ILLTDGedn~~----------------------------------~~~l~~lk~~gVtI~TIg~G~dad--~~L~~IA~~ 452 (863)
T TIGR00868 409 VLLTDGEDNTI----------------------------------SSCFEEVKQSGAIIHTIALGPSAA--KELEELSDM 452 (863)
T ss_pred EEEeCCCCCCH----------------------------------HHHHHHHHHcCCEEEEEEeCCChH--HHHHHHHHh
Confidence 99988853211 123345567899999998887643 458999999
Q ss_pred cceeEEEeCCCC-hhHHHHHHHHH
Q 004188 381 SGGFIMIGETFE-SDQFRKCMRHI 403 (770)
Q Consensus 381 TGG~v~~~~~f~-~~~~~~~l~~~ 403 (770)
|||..|+.++-. ...+.+.+.++
T Consensus 453 TGG~~f~asd~~dl~~L~dAF~~i 476 (863)
T TIGR00868 453 TGGLRFYASDQADNNGLIDAFGAL 476 (863)
T ss_pred cCCEEEEeCCHHHHHHHHHHHHHH
Confidence 999988886422 12344444444
No 24
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.30 E-value=2.1e-05 Score=77.74 Aligned_cols=155 Identities=17% Similarity=0.203 Sum_probs=102.4
Q ss_pred EEEEEEecCcchh--------HHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhh
Q 004188 149 AFVFVVDGCMEES--------EIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQ 220 (770)
Q Consensus 149 ~~vFvID~s~~~~--------~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~ 220 (770)
-++|+||+|.++. .++.++..+...++..| +.+||+|+|++.++..-
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~~~~-~~~v~lv~f~~~~~~~~------------------------ 58 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFIDRRE-NDRIGLVVFAGAAFTQA------------------------ 58 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHHhCC-CCeEEEEEEcCCeeecc------------------------
Confidence 4789999999863 25677777766666554 77999999987664310
Q ss_pred hhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEE
Q 004188 221 HLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRI 300 (770)
Q Consensus 221 ~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI 300 (770)
++...+..+.++++.|.... ....+.++.||..|..++... ......|
T Consensus 59 --------------------------~~~~~~~~~~~~l~~l~~~~-----~~g~T~l~~al~~a~~~l~~~-~~~~~~i 106 (180)
T cd01467 59 --------------------------PLTLDRESLKELLEDIKIGL-----AGQGTAIGDAIGLAIKRLKNS-EAKERVI 106 (180)
T ss_pred --------------------------CCCccHHHHHHHHHHhhhcc-----cCCCCcHHHHHHHHHHHHHhc-CCCCCEE
Confidence 00011233455666665321 124467899999999988631 1234679
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCC----------ccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLD----------QVG 370 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~----------~~~ 370 (770)
+++++|.++.|+- . ..+.+..+.+.||.|+.+.++.. ..+
T Consensus 107 iliTDG~~~~g~~--~----------------------------~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~ 156 (180)
T cd01467 107 VLLTDGENNAGEI--D----------------------------PATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILD 156 (180)
T ss_pred EEEeCCCCCCCCC--C----------------------------HHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCC
Confidence 9999997665420 0 01223445578999999888862 467
Q ss_pred cccccccccCcceeEEEeCC
Q 004188 371 VAELKVPVEKSGGFIMIGET 390 (770)
Q Consensus 371 l~~~~~l~~~TGG~v~~~~~ 390 (770)
...|..|++.|||..++..+
T Consensus 157 ~~~l~~la~~tgG~~~~~~~ 176 (180)
T cd01467 157 EDSLVEIADKTGGRIFRALD 176 (180)
T ss_pred HHHHHHHHHhcCCEEEEecC
Confidence 77899999999999887653
No 25
>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=98.26 E-value=3.4e-05 Score=77.78 Aligned_cols=167 Identities=16% Similarity=0.155 Sum_probs=100.0
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
++||||+|.++.. ++.+++++...++.|+ .+.+||+|+|++..+.. .+...
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs~~~~~~~~~~~~----------------------- 59 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYASDPKEIVSIRDF----------------------- 59 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHHccccCCCceEEEEEecCCceEEEecccC-----------------------
Confidence 6899999998753 8889999999998875 36899999999876542 22100
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc-C------CC
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS-V------NT 296 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-~------~~ 296 (770)
....+..+...|+.+.... ......+.++.||..|...+.... . ..
T Consensus 60 ------------------------~~~~~~~~~~~l~~~~~~~---~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~ 112 (198)
T cd01470 60 ------------------------NSNDADDVIKRLEDFNYDD---HGDKTGTNTAAALKKVYERMALEKVRNKEAFNET 112 (198)
T ss_pred ------------------------CCCCHHHHHHHHHhCCccc---ccCccchhHHHHHHHHHHHHHHHHhcCccchhhc
Confidence 0001123334444443322 112345778899988877653100 0 01
Q ss_pred CcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHH------HHHhCCcEEEEEeecCCccC
Q 004188 297 GSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSD------RLIKSSIVLDLFACSLDQVG 370 (770)
Q Consensus 297 gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~------~~~~~~isvdlf~~~~~~~~ 370 (770)
.-.|++++.|.++.|.... .+.+.++++.. .+...+|.|..+.++. .++
T Consensus 113 ~~~iillTDG~~~~g~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~-~~~ 167 (198)
T cd01470 113 RHVIILFTDGKSNMGGSPL------------------------PTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGD-DVN 167 (198)
T ss_pred ceEEEEEcCCCcCCCCChh------------------------HHHHHHHHHHhcccccccchhcceeEEEEecCc-ccC
Confidence 1347899999988763110 01111222211 1234456555554443 478
Q ss_pred cccccccccCcce--eEEEeCCC
Q 004188 371 VAELKVPVEKSGG--FIMIGETF 391 (770)
Q Consensus 371 l~~~~~l~~~TGG--~v~~~~~f 391 (770)
-.+|..|+..||| .+|...+|
T Consensus 168 ~~~L~~iA~~~~g~~~~f~~~~~ 190 (198)
T cd01470 168 KEELNDLASKKDNERHFFKLKDY 190 (198)
T ss_pred HHHHHHHhcCCCCCceEEEeCCH
Confidence 8999999999999 47777766
No 26
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.20 E-value=6e-05 Score=73.43 Aligned_cols=151 Identities=19% Similarity=0.178 Sum_probs=94.9
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
.+|+||+|.+... ++.++++++..++.+. ++.++|+|+|++..+..- .
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs~~~~~~~---------------------------~ 55 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYSDDPRTEF---------------------------Y 55 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEcCceeEEE---------------------------e
Confidence 4799999998654 7788888888887764 468999999998765420 0
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc----cCCCCcEE
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC----SVNTGSRI 300 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~----~~~~gGkI 300 (770)
+.. . ..+..+...|+.++.. ...+.+|.||..|...+... .+.....|
T Consensus 56 ~~~--------------------~-~~~~~~~~~l~~l~~~-------~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~i 107 (164)
T cd01472 56 LNT--------------------Y-RSKDDVLEAVKNLRYI-------GGGTNTGKALKYVRENLFTEASGSREGVPKVL 107 (164)
T ss_pred cCC--------------------C-CCHHHHHHHHHhCcCC-------CCCchHHHHHHHHHHHhCCcccCCCCCCCEEE
Confidence 000 0 1123344555555432 23468999999999988731 12334457
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEK 380 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~ 380 (770)
++++.|.++.+. ...+..+.+.||.+-.+..+ ..|...|..++..
T Consensus 108 iliTDG~~~~~~---------------------------------~~~~~~l~~~gv~i~~ig~g--~~~~~~L~~ia~~ 152 (164)
T cd01472 108 VVITDGKSQDDV---------------------------------EEPAVELKQAGIEVFAVGVK--NADEEELKQIASD 152 (164)
T ss_pred EEEcCCCCCchH---------------------------------HHHHHHHHHCCCEEEEEECC--cCCHHHHHHHHCC
Confidence 778877332110 11223445567755544444 4489999999999
Q ss_pred cce-eEEEeCC
Q 004188 381 SGG-FIMIGET 390 (770)
Q Consensus 381 TGG-~v~~~~~ 390 (770)
+|| .++.+.+
T Consensus 153 ~~~~~~~~~~~ 163 (164)
T cd01472 153 PKELYVFNVAD 163 (164)
T ss_pred CchheEEeccC
Confidence 987 5555544
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=98.10 E-value=0.0001 Score=79.21 Aligned_cols=49 Identities=18% Similarity=0.257 Sum_probs=41.5
Q ss_pred CCcEEEEEEecCcchhH-HHHHHHHHHHHhhc-CCCCcEEEEEEECCEEEE
Q 004188 146 LGPAFVFVVDGCMEESE-IRAVKHELLRVMEQ-LPENALVGLVVFDSMVYV 194 (770)
Q Consensus 146 ~~p~~vFvID~s~~~~~-l~~~~~~i~~~l~~-lp~~~~VglITf~~~V~~ 194 (770)
.|...+||||+|.++.. +..+++++...++. ++++.+||||+|++.+++
T Consensus 52 ~p~~vvlvlD~SgSM~~~~~~a~~a~~~~l~~~l~~~d~v~lv~f~~~~~~ 102 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRNDLDRARAAAIRFLKTVLRPNDRVFVVTFNTRLRL 102 (296)
T ss_pred CCceEEEEEECCCCchHHHHHHHHHHHHHHHhhCCCCCEEEEEEeCCceeE
Confidence 47889999999998765 67788888888876 788999999999987754
No 28
>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=98.07 E-value=0.0001 Score=73.48 Aligned_cols=158 Identities=16% Similarity=0.151 Sum_probs=99.8
Q ss_pred EEEEEEecCcchh--HHHHHHHHHHHHhhcC---------CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChH
Q 004188 149 AFVFVVDGCMEES--EIRAVKHELLRVMEQL---------PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSE 217 (770)
Q Consensus 149 ~~vFvID~s~~~~--~l~~~~~~i~~~l~~l---------p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~ 217 (770)
-.+|+||.|.+.. .++.+++.++..++.+ +++.+||+|+|++..++.-
T Consensus 4 dvv~vlD~S~Sm~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs~~~~~~~--------------------- 62 (186)
T cd01480 4 DITFVLDSSESVGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYSDQQEVEA--------------------- 62 (186)
T ss_pred eEEEEEeCCCccchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEecCCceeeE---------------------
Confidence 4689999999876 3777777777777766 4468999999997654320
Q ss_pred hhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhc-ccCCC
Q 004188 218 QIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEG-CSVNT 296 (770)
Q Consensus 218 ~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~-~~~~~ 296 (770)
.+.. . ...+..+.+.|+.++.. ...+.+|.||..|...+.. .....
T Consensus 63 ------~l~~----------------~----~~~~~~l~~~i~~l~~~-------gg~T~~~~AL~~a~~~l~~~~~~~~ 109 (186)
T cd01480 63 ------GFLR----------------D----IRNYTSLKEAVDNLEYI-------GGGTFTDCALKYATEQLLEGSHQKE 109 (186)
T ss_pred ------eccc----------------c----cCCHHHHHHHHHhCccC-------CCCccHHHHHHHHHHHHhccCCCCC
Confidence 0000 0 01234556666666432 2347999999999998863 12233
Q ss_pred CcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccc
Q 004188 297 GSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKV 376 (770)
Q Consensus 297 gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~ 376 (770)
...|++++.|.++.++. .-..+.+..+.+.||.|-.+..+. .+...|..
T Consensus 110 ~~~iillTDG~~~~~~~-----------------------------~~~~~~~~~~~~~gi~i~~vgig~--~~~~~L~~ 158 (186)
T cd01480 110 NKFLLVITDGHSDGSPD-----------------------------GGIEKAVNEADHLGIKIFFVAVGS--QNEEPLSR 158 (186)
T ss_pred ceEEEEEeCCCcCCCcc-----------------------------hhHHHHHHHHHHCCCEEEEEecCc--cchHHHHH
Confidence 45677888775432110 011344566778888765555543 78888999
Q ss_pred cccCcceeEEEeCCCC
Q 004188 377 PVEKSGGFIMIGETFE 392 (770)
Q Consensus 377 l~~~TGG~v~~~~~f~ 392 (770)
++...+|. |+.++|.
T Consensus 159 IA~~~~~~-~~~~~~~ 173 (186)
T cd01480 159 IACDGKSA-LYRENFA 173 (186)
T ss_pred HHcCCcch-hhhcchh
Confidence 99888776 5555553
No 29
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.05 E-value=7.6e-05 Score=72.52 Aligned_cols=162 Identities=19% Similarity=0.249 Sum_probs=103.5
Q ss_pred EEEEEecCcchhH-------HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhh
Q 004188 150 FVFVVDGCMEESE-------IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 150 ~vFvID~s~~~~~-------l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
++||||.|.++.. ++.+++++...++.+|.+ +|||++|++..+..
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~~~~-~v~l~~f~~~~~~~--------------------------- 53 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANLPGD-RVGLVSFSDSSRTL--------------------------- 53 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHHTTS-EEEEEEESTSCEEE---------------------------
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHCCCC-EEEEEEeccccccc---------------------------
Confidence 5899999999753 688889998888888844 99999999753211
Q ss_pred hcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEE
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMV 302 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~ 302 (770)
.++...+..+.+.++.+..... .....+++.|+..|..++.... .....|++
T Consensus 54 -----------------------~~~t~~~~~~~~~l~~~~~~~~----~~~~t~~~~al~~a~~~~~~~~-~~~~~iv~ 105 (172)
T PF13519_consen 54 -----------------------SPLTSDKDELKNALNKLSPQGM----PGGGTNLYDALQEAAKMLASSD-NRRRAIVL 105 (172)
T ss_dssp -----------------------EEEESSHHHHHHHHHTHHHHG------SSS--HHHHHHHHHHHHHC-S-SEEEEEEE
T ss_pred -----------------------ccccccHHHHHHHhhccccccc----CccCCcHHHHHHHHHHHHHhCC-CCceEEEE
Confidence 0111223455566666664321 1344789999999999998421 23456777
Q ss_pred EecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcc
Q 004188 303 FTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSG 382 (770)
Q Consensus 303 F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TG 382 (770)
|++|.++ . . ..+.+..+.+.+|.|.++.++.+...-..|..+++.||
T Consensus 106 iTDG~~~--------~-----------------------~--~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tg 152 (172)
T PF13519_consen 106 ITDGEDN--------S-----------------------S--DIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATG 152 (172)
T ss_dssp EES-TTH--------C-----------------------H--HHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTE
T ss_pred ecCCCCC--------c-----------------------c--hhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcC
Confidence 7776332 0 0 01266677899999999998887765578999999999
Q ss_pred eeEEEeCCCChhHHHHHHH
Q 004188 383 GFIMIGETFESDQFRKCMR 401 (770)
Q Consensus 383 G~v~~~~~f~~~~~~~~l~ 401 (770)
|..+.... +.+.+.+.|+
T Consensus 153 G~~~~~~~-~~~~l~~~~~ 170 (172)
T PF13519_consen 153 GRYFHVDN-DPEDLDDAFQ 170 (172)
T ss_dssp EEEEEE-S-SSHHHHHHHH
T ss_pred CEEEEecC-CHHHHHHHHh
Confidence 99877732 2344444443
No 30
>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=98.02 E-value=0.00012 Score=72.56 Aligned_cols=140 Identities=16% Similarity=0.175 Sum_probs=91.1
Q ss_pred EEEEEEecCcchh-------HHHHHHHHHHHHh----hcCCCCcEEEEEEECC-EEEEEEcCCCCceeeeeecCCccCCh
Q 004188 149 AFVFVVDGCMEES-------EIRAVKHELLRVM----EQLPENALVGLVVFDS-MVYVHDLGFSECCRVLVFHGGRELSS 216 (770)
Q Consensus 149 ~~vFvID~s~~~~-------~l~~~~~~i~~~l----~~lp~~~~VglITf~~-~V~~y~l~~~~~~~~~v~~g~~~~~~ 216 (770)
+.+++||+|..+. +++..++.+...+ +..|+ .+||||+|.+ .-++.
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~-~~vGlv~fag~~a~v~--------------------- 62 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPE-NNVGLMTMAGNSPEVL--------------------- 62 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCC-ccEEEEEecCCceEEE---------------------
Confidence 5789999999875 3788888777654 55564 4999999986 33211
Q ss_pred HhhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCC-
Q 004188 217 EQIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVN- 295 (770)
Q Consensus 217 ~~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~- 295 (770)
+|+......+...|+.+.. .....+|.||+.|...|+.....
T Consensus 63 -----------------------------~plT~D~~~~~~~L~~i~~--------~g~~~l~~AL~~A~~~L~~~~~~~ 105 (187)
T cd01452 63 -----------------------------VTLTNDQGKILSKLHDVQP--------KGKANFITGIQIAQLALKHRQNKN 105 (187)
T ss_pred -----------------------------ECCCCCHHHHHHHHHhCCC--------CCcchHHHHHHHHHHHHhcCCCcC
Confidence 1222223455566665542 13457999999999999742222
Q ss_pred CCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccc
Q 004188 296 TGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELK 375 (770)
Q Consensus 296 ~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~ 375 (770)
...||++|.+++.+.=| .+ ..++++++.++||.||+..++...-+..-+.
T Consensus 106 ~~~rivi~v~S~~~~d~-----------------------------~~-i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~ 155 (187)
T cd01452 106 QKQRIVAFVGSPIEEDE-----------------------------KD-LVKLAKRLKKNNVSVDIINFGEIDDNTEKLT 155 (187)
T ss_pred CcceEEEEEecCCcCCH-----------------------------HH-HHHHHHHHHHcCCeEEEEEeCCCCCCHHHHH
Confidence 33599999987532111 12 2368899999999999999876544433333
Q ss_pred cc
Q 004188 376 VP 377 (770)
Q Consensus 376 ~l 377 (770)
.+
T Consensus 156 ~~ 157 (187)
T cd01452 156 AF 157 (187)
T ss_pred HH
Confidence 33
No 31
>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=98.01 E-value=0.00023 Score=69.55 Aligned_cols=159 Identities=23% Similarity=0.243 Sum_probs=102.5
Q ss_pred CcEEEEEEecCcchhH--HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 147 GPAFVFVVDGCMEESE--IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~--l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
|.-++||+|+|.++.. ++.+++++...+..++++.+|++++|++.++.+ ... .
T Consensus 2 ~~~v~~vlD~S~SM~~~~~~~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~--~~~-----------------------~ 56 (171)
T cd01461 2 PKEVVFVIDTSGSMSGTKIEQTKEALLTALKDLPPGDYFNIIGFSDTVEEF--SPS-----------------------S 56 (171)
T ss_pred CceEEEEEECCCCCCChhHHHHHHHHHHHHHhCCCCCEEEEEEeCCCceee--cCc-----------------------c
Confidence 4568999999999853 788899999999999988899999999876433 000 0
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEe
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFT 304 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~ 304 (770)
.+.. ...+..+++.|..... ...+.++.||..|...+.. .......|++|+
T Consensus 57 ---------------------~~~~--~~~~~~~~~~l~~~~~-----~g~T~l~~al~~a~~~l~~-~~~~~~~iillT 107 (171)
T cd01461 57 ---------------------VSAT--AENVAAAIEYVNRLQA-----LGGTNMNDALEAALELLNS-SPGSVPQIILLT 107 (171)
T ss_pred ---------------------eeCC--HHHHHHHHHHHHhcCC-----CCCcCHHHHHHHHHHhhcc-CCCCccEEEEEe
Confidence 0000 1222334444443321 2346799999999988862 123456788888
Q ss_pred cCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCccee
Q 004188 305 SGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGF 384 (770)
Q Consensus 305 sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~ 384 (770)
.|.++. ..+.+ +...++.+.++.|..+.++. ..+-..|..++..|||.
T Consensus 108 DG~~~~------------------------------~~~~~-~~~~~~~~~~i~i~~i~~g~-~~~~~~l~~ia~~~gG~ 155 (171)
T cd01461 108 DGEVTN------------------------------ESQIL-KNVREALSGRIRLFTFGIGS-DVNTYLLERLAREGRGI 155 (171)
T ss_pred CCCCCC------------------------------HHHHH-HHHHHhcCCCceEEEEEeCC-ccCHHHHHHHHHcCCCe
Confidence 874210 01222 33344455578777766653 35667899999999999
Q ss_pred EEEeCCC
Q 004188 385 IMIGETF 391 (770)
Q Consensus 385 v~~~~~f 391 (770)
.++..+-
T Consensus 156 ~~~~~~~ 162 (171)
T cd01461 156 ARRIYET 162 (171)
T ss_pred EEEecCh
Confidence 8877653
No 32
>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=98.00 E-value=0.0055 Score=72.48 Aligned_cols=186 Identities=18% Similarity=0.176 Sum_probs=111.4
Q ss_pred CCCcEEEEEEecCcchh--HHHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhh
Q 004188 145 VLGPAFVFVVDGCMEES--EIRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~--~l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
+.|.-++||||+|.++. .++.+++++..+|..|+++.+++||+|++.++.+.- ..
T Consensus 269 ~~p~~vvfvlD~SgSM~g~~i~~ak~al~~~l~~L~~~d~~~ii~F~~~~~~~~~-----------------------~~ 325 (596)
T TIGR03788 269 VLPRELVFVIDTSGSMAGESIEQAKSALLLALDQLRPGDRFNIIQFDSDVTLLFP-----------------------VP 325 (596)
T ss_pred CCCceEEEEEECCCCCCCccHHHHHHHHHHHHHhCCCCCEEEEEEECCcceEecc-----------------------cc
Confidence 55667999999999975 378899999999999999999999999998865410 00
Q ss_pred hcccccccccCCCCCCCCCCcceEec-hhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEE
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPV-SECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIM 301 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~-~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~ 301 (770)
. +. .+....+...++.|... ..+.+..||..|..............|+
T Consensus 326 ~-----------------------~~~~~~~~~a~~~i~~l~a~--------GgT~l~~aL~~a~~~~~~~~~~~~~~ii 374 (596)
T TIGR03788 326 V-----------------------PATAHNLARARQFVAGLQAD--------GGTEMAGALSAALRDDGPESSGALRQVV 374 (596)
T ss_pred c-----------------------cCCHHHHHHHHHHHhhCCCC--------CCccHHHHHHHHHHhhcccCCCceeEEE
Confidence 0 00 01112233344444321 4468999999998764321112234699
Q ss_pred EEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCc
Q 004188 302 VFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKS 381 (770)
Q Consensus 302 ~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~T 381 (770)
++++|.. | + .....+.+. ....++.+..|.++.+ .+-..|..||+.+
T Consensus 375 llTDG~~----~---------------~-----------~~~~~~~~~--~~~~~~ri~tvGiG~~-~n~~lL~~lA~~g 421 (596)
T TIGR03788 375 FLTDGAV----G---------------N-----------EDALFQLIR--TKLGDSRLFTVGIGSA-PNSYFMRKAAQFG 421 (596)
T ss_pred EEeCCCC----C---------------C-----------HHHHHHHHH--HhcCCceEEEEEeCCC-cCHHHHHHHHHcC
Confidence 9998842 1 0 011222221 1234566666666543 5678899999999
Q ss_pred ceeEEEeCCCChhHHHHHHHHHhccCcccccceeeeEEEEE
Q 004188 382 GGFIMIGETFESDQFRKCMRHIFGHDEEGNLKMYFDATIEV 422 (770)
Q Consensus 382 GG~v~~~~~f~~~~~~~~l~~~l~~~~~~~l~~~~~a~l~v 422 (770)
||..++..+ .+.....+.+.+.+-.. ...-+..+++
T Consensus 422 ~G~~~~i~~--~~~~~~~~~~~l~~~~~---p~l~~v~v~~ 457 (596)
T TIGR03788 422 RGSFTFIGS--TDEVQRKMSQLFAKLEQ---PALTDIALTF 457 (596)
T ss_pred CCEEEECCC--HHHHHHHHHHHHHhhcC---eEEEEEEEEE
Confidence 997666543 33444444444433111 1445555555
No 33
>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=97.97 E-value=0.00037 Score=69.42 Aligned_cols=155 Identities=12% Similarity=0.132 Sum_probs=90.4
Q ss_pred cEEEEEEecCcchhH-HHHHHHHHHHHhhcC-CCCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 148 PAFVFVVDGCMEESE-IRAVKHELLRVMEQL-PENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 148 p~~vFvID~s~~~~~-l~~~~~~i~~~l~~l-p~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
.-.+|+||.|.+... .....+.++..++.+ .++.|||+|+|++..+.. .+.
T Consensus 5 ~Dvv~llD~SgSm~~~~~~~~~~~~~l~~~~~~~~~rvglv~Fs~~~~~~~~l~-------------------------- 58 (185)
T cd01474 5 FDLYFVLDKSGSVAANWIEIYDFVEQLVDRFNSPGLRFSFITFSTRATKILPLT-------------------------- 58 (185)
T ss_pred eeEEEEEeCcCchhhhHHHHHHHHHHHHHHcCCCCcEEEEEEecCCceEEEecc--------------------------
Confidence 457899999998764 323334455555443 356999999999765432 110
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCC-----cE
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTG-----SR 299 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~g-----Gk 299 (770)
.....+...++.|.... ..+.+.+|.||..|...+... ..| ..
T Consensus 59 -------------------------~~~~~~~~~l~~l~~~~-----~~g~T~~~~aL~~a~~~l~~~--~~~~r~~~~~ 106 (185)
T cd01474 59 -------------------------DDSSAIIKGLEVLKKVT-----PSGQTYIHEGLENANEQIFNR--NGGGRETVSV 106 (185)
T ss_pred -------------------------ccHHHHHHHHHHHhccC-----CCCCCcHHHHHHHHHHHHHhh--ccCCCCCCeE
Confidence 00012334444454432 125689999999999876310 122 34
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
|++++.|.++...+.- + ...+..+.+.|+.|-.+.. ...+..+|..+|.
T Consensus 107 villTDG~~~~~~~~~------------------------~-----~~~a~~l~~~gv~i~~vgv--~~~~~~~L~~iA~ 155 (185)
T cd01474 107 IIALTDGQLLLNGHKY------------------------P-----EHEAKLSRKLGAIVYCVGV--TDFLKSQLINIAD 155 (185)
T ss_pred EEEEcCCCcCCCCCcc------------------------h-----HHHHHHHHHcCCEEEEEee--chhhHHHHHHHhC
Confidence 8888888653111000 0 1224456677886555544 6678889999998
Q ss_pred CcceeEE-EeCCCC
Q 004188 380 KSGGFIM-IGETFE 392 (770)
Q Consensus 380 ~TGG~v~-~~~~f~ 392 (770)
.++ .+| ...+|+
T Consensus 156 ~~~-~~f~~~~~~~ 168 (185)
T cd01474 156 SKE-YVFPVTSGFQ 168 (185)
T ss_pred CCC-eeEecCccHH
Confidence 875 455 344554
No 34
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=97.93 E-value=0.00016 Score=69.60 Aligned_cols=151 Identities=24% Similarity=0.256 Sum_probs=99.9
Q ss_pred EEEEEecCcchhH-HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhccccc
Q 004188 150 FVFVVDGCMEESE-IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIRCA 228 (770)
Q Consensus 150 ~vFvID~s~~~~~-l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~d~ 228 (770)
.|||||+|.++.. .+.++++|...++.|+++.++.||+|++.+..+. + .+
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~L~~~d~fnii~f~~~~~~~~--~---------------------~~------ 53 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRSLPPGDRFNIIAFGSSVRPLF--P---------------------GL------ 53 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHhCCCCCEEEEEEeCCEeeEcc--h---------------------hH------
Confidence 5899999998754 4889999999999999999999999999776542 0 10
Q ss_pred ccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCC
Q 004188 229 KQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPA 308 (770)
Q Consensus 229 ~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~p 308 (770)
++.++ +.+..+++.|.... .....+.++.||+.|...+. .....-.|+++++|.|
T Consensus 54 -----------------~~~~~--~~~~~a~~~I~~~~----~~~G~t~l~~aL~~a~~~~~--~~~~~~~IilltDG~~ 108 (155)
T PF13768_consen 54 -----------------VPATE--ENRQEALQWIKSLE----ANSGGTDLLAALRAALALLQ--RPGCVRAIILLTDGQP 108 (155)
T ss_pred -----------------HHHhH--HHHHHHHHHHHHhc----ccCCCccHHHHHHHHHHhcc--cCCCccEEEEEEeccC
Confidence 01111 23344445554432 12456789999999998762 1255678999998866
Q ss_pred CCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEE
Q 004188 309 TMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIM 386 (770)
Q Consensus 309 t~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~ 386 (770)
+.++ ....+.+. .+ ...+.+..|.++. ..+-..|..||+.|||..+
T Consensus 109 ~~~~-----------------------------~~i~~~v~-~~-~~~~~i~~~~~g~-~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 109 VSGE-----------------------------EEILDLVR-RA-RGHIRIFTFGIGS-DADADFLRELARATGGSFH 154 (155)
T ss_pred CCCH-----------------------------HHHHHHHH-hc-CCCceEEEEEECC-hhHHHHHHHHHHcCCCEEE
Confidence 3322 11111111 11 1446677776655 3556889999999999743
No 35
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=97.89 E-value=0.00029 Score=72.50 Aligned_cols=155 Identities=21% Similarity=0.276 Sum_probs=98.0
Q ss_pred cEEEEEEecCcchh--HHHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhh
Q 004188 148 PAFVFVVDGCMEES--EIRAVKHELLRVMEQL---PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 148 p~~vFvID~s~~~~--~l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
.-.+|+||.|.+.. .++.+++.++..++.+ |+..|||+|+|++.+++.-
T Consensus 3 ~DlvfllD~S~Sm~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs~~~~~~~-------------------------- 56 (224)
T cd01475 3 TDLVFLIDSSRSVRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYSSTVKQEF-------------------------- 56 (224)
T ss_pred ccEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEecCceeEEe--------------------------
Confidence 34789999999865 4888999998888876 4578999999998875420
Q ss_pred hcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHh-hccc---CCC--
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLL-EGCS---VNT-- 296 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll-~~~~---~~~-- 296 (770)
.+.+ ...+..+.+.|+.++... ..+.+|.||..|...+ .... +..
T Consensus 57 -~l~~---------------------~~~~~~l~~~i~~i~~~~-------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~ 107 (224)
T cd01475 57 -PLGR---------------------FKSKADLKRAVRRMEYLE-------TGTMTGLAIQYAMNNAFSEAEGARPGSER 107 (224)
T ss_pred -cccc---------------------cCCHHHHHHHHHhCcCCC-------CCChHHHHHHHHHHHhCChhcCCCCCCCC
Confidence 0000 001234455556554332 2457899999888643 2100 011
Q ss_pred -CcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccc
Q 004188 297 -GSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELK 375 (770)
Q Consensus 297 -gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~ 375 (770)
...|+++++|.++. + ..+.+.++.+.||.| |+.+-...+..+|.
T Consensus 108 ~~kvvillTDG~s~~------------------~---------------~~~~a~~lk~~gv~i--~~VgvG~~~~~~L~ 152 (224)
T cd01475 108 VPRVGIVVTDGRPQD------------------D---------------VSEVAAKARALGIEM--FAVGVGRADEEELR 152 (224)
T ss_pred CCeEEEEEcCCCCcc------------------c---------------HHHHHHHHHHCCcEE--EEEeCCcCCHHHHH
Confidence 22357888774310 0 234567777888754 55554557888999
Q ss_pred ccccCcc-eeEEEeCCCC
Q 004188 376 VPVEKSG-GFIMIGETFE 392 (770)
Q Consensus 376 ~l~~~TG-G~v~~~~~f~ 392 (770)
.++..++ +.++..++|+
T Consensus 153 ~ias~~~~~~~f~~~~~~ 170 (224)
T cd01475 153 EIASEPLADHVFYVEDFS 170 (224)
T ss_pred HHhCCCcHhcEEEeCCHH
Confidence 9998765 4677777775
No 36
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.85 E-value=0.00057 Score=66.62 Aligned_cols=150 Identities=20% Similarity=0.263 Sum_probs=90.5
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQL---PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
.+|++|.|.+... ++.+++.++..++.+ +++.+||+|+|++..+..- .
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~~~~~~~---------------------------~ 55 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSDDPRTEF---------------------------D 55 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHhheeeCCCceEEEEEEECCCeeEEE---------------------------e
Confidence 6899999998753 788888888777765 4679999999998764320 0
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHH-hhcc---cCCCCcEE
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGL-LEGC---SVNTGSRI 300 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~l-l~~~---~~~~gGkI 300 (770)
+.+ + .....+.+.|++++.. ...+.+|.||..|... +... .+.....|
T Consensus 56 l~~----------------~-----~~~~~l~~~l~~~~~~-------~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~i 107 (164)
T cd01482 56 LNA----------------Y-----TSKEDVLAAIKNLPYK-------GGNTRTGKALTHVREKNFTPDAGARPGVPKVV 107 (164)
T ss_pred cCC----------------C-----CCHHHHHHHHHhCcCC-------CCCChHHHHHHHHHHHhcccccCCCCCCCEEE
Confidence 000 0 0122334444444321 2346799999977754 4310 11223358
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEK 380 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~ 380 (770)
++|+.|.++. | .++.+.++.+.||. +|+++.+..+..+|..++..
T Consensus 108 illTDG~~~~------------------~---------------~~~~a~~lk~~gi~--i~~ig~g~~~~~~L~~ia~~ 152 (164)
T cd01482 108 ILITDGKSQD------------------D---------------VELPARVLRNLGVN--VFAVGVKDADESELKMIASK 152 (164)
T ss_pred EEEcCCCCCc------------------h---------------HHHHHHHHHHCCCE--EEEEecCcCCHHHHHHHhCC
Confidence 8888875321 0 13456777778875 55555444567788888887
Q ss_pred cce-eEEEeC
Q 004188 381 SGG-FIMIGE 389 (770)
Q Consensus 381 TGG-~v~~~~ 389 (770)
+.+ .++...
T Consensus 153 ~~~~~~~~~~ 162 (164)
T cd01482 153 PSETHVFNVA 162 (164)
T ss_pred CchheEEEcC
Confidence 654 344433
No 37
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=97.79 E-value=0.00078 Score=66.62 Aligned_cols=156 Identities=21% Similarity=0.208 Sum_probs=97.5
Q ss_pred EEEEEecCcchh--HHHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 150 FVFVVDGCMEES--EIRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 150 ~vFvID~s~~~~--~l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
.+|+||.|.+.. +++.+++.++..++.+. +++|||+|+|++..++. ++.
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~~~~~~~~l~------------------------- 57 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSESFRTEFTLN------------------------- 57 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECCceeEEEecC-------------------------
Confidence 589999999865 48888888888888774 47899999999886543 111
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhh-c---ccCCCCcE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLE-G---CSVNTGSR 299 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~-~---~~~~~gGk 299 (770)
+.. +...+.++++.++.. . ..+.+|.||..|...+- . ..+.....
T Consensus 58 ---~~~---------------------~~~~~~~~i~~~~~~----~---g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv 106 (177)
T cd01469 58 ---EYR---------------------TKEEPLSLVKHISQL----L---GLTNTATAIQYVVTELFSESNGARKDATKV 106 (177)
T ss_pred ---ccC---------------------CHHHHHHHHHhCccC----C---CCccHHHHHHHHHHHhcCcccCCCCCCCeE
Confidence 000 012233444444332 1 23889999999988762 1 01122335
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCc---cCcccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQ---VGVAELKV 376 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~---~~l~~~~~ 376 (770)
+++++.|..+.|+- .++.+..+...||.|-.+..+.+. .+..+|..
T Consensus 107 ~illTDG~~~~~~~-------------------------------~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ 155 (177)
T cd01469 107 LVVITDGESHDDPL-------------------------------LKDVIPQAEREGIIRYAIGVGGHFQRENSREELKT 155 (177)
T ss_pred EEEEeCCCCCCccc-------------------------------cHHHHHHHHHCCcEEEEEEecccccccccHHHHHH
Confidence 78888875543220 023455666788876666665432 24678888
Q ss_pred cccCcce-eEEEeCCCC
Q 004188 377 PVEKSGG-FIMIGETFE 392 (770)
Q Consensus 377 l~~~TGG-~v~~~~~f~ 392 (770)
++..+++ .+|..++|+
T Consensus 156 ias~p~~~h~f~~~~~~ 172 (177)
T cd01469 156 IASKPPEEHFFNVTDFA 172 (177)
T ss_pred HhcCCcHHhEEEecCHH
Confidence 8888864 666667763
No 38
>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=97.78 E-value=0.00079 Score=67.00 Aligned_cols=148 Identities=17% Similarity=0.127 Sum_probs=91.6
Q ss_pred EEEEEecCcchh--H-HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhh
Q 004188 150 FVFVVDGCMEES--E-IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 150 ~vFvID~s~~~~--~-l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
++|+||.|.++. . ++.+++.+...++.++ ++.+||+|+|++..+.. .+...
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs~~~~~~~~l~~~---------------------- 60 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQNLNISPDEINLYLVTFSTNAKELIRLSSP---------------------- 60 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHHhcccCCCceEEEEEEecCCceEEEECCCc----------------------
Confidence 689999999865 3 6788888888888774 67899999999876532 22110
Q ss_pred hcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc---cCCCCcE
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC---SVNTGSR 299 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~---~~~~gGk 299 (770)
....+..+.++++.|..... ....+.++.||..|...+... .......
T Consensus 61 -------------------------~~~~~~~~~~~i~~l~~~~~----~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~ 111 (186)
T cd01471 61 -------------------------NSTNKDLALNAIRALLSLYY----PNGSTNTTSALLVVEKHLFDTRGNRENAPQL 111 (186)
T ss_pred -------------------------cccchHHHHHHHHHHHhCcC----CCCCccHHHHHHHHHHHhhccCCCcccCceE
Confidence 00012223345555544321 234578999999999988631 1122346
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
|+++++|.++.++. . .+.++++.+.|+.|-++.++ ...+...|..|+.
T Consensus 112 villTDG~~~~~~~---------------------------~----~~~a~~l~~~gv~v~~igiG-~~~d~~~l~~ia~ 159 (186)
T cd01471 112 VIIMTDGIPDSKFR---------------------------T----LKEARKLRERGVIIAVLGVG-QGVNHEENRSLVG 159 (186)
T ss_pred EEEEccCCCCCCcc---------------------------h----hHHHHHHHHCCCEEEEEEee-hhhCHHHHHHhcC
Confidence 88888887643210 0 12355666778876666554 3466667777665
Q ss_pred C
Q 004188 380 K 380 (770)
Q Consensus 380 ~ 380 (770)
.
T Consensus 160 ~ 160 (186)
T cd01471 160 C 160 (186)
T ss_pred C
Confidence 4
No 39
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=97.67 E-value=0.0014 Score=64.10 Aligned_cols=149 Identities=21% Similarity=0.312 Sum_probs=92.5
Q ss_pred EEEEEecCcchh--HHHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 150 FVFVVDGCMEES--EIRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 150 ~vFvID~s~~~~--~l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
.+|+||.|.+-. +++.+++-++..++.++ +.+|||+|+|++..+.. + .
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~~~~~~-~--------------------------~ 55 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSDTPRPE-F--------------------------Y 55 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecCCeeEE-E--------------------------e
Confidence 589999999854 58889998888888774 57999999999766432 1 0
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHH-hhcccCCCCc-----
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGL-LEGCSVNTGS----- 298 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~l-l~~~~~~~gG----- 298 (770)
+.+ . ..+..+.+.++.++-.. ...+-+|.||..+... +.. ..|+
T Consensus 56 l~~---~------------------~~~~~l~~~i~~i~~~~------g~~t~t~~AL~~~~~~~f~~---~~g~R~~~~ 105 (165)
T cd01481 56 LNT---H------------------STKADVLGAVRRLRLRG------GSQLNTGSALDYVVKNLFTK---SAGSRIEEG 105 (165)
T ss_pred ccc---c------------------CCHHHHHHHHHhcccCC------CCcccHHHHHHHHHHhhcCc---cccCCccCC
Confidence 000 0 01233444555543221 1235699999987654 431 2222
Q ss_pred --E-EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccc
Q 004188 299 --R-IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELK 375 (770)
Q Consensus 299 --k-I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~ 375 (770)
| ++++++|..+ | -..+-|+.+.+.|| .+|..+....+..+|.
T Consensus 106 ~~kv~vviTdG~s~-------------------d--------------~~~~~a~~lr~~gv--~i~~vG~~~~~~~eL~ 150 (165)
T cd01481 106 VPQFLVLITGGKSQ-------------------D--------------DVERPAVALKRAGI--VPFAIGARNADLAELQ 150 (165)
T ss_pred CCeEEEEEeCCCCc-------------------c--------------hHHHHHHHHHHCCc--EEEEEeCCcCCHHHHH
Confidence 2 5677776321 0 02345667777785 5677776667888888
Q ss_pred ccccCcceeEEEeCCC
Q 004188 376 VPVEKSGGFIMIGETF 391 (770)
Q Consensus 376 ~l~~~TGG~v~~~~~f 391 (770)
.++... -.++..++|
T Consensus 151 ~ias~p-~~vf~v~~f 165 (165)
T cd01481 151 QIAFDP-SFVFQVSDF 165 (165)
T ss_pred HHhCCC-ccEEEecCC
Confidence 888766 366665554
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=97.66 E-value=0.0013 Score=63.23 Aligned_cols=146 Identities=24% Similarity=0.269 Sum_probs=96.4
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCC---CCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLP---ENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp---~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
++|++|+|.++.. ++.+++.+...+..+. ++.++|+++|++..... ++..
T Consensus 3 i~~llD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~~~~~~~~~~~------------------------ 58 (161)
T cd01450 3 IVFLLDGSESVGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSDDVRVEFSLND------------------------ 58 (161)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEcCCceEEEECCC------------------------
Confidence 4799999998764 6778888877777664 48899999999854321 1100
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc---CCCCcEE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS---VNTGSRI 300 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~---~~~gGkI 300 (770)
. . .+..+.+.++.+.... + +.+.++.||..|...+.... ......|
T Consensus 59 -------------------~---~---~~~~~~~~i~~~~~~~----~--~~t~~~~al~~a~~~~~~~~~~~~~~~~~i 107 (161)
T cd01450 59 -------------------Y---K---SKDDLLKAVKNLKYLG----G--GGTNTGKALQYALEQLFSESNARENVPKVI 107 (161)
T ss_pred -------------------C---C---CHHHHHHHHHhcccCC----C--CCccHHHHHHHHHHHhcccccccCCCCeEE
Confidence 0 0 1233444555443221 1 36789999999999887321 2344579
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEK 380 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~ 380 (770)
++|++|.++.++ -..++.+.+.+.++.|..+..+. .+...|..|+..
T Consensus 108 iliTDG~~~~~~-------------------------------~~~~~~~~~~~~~v~v~~i~~g~--~~~~~l~~la~~ 154 (161)
T cd01450 108 IVLTDGRSDDGG-------------------------------DPKEAAAKLKDEGIKVFVVGVGP--ADEEELREIASC 154 (161)
T ss_pred EEECCCCCCCCc-------------------------------chHHHHHHHHHCCCEEEEEeccc--cCHHHHHHHhCC
Confidence 999999776543 01344556667788888877665 678888899988
Q ss_pred cce
Q 004188 381 SGG 383 (770)
Q Consensus 381 TGG 383 (770)
||+
T Consensus 155 ~~~ 157 (161)
T cd01450 155 PSE 157 (161)
T ss_pred CCC
Confidence 833
No 41
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=97.56 E-value=0.0015 Score=76.75 Aligned_cols=175 Identities=13% Similarity=0.104 Sum_probs=114.7
Q ss_pred CcEEEEEEecCcchhH--HHHHHHHHHHHhhc-CCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 147 GPAFVFVVDGCMEESE--IRAVKHELLRVMEQ-LPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~--l~~~~~~i~~~l~~-lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
.-.++||||.|.++.. ++.++.++...+.. +.++-+||+|+|++...-+-+.
T Consensus 407 ~~~v~fvvD~SGSM~~~rl~~aK~av~~Ll~~~~~~~D~v~Li~F~~~~a~~~lp------------------------- 461 (589)
T TIGR02031 407 GRLLIFVVDASGSAAVARMSEAKGAVELLLGEAYVHRDQVSLIAFRGTAAEVLLP------------------------- 461 (589)
T ss_pred CceEEEEEECCCCCChHHHHHHHHHHHHHHHhhccCCCEEEEEEECCCCceEECC-------------------------
Confidence 4568899999998753 88889988888775 4556699999998543111010
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCC--cEEE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTG--SRIM 301 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~g--GkI~ 301 (770)
.......+...|+.|+. ...+.++.||..|...+..... .+ -.|+
T Consensus 462 ------------------------~t~~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~~~~~~~-~~~~~~iv 508 (589)
T TIGR02031 462 ------------------------PSRSVEQAKRRLDVLPG--------GGGTPLAAGLAAAFQTALQARS-SGGTPTIV 508 (589)
T ss_pred ------------------------CCCCHHHHHHHHhcCCC--------CCCCcHHHHHHHHHHHHHHhcc-cCCceEEE
Confidence 00012223344554442 2347899999999998863221 23 3699
Q ss_pred EEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCc
Q 004188 302 VFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKS 381 (770)
Q Consensus 302 ~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~T 381 (770)
++++|-+|.|-+.....+ + .-..+..+-...++..+.+.||.+-++-+...+.+...+..||+..
T Consensus 509 llTDG~~nv~~~~~~~~~------------~---~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~ 573 (589)
T TIGR02031 509 LITDGRGNIPLDGDPESI------------K---ADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKM 573 (589)
T ss_pred EECCCCCCCCCCcccccc------------c---ccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhc
Confidence 999999998753111000 0 0011233444667888899998877777776777666788999999
Q ss_pred ceeEEEeCCCChh
Q 004188 382 GGFIMIGETFESD 394 (770)
Q Consensus 382 GG~v~~~~~f~~~ 394 (770)
||..|+.++-+.+
T Consensus 574 ~g~y~~l~~~~a~ 586 (589)
T TIGR02031 574 GAHYIYLPNATAA 586 (589)
T ss_pred CCcEEeCCCCChh
Confidence 9999998887654
No 42
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.52 E-value=0.003 Score=73.57 Aligned_cols=176 Identities=13% Similarity=0.140 Sum_probs=114.2
Q ss_pred CCcEEEEEEecCcchh--HHHHHHHHHHHHhhc-CCCCcEEEEEEECCE-EEEEEcCCCCceeeeeecCCccCChHhhhh
Q 004188 146 LGPAFVFVVDGCMEES--EIRAVKHELLRVMEQ-LPENALVGLVVFDSM-VYVHDLGFSECCRVLVFHGGRELSSEQIQH 221 (770)
Q Consensus 146 ~~p~~vFvID~s~~~~--~l~~~~~~i~~~l~~-lp~~~~VglITf~~~-V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~ 221 (770)
.+-.++||||+|.++. .+..+|.++...|.. +.++-+||+|+|++. ..+- +
T Consensus 400 ~~~~vvfvvD~SGSM~~~rl~~aK~a~~~ll~~ay~~rD~v~lI~F~g~~a~~~-l------------------------ 454 (584)
T PRK13406 400 SETTTIFVVDASGSAALHRLAEAKGAVELLLAEAYVRRDQVALVAFRGRGAELL-L------------------------ 454 (584)
T ss_pred CCccEEEEEECCCCCcHhHHHHHHHHHHHHHHhhcCCCCEEEEEEECCCceeEE-c------------------------
Confidence 3467999999999984 488889988888854 566779999999754 3210 0
Q ss_pred hhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc-CCCCcEE
Q 004188 222 LMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS-VNTGSRI 300 (770)
Q Consensus 222 ~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~-~~~gGkI 300 (770)
|...+...+...|+.|+. ...+.++.||..|..++.... +..--.|
T Consensus 455 -------------------------ppT~~~~~~~~~L~~l~~--------gGgTpL~~gL~~A~~~l~~~~~~~~~~~i 501 (584)
T PRK13406 455 -------------------------PPTRSLVRAKRSLAGLPG--------GGGTPLAAGLDAAAALALQVRRKGMTPTV 501 (584)
T ss_pred -------------------------CCCcCHHHHHHHHhcCCC--------CCCChHHHHHHHHHHHHHHhccCCCceEE
Confidence 001112223344444432 145789999999998876322 1223689
Q ss_pred EEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccC
Q 004188 301 MVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEK 380 (770)
Q Consensus 301 ~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~ 380 (770)
+++|.|-+|.|.+.-..+. .....+ ..++..+.+.||.+=++-+.... ...+..||+.
T Consensus 502 VLlTDG~~n~~~~~~~~~~----------------~~~~~~----~~~a~~~~~~gi~~~vId~g~~~--~~~~~~LA~~ 559 (584)
T PRK13406 502 VLLTDGRANIARDGTAGRA----------------QAEEDA----LAAARALRAAGLPALVIDTSPRP--QPQARALAEA 559 (584)
T ss_pred EEEeCCCCCCCcccccccc----------------chhhHH----HHHHHHHHhcCCeEEEEecCCCC--cHHHHHHHHh
Confidence 9999999988754221111 000011 34577788888876666555443 3457899999
Q ss_pred cceeEEEeCCCChhHHHHHHH
Q 004188 381 SGGFIMIGETFESDQFRKCMR 401 (770)
Q Consensus 381 TGG~v~~~~~f~~~~~~~~l~ 401 (770)
+||..|..+.-+.+.+.+..+
T Consensus 560 ~gg~y~~l~~~~a~~~~~~v~ 580 (584)
T PRK13406 560 MGARYLPLPRADAGRLSQAVR 580 (584)
T ss_pred cCCeEEECCCCCHHHHHHHHH
Confidence 999999999988876665443
No 43
>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=97.46 E-value=0.0028 Score=63.49 Aligned_cols=50 Identities=28% Similarity=0.377 Sum_probs=38.2
Q ss_pred CCcEEEEEEecCcchh--HHHHHHHHHHHHhhcC---------CCCcEEEEEEECCEEEEE
Q 004188 146 LGPAFVFVVDGCMEES--EIRAVKHELLRVMEQL---------PENALVGLVVFDSMVYVH 195 (770)
Q Consensus 146 ~~p~~vFvID~s~~~~--~l~~~~~~i~~~l~~l---------p~~~~VglITf~~~V~~y 195 (770)
.+-=.|||||.|.+.. +++.+++.+...+..+ |..+|||+|+|++..++.
T Consensus 18 ~~~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs~~a~~~ 78 (193)
T cd01477 18 LWLDIVFVVDNSKGMTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYNSNATVV 78 (193)
T ss_pred ceeeEEEEEeCCCCcchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEccCceEEE
Confidence 3455899999999854 4888888887766543 346899999999887653
No 44
>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=97.41 E-value=0.0078 Score=58.55 Aligned_cols=153 Identities=22% Similarity=0.241 Sum_probs=99.5
Q ss_pred EEEEEEecCcch-hH-HHHHHHHHHHHhhcCCC---CcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 149 AFVFVVDGCMEE-SE-IRAVKHELLRVMEQLPE---NALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 149 ~~vFvID~s~~~-~~-l~~~~~~i~~~l~~lp~---~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
-++|+||+|.++ .. ++.+++.+...+..+.. +.+||+++|++..+.+.
T Consensus 3 ~v~l~vD~S~SM~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~~~~~--------------------------- 55 (177)
T smart00327 3 DVVFLLDGSGSMGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDATVLF--------------------------- 55 (177)
T ss_pred cEEEEEeCCCccchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCceEEE---------------------------
Confidence 478999999988 33 77888888888777765 89999999998443321
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCC----CcE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNT----GSR 299 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~----gGk 299 (770)
.+. .......+...++.+... .....-++.|+..|...+....... .-.
T Consensus 56 ~~~---------------------~~~~~~~~~~~i~~~~~~------~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~ 108 (177)
T smart00327 56 PLN---------------------DSRSKDALLEALASLSYK------LGGGTNLGAALQYALENLFSKSAGSRRGAPKV 108 (177)
T ss_pred ccc---------------------ccCCHHHHHHHHHhcCCC------CCCCchHHHHHHHHHHHhcCcCCCCCCCCCeE
Confidence 000 001123344555554421 2234678899999998875211111 346
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
|++|++|.++.+ ..+.+...++.+.+|.+..+.++.+. +-..+..++.
T Consensus 109 iviitDg~~~~~-------------------------------~~~~~~~~~~~~~~i~i~~i~~~~~~-~~~~l~~~~~ 156 (177)
T smart00327 109 LILITDGESNDG-------------------------------GDLLKAAKELKRSGVKVFVVGVGNDV-DEEELKKLAS 156 (177)
T ss_pred EEEEcCCCCCCC-------------------------------ccHHHHHHHHHHCCCEEEEEEccCcc-CHHHHHHHhC
Confidence 888887765533 12345667777888888888777543 7778999999
Q ss_pred CcceeEEE
Q 004188 380 KSGGFIMI 387 (770)
Q Consensus 380 ~TGG~v~~ 387 (770)
.++|.-.+
T Consensus 157 ~~~~~~~~ 164 (177)
T smart00327 157 APGGVYVF 164 (177)
T ss_pred CCcceEEe
Confidence 99987544
No 45
>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=97.35 E-value=0.0026 Score=62.21 Aligned_cols=157 Identities=23% Similarity=0.253 Sum_probs=94.5
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQL---PENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
.+|+||.|..... ++.+++.+...++.+ +++.|||+|+|++..+.+ .+.. .
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~~~~~~~~~~~-------------------~---- 58 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFSDSARVLFSLTD-------------------Y---- 58 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEESSSEEEEEETTS-------------------H----
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHhhhccccccccceeeeeccccccccccc-------------------c----
Confidence 5899999998764 788888888888854 568999999999888633 1210 0
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc----cCCCCcE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC----SVNTGSR 299 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~----~~~~gGk 299 (770)
.....+...+ ..... .....+.+|.||..|...+... .+....-
T Consensus 59 --------------------------~~~~~~~~~i--~~~~~----~~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~ 106 (178)
T PF00092_consen 59 --------------------------QSKNDLLNAI--NDSIP----SSGGGTNLGAALKFAREQLFSSNNGGRPNSPKV 106 (178)
T ss_dssp --------------------------SSHHHHHHHH--HTTGG----CCBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEE
T ss_pred --------------------------cccccccccc--ccccc----ccchhhhHHHHHhhhhhcccccccccccccccc
Confidence 0011122222 12221 2235567999999999988632 1223345
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
|+++++|.++.++- +. ..+..+.+. ..|.+|+.+.+..+..++..|+.
T Consensus 107 iiliTDG~~~~~~~--------------------------~~-----~~~~~~~~~-~~i~~~~ig~~~~~~~~l~~la~ 154 (178)
T PF00092_consen 107 IILITDGNSNDSDS--------------------------PS-----EEAANLKKS-NGIKVIAIGIDNADNEELRELAS 154 (178)
T ss_dssp EEEEESSSSSSHSG--------------------------HH-----HHHHHHHHH-CTEEEEEEEESCCHHHHHHHHSH
T ss_pred eEEEEeecccCCcc--------------------------hH-----HHHHHHHHh-cCcEEEEEecCcCCHHHHHHHhC
Confidence 77888876544321 00 011111111 44566766666788888888885
Q ss_pred C--cceeEEEeCCCCh
Q 004188 380 K--SGGFIMIGETFES 393 (770)
Q Consensus 380 ~--TGG~v~~~~~f~~ 393 (770)
. .+|.+++..+++.
T Consensus 155 ~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 155 CPTSEGHVFYLADFSD 170 (178)
T ss_dssp SSTCHHHEEEESSHHH
T ss_pred CCCCCCcEEEcCCHHH
Confidence 5 4578888887754
No 46
>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=97.33 E-value=0.0053 Score=59.47 Aligned_cols=41 Identities=22% Similarity=0.379 Sum_probs=33.1
Q ss_pred EEEEEecCcchhH-HHHHHHHHHHHhhcCC---CCcEEEEEEECC
Q 004188 150 FVFVVDGCMEESE-IRAVKHELLRVMEQLP---ENALVGLVVFDS 190 (770)
Q Consensus 150 ~vFvID~s~~~~~-l~~~~~~i~~~l~~lp---~~~~VglITf~~ 190 (770)
++|++|+|.+... ++..++.++..++.+. +..+||+|+|++
T Consensus 3 v~~llD~S~Sm~~~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~ 47 (163)
T cd01476 3 LLFVLDSSGSVRGKFEKYKKYIERIVEGLEIGPTATRVALITYSG 47 (163)
T ss_pred EEEEEeCCcchhhhHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcC
Confidence 5899999998755 5667777777777764 478999999998
No 47
>smart00262 GEL Gelsolin homology domain. Gelsolin/severin/villin homology domain. Calcium-binding and actin-binding. Both intra- and extracellular domains.
Probab=97.24 E-value=0.0012 Score=57.31 Aligned_cols=69 Identities=16% Similarity=0.145 Sum_probs=48.9
Q ss_pred cccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHHH-cCCCCcEEEEEccCCC
Q 004188 645 VLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLVA-ERIPAPKIIKCDQHGS 723 (770)
Q Consensus 645 v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~-~R~~~p~~~~~~~g~~ 723 (770)
++++.++|.++.+||||+|..||+|+|+.+.. . ++ .++...|+.+.+ .|.+...+++++||..
T Consensus 16 ~~~~~~~L~s~d~fild~~~~iyvW~G~~as~----------~-ek-----~~A~~~a~~~~~~~~~~~~~i~~v~eg~E 79 (90)
T smart00262 16 VPFSQGSLNSGDCYILDTGSEIYVWVGKKSSQ----------D-EK-----KKAAELAVELDDTLGPGPVQVRVVDEGKE 79 (90)
T ss_pred cCCCHHHCCCCCEEEEECCCEEEEEECCCCCH----------H-HH-----HHHHHHHHHHHHhcCCCCceEEEEeCCCC
Confidence 46777899999999999999999999997552 0 11 123344555554 3456678888989987
Q ss_pred hHHHHH
Q 004188 724 QARFLL 729 (770)
Q Consensus 724 ~~r~l~ 729 (770)
...|..
T Consensus 80 ~~~F~~ 85 (90)
T smart00262 80 PPEFWS 85 (90)
T ss_pred CHHHHH
Confidence 665544
No 48
>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=97.10 E-value=0.01 Score=70.55 Aligned_cols=160 Identities=18% Similarity=0.212 Sum_probs=103.8
Q ss_pred CcEEEEEEecCcchh---HHHHHHHHHHHHhhc-CCCCcEEEEEEECCE-EEEEEcCCCCceeeeeecCCccCChHhhhh
Q 004188 147 GPAFVFVVDGCMEES---EIRAVKHELLRVMEQ-LPENALVGLVVFDSM-VYVHDLGFSECCRVLVFHGGRELSSEQIQH 221 (770)
Q Consensus 147 ~p~~vFvID~s~~~~---~l~~~~~~i~~~l~~-lp~~~~VglITf~~~-V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~ 221 (770)
...++||||+|.++. .++.++.++...+.. ...+.+||+|+|++. ..+.
T Consensus 465 ~~~vv~vvD~SgSM~~~~rl~~ak~a~~~ll~~a~~~~D~v~lI~F~g~~a~~~-------------------------- 518 (633)
T TIGR02442 465 GNLVIFVVDASGSMAARGRMAAAKGAVLSLLRDAYQKRDKVALITFRGEEAEVL-------------------------- 518 (633)
T ss_pred CceEEEEEECCccCCCccHHHHHHHHHHHHHHHhhcCCCEEEEEEECCCCceEE--------------------------
Confidence 347889999999984 467778777777653 456789999999743 2110
Q ss_pred hhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc---cCCCCc
Q 004188 222 LMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC---SVNTGS 298 (770)
Q Consensus 222 ~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~---~~~~gG 298 (770)
+|.......+...|+.|+. ...+.++.||..|..++... .....+
T Consensus 519 ------------------------~p~t~~~~~~~~~L~~l~~--------gG~Tpl~~aL~~A~~~l~~~~~~~~~~~~ 566 (633)
T TIGR02442 519 ------------------------LPPTSSVELAARRLEELPT--------GGRTPLAAGLLKAAEVLSNELLRDDDGRP 566 (633)
T ss_pred ------------------------cCCCCCHHHHHHHHHhCCC--------CCCCCHHHHHHHHHHHHHHhhccCCCCce
Confidence 0111112333445555442 23467899999999888721 123457
Q ss_pred EEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccc
Q 004188 299 RIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPV 378 (770)
Q Consensus 299 kI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~ 378 (770)
.|+++++|.+|.|.+. .. +..+ -..++..+.+.||.+.++-+....++...+..||
T Consensus 567 ~vvliTDG~~n~~~~~---~~--------------------~~~~-~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA 622 (633)
T TIGR02442 567 LLVVITDGRANVADGG---EP--------------------PTDD-ARTIAAKLAARGILFVVIDTESGFVRLGLAEDLA 622 (633)
T ss_pred EEEEECCCCCCCCCCC---CC--------------------hHHH-HHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHH
Confidence 8999999999886211 00 0001 1456777777788776666666667777899999
Q ss_pred cCcceeEEEe
Q 004188 379 EKSGGFIMIG 388 (770)
Q Consensus 379 ~~TGG~v~~~ 388 (770)
+.+||..|..
T Consensus 623 ~~~gg~y~~l 632 (633)
T TIGR02442 623 RALGGEYVRL 632 (633)
T ss_pred HhhCCeEEec
Confidence 9999997753
No 49
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.06 E-value=0.017 Score=59.15 Aligned_cols=170 Identities=18% Similarity=0.183 Sum_probs=114.7
Q ss_pred CcEEEEEEecCcchhH---HHHHHHHHHHHhhcC-CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhh
Q 004188 147 GPAFVFVVDGCMEESE---IRAVKHELLRVMEQL-PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~---l~~~~~~i~~~l~~l-p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
..-+|||||.|.++.- .+++|-++.+.|..= ...-+|++|+|... + .+
T Consensus 78 g~lvvfvVDASgSM~~~~Rm~aaKG~~~~lL~dAYq~RdkvavI~F~G~--------------------------~-A~- 129 (261)
T COG1240 78 GNLIVFVVDASGSMAARRRMAAAKGAALSLLRDAYQRRDKVAVIAFRGE--------------------------K-AE- 129 (261)
T ss_pred CCcEEEEEeCcccchhHHHHHHHHHHHHHHHHHHHHccceEEEEEecCC--------------------------c-ce-
Confidence 3568999999999753 677777777776543 44679999988731 0 01
Q ss_pred hcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccC---CCCcE
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSV---NTGSR 299 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~---~~gGk 299 (770)
+++|...+-+.+...|+.|+.- ..+=+..||..|..++..+.. ..--.
T Consensus 130 ---------------------lll~pT~sv~~~~~~L~~l~~G--------G~TPL~~aL~~a~ev~~r~~r~~p~~~~~ 180 (261)
T COG1240 130 ---------------------LLLPPTSSVELAERALERLPTG--------GKTPLADALRQAYEVLAREKRRGPDRRPV 180 (261)
T ss_pred ---------------------EEeCCcccHHHHHHHHHhCCCC--------CCCchHHHHHHHHHHHHHhhccCCCcceE
Confidence 2233333345556666666542 234589999999999984332 34467
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
+++.+.|.||.+++.=+.. . -...+.++...|+-+=+.-+-..++.+.-...||.
T Consensus 181 ~vviTDGr~n~~~~~~~~~-----------------------e--~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~ 235 (261)
T COG1240 181 MVVITDGRANVPIPLGPKA-----------------------E--TLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIAR 235 (261)
T ss_pred EEEEeCCccCCCCCCchHH-----------------------H--HHHHHHHHhhcCCcEEEEecCCccccccHHHHHHH
Confidence 8999999988765421100 0 02345566667776666666677788888889999
Q ss_pred CcceeEEEeCCCChhHHHH
Q 004188 380 KSGGFIMIGETFESDQFRK 398 (770)
Q Consensus 380 ~TGG~v~~~~~f~~~~~~~ 398 (770)
..||..++.+..+...+..
T Consensus 236 ~~Gg~~~~L~~l~~~~i~~ 254 (261)
T COG1240 236 ASGGEYYHLDDLSDDSIVS 254 (261)
T ss_pred HhCCeEEecccccchHHHH
Confidence 9999999999988765543
No 50
>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=97.05 E-value=0.019 Score=54.25 Aligned_cols=148 Identities=24% Similarity=0.285 Sum_probs=94.7
Q ss_pred EEEEEEecCcch--hHHHHHHHHHHHHhhcCCC---CcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 149 AFVFVVDGCMEE--SEIRAVKHELLRVMEQLPE---NALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 149 ~~vFvID~s~~~--~~l~~~~~~i~~~l~~lp~---~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
.++|+||.|.++ ..++.+++.+...+..++. ..+||++.|+...+.+-
T Consensus 2 ~v~~viD~S~Sm~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~~~~~~~--------------------------- 54 (161)
T cd00198 2 DIVFLLDVSGSMGGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGSNARVVL--------------------------- 54 (161)
T ss_pred cEEEEEeCCCCcCcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecCccceee---------------------------
Confidence 368999999987 3478888888888888875 78999999997432220
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc-cCCCCcEEEE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC-SVNTGSRIMV 302 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~-~~~~gGkI~~ 302 (770)
...+ . .....+...++.+.. .......+..|+..|...+... .......|++
T Consensus 55 ~~~~----------------~-----~~~~~~~~~~~~~~~------~~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvv 107 (161)
T cd00198 55 PLTT----------------D-----TDKADLLEAIDALKK------GLGGGTNIGAALRLALELLKSAKRPNARRVIIL 107 (161)
T ss_pred cccc----------------c-----CCHHHHHHHHHhccc------CCCCCccHHHHHHHHHHHhcccCCCCCceEEEE
Confidence 0000 0 012334445555443 1224467889999999988632 1234677888
Q ss_pred EecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCc
Q 004188 303 FTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKS 381 (770)
Q Consensus 303 F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~T 381 (770)
|++|.++.++ . -..+....+.+.++.+.++.++. ..+-..+..|+..|
T Consensus 108 itDg~~~~~~-----~-------------------------~~~~~~~~~~~~~v~v~~v~~g~-~~~~~~l~~l~~~~ 155 (161)
T cd00198 108 LTDGEPNDGP-----E-------------------------LLAEAARELRKLGITVYTIGIGD-DANEDELKEIADKT 155 (161)
T ss_pred EeCCCCCCCc-----c-------------------------hhHHHHHHHHHcCCEEEEEEcCC-CCCHHHHHHHhccc
Confidence 8888665443 0 01234555666789998887776 34555677777777
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=97.03 E-value=0.021 Score=57.26 Aligned_cols=149 Identities=12% Similarity=0.091 Sum_probs=89.5
Q ss_pred EEEEEecCcchhH--HH-HHHHHHHHHhhcC---CCCcEEEEEEECCEEEEE-EcCCCCceeeeeecCCccCChHhhhhh
Q 004188 150 FVFVVDGCMEESE--IR-AVKHELLRVMEQL---PENALVGLVVFDSMVYVH-DLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~-~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y-~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
.+|+||.|.+..+ ++ .+++.++..++.+ +.++|||+|+|++..+++ .+..
T Consensus 3 i~fllD~S~Si~~~~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs~~~~~~~~~~~----------------------- 59 (192)
T cd01473 3 LTLILDESASIGYSNWRKDVIPFTEKIINNLNISKDKVHVGILLFAEKNRDVVPFSD----------------------- 59 (192)
T ss_pred EEEEEeCCCcccHHHHHHHHHHHHHHHHHhCccCCCccEEEEEEecCCceeEEecCc-----------------------
Confidence 5899999998754 55 4777777777776 457999999999877543 1110
Q ss_pred hcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccC--C-CCcE
Q 004188 223 MGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSV--N-TGSR 299 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~--~-~gGk 299 (770)
+....+..+...++.+..... ....+.+|.||..|...+..... . ..--
T Consensus 60 ------------------------~~~~~~~~l~~~i~~l~~~~~----~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv 111 (192)
T cd01473 60 ------------------------EERYDKNELLKKINDLKNSYR----SGGETYIVEALKYGLKNYTKHGNRRKDAPKV 111 (192)
T ss_pred ------------------------ccccCHHHHHHHHHHHHhccC----CCCcCcHHHHHHHHHHHhccCCCCcccCCeE
Confidence 000112344556666654221 12457899999999887752110 0 0122
Q ss_pred EEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCccccccccc
Q 004188 300 IMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVE 379 (770)
Q Consensus 300 I~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~ 379 (770)
++++|.|..+.+ . ..--.+.++.+.+.||.+-.+..+. .+-.++..++.
T Consensus 112 ~IllTDG~s~~~---------------------~--------~~~~~~~a~~lk~~gV~i~~vGiG~--~~~~el~~ia~ 160 (192)
T cd01473 112 TMLFTDGNDTSA---------------------S--------KKELQDISLLYKEENVKLLVVGVGA--ASENKLKLLAG 160 (192)
T ss_pred EEEEecCCCCCc---------------------c--------hhhHHHHHHHHHHCCCEEEEEEecc--ccHHHHHHhcC
Confidence 677777732211 0 0011345777888899777776654 45667777776
Q ss_pred C
Q 004188 380 K 380 (770)
Q Consensus 380 ~ 380 (770)
.
T Consensus 161 ~ 161 (192)
T cd01473 161 C 161 (192)
T ss_pred C
Confidence 4
No 52
>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=96.96 E-value=0.012 Score=58.30 Aligned_cols=98 Identities=18% Similarity=0.241 Sum_probs=69.5
Q ss_pred CCcchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHH
Q 004188 274 PQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLI 353 (770)
Q Consensus 274 ~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~ 353 (770)
++..+-.||+.|...|+.......=.|+++.++.-|.-||.+ .+..+.+.
T Consensus 78 G~~SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~di------------------------------~~ti~~l~ 127 (193)
T PF04056_consen 78 GEPSLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPGDI------------------------------HETIESLK 127 (193)
T ss_pred CChhHHHHHHHHHHHHhhCccccceEEEEEEeecccCCchhH------------------------------HHHHHHHH
Confidence 456888999999999984322222356666776666666522 25567888
Q ss_pred hCCcEEEEEeecCCccCcccccccccCcceeEEEeCCCChhHHHHHHHHHhcc
Q 004188 354 KSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFESDQFRKCMRHIFGH 406 (770)
Q Consensus 354 ~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~~l~~ 406 (770)
+.+|-|++..++. .+.-.+.+|+.|||.. +=..+...|++.|.....-
T Consensus 128 ~~~IrvsvI~laa---Ev~I~k~i~~~T~G~y--~V~lde~H~~~lL~~~~~P 175 (193)
T PF04056_consen 128 KENIRVSVISLAA---EVYICKKICKETGGTY--GVILDEDHFKELLMEHVPP 175 (193)
T ss_pred HcCCEEEEEEEhH---HHHHHHHHHHhhCCEE--EEecCHHHHHHHHHhhCCC
Confidence 9999999999886 6667899999999943 3334566788887766543
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=96.87 E-value=0.047 Score=55.86 Aligned_cols=154 Identities=18% Similarity=0.174 Sum_probs=88.5
Q ss_pred EEEEEEecCcchh---------HHHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCCh
Q 004188 149 AFVFVVDGCMEES---------EIRAVKHELLRVMEQL---PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSS 216 (770)
Q Consensus 149 ~~vFvID~s~~~~---------~l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~ 216 (770)
+.+|+||+|.++. .++.+++.+...++.. -++.+||+|.|++.-+-.. . +|
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~---~------------~~-- 65 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNP---V------------GY-- 65 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCc---C------------CC--
Confidence 5799999999763 2778888888888752 3567999999986532100 0 01
Q ss_pred HhhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccC---CCCCCCCCcchHHHHHHHHHHhhccc
Q 004188 217 EQIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQ---RTPGHRPQRCTGAAISAAVGLLEGCS 293 (770)
Q Consensus 217 ~~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~---~~~~~~~~~~~G~Al~~A~~ll~~~~ 293 (770)
++..++.++.. + ....+..+++.+..... ...+......++.||.+|..++..+.
T Consensus 66 ---~~i~v~~~l~~----------------~---~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~ 123 (218)
T cd01458 66 ---ENIYVLLDLDT----------------P---GAERVEDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGK 123 (218)
T ss_pred ---CceEEeecCCC----------------C---CHHHHHHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhcc
Confidence 11111111110 0 11233344433322100 00123356789999999999998422
Q ss_pred C-CCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecC
Q 004188 294 V-NTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSL 366 (770)
Q Consensus 294 ~-~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~ 366 (770)
+ ...-+|++||+|--..|.. .-...-..+++..+.+.||.+.+|....
T Consensus 124 ~~~~~k~IvL~TDg~~p~~~~-------------------------~~~~~~~~~~a~~l~~~gI~i~~i~i~~ 172 (218)
T cd01458 124 KKKSHKRIFLFTNNDDPHGGD-------------------------SIKDSQAAVKAEDLKDKGIELELFPLSS 172 (218)
T ss_pred ccccccEEEEECCCCCCCCCC-------------------------HHHHHHHHHHHHHHHhCCcEEEEEecCC
Confidence 2 2346799999874333210 0012234567888888899999987654
No 54
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=96.81 E-value=0.038 Score=63.16 Aligned_cols=164 Identities=13% Similarity=0.076 Sum_probs=95.5
Q ss_pred CCcEEEEEEecCcchhH---HHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEE-EEcCCCCceeeeeecCCccCChHh
Q 004188 146 LGPAFVFVVDGCMEESE---IRAVKHELLRVMEQL---PENALVGLVVFDSMVYV-HDLGFSECCRVLVFHGGRELSSEQ 218 (770)
Q Consensus 146 ~~p~~vFvID~s~~~~~---l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~-y~l~~~~~~~~~v~~g~~~~~~~~ 218 (770)
..--++||||.|.+... ++.++..+...+..+ ++..+||+|+|++..+. +.+... .
T Consensus 41 ~~lDIvFLLD~SgSMg~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FSd~~r~vfpL~s~-------------~---- 103 (576)
T PTZ00441 41 EEVDLYLLVDGSGSIGYHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFSNNTTELIRLGSG-------------A---- 103 (576)
T ss_pred CCceEEEEEeCCCccCCccHHHHHHHHHHHHHHHhccCCCceEEEEEEeCCCceEEEecCCC-------------c----
Confidence 34568999999998753 356777777777766 35689999999987643 222210 0
Q ss_pred hhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcc--cCCC
Q 004188 219 IQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGC--SVNT 296 (770)
Q Consensus 219 ~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~--~~~~ 296 (770)
...+..+...|..|..... ....+.+|.||..|...+... ....
T Consensus 104 ------------------------------s~Dk~~aL~~I~sL~~~~~----pgGgTnig~AL~~Aae~L~sr~~R~nv 149 (576)
T PTZ00441 104 ------------------------------SKDKEQALIIVKSLRKTYL----PYGKTNMTDALLEVRKHLNDRVNRENA 149 (576)
T ss_pred ------------------------------cccHHHHHHHHHHHHhhcc----CCCCccHHHHHHHHHHHHhhcccccCC
Confidence 0001222333443433211 123578999999888877521 1123
Q ss_pred CcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccc
Q 004188 297 GSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKV 376 (770)
Q Consensus 297 gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~ 376 (770)
.+.||+|+.|.++.+. +. .+.+..+...||.|-++.++. ..+...+..
T Consensus 150 pKVVILLTDG~sns~~------------------------------dv-leaAq~LR~~GVeI~vIGVG~-g~n~e~Lrl 197 (576)
T PTZ00441 150 IQLVILMTDGIPNSKY------------------------------RA-LEESRKLKDRNVKLAVIGIGQ-GINHQFNRL 197 (576)
T ss_pred ceEEEEEecCCCCCcc------------------------------cH-HHHHHHHHHCCCEEEEEEeCC-CcCHHHHHH
Confidence 4678899888643110 00 123556667788666665543 455555555
Q ss_pred cc----cCcceeEEEeCCCC
Q 004188 377 PV----EKSGGFIMIGETFE 392 (770)
Q Consensus 377 l~----~~TGG~v~~~~~f~ 392 (770)
++ ..++|.+|...+|.
T Consensus 198 IAgC~p~~g~c~~Y~vadf~ 217 (576)
T PTZ00441 198 LAGCRPREGKCKFYSDADWE 217 (576)
T ss_pred HhccCCCCCCCceEEeCCHH
Confidence 55 33556778777885
No 55
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=96.63 E-value=0.017 Score=55.84 Aligned_cols=50 Identities=20% Similarity=0.261 Sum_probs=40.4
Q ss_pred CCCcEEEEEEecCcchhH--HHHHHHHHHHHhhcCC------CCcEEEEEEECCEEEEE
Q 004188 145 VLGPAFVFVVDGCMEESE--IRAVKHELLRVMEQLP------ENALVGLVVFDSMVYVH 195 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~~--l~~~~~~i~~~l~~lp------~~~~VglITf~~~V~~y 195 (770)
+.-|+| |++|+|.++.- .+++...|+..++.|. +.+.++|||||+.+++|
T Consensus 2 rRlP~~-lllDtSgSM~Ge~IealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~ 59 (207)
T COG4245 2 RRLPCY-LLLDTSGSMIGEPIEALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVI 59 (207)
T ss_pred CCCCEE-EEEecCcccccccHHHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEE
Confidence 345776 89999999864 7888888888888774 35799999999977776
No 56
>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=96.06 E-value=0.19 Score=49.24 Aligned_cols=148 Identities=15% Similarity=0.058 Sum_probs=84.3
Q ss_pred EEEEEEecCcchh---HHHHHHHHHHHHhhcCCC-CcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhc
Q 004188 149 AFVFVVDGCMEES---EIRAVKHELLRVMEQLPE-NALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMG 224 (770)
Q Consensus 149 ~~vFvID~s~~~~---~l~~~~~~i~~~l~~lp~-~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~ 224 (770)
.++|+||+|.++. .++.+++++...++.+.+ +.++|+++|++.. ... .. ...+.
T Consensus 2 ~v~~llD~SgSM~~~~kl~~ak~a~~~l~~~l~~~~d~~~l~~F~~~~-----~~~----------------~~-~~~~~ 59 (174)
T cd01454 2 AVTLLLDLSGSMRSDRRIDVAKKAAVLLAEALEACGVPHAILGFTTDA-----GGR----------------ER-VRWIK 59 (174)
T ss_pred EEEEEEECCCCCCCCcHHHHHHHHHHHHHHHHHHcCCcEEEEEecCCC-----CCc----------------cc-eEEEE
Confidence 4789999999874 477888887777777764 7899999999753 000 00 00000
Q ss_pred ccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEe
Q 004188 225 IRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFT 304 (770)
Q Consensus 225 v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~ 304 (770)
..+. +..+ ...+...|..+.. ...+.+|.||..|...+... ......|++++
T Consensus 60 ~~~~-------------~~~~------~~~~~~~l~~~~~--------~g~T~~~~al~~a~~~l~~~-~~~~~~iiliT 111 (174)
T cd01454 60 IKDF-------------DESL------HERARKRLAALSP--------GGNTRDGAAIRHAAERLLAR-PEKRKILLVIS 111 (174)
T ss_pred ecCc-------------cccc------chhHHHHHHccCC--------CCCCcHHHHHHHHHHHHhcC-CCcCcEEEEEe
Confidence 0000 0000 0112233333322 12478999999999988732 23456789999
Q ss_pred cCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCC
Q 004188 305 SGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLD 367 (770)
Q Consensus 305 sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~ 367 (770)
+|.|+.+...-. + ......+ .+.+.++.+.||.+..+.++.+
T Consensus 112 DG~~~~~~~~~~------------~-----~~~~~~~----~~~~~~~~~~gi~v~~igig~~ 153 (174)
T cd01454 112 DGEPNDLDYYEG------------N-----VFATEDA----LRAVIEARKLGIEVFGITIDRD 153 (174)
T ss_pred CCCcCcccccCc------------c-----hhHHHHH----HHHHHHHHhCCcEEEEEEecCc
Confidence 998876632000 0 0000000 1226777888998887766654
No 57
>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=95.96 E-value=0.22 Score=47.50 Aligned_cols=100 Identities=18% Similarity=0.149 Sum_probs=62.2
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCC-CCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhhccc
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLP-ENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLMGIR 226 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp-~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l~v~ 226 (770)
++|+||+|.++.. ++..+..+...++.+. ++.+|++|+|++....+.+..
T Consensus 3 v~illD~SgSM~~~k~~~a~~~~~~l~~~~~~~~~~v~li~F~~~~~~~~~~~--------------------------- 55 (152)
T cd01462 3 VILLVDQSGSMYGAPEEVAKAVALALLRIALAENRDTYLILFDSEFQTKIVDK--------------------------- 55 (152)
T ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCCceEEecCC---------------------------
Confidence 6799999998864 5556666666666554 477999999998732221100
Q ss_pred ccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecC
Q 004188 227 CAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSG 306 (770)
Q Consensus 227 d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg 306 (770)
. ..+..+++.|.... ..+.+.++.||..+...+... ....+.|+++++|
T Consensus 56 ----------------------~---~~~~~~~~~l~~~~-----~~ggT~l~~al~~a~~~l~~~-~~~~~~ivliTDG 104 (152)
T cd01462 56 ----------------------T---DDLEEPVEFLSGVQ-----LGGGTDINKALRYALELIERR-DPRKADIVLITDG 104 (152)
T ss_pred ----------------------c---ccHHHHHHHHhcCC-----CCCCcCHHHHHHHHHHHHHhc-CCCCceEEEECCC
Confidence 0 01123333343322 124578999999999988731 1235788999887
Q ss_pred C
Q 004188 307 P 307 (770)
Q Consensus 307 ~ 307 (770)
.
T Consensus 105 ~ 105 (152)
T cd01462 105 Y 105 (152)
T ss_pred C
Confidence 4
No 58
>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=95.44 E-value=3.2 Score=46.09 Aligned_cols=279 Identities=14% Similarity=0.123 Sum_probs=147.9
Q ss_pred CcEEEEEEecCcchhH----HHHHHHHHHHHhhcCCCCcEEEEEEECCEE-EEEEcCCCCceeeeeecCCccCChHhhhh
Q 004188 147 GPAFVFVVDGCMEESE----IRAVKHELLRVMEQLPENALVGLVVFDSMV-YVHDLGFSECCRVLVFHGGRELSSEQIQH 221 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~----l~~~~~~i~~~l~~lp~~~~VglITf~~~V-~~y~l~~~~~~~~~v~~g~~~~~~~~~~~ 221 (770)
|-=..|+.|+|.++.. ++.+-..|...|..+..+.|+||=+|=++. .=|-. ...+++..
T Consensus 99 PvDLYyLMDlS~SM~ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~----------------t~p~~l~~ 162 (423)
T smart00187 99 PVDLYYLMDLSYSMKDDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVS----------------TRPEKLEN 162 (423)
T ss_pred ccceEEEEeCCccHHHHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCccc----------------CCHHHhcC
Confidence 4446799999999875 556666677777888889999998886543 21210 01111111
Q ss_pred hhcccccccccCCCCCCCCC-CcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEE
Q 004188 222 LMGIRCAKQHQLGKTPVIQK-QGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRI 300 (770)
Q Consensus 222 ~l~v~d~~~~~~~~~~~~~~-~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI 300 (770)
-- ..... .+.|+. -+-.+++.+.-....+.+....-.. +...|+..+-+-+++|+--=+.+++...-|+
T Consensus 163 PC--~~~~~-----~c~p~f~f~~~L~LT~~~~~F~~~V~~~~iSg---N~D~PEgG~DAimQaaVC~~~IGWR~~a~rl 232 (423)
T smart00187 163 PC--PNYNL-----TCEPPYGFKHVLSLTDDTDEFNEEVKKQRISG---NLDAPEGGFDAIMQAAVCTEQIGWREDARRL 232 (423)
T ss_pred CC--cCCCC-----CcCCCcceeeeccCCCCHHHHHHHHhhceeec---CCcCCcccHHHHHHHHhhccccccCCCceEE
Confidence 00 00000 123322 1234688776555556666544322 3445777777777888543222344455689
Q ss_pred EEEecCCCC--CCCCccccccccccccCCCCCCCCCCCccc---chHHHHHHHHHHHHhCCcEEEEEeecCCccCccccc
Q 004188 301 MVFTSGPAT--MGPGIIVDTEFSKAIRNHGDVMNGHAPYYR---KSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELK 375 (770)
Q Consensus 301 ~~F~sg~pt--~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~---~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~ 375 (770)
++|++-.+- .|-|+|...-..+..+-|-|-.. .|.. ....--.+|++++.+++|-+ ||+....+.++++
T Consensus 233 lv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g---~Yt~s~~~DYPSi~ql~~kL~e~nI~~-IFAVT~~~~~~Y~-- 306 (423)
T smart00187 233 LVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNG---EYTMSTTQDYPSIGQLNQKLAENNINP-IFAVTKKQVSLYK-- 306 (423)
T ss_pred EEEEcCCCccccCCcceeeEecCCCCcceeCCCC---CcCccCcCCCCCHHHHHHHHHhcCceE-EEEEcccchhHHH--
Confidence 999987776 58888766544444444533110 1111 11123457888888888865 8888887777652
Q ss_pred ccccCcceeEEEeCCCChhHHHHHHHHHhccCcccccceeeeEEEEEEE-cCCceEeeeecCccccccCCCCcCCCccCC
Q 004188 376 VPVEKSGGFIMIGETFESDQFRKCMRHIFGHDEEGNLKMYFDATIEVVT-TRDIKICGALGPCVSLKKKNNLVSDSETGE 454 (770)
Q Consensus 376 ~l~~~TGG~v~~~~~f~~~~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~-S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~ 454 (770)
.|+.+-.|...=-=+=+.+..-+.+.....+ .....+|+... +.+++++-. ..+.....
T Consensus 307 ~Ls~lipgs~vg~Ls~DSsNIv~LI~~aY~~-------i~S~V~l~~~~~p~~v~~~y~-s~C~~g~~------------ 366 (423)
T smart00187 307 ELSALIPGSSVGVLSEDSSNVVELIKDAYNK-------ISSRVELEDNSLPEGVSVTYT-SSCPGGVV------------ 366 (423)
T ss_pred HHHHhcCcceeeecccCcchHHHHHHHHHHh-------hceEEEEecCCCCCcEEEEEE-eeCCCCCc------------
Confidence 3343333433211111223333444433332 33455665553 667776533 23321100
Q ss_pred CCccceeeecCCCCceEEEEEEec
Q 004188 455 GGTYMWKLNTLASKTCIAFFFQVS 478 (770)
Q Consensus 455 g~t~~~~l~~~~~~~si~~~f~~~ 478 (770)
....-...++.....+.|..++.
T Consensus 367 -~~~~~~C~~v~iG~~V~F~v~vt 389 (423)
T smart00187 367 -GPGTRKCEGVKIGDTVSFEVTVT 389 (423)
T ss_pred -ccCCcccCCcccCCEEEEEEEEE
Confidence 00011355666677777777766
No 59
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=94.21 E-value=0.049 Score=63.35 Aligned_cols=85 Identities=22% Similarity=0.236 Sum_probs=52.9
Q ss_pred HhhcccccccccC-CC--C-cccccccccccCCeeEEEeCCcEEEEEEcCchh-hHhhCCCCCCCcchhHHHHHhccHHH
Q 004188 627 IMIQPTLFQYSFD-GP--P-VPVLLDVRSISPDVILLFDSYFHVVIHYGSKIA-QWKKHGYDKDPNHENLRKLLEAPETD 701 (770)
Q Consensus 627 ~~iyP~L~~~~~~-~~--p-~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~-~~~~~g~~~~~~~~~~~~~~~~~~~~ 701 (770)
.-..|+||..+.. +- - +-...+.+.|.+|.|||||++..||||+|+.++ .++. ..++..+..
T Consensus 616 ~~~~PrLF~Cs~~~g~f~~~EI~~F~QdDL~tdDi~lLDt~~evfvWvG~~a~~~eK~-------------~Al~~~~~y 682 (827)
T KOG0443|consen 616 PERDPRLFSCSNKTGSFVVEEIYNFTQDDLMTDDIMLLDTWSEVFVWVGQEANEKEKE-------------EALTIGQKY 682 (827)
T ss_pred CCCCCcEEEEEecCCcEEEEEecCcchhhccccceEEEecCceEEEEecCCCChhHHH-------------HHHHHHHHH
Confidence 4567888877642 11 0 111466678899999999999999999998765 2211 122222222
Q ss_pred HHH-HHHcCCCCcEEEEEccCCCh
Q 004188 702 AEQ-LVAERIPAPKIIKCDQHGSQ 724 (770)
Q Consensus 702 ~~~-l~~~R~~~p~~~~~~~g~~~ 724 (770)
.+. +-..|.|.-.+++++||+-.
T Consensus 683 l~~~~p~gr~~~TPI~vV~qG~EP 706 (827)
T KOG0443|consen 683 LETDLPEGRDPRTPIYVVKQGHEP 706 (827)
T ss_pred HhccCcccCCCCCceEEecCCCCC
Confidence 212 24567776667778888755
No 60
>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=93.65 E-value=3.6 Score=48.55 Aligned_cols=73 Identities=16% Similarity=0.247 Sum_probs=44.3
Q ss_pred CcchHHHHHHHHHHhhcccCCCC-cEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHH
Q 004188 275 QRCTGAAISAAVGLLEGCSVNTG-SRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLI 353 (770)
Q Consensus 275 ~~~~G~Al~~A~~ll~~~~~~~g-GkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~ 353 (770)
...+..||.+|..++..+.++.+ =||++||+--.-.+.. . ....-=...|..+.
T Consensus 116 ~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~~---------------------~----~~~~~a~~~a~dl~ 170 (584)
T TIGR00578 116 DYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGND---------------------S----AKASRARTKAGDLR 170 (584)
T ss_pred CCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCCc---------------------h----hHHHHHHHHHHHHH
Confidence 34789999999999985444444 4699999642211110 0 00001123477888
Q ss_pred hCCcEEEEEeec-CCccCcc
Q 004188 354 KSSIVLDLFACS-LDQVGVA 372 (770)
Q Consensus 354 ~~~isvdlf~~~-~~~~~l~ 372 (770)
..||.+++|..+ .+.+|..
T Consensus 171 ~~gi~ielf~l~~~~~Fd~s 190 (584)
T TIGR00578 171 DTGIFLDLMHLKKPGGFDIS 190 (584)
T ss_pred hcCeEEEEEecCCCCCCChh
Confidence 999999999654 2334444
No 61
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=2.5 Score=42.10 Aligned_cols=79 Identities=22% Similarity=0.215 Sum_probs=52.0
Q ss_pred CcchHHHHHHHHHHhhccc-CCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHH
Q 004188 275 QRCTGAAISAAVGLLEGCS-VNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLI 353 (770)
Q Consensus 275 ~~~~G~Al~~A~~ll~~~~-~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~ 353 (770)
+.-++.+|++|..+|+.-. ++.--||++|.++|-.. ..+-.-++|+++.
T Consensus 84 ~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e------------------------------~ekeLv~~akrlk 133 (259)
T KOG2884|consen 84 KANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEE------------------------------SEKELVKLAKRLK 133 (259)
T ss_pred cccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchh------------------------------hHHHHHHHHHHHH
Confidence 4568999999999998311 12237999999875211 1223457899999
Q ss_pred hCCcEEEEEeecCCccCcccccccccCcce
Q 004188 354 KSSIVLDLFACSLDQVGVAELKVPVEKSGG 383 (770)
Q Consensus 354 ~~~isvdlf~~~~~~~~l~~~~~l~~~TGG 383 (770)
+.+|+||+..|+-..-+-.-+......++|
T Consensus 134 k~~Vaidii~FGE~~~~~e~l~~fida~N~ 163 (259)
T KOG2884|consen 134 KNKVAIDIINFGEAENNTEKLFEFIDALNG 163 (259)
T ss_pred hcCeeEEEEEeccccccHHHHHHHHHHhcC
Confidence 999999999998654442223333333333
No 62
>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=92.81 E-value=0.15 Score=50.10 Aligned_cols=45 Identities=22% Similarity=0.339 Sum_probs=35.9
Q ss_pred EEEEEecCcchhH--HHHHHHHHHHHhhcCC------CCcEEEEEEECCEEEE
Q 004188 150 FVFVVDGCMEESE--IRAVKHELLRVMEQLP------ENALVGLVVFDSMVYV 194 (770)
Q Consensus 150 ~vFvID~s~~~~~--l~~~~~~i~~~l~~lp------~~~~VglITf~~~V~~ 194 (770)
++||||+|.++.. ++.+++++...++.+. ++.+||+|+|++..+.
T Consensus 6 v~~llD~SgSM~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~~a~~ 58 (176)
T cd01464 6 IYLLLDTSGSMAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFDSAARV 58 (176)
T ss_pred EEEEEECCCCCCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEecCCceE
Confidence 5799999998753 7788888888887774 3579999999987654
No 63
>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=92.79 E-value=4.2 Score=42.77 Aligned_cols=46 Identities=15% Similarity=0.179 Sum_probs=35.3
Q ss_pred CCCcEEEEEEecCcchhH-------HHHHHHHHHHHhhcCCCCcEEEEEEECCEE
Q 004188 145 VLGPAFVFVVDGCMEESE-------IRAVKHELLRVMEQLPENALVGLVVFDSMV 192 (770)
Q Consensus 145 ~~~p~~vFvID~s~~~~~-------l~~~~~~i~~~l~~lp~~~~VglITf~~~V 192 (770)
....-++++||.|.++.+ ++ .+..|..+++.++. -+||++.|+..+
T Consensus 58 kr~~qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~~Le~-g~vgVv~Fg~~~ 110 (266)
T cd01460 58 KRDYQILIAIDDSKSMSENNSKKLALE-SLCLVSKALTLLEV-GQLGVCSFGEDV 110 (266)
T ss_pred ccCceEEEEEecchhcccccccccHHH-HHHHHHHHHHhCcC-CcEEEEEeCCCc
Confidence 566789999999999864 44 34456677777764 599999999876
No 64
>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=92.59 E-value=11 Score=42.51 Aligned_cols=280 Identities=13% Similarity=0.136 Sum_probs=134.4
Q ss_pred CcEEEEEEecCcchhH----HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhh
Q 004188 147 GPAFVFVVDGCMEESE----IRAVKHELLRVMEQLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHL 222 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~----l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~ 222 (770)
|-=..|++|+|.++.. ++.+-..|...|..+..+.|+||=+|=++.- .-... .+.+.+...
T Consensus 102 PvDLYyLmDlS~Sm~ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~-~P~~~--------------~~p~~l~~p 166 (426)
T PF00362_consen 102 PVDLYYLMDLSYSMKDDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPV-MPFVS--------------TTPEKLKNP 166 (426)
T ss_dssp -EEEEEEEE-SGGGHHHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSS-TTTST---------------SSHCHHST
T ss_pred ceeEEEEeechhhhhhhHHHHHHHHHHHHHHHHhcCccceEechhhccccc-CCccc--------------CChhhhcCc
Confidence 3346699999999865 4455567888888999999999998875431 10000 001111111
Q ss_pred hcccccccccCCCCCCCCC-CcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEE
Q 004188 223 MGIRCAKQHQLGKTPVIQK-QGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIM 301 (770)
Q Consensus 223 l~v~d~~~~~~~~~~~~~~-~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~ 301 (770)
. ..... ...|+. -+-.+++.+........+.+.. ..+ +--.|+..+=+-+++|+--=..+++...-|++
T Consensus 167 c--~~~~~-----~c~~~~~f~~~l~Lt~~~~~F~~~v~~~~-is~--n~D~PEgg~dal~Qa~vC~~~igWr~~a~~ll 236 (426)
T PF00362_consen 167 C--PSKNP-----NCQPPFSFRHVLSLTDDITEFNEEVNKQK-ISG--NLDAPEGGLDALMQAAVCQEEIGWRNEARRLL 236 (426)
T ss_dssp S--CCTTS-------B---SEEEEEEEES-HHHHHHHHHTS---B----SSSSBSHHHHHHHHHH-HHHHT--STSEEEE
T ss_pred c--cccCC-----CCCCCeeeEEeecccchHHHHHHhhhhcc-ccC--CCCCCccccchheeeeecccccCcccCceEEE
Confidence 1 00000 122221 1335688776655555555533 222 33457777777788776532233446667999
Q ss_pred EEecCCCC--CCCCccccccccccccCCCCCCCCCCCccc---chHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccc
Q 004188 302 VFTSGPAT--MGPGIIVDTEFSKAIRNHGDVMNGHAPYYR---KSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKV 376 (770)
Q Consensus 302 ~F~sg~pt--~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~---~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~ 376 (770)
+|++-.+- .|-|++...-..+...-|-|-. ..|.. .......+|.+.+.+++|.+ ||+......++++ .
T Consensus 237 v~~TD~~fH~agDg~l~gi~~pnd~~Chl~~~---~~y~~~~~~DYPSv~ql~~~l~e~~i~~-IFAVt~~~~~~Y~--~ 310 (426)
T PF00362_consen 237 VFSTDAGFHFAGDGKLAGIVKPNDGKCHLDDN---GMYTASTEQDYPSVGQLVRKLSENNINP-IFAVTKDVYSIYE--E 310 (426)
T ss_dssp EEEESS-B--TTGGGGGT--S---SS--BSTT---SBBGGGGCS----HHHHHHHHHHTTEEE-EEEEEGGGHHHHH--H
T ss_pred EEEcCCccccccccccceeeecCCCceEECCC---CcccccccccCCCHHHHHHHHHHcCCEE-EEEEchhhhhHHH--H
Confidence 99887665 6888887765555555554321 12221 23455678888888888865 7887777666543 2
Q ss_pred cccC-cceeEEEeCCCChhHHHHHHHHHhccCcccccceeeeEEEEEEE-cCCceEeeeecCccccccCCCCcCCCccCC
Q 004188 377 PVEK-SGGFIMIGETFESDQFRKCMRHIFGHDEEGNLKMYFDATIEVVT-TRDIKICGALGPCVSLKKKNNLVSDSETGE 454 (770)
Q Consensus 377 l~~~-TGG~v~~~~~f~~~~~~~~l~~~l~~~~~~~l~~~~~a~l~vr~-S~gl~v~~~~G~~~~~~k~~~~vsd~~~g~ 454 (770)
|+.. .|+.+-.... +.+..-+-++....+ ..-...++... ++++++ .+..++.....
T Consensus 311 L~~~i~~s~vg~L~~-dSsNIv~LI~~aY~~-------i~s~V~L~~~~~p~~v~v-~y~s~C~~~~~------------ 369 (426)
T PF00362_consen 311 LSNLIPGSSVGELSS-DSSNIVQLIKEAYNK-------ISSKVELKHDNAPDGVKV-SYTSNCPNGST------------ 369 (426)
T ss_dssp HHHHSTTEEEEEEST-TSHTHHHHHHHHHHH-------HCTEEEEEECS--TTEEE-EEEEEESSSEE------------
T ss_pred HhhcCCCceeccccc-CchhHHHHHHHHHHH-------HhheEEEEecCCCCcEEE-EEEEEccCCcc------------
Confidence 2222 3444444433 223333333332221 22344444322 445665 33334432110
Q ss_pred CCccceeeecCCCCceEEEEEEecc
Q 004188 455 GGTYMWKLNTLASKTCIAFFFQVSD 479 (770)
Q Consensus 455 g~t~~~~l~~~~~~~si~~~f~~~~ 479 (770)
....-...++....++.|.+.+.-
T Consensus 370 -~~~~~~C~~V~iG~~V~F~VtVta 393 (426)
T PF00362_consen 370 -VPGTNECSNVKIGDTVTFNVTVTA 393 (426)
T ss_dssp -EECCEEECSE-TT-EEEEEEEEEE
T ss_pred -cCcCccccCEecCCEEEEEEEEEE
Confidence 001134555666777777766664
No 65
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=92.33 E-value=0.2 Score=57.08 Aligned_cols=89 Identities=27% Similarity=0.320 Sum_probs=62.9
Q ss_pred cccccccCC---CCcccccccccccCCeeEEEeCCcEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHHHHHH-H
Q 004188 632 TLFQYSFDG---PPVPVLLDVRSISPDVILLFDSYFHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDAEQLV-A 707 (770)
Q Consensus 632 ~L~~~~~~~---~p~~v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~l~-~ 707 (770)
|||..+..| .-+||+|+..+|+|.-++|||.|.+||||-|..... .+-..++-+|..|- .
T Consensus 623 RlYrv~~~g~~i~lEPVpl~~tSLDPRf~FlLD~G~~IyiW~G~~s~~----------------t~~~KARLfAEkinK~ 686 (1255)
T KOG0444|consen 623 RLYRVGVNGTAIELEPVPLSVTSLDPRFCFLLDAGETIYIWSGYKSRI----------------TVSNKARLFAEKINKR 686 (1255)
T ss_pred hhheeccccceeEeeccCccccccCcceEEEEeCCceEEEEeccchhc----------------ccchHHHHHHHHhhhh
Confidence 444444333 347899999999999999999999999999975321 11112333444553 4
Q ss_pred cCCCCcEEEEEccCCChHHHHHHh-hCCCC
Q 004188 708 ERIPAPKIIKCDQHGSQARFLLAK-LNPSV 736 (770)
Q Consensus 708 ~R~~~p~~~~~~~g~~~~r~l~~~-L~~~~ 736 (770)
+|.-.--+..++||.-...|..+. -+|++
T Consensus 687 eRKgK~EI~l~rQg~e~pEFWqaLgg~p~e 716 (1255)
T KOG0444|consen 687 ERKGKSEIELCRQGREPPEFWQALGGNPDE 716 (1255)
T ss_pred hccCceeeehhhhcCCCHHHHHHhCCCCcc
Confidence 677788889999999888888876 44543
No 66
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=89.50 E-value=7.7 Score=37.78 Aligned_cols=131 Identities=17% Similarity=0.198 Sum_probs=80.8
Q ss_pred CcEEEEEEecCcchh-------HHHHHHHHHHHHhhcC---CCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCCh
Q 004188 147 GPAFVFVVDGCMEES-------EIRAVKHELLRVMEQL---PENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSS 216 (770)
Q Consensus 147 ~p~~vFvID~s~~~~-------~l~~~~~~i~~~l~~l---p~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~ 216 (770)
+-+.|.+||-|..+. ++++-++++...++.- .+...||||+-..+=
T Consensus 3 lEatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~------------------------ 58 (243)
T COG5148 3 LEATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQ------------------------ 58 (243)
T ss_pred cceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCC------------------------
Confidence 346789999988764 3777788877776532 234568888644210
Q ss_pred HhhhhhhcccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCC
Q 004188 217 EQIQHLMGIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNT 296 (770)
Q Consensus 217 ~~~~~~l~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~ 296 (770)
++ +++. ...-+..|...|..++- +...-++-+|+.|..+++. ..+.
T Consensus 59 ---p~--vlsT--------------------~T~~~gkilt~lhd~~~--------~g~a~~~~~lqiaql~lkh-R~nk 104 (243)
T COG5148 59 ---PN--VLST--------------------PTKQRGKILTFLHDIRL--------HGGADIMRCLQIAQLILKH-RDNK 104 (243)
T ss_pred ---cc--hhcc--------------------chhhhhHHHHHhccccc--------cCcchHHHHHHHHHHHHhc-ccCC
Confidence 11 1111 11112345555544432 1234588999999999983 2233
Q ss_pred C--cEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeec
Q 004188 297 G--SRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACS 365 (770)
Q Consensus 297 g--GkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~ 365 (770)
| -||++|.++|-.. +.+-.-.+|+++.+++++||+.-++
T Consensus 105 ~q~qriVaFvgSpi~e------------------------------sedeLirlak~lkknnVAidii~fG 145 (243)
T COG5148 105 GQRQRIVAFVGSPIQE------------------------------SEDELIRLAKQLKKNNVAIDIIFFG 145 (243)
T ss_pred ccceEEEEEecCcccc------------------------------cHHHHHHHHHHHHhcCeeEEEEehh
Confidence 4 7999999875211 1122336889999999999999877
No 67
>KOG0443 consensus Actin regulatory proteins (gelsolin/villin family) [Cytoskeleton]
Probab=88.34 E-value=0.9 Score=53.32 Aligned_cols=92 Identities=14% Similarity=0.208 Sum_probs=57.8
Q ss_pred ccccccccc--CCC--C--cccccccccccCCeeEEEeCC-cEEEEEEcCchhhHhhCCCCCCCcchhHHHHHhccHHHH
Q 004188 630 QPTLFQYSF--DGP--P--VPVLLDVRSISPDVILLFDSY-FHVVIHYGSKIAQWKKHGYDKDPNHENLRKLLEAPETDA 702 (770)
Q Consensus 630 yP~L~~~~~--~~~--p--~~v~ls~~~l~~~~iyllD~g-~~i~v~~G~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 702 (770)
.++||.++. .+. + ..-+|+.+-|+++.+|+||+| ..||||.|+.+.. . ++ +. ++.-|
T Consensus 254 ~~kLYkVsd~~g~l~v~~va~~~l~qdlLd~~dCYILD~g~~~IfVW~Gr~as~---------~--ER-ka----Am~~A 317 (827)
T KOG0443|consen 254 AAKLYKVSDASGGLKVPVVADGPLTKDLLDTEDCYILDCGGGEIFVWKGRQASL---------D--ER-KA----AMSSA 317 (827)
T ss_pred ccEEEEEeccCCCccccccccchhhHHhhccCCeEEEecCCceEEEEeCCCCCH---------H--HH-HH----HHHHH
Confidence 467888863 111 1 111277788899999999999 9999999997552 1 11 11 22334
Q ss_pred HHHH--HcCCCCcEEEEEccCCChH---HHHHHhhCCCCC
Q 004188 703 EQLV--AERIPAPKIIKCDQHGSQA---RFLLAKLNPSVT 737 (770)
Q Consensus 703 ~~l~--~~R~~~p~~~~~~~g~~~~---r~l~~~L~~~~~ 737 (770)
++.+ ..|.+.-.++.+.+|.-.+ ++|.+=..++.+
T Consensus 318 eeFlk~k~yP~~TqV~rv~EG~Esa~FKq~F~~W~~~~~t 357 (827)
T KOG0443|consen 318 EEFLKKKKYPPNTQVVRVLEGAESAPFKQLFDSWPDKDQT 357 (827)
T ss_pred HHHHHhccCCCCceEEEecCCCcchhHHHHHhhCcccccc
Confidence 4443 3456677888888887665 455555555544
No 68
>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=83.94 E-value=42 Score=33.44 Aligned_cols=111 Identities=11% Similarity=0.050 Sum_probs=64.3
Q ss_pred HHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhh-cccCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCC
Q 004188 253 FNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLE-GCSVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVM 331 (770)
Q Consensus 253 ~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~-~~~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~ 331 (770)
..+..+|+.+.-.. .+ ..++ .||..|+.-++ . .....--||+++.|--|.|-
T Consensus 75 ~~l~~~l~~~q~g~---ag--~~Ta--dAi~~av~rl~~~-~~a~~kvvILLTDG~n~~~~------------------- 127 (191)
T cd01455 75 ETLKMMHAHSQFCW---SG--DHTV--EATEFAIKELAAK-EDFDEAIVIVLSDANLERYG------------------- 127 (191)
T ss_pred HHHHHHHHhcccCc---cC--ccHH--HHHHHHHHHHHhc-CcCCCcEEEEEeCCCcCCCC-------------------
Confidence 45666666654321 22 2233 88988888885 3 22223356666666322110
Q ss_pred CCCCCcccchHHHHHHH-HHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCCChhHHHHHHHHHhc
Q 004188 332 NGHAPYYRKSCAFYKQL-SDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFESDQFRKCMRHIFG 405 (770)
Q Consensus 332 ~~~~~~~~~a~~fY~~l-a~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~~l~ 405 (770)
..| .+. +..+.+.||-|..+..+. .|-.++..+++.|||+-|...+ .+.+.+-++.+|+
T Consensus 128 ------i~P-----~~aAa~lA~~~gV~iytIgiG~--~d~~~l~~iA~~tgG~~F~A~d--~~~L~~iy~~I~~ 187 (191)
T cd01455 128 ------IQP-----KKLADALAREPNVNAFVIFIGS--LSDEADQLQRELPAGKAFVCMD--TSELPHIMQQIFT 187 (191)
T ss_pred ------CCh-----HHHHHHHHHhCCCEEEEEEecC--CCHHHHHHHHhCCCCcEEEeCC--HHHHHHHHHHHHH
Confidence 111 233 355667888777766654 2567788899999998776654 3456655555554
No 69
>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=83.86 E-value=4.3 Score=41.47 Aligned_cols=43 Identities=26% Similarity=0.340 Sum_probs=25.8
Q ss_pred EEEEEEecCcchhH--------HHHHHHHHHHHhhcC---CCCcEEEEEEECCE
Q 004188 149 AFVFVVDGCMEESE--------IRAVKHELLRVMEQL---PENALVGLVVFDSM 191 (770)
Q Consensus 149 ~~vFvID~s~~~~~--------l~~~~~~i~~~l~~l---p~~~~VglITf~~~ 191 (770)
+.+|+||++.++.+ ++.+.+++...+... .+...||+|.|++.
T Consensus 1 ~~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~ 54 (224)
T PF03731_consen 1 ATVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTD 54 (224)
T ss_dssp EEEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-S
T ss_pred CEEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCC
Confidence 46899999999763 445555555555432 23478999988853
No 70
>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=82.95 E-value=0.74 Score=35.81 Aligned_cols=33 Identities=30% Similarity=0.649 Sum_probs=24.6
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
++.|++|+.-=.-+-+-+...-+|+|+.|+..|
T Consensus 22 aLIC~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 22 ALICSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred eEECcccchhhcccccccCCceEEEcCCCCCcC
Confidence 567999998644443555556689999999887
No 71
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=81.87 E-value=28 Score=37.02 Aligned_cols=94 Identities=17% Similarity=0.189 Sum_probs=61.9
Q ss_pred cchHHHHHHHHHHhhcccCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHHHHHHHhC
Q 004188 276 RCTGAAISAAVGLLEGCSVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQLSDRLIKS 355 (770)
Q Consensus 276 ~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~la~~~~~~ 355 (770)
-.+-.||+.|...|+.--....-.|++..++..|.-||.+. + .-+.+.+.
T Consensus 143 fSLqNaLe~a~~~Lk~~p~H~sREVLii~sslsT~DPgdi~-----------------------------~-tI~~lk~~ 192 (378)
T KOG2807|consen 143 FSLQNALELAREVLKHMPGHVSREVLIIFSSLSTCDPGDIY-----------------------------E-TIDKLKAY 192 (378)
T ss_pred hHHHHHHHHHHHHhcCCCcccceEEEEEEeeecccCcccHH-----------------------------H-HHHHHHhh
Confidence 46778999999998821112223467777778888887433 2 23456677
Q ss_pred CcEEEEEeecCCccCcccccccccCcceeEEEeCCCChhHHHHHHHHHh
Q 004188 356 SIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFESDQFRKCMRHIF 404 (770)
Q Consensus 356 ~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~~l 404 (770)
.|-|.++..+. .+..-+.||+.||| .|+=..++..|++-|....
T Consensus 193 kIRvsvIgLsa---Ev~icK~l~kaT~G--~Y~V~lDe~HlkeLl~e~~ 236 (378)
T KOG2807|consen 193 KIRVSVIGLSA---EVFICKELCKATGG--RYSVALDEGHLKELLLEHT 236 (378)
T ss_pred CeEEEEEeech---hHHHHHHHHHhhCC--eEEEEeCHHHHHHHHHhcC
Confidence 88888887764 45566789999999 3444556666776665443
No 72
>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=80.58 E-value=1.6 Score=29.71 Aligned_cols=30 Identities=20% Similarity=0.512 Sum_probs=23.3
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
+.|..|+..+- .-.+...++|.+|+..|.+
T Consensus 2 ~~C~~C~t~L~----yP~gA~~vrCs~C~~vt~v 31 (31)
T TIGR01053 2 VVCGGCRTLLM----YPRGASSVRCALCQTVNLV 31 (31)
T ss_pred cCcCCCCcEee----cCCCCCeEECCCCCeEecC
Confidence 57999998763 3356789999999988753
No 73
>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=79.64 E-value=64 Score=34.25 Aligned_cols=85 Identities=19% Similarity=0.164 Sum_probs=55.3
Q ss_pred cchHHHHHHHHHHhhccc-------CCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHHH
Q 004188 276 RCTGAAISAAVGLLEGCS-------VNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQL 348 (770)
Q Consensus 276 ~~~G~Al~~A~~ll~~~~-------~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~l 348 (770)
+.+..||..|+-.+.-.. ....+||+++.++-+ |. ..+.-=+-+.
T Consensus 116 s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~--------------------d~--------~~QYi~~MN~ 167 (276)
T PF03850_consen 116 SLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP--------------------DS--------SSQYIPLMNC 167 (276)
T ss_pred hhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC--------------------Cc--------cHHHHHHHHH
Confidence 678888888887665221 134579999643311 10 0111122345
Q ss_pred HHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCC
Q 004188 349 SDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGET 390 (770)
Q Consensus 349 a~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~ 390 (770)
.-.|.+.+|.||++..+. -+..-+.+.+..|||.-...+.
T Consensus 168 iFaAqk~~v~IDv~~L~~--~~s~fLqQa~d~T~G~y~~~~~ 207 (276)
T PF03850_consen 168 IFAAQKQKVPIDVCKLGG--KDSTFLQQASDITGGIYLKVSK 207 (276)
T ss_pred HHHHhcCCceeEEEEecC--CchHHHHHHHHHhCceeeccCc
Confidence 667889999999999876 3555688999999997555554
No 74
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=79.24 E-value=1.6 Score=32.72 Aligned_cols=29 Identities=24% Similarity=0.590 Sum_probs=20.9
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
.+|.+|++-+- ++.....++|+.||....
T Consensus 4 y~C~~CG~~~~----~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 4 YKCARCGREVE----LDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EECCCCCCEEE----ECCCCCceECCCCCCeEE
Confidence 58999999542 333334799999997654
No 75
>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]
Probab=73.61 E-value=6 Score=45.70 Aligned_cols=52 Identities=15% Similarity=0.303 Sum_probs=36.2
Q ss_pred HHhhcccccccccC----CCCcc-----cccccccccCCeeEEEeCCcEEEEEEcCchhhH
Q 004188 626 LIMIQPTLFQYSFD----GPPVP-----VLLDVRSISPDVILLFDSYFHVVIHYGSKIAQW 677 (770)
Q Consensus 626 ~~~iyP~L~~~~~~----~~p~~-----v~ls~~~l~~~~iyllD~g~~i~v~~G~~v~~~ 677 (770)
-.--+|+||.+... +.|+- -.|-..-|.+.++|+||+...||||+|++...+
T Consensus 729 f~p~qpkLYkV~lGmGyLELPQvel~P~~~l~q~lL~sk~VyiLDc~sDiF~W~GkKs~RL 789 (1255)
T KOG0444|consen 729 FVPEQPKLYKVNLGMGYLELPQVELLPKGILKQDLLGSKGVYILDCNSDIFLWIGKKSNRL 789 (1255)
T ss_pred cCCCCcceEEEccccceeecchhhhchhhHHHHHhhcCCeEEEEecCCceEEEecccchHH
Confidence 45568999988531 23321 113334567899999999999999999976543
No 76
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.27 E-value=29 Score=36.77 Aligned_cols=99 Identities=18% Similarity=0.197 Sum_probs=62.3
Q ss_pred CCcchHHHHHHHHHHhhcc------cCCCCcEEEEEecCCCCCCCCccccccccccccCCCCCCCCCCCcccchHHHHHH
Q 004188 274 PQRCTGAAISAAVGLLEGC------SVNTGSRIMVFTSGPATMGPGIIVDTEFSKAIRNHGDVMNGHAPYYRKSCAFYKQ 347 (770)
Q Consensus 274 ~~~~~G~Al~~A~~ll~~~------~~~~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~s~~d~~~~~~~~~~~a~~fY~~ 347 (770)
....+..||..|+..+.-. .....+||+++..++ | ...+.-=+-+
T Consensus 117 ~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~---------------------~--------~~~qYi~~mn 167 (279)
T TIGR00627 117 SRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITP---------------------D--------MALQYIPLMN 167 (279)
T ss_pred ccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCC---------------------C--------chHHHHHHHH
Confidence 4566788888888877421 113468999998641 0 0011112236
Q ss_pred HHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCCChhHHHHHHHHHh
Q 004188 348 LSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETFESDQFRKCMRHIF 404 (770)
Q Consensus 348 la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~~l 404 (770)
....|.+.+|.||++..+.+ -+..-++++++.|||.-.... +...|.+-|...+
T Consensus 168 ~Ifaaqk~~I~Idv~~L~~e-~~~~~lqQa~~~TgG~Y~~~~--~~~~L~q~L~~~~ 221 (279)
T TIGR00627 168 CIFSAQKQNIPIDVVSIGGD-FTSGFLQQAADITGGSYLHVK--KPQGLLQYLMTNM 221 (279)
T ss_pred HHHHHHHcCceEEEEEeCCc-cccHHHHHHHHHhCCEEeccC--CHhHHHHHHHHhc
Confidence 67889999999999988653 346679999999999433233 3344555554333
No 77
>PRK10997 yieM hypothetical protein; Provisional
Probab=72.58 E-value=1e+02 Score=35.43 Aligned_cols=49 Identities=18% Similarity=0.208 Sum_probs=32.4
Q ss_pred EEEEEEecCcchh-HHHHHHHHHHHHhh--cCCCCcEEEEEEECCEEEEEEc
Q 004188 149 AFVFVVDGCMEES-EIRAVKHELLRVME--QLPENALVGLVVFDSMVYVHDL 197 (770)
Q Consensus 149 ~~vFvID~s~~~~-~l~~~~~~i~~~l~--~lp~~~~VglITf~~~V~~y~l 197 (770)
-+++|||+|.++. .-+....++..+|- .+.++-++++|.|++.+.-|.+
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 4779999999886 21222223444433 3467789999999988766544
No 78
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=70.26 E-value=10 Score=35.17 Aligned_cols=42 Identities=24% Similarity=0.324 Sum_probs=32.7
Q ss_pred EEEEecCcchhH--HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEE
Q 004188 151 VFVVDGCMEESE--IRAVKHELLRVMEQLPENALVGLVVFDSMVYV 194 (770)
Q Consensus 151 vFvID~s~~~~~--l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~ 194 (770)
+++||+|.+..+ ++.+...|...++.. +.+|-+|.||..|+-
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~--~~~v~vi~~D~~v~~ 45 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRF--PAEVHVIQFDAEVQD 45 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhC--CCCEEEEEECCEeee
Confidence 689999998743 777777777777777 456899999988853
No 79
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=65.24 E-value=4.2 Score=31.04 Aligned_cols=32 Identities=31% Similarity=0.680 Sum_probs=22.0
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
.|..|+..+-+- -..++..|+|+-|+..-.+.
T Consensus 2 FCp~Cg~~l~~~--~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 2 FCPKCGNMLIPK--EGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCccccc--cCCCCCEEECCcCCCeEECC
Confidence 599999976332 12223589999999876553
No 80
>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=60.96 E-value=4.5 Score=29.66 Aligned_cols=30 Identities=20% Similarity=0.501 Sum_probs=25.6
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
-||..|+....-...+.+ .....|+-||..
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~ 35 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISE-DDPVPCPECGST 35 (42)
T ss_pred EEeCCCCCEEEEEEEcCC-CCCCcCCCCCCC
Confidence 489999998888888877 668999999984
No 81
>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=60.74 E-value=5.5 Score=27.49 Aligned_cols=24 Identities=29% Similarity=0.930 Sum_probs=15.4
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
+|..|+=...+-. ..|+|+.|+..
T Consensus 3 ~C~~CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 3 VCPVCGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred ECCCCCCEECCCc------CCCcCcCCCCc
Confidence 5777775444432 46888888864
No 82
>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=58.37 E-value=5.1 Score=30.62 Aligned_cols=30 Identities=27% Similarity=0.739 Sum_probs=20.0
Q ss_pred cCCCCCeeEcCc-----------eEEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPY-----------GRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~-----------~~~~~~~~~w~C~~C~~~ 84 (770)
+|..|+=..+|- +.|.+-...|+|+.|+..
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCc
Confidence 688888666654 344444456999999864
No 83
>PRK03954 ribonuclease P protein component 4; Validated
Probab=58.26 E-value=6.7 Score=35.93 Aligned_cols=34 Identities=26% Similarity=0.528 Sum_probs=25.0
Q ss_pred cCCCCCeeEcC----ceEEecCC---CeEEecCCCCCCCCC
Q 004188 55 ICSKCGAVLNP----YGRVDYAS---RIWTCPFCYGKNPFP 88 (770)
Q Consensus 55 RC~~C~ayiNp----~~~~~~~~---~~w~C~~C~~~N~~p 88 (770)
-|.+|.+++=| -+++..+. -.++|..||+..-+|
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 49999999866 34444432 235999999998887
No 84
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=57.72 E-value=5.8 Score=36.01 Aligned_cols=27 Identities=26% Similarity=0.637 Sum_probs=19.5
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
-.||..|+.... .....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~------~~~~~~~CP~Cgs~~ 96 (113)
T PRK12380 70 QAWCWDCSQVVE------IHQHDAQCPHCHGER 96 (113)
T ss_pred EEEcccCCCEEe------cCCcCccCcCCCCCC
Confidence 378999995433 333568899999875
No 85
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=56.92 E-value=1.4e+02 Score=31.27 Aligned_cols=44 Identities=20% Similarity=0.146 Sum_probs=34.1
Q ss_pred HHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEEeCCC
Q 004188 345 YKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMIGETF 391 (770)
Q Consensus 345 Y~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~~~~f 391 (770)
|-+.--.|.+++|.||++....+ -..+.+.|..|||.-.+.++-
T Consensus 185 ~MNciFaAqKq~I~Idv~~l~~~---s~~LqQa~D~TGG~YL~v~~~ 228 (314)
T KOG2487|consen 185 YMNCIFAAQKQNIPIDVVSLGGD---SGFLQQACDITGGDYLHVEKP 228 (314)
T ss_pred HHHHHHHHHhcCceeEEEEecCC---chHHHHHHhhcCCeeEecCCc
Confidence 34555678899999999998876 345889999999987666654
No 86
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=56.69 E-value=6.5 Score=27.94 Aligned_cols=32 Identities=19% Similarity=0.427 Sum_probs=23.2
Q ss_pred ccCCCCCeeEcCc-eEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPY-GRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~N 85 (770)
++|.+|++-.+-= .++...|++-+|+-|++.-
T Consensus 3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 6788998866533 3455668889999998753
No 87
>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=56.50 E-value=14 Score=27.12 Aligned_cols=27 Identities=26% Similarity=0.413 Sum_probs=21.3
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
+|..|++- ...+|.....++|.-||..
T Consensus 2 ~Cp~Cg~~---~~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSK---EIVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSS---EEEEETTTTEEEETTT-BB
T ss_pred CCcCCcCC---ceEEcCCCCeEECCCCCCE
Confidence 69999993 3677877789999999976
No 88
>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=54.90 E-value=7.1 Score=35.57 Aligned_cols=27 Identities=26% Similarity=0.738 Sum_probs=19.9
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
-.+|.+|+....+ ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~------~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSP------EIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEec------CCcCccCcCCcCCC
Confidence 3789999965443 22368999999886
No 89
>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=54.28 E-value=1.1e+02 Score=30.99 Aligned_cols=121 Identities=15% Similarity=0.160 Sum_probs=67.4
Q ss_pred HHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEEecC--CCCCCCCccccccccccccCCCCC
Q 004188 253 FNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVFTSG--PATMGPGIIVDTEFSKAIRNHGDV 330 (770)
Q Consensus 253 ~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F~sg--~pt~GpG~l~~~~~~~~~~s~~d~ 330 (770)
..+..+-+.|...+. . ....++.|.||..|..++... +..+.|-++=.|| +.|.|+.
T Consensus 75 ~da~a~A~~l~~~~r--~-~~~~Taig~Al~~a~~ll~~~-~~~~~RrVIDvSGDG~~N~G~~----------------- 133 (205)
T PF06707_consen 75 ADAEAFAARLRAAPR--R-FGGRTAIGSALDFAAALLAQN-PFECWRRVIDVSGDGPNNQGPR----------------- 133 (205)
T ss_pred HHHHHHHHHHHhCCC--C-CCCCchHHHHHHHHHHHHHhC-CCCCceEEEEECCCCCCCCCCC-----------------
Confidence 445666677766642 2 223399999999999999841 2225555555544 3334432
Q ss_pred CCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCcc----CcccccccccCcceeEEEeCCCChhHHHHHHHHHhcc
Q 004188 331 MNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQV----GVAELKVPVEKSGGFIMIGETFESDQFRKCMRHIFGH 406 (770)
Q Consensus 331 ~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~----~l~~~~~l~~~TGG~v~~~~~f~~~~~~~~l~~~l~~ 406 (770)
|.. ..-..+...||.||=+......- +|...-.=+-.+|---|.-+.-+.+.|.+.++|-|.+
T Consensus 134 ---------p~~----~ard~~~~~GitINgL~I~~~~~~~~~~L~~yy~~~VIgGpgAFV~~a~~~~df~~AirrKL~r 200 (205)
T PF06707_consen 134 ---------PVT----SARDAAVAAGITINGLAILDDDPFGGADLDAYYRRCVIGGPGAFVETARGFEDFAEAIRRKLIR 200 (205)
T ss_pred ---------ccH----HHHHHHHHCCeEEeeeEecCCCCCccccHHHHHhhhcccCCCceEEEcCCHHHHHHHHHHHHHH
Confidence 111 12234556799999998876544 4443322222222222333333334688888877666
Q ss_pred C
Q 004188 407 D 407 (770)
Q Consensus 407 ~ 407 (770)
+
T Consensus 201 E 201 (205)
T PF06707_consen 201 E 201 (205)
T ss_pred H
Confidence 5
No 90
>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=53.37 E-value=7.3 Score=29.77 Aligned_cols=31 Identities=26% Similarity=0.648 Sum_probs=22.7
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
.||.+|+....-+..+.+ .....|+-|+..+
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~ 36 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSD-DPLATCPECGGEK 36 (52)
T ss_pred EEeCCCCCEeEEEEecCC-CCCCCCCCCCCCc
Confidence 389999987666655554 4568899999854
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=51.38 E-value=47 Score=40.13 Aligned_cols=115 Identities=15% Similarity=0.209 Sum_probs=67.2
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCcCCCCCCCCCCCccccCCCceEEEEecC-CCCCCCCCCcccccc
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPRSYSSIAETNLPAELFPTYSSVEYAAAH-DHLPNTLGSAKSFSS 131 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y~~~~~~~~~pEL~~~~~tvey~~~~-~y~~~~~~~~~~~~~ 131 (770)
+.+|.+|.+++ .+-...+.-+|..||+.-++|..- |+.. +.++-|..+. +.... ...
T Consensus 444 v~~Cp~Cd~~l----t~H~~~~~L~CH~Cg~~~~~p~~C---------p~Cg--s~~L~~~G~Gteriee--eL~----- 501 (730)
T COG1198 444 IAECPNCDSPL----TLHKATGQLRCHYCGYQEPIPQSC---------PECG--SEHLRAVGPGTERIEE--ELK----- 501 (730)
T ss_pred cccCCCCCcce----EEecCCCeeEeCCCCCCCCCCCCC---------CCCC--CCeeEEecccHHHHHH--HHH-----
Confidence 56677777653 445566899999999997776432 2332 2233332221 00000 000
Q ss_pred ccccccCCCCCCCCCCcEEEEEEecCcchhHHHHHHHHHHHH----------h-h--cCCCCcEEEEEEECCEEEEEEcC
Q 004188 132 MASFSSVSSGGGGVLGPAFVFVVDGCMEESEIRAVKHELLRV----------M-E--QLPENALVGLVVFDSMVYVHDLG 198 (770)
Q Consensus 132 ~~~~~~~~~~~~~~~~p~~vFvID~s~~~~~l~~~~~~i~~~----------l-~--~lp~~~~VglITf~~~V~~y~l~ 198 (770)
..-|..+++.|--|++.....++.+.+.+..- | + ..|.-+.||++-=|..++.-|+.
T Consensus 502 ----------~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfR 571 (730)
T COG1198 502 ----------RLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFR 571 (730)
T ss_pred ----------HHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcc
Confidence 12267788888888888777666555544321 0 1 23455899999999888776665
Q ss_pred C
Q 004188 199 F 199 (770)
Q Consensus 199 ~ 199 (770)
.
T Consensus 572 A 572 (730)
T COG1198 572 A 572 (730)
T ss_pred h
Confidence 4
No 92
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=49.98 E-value=7.2 Score=24.62 Aligned_cols=21 Identities=33% Similarity=0.896 Sum_probs=12.3
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
+|.+|++-+.+-.+| |+-||+
T Consensus 1 ~Cp~CG~~~~~~~~f--------C~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKF--------CPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcc--------hhhhCC
Confidence 477777755543333 666665
No 93
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=49.68 E-value=1e+02 Score=38.97 Aligned_cols=51 Identities=20% Similarity=0.306 Sum_probs=43.9
Q ss_pred CCCCcEEEEEEecCcchhH--HHHHHHHHHHHhhcCCCCcEEEEEEECCEEEE
Q 004188 144 GVLGPAFVFVVDGCMEESE--IRAVKHELLRVMEQLPENALVGLVVFDSMVYV 194 (770)
Q Consensus 144 ~~~~p~~vFvID~s~~~~~--l~~~~~~i~~~l~~lp~~~~VglITf~~~V~~ 194 (770)
...|--.+|++|+|++... +...+..+.++|+.|.++..|-++||++.++.
T Consensus 222 At~pKdiviLlD~SgSm~g~~~~lak~tv~~iLdtLs~~Dfvni~tf~~~~~~ 274 (1104)
T KOG2353|consen 222 ATSPKDIVILLDVSGSMSGLRLDLAKQTVNEILDTLSDNDFVNILTFNSEVNP 274 (1104)
T ss_pred cCCccceEEEEeccccccchhhHHHHHHHHHHHHhcccCCeEEEEeeccccCc
Confidence 3556678999999998754 78899999999999999999999999998854
No 94
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=49.56 E-value=8.7 Score=29.15 Aligned_cols=28 Identities=29% Similarity=0.803 Sum_probs=19.1
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
-+|.+|++-+ ..+....--.|+-||+.-
T Consensus 7 Y~C~~Cg~~~----~~~~~~~~irCp~Cg~rI 34 (49)
T COG1996 7 YKCARCGREV----ELDQETRGIRCPYCGSRI 34 (49)
T ss_pred EEhhhcCCee----ehhhccCceeCCCCCcEE
Confidence 3688888866 444455668888888763
No 95
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=49.34 E-value=9.9 Score=34.57 Aligned_cols=28 Identities=25% Similarity=0.652 Sum_probs=18.8
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
-.+|..|+.+...- ....|.||-||..+
T Consensus 70 ~~~C~~Cg~~~~~~-----~~~~~~CP~Cgs~~ 97 (114)
T PRK03681 70 ECWCETCQQYVTLL-----TQRVRRCPQCHGDM 97 (114)
T ss_pred EEEcccCCCeeecC-----CccCCcCcCcCCCC
Confidence 37899999633221 12238899999876
No 96
>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=49.19 E-value=19 Score=35.90 Aligned_cols=44 Identities=5% Similarity=0.136 Sum_probs=31.3
Q ss_pred EEEEEEecCcchh---------HHHHHHHHHHHHhhcCC--CCcEEEEEEECCEE
Q 004188 149 AFVFVVDGCMEES---------EIRAVKHELLRVMEQLP--ENALVGLVVFDSMV 192 (770)
Q Consensus 149 ~~vFvID~s~~~~---------~l~~~~~~i~~~l~~lp--~~~~VglITf~~~V 192 (770)
-++|+||.|.++. .++.+++++...+..++ +...+++++|++..
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~ 58 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCEEYDSDGITVYLFSGDF 58 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHHhcCCCCeEEEEecCCc
Confidence 4789999999985 35777777777666543 24568888886543
No 97
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=47.73 E-value=12 Score=26.53 Aligned_cols=31 Identities=19% Similarity=0.394 Sum_probs=20.5
Q ss_pred ccCCCCCeeEcCce-EEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPYG-RVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~~-~~~~~~~~w~C~~C~~~ 84 (770)
++|.+|++-.+-=- ++-..|++-+|.-|++.
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 57888887554332 24455778888888864
No 98
>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=47.10 E-value=10 Score=27.18 Aligned_cols=29 Identities=28% Similarity=0.705 Sum_probs=21.9
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
.||..|+..+.....+.. +....|+-||.
T Consensus 6 y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 6 YRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 389999997766665544 56788999997
No 99
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=46.94 E-value=14 Score=34.56 Aligned_cols=35 Identities=31% Similarity=0.610 Sum_probs=24.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCcC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPRS 90 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~ 90 (770)
++|--|+.. .-...+...+.|.|+-|+..|.+..+
T Consensus 1 v~C~fC~~~--s~~~~~~~~~~w~C~~C~q~N~f~e~ 35 (131)
T PF09779_consen 1 VNCWFCGQN--SKVPYDNRNSNWTCPHCEQYNGFDED 35 (131)
T ss_pred CeeccCCCC--CCCCCCCCCCeeECCCCCCccCcccc
Confidence 468888764 23333444556999999999988643
No 100
>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=46.72 E-value=3.4e+02 Score=27.85 Aligned_cols=106 Identities=13% Similarity=0.145 Sum_probs=61.3
Q ss_pred HHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhccc--CC------CCcEEEEEecCCCCCCCCcccccccccccc
Q 004188 254 NVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCS--VN------TGSRIMVFTSGPATMGPGIIVDTEFSKAIR 325 (770)
Q Consensus 254 ~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~--~~------~gGkI~~F~sg~pt~GpG~l~~~~~~~~~~ 325 (770)
.+...|++|+-... +.....+..-+|..|+.++.... +. .--+.|+.+.++|..=|= .
T Consensus 91 ~fl~~L~~I~f~GG---G~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p~----~------- 156 (226)
T PF11265_consen 91 KFLQWLDAIQFSGG---GFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLPV----N------- 156 (226)
T ss_pred HHHHHHHccCcCCC---CcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCccccc----c-------
Confidence 34556666654432 22222336777888888776211 01 113556677777744331 1
Q ss_pred CCCCCCCCCCCcccchHHHHHHHHHHHHhCCcEEEEEeecCCccCcccccccccCcceeEEE
Q 004188 326 NHGDVMNGHAPYYRKSCAFYKQLSDRLIKSSIVLDLFACSLDQVGVAELKVPVEKSGGFIMI 387 (770)
Q Consensus 326 s~~d~~~~~~~~~~~a~~fY~~la~~~~~~~isvdlf~~~~~~~~l~~~~~l~~~TGG~v~~ 387 (770)
+.. .-....+++++..+.+.+|.+.+++ + . -+..+..|-+..+|....
T Consensus 157 -------~~~---~~~~~~~d~la~~~~~~~I~LSiis-P-r--klP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 157 -------ECP---QYSGKTCDQLAVLISERNISLSIIS-P-R--KLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred -------CCC---cccCCCHHHHHHHHHhcCceEEEEc-C-c--cCHHHHHHHHhcCCCccc
Confidence 001 1123467899999999999999884 2 2 556677777777776544
No 101
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.23 E-value=9.6 Score=34.93 Aligned_cols=31 Identities=19% Similarity=0.732 Sum_probs=21.9
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
..-.|.+|++-+.--+ +.-+|+||+|...-.
T Consensus 88 q~r~CARCGGrv~lrs----NKv~wvcnlc~k~q~ 118 (169)
T KOG3799|consen 88 QTRFCARCGGRVSLRS----NKVMWVCNLCRKQQE 118 (169)
T ss_pred hhhHHHhcCCeeeecc----CceEEeccCCcHHHH
Confidence 3445899999765432 345799999987654
No 102
>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=45.40 E-value=9.1 Score=29.17 Aligned_cols=33 Identities=27% Similarity=0.523 Sum_probs=22.9
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
-+||.+|+-.+--.-.+. .-.-+|+=|++.|.+
T Consensus 4 eiRC~~CnklLa~~g~~~--~leIKCpRC~tiN~~ 36 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVI--ELEIKCPRCKTINHV 36 (51)
T ss_pred ceeccchhHHHhhhcCcc--EEEEECCCCCccceE
Confidence 379999987654422222 124899999999987
No 103
>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=45.37 E-value=11 Score=34.56 Aligned_cols=32 Identities=22% Similarity=0.500 Sum_probs=26.2
Q ss_pred CccCCCCCeeEcCceEEec-CCCeEEecCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDY-ASRIWTCPFCYGK 84 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~-~~~~w~C~~C~~~ 84 (770)
...|..|+-.+..-|.+.. ....|.|++|...
T Consensus 71 ~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 71 GRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred CCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence 3689999999988888874 4679999999754
No 104
>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=44.72 E-value=23 Score=22.95 Aligned_cols=24 Identities=21% Similarity=0.517 Sum_probs=15.1
Q ss_pred CCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 56 CSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 56 C~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
|.+|+..+. .-.+...++|..|++
T Consensus 1 C~~Cr~~L~----yp~GA~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLM----YPRGAPSVRCACCHT 24 (25)
T ss_pred CCCCCceEE----cCCCCCCeECCccCc
Confidence 566766542 234566788888865
No 105
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=44.54 E-value=23 Score=24.52 Aligned_cols=29 Identities=31% Similarity=0.455 Sum_probs=20.2
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
+.+|..|++-. -+........|.+|+...
T Consensus 3 ~~~C~~C~~~~----i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 3 LKKCSKCGGNG----IVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred ceEcCCCCCCe----EEEecCCeEEcccCCcEe
Confidence 56899998854 231334579999999764
No 106
>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=43.86 E-value=7 Score=29.46 Aligned_cols=30 Identities=30% Similarity=0.762 Sum_probs=14.7
Q ss_pred cCCCCCeeEcCce-----------EEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPYG-----------RVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~~-----------~~~~~~~~w~C~~C~~~ 84 (770)
+|..|+-..+|-- .|++--..|+|+.|+..
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 5667765544433 23333445888888754
No 107
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=43.62 E-value=9.4 Score=26.66 Aligned_cols=30 Identities=23% Similarity=0.414 Sum_probs=14.7
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
.|..|++-+.--.--.++..+|+|+-|+..
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 488888865433332345578999998864
No 108
>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=43.31 E-value=43 Score=34.19 Aligned_cols=45 Identities=18% Similarity=0.205 Sum_probs=28.2
Q ss_pred CCCc-EEEEEEecCcchhHHHHHHHHHHHHh-hcCCCCcEEEEEEECCEE
Q 004188 145 VLGP-AFVFVVDGCMEESEIRAVKHELLRVM-EQLPENALVGLVVFDSMV 192 (770)
Q Consensus 145 ~~~p-~~vFvID~s~~~~~l~~~~~~i~~~l-~~lp~~~~VglITf~~~V 192 (770)
+..| -+|+++|+|.++.....+.-.+..++ ...+ ++.++.|++.+
T Consensus 54 ~~~~~~lvvl~DvSGSM~~~s~~~l~~~~~l~~~~~---~~~~f~F~~~l 100 (222)
T PF05762_consen 54 PRKPRRLVVLCDVSGSMAGYSEFMLAFLYALQRQFR---RVRVFVFSTRL 100 (222)
T ss_pred cCCCccEEEEEeCCCChHHHHHHHHHHHHHHHHhCC---CEEEEEEeeeh
Confidence 4445 89999999999987433333333333 2333 67777777654
No 109
>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=42.28 E-value=18 Score=29.43 Aligned_cols=28 Identities=29% Similarity=0.661 Sum_probs=22.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
-.|..|+...-- ...++.|+|+-||..-
T Consensus 29 q~C~~CG~~~~~----~~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 29 QTCPRCGHRNKK----RRSGRVFTCPNCGFEM 56 (69)
T ss_pred cCccCccccccc----ccccceEEcCCCCCEE
Confidence 479999987666 5567899999999873
No 110
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=41.77 E-value=14 Score=36.20 Aligned_cols=25 Identities=32% Similarity=0.684 Sum_probs=20.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
.||++|++-|=+ .+++.+|+-|+..
T Consensus 150 A~CsrC~~~L~~------~~~~l~Cp~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK------KGNMLKCPNCGNT 174 (188)
T ss_pred EEccCCCcceEE------cCcEEECCCCCCE
Confidence 689999996543 4779999999975
No 111
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=41.50 E-value=11 Score=34.58 Aligned_cols=29 Identities=31% Similarity=0.572 Sum_probs=18.4
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
..||..|+.+..+- . ...+.||-||..+.
T Consensus 71 ~~~C~~Cg~~~~~~----~-~~~~~CP~Cgs~~~ 99 (117)
T PRK00564 71 ELECKDCSHVFKPN----A-LDYGVCEKCHSKNV 99 (117)
T ss_pred EEEhhhCCCccccC----C-ccCCcCcCCCCCce
Confidence 47899999543221 1 12345999998863
No 112
>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=39.89 E-value=24 Score=22.58 Aligned_cols=24 Identities=29% Similarity=0.782 Sum_probs=17.3
Q ss_pred CCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 56 CSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 56 C~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
|.+|+.-|-|--+ +..|.|+=||.
T Consensus 1 C~sC~~~i~~r~~----~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQ----AVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCccc----CceEeCCCCCC
Confidence 7778777766543 55799999874
No 113
>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=38.93 E-value=38 Score=25.23 Aligned_cols=27 Identities=22% Similarity=0.650 Sum_probs=19.2
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
+.|.+|++- -+..+.. ...|.|.-|++
T Consensus 19 ~~CP~Cg~~--~~~~~~~-~~~~~C~~C~~ 45 (46)
T PF12760_consen 19 FVCPHCGST--KHYRLKT-RGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCe--eeEEeCC-CCeEECCCCCC
Confidence 669999987 2333332 56899999985
No 114
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=38.74 E-value=16 Score=27.87 Aligned_cols=25 Identities=24% Similarity=0.692 Sum_probs=18.1
Q ss_pred ccCCCCCe-eEcCceEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGA-VLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~a-yiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
..|.+|++ ++-+. ..+|.|.=|+..
T Consensus 21 ~fCP~Cg~~~m~~~------~~r~~C~~Cgyt 46 (50)
T PRK00432 21 KFCPRCGSGFMAEH------LDRWHCGKCGYT 46 (50)
T ss_pred CcCcCCCcchhecc------CCcEECCCcCCE
Confidence 36999998 44443 257999999864
No 115
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=38.64 E-value=17 Score=29.31 Aligned_cols=23 Identities=26% Similarity=0.619 Sum_probs=17.2
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
-|.+|+.... .. +|+.||..+..
T Consensus 7 AC~~C~~i~~--------~~--~Cp~Cgs~~~S 29 (64)
T PRK06393 7 ACKKCKRLTP--------EK--TCPVHGDEKTT 29 (64)
T ss_pred hHhhCCcccC--------CC--cCCCCCCCcCC
Confidence 5999998763 21 89999998544
No 116
>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=38.22 E-value=20 Score=34.11 Aligned_cols=33 Identities=27% Similarity=0.622 Sum_probs=22.2
Q ss_pred CccCCCCCeeEcCceE-----------EecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGR-----------VDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~-----------~~~~~~~w~C~~C~~~N 85 (770)
.-||..|.+-+-+-.+ +......|+|+-|++.-
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 4799999995433221 11235689999999874
No 117
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=37.50 E-value=27 Score=25.94 Aligned_cols=26 Identities=23% Similarity=0.478 Sum_probs=17.0
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
+|.+|++-+..- .+..-+|+-||+.-
T Consensus 4 ~C~~Cg~~~~~~-----~~~~irC~~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIK-----SKDVVRCRECGYRI 29 (44)
T ss_pred ECCCCCCEeecC-----CCCceECCCCCceE
Confidence 678888755432 24567888888763
No 118
>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=36.93 E-value=23 Score=25.07 Aligned_cols=31 Identities=13% Similarity=0.322 Sum_probs=15.3
Q ss_pred ccCCCCCeeEcCc-eEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPY-GRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~ 84 (770)
+.|.+|++-..-- -.+...+...+|+-|++.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~ 34 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHV 34 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCE
Confidence 4577777632111 112223446677777654
No 119
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.91 E-value=19 Score=33.83 Aligned_cols=33 Identities=21% Similarity=0.456 Sum_probs=20.3
Q ss_pred CccCCCCCeeEcCce-------------EEecC--CCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYG-------------RVDYA--SRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~-------------~~~~~--~~~w~C~~C~~~N 85 (770)
..+|..|+....+-- .+.+. ...|.||-||..+
T Consensus 70 ~~~C~~CG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CP~Cgs~~ 117 (135)
T PRK03824 70 VLKCRNCGNEWSLKEVKESLDEEIREAIHFIPEVVHAFLKCPKCGSRD 117 (135)
T ss_pred EEECCCCCCEEecccccccccccccccccccccccccCcCCcCCCCCC
Confidence 378999996554431 01110 3458899999875
No 120
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=35.91 E-value=16 Score=33.73 Aligned_cols=33 Identities=24% Similarity=0.522 Sum_probs=19.7
Q ss_pred CccCCCCCeeEcCc-eEEecCCCeEEecCCCCCCC
Q 004188 53 PLICSKCGAVLNPY-GRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 53 p~RC~~C~ayiNp~-~~~~~~~~~w~C~~C~~~N~ 86 (770)
-.|| .|+.+..+- ...+.-.-.|.||-||..+.
T Consensus 70 ~~~C-~Cg~~~~~~~~~~~~~~~~~~CP~Cgs~~~ 103 (124)
T PRK00762 70 EIEC-ECGYEGVVDEDEIDHYAAVIECPVCGNKRA 103 (124)
T ss_pred eEEe-eCcCcccccccchhccccCCcCcCCCCCCC
Confidence 3789 999765432 11111111378999997763
No 121
>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=35.89 E-value=32 Score=30.67 Aligned_cols=28 Identities=29% Similarity=0.553 Sum_probs=20.2
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
.+.|.+|.+ -|.--+ |..|+|+-|++.-
T Consensus 2 lp~CP~C~s---eytY~d--g~~~iCpeC~~EW 29 (109)
T TIGR00686 2 LPPCPKCNS---EYTYHD--GTQLICPSCLYEW 29 (109)
T ss_pred CCcCCcCCC---cceEec--CCeeECccccccc
Confidence 467888986 344333 5689999999874
No 122
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=35.59 E-value=34 Score=31.98 Aligned_cols=31 Identities=32% Similarity=0.746 Sum_probs=26.9
Q ss_pred ccCCCCCeeEcCceEEecCCCeE--EecCCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIW--TCPFCYGKNPF 87 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w--~C~~C~~~N~~ 87 (770)
+-|..|+. |=..+...++.| +|.-||..-++
T Consensus 98 VlC~~C~s---PdT~l~k~~r~~~l~C~ACGa~~~v 130 (133)
T TIGR00311 98 VICRECNR---PDTRIIKEGRVSLLKCEACGAKAPL 130 (133)
T ss_pred EECCCCCC---CCcEEEEeCCeEEEecccCCCCCcc
Confidence 78999997 888888878876 89999998776
No 123
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=35.42 E-value=23 Score=28.32 Aligned_cols=24 Identities=21% Similarity=0.656 Sum_probs=17.6
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
-|.+|+..+. .. +|+.|+...-..
T Consensus 5 AC~~C~~i~~--------~~--~CP~Cgs~~~T~ 28 (61)
T PRK08351 5 ACRHCHYITT--------ED--RCPVCGSRDLSD 28 (61)
T ss_pred hhhhCCcccC--------CC--cCCCCcCCcccc
Confidence 5999998773 11 699999987443
No 124
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=34.93 E-value=2e+02 Score=32.52 Aligned_cols=101 Identities=21% Similarity=0.188 Sum_probs=60.2
Q ss_pred CcEEEEEEecCcchhH-HHHHHHHHHHHhh--cCCCCcEEEEEEECCEEEEEEcCCCCceeeeeecCCccCChHhhhhhh
Q 004188 147 GPAFVFVVDGCMEESE-IRAVKHELLRVME--QLPENALVGLVVFDSMVYVHDLGFSECCRVLVFHGGRELSSEQIQHLM 223 (770)
Q Consensus 147 ~p~~vFvID~s~~~~~-l~~~~~~i~~~l~--~lp~~~~VglITf~~~V~~y~l~~~~~~~~~v~~g~~~~~~~~~~~~l 223 (770)
+|+ +.+||.|+++.= -+....++..+|- .+-+|.++.++.||+.++=|.+...
T Consensus 273 Gpv-illlD~SGSM~G~~e~~AKAvalAl~~~alaenR~~~~~lF~s~~~~~el~~k----------------------- 328 (437)
T COG2425 273 GPV-ILLLDKSGSMSGFKEQWAKAVALALMRIALAENRDCYVILFDSEVIEYELYEK----------------------- 328 (437)
T ss_pred CCE-EEEEeCCCCcCCcHHHHHHHHHHHHHHHHHHhccceEEEEecccceeeeecCC-----------------------
Confidence 454 589999999853 2222223433332 3567899999999993322222110
Q ss_pred cccccccccCCCCCCCCCCcceEechhcHHHHHHHHHHhhcccCCCCCCCCCcchHHHHHHHHHHhhcccCCCCcEEEEE
Q 004188 224 GIRCAKQHQLGKTPVIQKQGFLLPVSECEFNVTTAIEEINSLTQRTPGHRPQRCTGAAISAAVGLLEGCSVNTGSRIMVF 303 (770)
Q Consensus 224 ~v~d~~~~~~~~~~~~~~~~~l~~~~e~~~~i~~ll~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~~~~gGkI~~F 303 (770)
.. .+..+++.|...+. ..+-+-.||..|+..++... -.++.|++-
T Consensus 329 ------------------------~~----~~~e~i~fL~~~f~------GGTD~~~~l~~al~~~k~~~-~~~adiv~I 373 (437)
T COG2425 329 ------------------------KI----DIEELIEFLSYVFG------GGTDITKALRSALEDLKSRE-LFKADIVVI 373 (437)
T ss_pred ------------------------cc----CHHHHHHHHhhhcC------CCCChHHHHHHHHHHhhccc-ccCCCEEEE
Confidence 00 12345555555442 22567788888888887322 345899999
Q ss_pred ecC
Q 004188 304 TSG 306 (770)
Q Consensus 304 ~sg 306 (770)
|+|
T Consensus 374 TDg 376 (437)
T COG2425 374 TDG 376 (437)
T ss_pred ecc
Confidence 987
No 125
>PRK12860 transcriptional activator FlhC; Provisional
Probab=34.84 E-value=19 Score=35.63 Aligned_cols=28 Identities=18% Similarity=0.585 Sum_probs=19.9
Q ss_pred CCccCCCCCeeEcCce-EEecCCCeEEecCCC
Q 004188 52 DPLICSKCGAVLNPYG-RVDYASRIWTCPFCY 82 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~-~~~~~~~~w~C~~C~ 82 (770)
...+|..|++ .|+ ...+....++|++|+
T Consensus 133 ~l~~C~~Cgg---~fv~~~~e~~~~f~CplC~ 161 (189)
T PRK12860 133 QLARCCRCGG---KFVTHAHDLRHNFVCGLCQ 161 (189)
T ss_pred eeccCCCCCC---CeeccccccCCCCcCCCCC
Confidence 4688999997 333 222445689999999
No 126
>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=34.78 E-value=38 Score=24.00 Aligned_cols=26 Identities=23% Similarity=0.522 Sum_probs=19.6
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
.+|..|++. +...+ ...|.|.=||+.
T Consensus 9 ~~C~~C~~~---~~~~~--dG~~yC~~cG~~ 34 (36)
T PF11781_consen 9 EPCPVCGSR---WFYSD--DGFYYCDRCGHQ 34 (36)
T ss_pred CcCCCCCCe---EeEcc--CCEEEhhhCceE
Confidence 569999998 44444 347999999875
No 127
>PRK12722 transcriptional activator FlhC; Provisional
Probab=34.61 E-value=20 Score=35.54 Aligned_cols=30 Identities=17% Similarity=0.462 Sum_probs=20.7
Q ss_pred CCccCCCCCeeEcCce-EEecCCCeEEecCCCCC
Q 004188 52 DPLICSKCGAVLNPYG-RVDYASRIWTCPFCYGK 84 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~-~~~~~~~~w~C~~C~~~ 84 (770)
...+|..|++ .|+ ...+....++|++|+-.
T Consensus 133 ~l~~C~~Cgg---~fv~~~~e~~~~f~CplC~~p 163 (187)
T PRK12722 133 QLSSCNCCGG---HFVTHAHDPVGSFVCGLCQPP 163 (187)
T ss_pred eeccCCCCCC---CeeccccccCCCCcCCCCCCc
Confidence 4678999997 333 22234568999999873
No 128
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=34.07 E-value=22 Score=35.31 Aligned_cols=37 Identities=27% Similarity=0.512 Sum_probs=24.1
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCcC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPRS 90 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~ 90 (770)
+.|++|.-==+-+.--..+-..|+|++|++.|..|..
T Consensus 193 lIC~~C~hhngl~~~~ek~~~efiC~~Cn~~n~~~~~ 229 (251)
T COG5415 193 LICPQCHHHNGLYRLAEKPIIEFICPHCNHKNDEVKE 229 (251)
T ss_pred hccccccccccccccccccchheecccchhhcCcccc
Confidence 5677776443333333334457999999999987643
No 129
>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=33.87 E-value=18 Score=29.36 Aligned_cols=30 Identities=20% Similarity=0.443 Sum_probs=20.3
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
+.|| .|+.|+ --+++.+.-+| .||+...+-
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 799865 45677789999 999987763
No 130
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=33.09 E-value=39 Score=27.30 Aligned_cols=33 Identities=30% Similarity=0.497 Sum_probs=25.7
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
-++|..|+ |--+-|......-+|+.||..=--|
T Consensus 19 ~VkCpdC~---N~q~vFshast~V~C~~CG~~l~~P 51 (67)
T COG2051 19 RVKCPDCG---NEQVVFSHASTVVTCLICGTTLAEP 51 (67)
T ss_pred EEECCCCC---CEEEEeccCceEEEecccccEEEec
Confidence 37899998 4667777778899999999875433
No 131
>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=32.98 E-value=20 Score=23.39 Aligned_cols=23 Identities=30% Similarity=0.648 Sum_probs=16.1
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
+|..|++-|+- ..-.|+.||+.-
T Consensus 2 ~CP~C~~~V~~--------~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--------SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--------hcCcCCCCCCCC
Confidence 58888887732 246788888753
No 132
>PF12773 DZR: Double zinc ribbon
Probab=32.98 E-value=26 Score=26.38 Aligned_cols=35 Identities=29% Similarity=0.597 Sum_probs=26.1
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCcCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPRSY 91 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~~y 91 (770)
+-..|.+|++-+. ......+.|+-|++.|.....|
T Consensus 11 ~~~fC~~CG~~l~-----~~~~~~~~C~~Cg~~~~~~~~f 45 (50)
T PF12773_consen 11 DAKFCPHCGTPLP-----PPDQSKKICPNCGAENPPNAKF 45 (50)
T ss_pred cccCChhhcCChh-----hccCCCCCCcCCcCCCcCCcCc
Confidence 4468999999887 3445679999999987654444
No 133
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=32.60 E-value=41 Score=26.38 Aligned_cols=34 Identities=32% Similarity=0.579 Sum_probs=23.4
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC--CcCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF--PRSYSSIA 95 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~--p~~y~~~~ 95 (770)
.+-+|.+|+.|== .=+|+.||..+.. |..|++.|
T Consensus 4 ~mr~C~~CgvYTL----------k~~CP~CG~~t~~~~P~rfSp~D 39 (56)
T PRK13130 4 KIRKCPKCGVYTL----------KEICPVCGGKTKNPHPPRFSPED 39 (56)
T ss_pred cceECCCCCCEEc----------cccCcCCCCCCCCCCCCCCCCCC
Confidence 3567999999732 4689999987654 45555433
No 134
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=32.01 E-value=36 Score=23.46 Aligned_cols=29 Identities=17% Similarity=0.454 Sum_probs=17.7
Q ss_pred cCCCCCeeEcCc-eEEecCCCe-----EEecCCCC
Q 004188 55 ICSKCGAVLNPY-GRVDYASRI-----WTCPFCYG 83 (770)
Q Consensus 55 RC~~C~ayiNp~-~~~~~~~~~-----w~C~~C~~ 83 (770)
||..|+-.|-+- ..+...++. |.|..|+.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf~C~~C~~ 35 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECFKCSKCGK 35 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCCCCcccCC
Confidence 688888888774 333333444 46666664
No 135
>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=31.46 E-value=12 Score=34.06 Aligned_cols=26 Identities=27% Similarity=0.692 Sum_probs=17.2
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
.||..|+.-..+-- ..+.||.|+..+
T Consensus 71 ~~C~~Cg~~~~~~~------~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 71 ARCRDCGHEFEPDE------FDFSCPRCGSPD 96 (113)
T ss_dssp EEETTTS-EEECHH------CCHH-SSSSSS-
T ss_pred EECCCCCCEEecCC------CCCCCcCCcCCC
Confidence 78999998655432 347799999986
No 136
>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=30.93 E-value=22 Score=34.90 Aligned_cols=28 Identities=25% Similarity=0.699 Sum_probs=10.8
Q ss_pred CccCCCCCeeEcCceEEecC-CCeEEecCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYA-SRIWTCPFCYG 83 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~-~~~w~C~~C~~ 83 (770)
..+|.+|++ .|+.-..+ ...++|+||+-
T Consensus 134 l~~C~~C~~---~fv~~~~~~~~~~~Cp~C~~ 162 (175)
T PF05280_consen 134 LAPCRRCGG---HFVTHAHDPRHSFVCPFCQP 162 (175)
T ss_dssp EEE-TTT-----EEEEESS--SS----TT---
T ss_pred ccCCCCCCC---CeECcCCCCCcCcCCCCCCC
Confidence 578999997 44443222 56799999993
No 137
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=30.61 E-value=62 Score=34.57 Aligned_cols=28 Identities=14% Similarity=0.358 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEEC
Q 004188 162 EIRAVKHELLRVMEQLPENALVGLVVFD 189 (770)
Q Consensus 162 ~l~~~~~~i~~~l~~lp~~~~VglITf~ 189 (770)
||+.+.++|.++++.|.++.|+++|||-
T Consensus 219 EL~~L~~~L~~a~~~L~~gGRl~VIsFH 246 (314)
T COG0275 219 ELEELEEALEAALDLLKPGGRLAVISFH 246 (314)
T ss_pred HHHHHHHHHHHHHHhhCCCcEEEEEEec
Confidence 5889999999999999999999999875
No 138
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=29.95 E-value=22 Score=28.03 Aligned_cols=12 Identities=42% Similarity=0.717 Sum_probs=7.1
Q ss_pred CCeEEecCCCCC
Q 004188 73 SRIWTCPFCYGK 84 (770)
Q Consensus 73 ~~~w~C~~C~~~ 84 (770)
+..++|+-||..
T Consensus 46 ~~~Y~CP~CGF~ 57 (59)
T PRK14890 46 SNPYTCPKCGFE 57 (59)
T ss_pred CCceECCCCCCc
Confidence 445667766654
No 139
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=29.07 E-value=32 Score=26.46 Aligned_cols=32 Identities=25% Similarity=0.343 Sum_probs=26.7
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
+.+|.+|+.--.|..+-...|..-.||-|+-.
T Consensus 3 ~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~ 34 (52)
T smart00401 3 GRSCSNCGTTETPLWRRGPSGNKTLCNACGLY 34 (52)
T ss_pred CCCcCCCCCCCCCccccCCCCCCcEeecccHH
Confidence 56899999988888887777777899999854
No 140
>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=28.89 E-value=29 Score=20.99 Aligned_cols=11 Identities=27% Similarity=0.794 Sum_probs=6.4
Q ss_pred EEecCCCCCCC
Q 004188 76 WTCPFCYGKNP 86 (770)
Q Consensus 76 w~C~~C~~~N~ 86 (770)
|.|++|+....
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 78888887643
No 141
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=28.60 E-value=28 Score=29.85 Aligned_cols=34 Identities=24% Similarity=0.510 Sum_probs=23.6
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCc
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPR 89 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~ 89 (770)
.|+||++|+=-.++ -++ ..--+|+-|++.---++
T Consensus 57 ~Pa~CkkCGfef~~-~~i---k~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 57 RPARCKKCGFEFRD-DKI---KKPSRCPKCKSEWIEEP 90 (97)
T ss_pred cChhhcccCccccc-ccc---CCcccCCcchhhcccCC
Confidence 58999999976666 222 33468999998754443
No 142
>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=28.36 E-value=18 Score=24.16 Aligned_cols=16 Identities=50% Similarity=0.962 Sum_probs=13.0
Q ss_pred eEEecCCCCCCCCCcC
Q 004188 75 IWTCPFCYGKNPFPRS 90 (770)
Q Consensus 75 ~w~C~~C~~~N~~p~~ 90 (770)
.|.|+.|...|..-..
T Consensus 4 ~W~C~~C~~~N~~~~~ 19 (30)
T PF00641_consen 4 DWKCPSCTFMNPASRS 19 (30)
T ss_dssp SEEETTTTEEEESSSS
T ss_pred CccCCCCcCCchHHhh
Confidence 7999999999975433
No 143
>PHA00626 hypothetical protein
Probab=28.27 E-value=56 Score=25.48 Aligned_cols=30 Identities=27% Similarity=0.403 Sum_probs=18.5
Q ss_pred cCCCCCe---eEcCceEEecCCCeEEecCCCCCCC
Q 004188 55 ICSKCGA---VLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 55 RC~~C~a---yiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
.|.+|+. +-|..|+- ....|+|+-||..-.
T Consensus 2 ~CP~CGS~~Ivrcg~cr~--~snrYkCkdCGY~ft 34 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRG--WSDDYVCCDCGYNDS 34 (59)
T ss_pred CCCCCCCceeeeeceecc--cCcceEcCCCCCeec
Confidence 3667766 22333322 256899999998764
No 144
>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=28.14 E-value=37 Score=30.08 Aligned_cols=27 Identities=30% Similarity=0.876 Sum_probs=21.6
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
.|.+|++.|.|- +..|.|+-|+.....
T Consensus 2 fC~~Cg~~l~~~------~~~~~C~~C~~~~~~ 28 (104)
T TIGR01384 2 FCPKCGSLMTPK------NGVYVCPSCGYEKEK 28 (104)
T ss_pred CCcccCcccccC------CCeEECcCCCCcccc
Confidence 599999999652 347999999987554
No 145
>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=27.51 E-value=22 Score=27.18 Aligned_cols=18 Identities=22% Similarity=0.776 Sum_probs=7.3
Q ss_pred ceEEecCCCeEEecCCCC
Q 004188 66 YGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 66 ~~~~~~~~~~w~C~~C~~ 83 (770)
|.......+.|.|++|++
T Consensus 32 fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 32 FLESNQRTPKWKCPICNK 49 (50)
T ss_dssp HHHHHHHS---B-TTT--
T ss_pred HHHHhhccCCeECcCCcC
Confidence 333334456799999986
No 146
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=26.91 E-value=52 Score=25.92 Aligned_cols=26 Identities=27% Similarity=0.533 Sum_probs=20.3
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
.+..|..|+.+.=| .-.|+.||.-+.
T Consensus 26 ~l~~C~~CG~~~~~---------H~vC~~CG~Y~g 51 (57)
T PRK12286 26 GLVECPNCGEPKLP---------HRVCPSCGYYKG 51 (57)
T ss_pred cceECCCCCCccCC---------eEECCCCCcCCC
Confidence 46789999998765 578999997653
No 147
>PRK10220 hypothetical protein; Provisional
Probab=26.37 E-value=58 Score=29.11 Aligned_cols=29 Identities=24% Similarity=0.566 Sum_probs=20.2
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
.+.|.+|.+ -|.-- ++..|+|+-|++.-.
T Consensus 3 lP~CP~C~s---eytY~--d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 3 LPHCPKCNS---EYTYE--DNGMYICPECAHEWN 31 (111)
T ss_pred CCcCCCCCC---cceEc--CCCeEECCcccCcCC
Confidence 367888886 33332 356899999998743
No 148
>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=26.05 E-value=33 Score=23.28 Aligned_cols=25 Identities=24% Similarity=0.551 Sum_probs=12.6
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYG 83 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~ 83 (770)
+.|..|++=-+- .+|..|+|+-|++
T Consensus 3 p~Cp~C~se~~y-----~D~~~~vCp~C~~ 27 (30)
T PF08274_consen 3 PKCPLCGSEYTY-----EDGELLVCPECGH 27 (30)
T ss_dssp ---TTT-----E-----E-SSSEEETTTTE
T ss_pred CCCCCCCCccee-----ccCCEEeCCcccc
Confidence 578888874332 3467899999985
No 149
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=25.66 E-value=47 Score=40.39 Aligned_cols=25 Identities=32% Similarity=0.511 Sum_probs=18.3
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
..-+|..|+ |... -.|.||-||..+
T Consensus 679 ~~~~C~~CG-~~~~--------~~~~CP~CG~~~ 703 (735)
T PRK07111 679 PVDRCPVCG-YLGV--------IEDKCPKCGSTN 703 (735)
T ss_pred CCeecCCCC-CCCC--------cCccCcCCCCcc
Confidence 456899999 5443 249999999743
No 150
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=25.18 E-value=58 Score=25.76 Aligned_cols=29 Identities=31% Similarity=0.788 Sum_probs=19.7
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
.|.+|..|+.-|-|--. .-+|.|+-||..
T Consensus 8 ~~~~CtSCg~~i~p~e~----~v~F~CPnCGe~ 36 (61)
T COG2888 8 DPPVCTSCGREIAPGET----AVKFPCPNCGEV 36 (61)
T ss_pred CCceeccCCCEeccCCc----eeEeeCCCCCce
Confidence 46788888888766433 446777777743
No 151
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=25.11 E-value=37 Score=36.50 Aligned_cols=28 Identities=25% Similarity=0.729 Sum_probs=21.6
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
..-||.+|+ |....-.|.||-|+..-.+
T Consensus 353 ~~YRC~~CG--------F~a~~l~W~CPsC~~W~Ti 380 (389)
T COG2956 353 PRYRCQNCG--------FTAHTLYWHCPSCRAWETI 380 (389)
T ss_pred CCceecccC--------CcceeeeeeCCCccccccc
Confidence 467999997 3344567999999988765
No 152
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=24.73 E-value=54 Score=39.32 Aligned_cols=24 Identities=33% Similarity=0.533 Sum_probs=18.4
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
..-+|..|+ |+ .|..|.||-||..
T Consensus 625 ~~~~C~~CG-~~--------~g~~~~CP~CG~~ 648 (656)
T PRK08270 625 TFSICPKHG-YL--------SGEHEFCPKCGEE 648 (656)
T ss_pred CCcccCCCC-Cc--------CCCCCCCcCCcCc
Confidence 346899999 44 3667999999954
No 153
>PRK00420 hypothetical protein; Validated
Probab=24.58 E-value=52 Score=29.80 Aligned_cols=29 Identities=21% Similarity=0.338 Sum_probs=22.3
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
-.|..|++ |+.++. ++.-.|+.||..-.+
T Consensus 24 ~~CP~Cg~---pLf~lk--~g~~~Cp~Cg~~~~v 52 (112)
T PRK00420 24 KHCPVCGL---PLFELK--DGEVVCPVHGKVYIV 52 (112)
T ss_pred CCCCCCCC---cceecC--CCceECCCCCCeeee
Confidence 47999995 888874 337999999996554
No 154
>PF14353 CpXC: CpXC protein
Probab=24.32 E-value=73 Score=29.35 Aligned_cols=35 Identities=23% Similarity=0.562 Sum_probs=23.0
Q ss_pred ccCCCCCeeE--cCceEEecC-------------CCeEEecCCCCCCCCC
Q 004188 54 LICSKCGAVL--NPYGRVDYA-------------SRIWTCPFCYGKNPFP 88 (770)
Q Consensus 54 ~RC~~C~ayi--Np~~~~~~~-------------~~~w~C~~C~~~N~~p 88 (770)
+.|.+|+... .-|..++.. =..++|+-||+...++
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLE 51 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecC
Confidence 5799998763 233333322 2479999999998764
No 155
>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=24.11 E-value=55 Score=24.19 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=15.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCY 82 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~ 82 (770)
+.|..|+. .|.. |.+|+|..|.
T Consensus 1 I~CDgCg~--~PI~-----G~RykC~~C~ 22 (43)
T cd02342 1 IQCDGCGV--LPIT-----GPRYKSKVKE 22 (43)
T ss_pred CCCCCCCC--Cccc-----ccceEeCCCC
Confidence 46888873 3433 7889999885
No 156
>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=23.90 E-value=29 Score=29.50 Aligned_cols=15 Identities=27% Similarity=1.046 Sum_probs=6.5
Q ss_pred CeEEecCCCCCCCCC
Q 004188 74 RIWTCPFCYGKNPFP 88 (770)
Q Consensus 74 ~~w~C~~C~~~N~~p 88 (770)
+.|.|+||++.+.+-
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 679999999998863
No 157
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=23.82 E-value=38 Score=36.33 Aligned_cols=35 Identities=31% Similarity=0.650 Sum_probs=24.0
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
+.|+.|+.==+-+-.=+..--.|+|++|+..|+-+
T Consensus 221 LIC~~C~~HNGla~~ee~~yi~F~C~~Cn~LN~~~ 255 (328)
T KOG2846|consen 221 LICSQCHHHNGLARKEEYEYITFRCPHCNALNPAK 255 (328)
T ss_pred hcchhhccccCcCChhhcCceEEECccccccCCCc
Confidence 67888887533333323334579999999999854
No 158
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=23.38 E-value=89 Score=21.21 Aligned_cols=26 Identities=27% Similarity=0.654 Sum_probs=14.7
Q ss_pred cCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 55 ICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 55 RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
.|.+|++= +....++..-+|+-|+..
T Consensus 5 fC~~CG~~----t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 5 FCGRCGAP----TKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp B-TTT--B----EEE-SSSS-EEESSSS-E
T ss_pred ccCcCCcc----ccCCCCcCEeECCCCcCE
Confidence 58889883 445566888999999864
No 159
>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=23.06 E-value=42 Score=38.34 Aligned_cols=28 Identities=32% Similarity=0.740 Sum_probs=21.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCc
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPR 89 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~ 89 (770)
-+|++|+. ......|+||-|+..|.+.+
T Consensus 8 y~C~~Cg~--------~~~~~~g~Cp~C~~w~t~~~ 35 (454)
T TIGR00416 8 FVCQHCGA--------DSPKWQGKCPACHAWNTITE 35 (454)
T ss_pred EECCcCCC--------CCccccEECcCCCCccccch
Confidence 56887774 44456799999999999853
No 160
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=23.03 E-value=36 Score=21.73 Aligned_cols=14 Identities=36% Similarity=0.655 Sum_probs=11.8
Q ss_pred eEEecCCCCCCCCC
Q 004188 75 IWTCPFCYGKNPFP 88 (770)
Q Consensus 75 ~w~C~~C~~~N~~p 88 (770)
.|.|+-|...|...
T Consensus 2 ~W~C~~C~~~N~~~ 15 (26)
T smart00547 2 DWECPACTFLNFAS 15 (26)
T ss_pred cccCCCCCCcChhh
Confidence 59999999999653
No 161
>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=22.95 E-value=98 Score=29.99 Aligned_cols=37 Identities=19% Similarity=0.248 Sum_probs=25.7
Q ss_pred CCCcchHHHHHHHHHHhhcccCC--------CCcEEEEEecCCCC
Q 004188 273 RPQRCTGAAISAAVGLLEGCSVN--------TGSRIMVFTSGPAT 309 (770)
Q Consensus 273 ~~~~~~G~Al~~A~~ll~~~~~~--------~gGkI~~F~sg~pt 309 (770)
...+.+|.||..|...+...... ....|+++|+|.|+
T Consensus 76 ~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~ 120 (176)
T cd01464 76 SGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPT 120 (176)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCC
Confidence 35689999999999998631100 01269999999765
No 162
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.50 E-value=38 Score=40.64 Aligned_cols=30 Identities=23% Similarity=0.451 Sum_probs=19.9
Q ss_pred CCccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 52 DPLICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 52 ~p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
.+.+|.+|.+.+.- -...+.-+|..||..-
T Consensus 391 ~~~~C~~C~~~L~~----h~~~~~l~Ch~CG~~~ 420 (665)
T PRK14873 391 TPARCRHCTGPLGL----PSAGGTPRCRWCGRAA 420 (665)
T ss_pred CeeECCCCCCceeE----ecCCCeeECCCCcCCC
Confidence 35677777765542 2345688999999853
No 163
>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=22.42 E-value=51 Score=27.84 Aligned_cols=30 Identities=37% Similarity=0.689 Sum_probs=17.3
Q ss_pred ccCCCCCeeEcCc----eEEe-----cCCCeEEecCCCC
Q 004188 54 LICSKCGAVLNPY----GRVD-----YASRIWTCPFCYG 83 (770)
Q Consensus 54 ~RC~~C~ayiNp~----~~~~-----~~~~~w~C~~C~~ 83 (770)
.-|++|++++=|- .++. ...-.|+|..|++
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 4699999987554 5555 3456799999984
No 164
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=22.07 E-value=48 Score=32.20 Aligned_cols=13 Identities=31% Similarity=1.137 Sum_probs=10.9
Q ss_pred CCeEEecCCCCCC
Q 004188 73 SRIWTCPFCYGKN 85 (770)
Q Consensus 73 ~~~w~C~~C~~~N 85 (770)
|+.|+|+.||..-
T Consensus 132 ~~~~vC~vCGy~~ 144 (166)
T COG1592 132 GKVWVCPVCGYTH 144 (166)
T ss_pred CCEEEcCCCCCcc
Confidence 5589999999874
No 165
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=21.65 E-value=64 Score=29.97 Aligned_cols=25 Identities=36% Similarity=0.700 Sum_probs=19.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
-.|..|++ |..+ .+| .-.|+.|++.
T Consensus 29 ~hCp~Cg~---PLF~--KdG-~v~CPvC~~~ 53 (131)
T COG1645 29 KHCPKCGT---PLFR--KDG-EVFCPVCGYR 53 (131)
T ss_pred hhCcccCC---ccee--eCC-eEECCCCCce
Confidence 46999998 7766 445 7899999954
No 166
>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=21.44 E-value=1e+02 Score=33.18 Aligned_cols=28 Identities=14% Similarity=0.280 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEEC
Q 004188 162 EIRAVKHELLRVMEQLPENALVGLVVFD 189 (770)
Q Consensus 162 ~l~~~~~~i~~~l~~lp~~~~VglITf~ 189 (770)
|++.+...|..+.+.|.++.|+++|||-
T Consensus 215 EL~~L~~~L~~~~~~L~~gGrl~VISfH 242 (305)
T TIGR00006 215 ELEELEEALQFAPNLLAPGGRLSIISFH 242 (305)
T ss_pred hHHHHHHHHHHHHHHhcCCCEEEEEecC
Confidence 4788999999999999999999999875
No 167
>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=21.43 E-value=33 Score=23.62 Aligned_cols=10 Identities=50% Similarity=1.434 Sum_probs=5.0
Q ss_pred CCccCCCCCe
Q 004188 52 DPLICSKCGA 61 (770)
Q Consensus 52 ~p~RC~~C~a 61 (770)
+++||..|+.
T Consensus 16 ~~irC~~CG~ 25 (32)
T PF03604_consen 16 DPIRCPECGH 25 (32)
T ss_dssp STSSBSSSS-
T ss_pred CcEECCcCCC
Confidence 4555555553
No 168
>COG2023 RPR2 RNase P subunit RPR2 [Translation, ribosomal structure and biogenesis]
Probab=21.40 E-value=51 Score=29.31 Aligned_cols=34 Identities=32% Similarity=0.554 Sum_probs=26.6
Q ss_pred cCCCCCeeEcC----ceEEecCCCeEEecCCCCCCCCC
Q 004188 55 ICSKCGAVLNP----YGRVDYASRIWTCPFCYGKNPFP 88 (770)
Q Consensus 55 RC~~C~ayiNp----~~~~~~~~~~w~C~~C~~~N~~p 88 (770)
.|++|.+.+=| =+.+..+.-.|+|.-||..--+|
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 49999997644 45566666789999999987765
No 169
>COG1773 Rubredoxin [Energy production and conversion]
Probab=21.15 E-value=45 Score=26.02 Aligned_cols=15 Identities=27% Similarity=0.638 Sum_probs=8.8
Q ss_pred EecCCCeEEecCCCC
Q 004188 69 VDYASRIWTCPFCYG 83 (770)
Q Consensus 69 ~~~~~~~w~C~~C~~ 83 (770)
|.+--..|.|+.|+.
T Consensus 30 fedlPd~w~CP~Cg~ 44 (55)
T COG1773 30 FEDLPDDWVCPECGV 44 (55)
T ss_pred hhhCCCccCCCCCCC
Confidence 333334577777774
No 170
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.96 E-value=51 Score=35.57 Aligned_cols=24 Identities=29% Similarity=0.742 Sum_probs=19.6
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNP 86 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~ 86 (770)
..|..|+. ..++.|.|+-||...+
T Consensus 310 ~~C~~cg~---------~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 310 KTCPCCGH---------LSGRLFKCPRCGFVHD 333 (364)
T ss_pred ccccccCC---------ccceeEECCCCCCeeh
Confidence 58999999 3367899999999754
No 171
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=20.96 E-value=48 Score=40.49 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=20.6
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPF 87 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~ 87 (770)
.-||.+|+.| +-.++|+.||..+..
T Consensus 625 ~RKCPkCG~y----------Tlk~rCP~CG~~Te~ 649 (1095)
T TIGR00354 625 IRKCPQCGKE----------SFWLKCPVCGELTEQ 649 (1095)
T ss_pred EEECCCCCcc----------cccccCCCCCCcccc
Confidence 4689999997 346999999999854
No 172
>PRK11823 DNA repair protein RadA; Provisional
Probab=20.94 E-value=47 Score=37.89 Aligned_cols=28 Identities=29% Similarity=0.701 Sum_probs=21.5
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCCCCCc
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKNPFPR 89 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N~~p~ 89 (770)
-+|++|+. ......|+|+-|+..|.+..
T Consensus 8 y~C~~Cg~--------~~~~~~g~Cp~C~~w~t~~e 35 (446)
T PRK11823 8 YVCQECGA--------ESPKWLGRCPECGAWNTLVE 35 (446)
T ss_pred EECCcCCC--------CCcccCeeCcCCCCccceee
Confidence 56888875 44456799999999998853
No 173
>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=20.89 E-value=52 Score=22.89 Aligned_cols=11 Identities=36% Similarity=1.183 Sum_probs=9.5
Q ss_pred eEEecCCCCCC
Q 004188 75 IWTCPFCYGKN 85 (770)
Q Consensus 75 ~w~C~~C~~~N 85 (770)
.|+|..||..-
T Consensus 2 ~~~C~~CG~i~ 12 (34)
T cd00729 2 VWVCPVCGYIH 12 (34)
T ss_pred eEECCCCCCEe
Confidence 69999999873
No 174
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=20.79 E-value=48 Score=36.95 Aligned_cols=28 Identities=36% Similarity=0.901 Sum_probs=19.3
Q ss_pred ccCCCCCeeEcCceEEecCCCeE--EecCCCCCCCCCcCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIW--TCPFCYGKNPFPRSY 91 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w--~C~~C~~~N~~p~~y 91 (770)
..|+.|++- .-+| +|+-|+..|.+-...
T Consensus 8 f~C~~CG~~----------s~KW~GkCp~Cg~Wns~vE~~ 37 (456)
T COG1066 8 FVCQECGYV----------SPKWLGKCPACGAWNTLVEEV 37 (456)
T ss_pred EEcccCCCC----------CccccccCCCCCCccceEEee
Confidence 468888862 2234 799999999875443
No 175
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=20.68 E-value=1.5e+02 Score=27.95 Aligned_cols=24 Identities=38% Similarity=0.711 Sum_probs=19.4
Q ss_pred ccCCCCCeeEcCceEEecCCCeEEecCCCCCC
Q 004188 54 LICSKCGAVLNPYGRVDYASRIWTCPFCYGKN 85 (770)
Q Consensus 54 ~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~N 85 (770)
.||.+|+.+.=|= +-.|+-|+...
T Consensus 30 ~kC~~CG~v~~PP--------r~~Cp~C~~~~ 53 (140)
T COG1545 30 TKCKKCGRVYFPP--------RAYCPKCGSET 53 (140)
T ss_pred EEcCCCCeEEcCC--------cccCCCCCCCC
Confidence 6999999976653 46799999996
No 176
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=20.28 E-value=51 Score=31.81 Aligned_cols=71 Identities=14% Similarity=0.134 Sum_probs=40.5
Q ss_pred CCHhhhhhcC-CCeeEEEccCCCCCC---C-------CCCCCCCccCCCCCeeEcCceEEe-----------cCCCeEEe
Q 004188 21 STKSDAVSLI-IPLSLLHTPLMQSSE---I-------PVLPYDPLICSKCGAVLNPYGRVD-----------YASRIWTC 78 (770)
Q Consensus 21 ~t~~~~~~~~-lPlg~~v~P~~~~~~---i-------p~~~~~p~RC~~C~ayiNp~~~~~-----------~~~~~w~C 78 (770)
....+.++.+ .+.|+.+..-...+. + |-+...--||..|.+-+-+-.+=. +....|+|
T Consensus 54 RDr~L~~r~k~g~~~i~i~~~s~~~Ql~e~~~~~~l~~~~~~e~~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C 133 (165)
T COG1656 54 RDRELYKRAKLGIKAILIRSDSIEEQLAEFLARLGLKPRLFPEFSRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRC 133 (165)
T ss_pred ccHHHHHHhhccCceEEEeCCCHHHHHHHHHHHhccchhcccccccCcccCCEeccCcHHHHhhccchhhhhcccceeEC
Confidence 3445566644 377777776432211 0 111122369999999886554322 22457999
Q ss_pred cCCCCCCCCCcCC
Q 004188 79 PFCYGKNPFPRSY 91 (770)
Q Consensus 79 ~~C~~~N~~p~~y 91 (770)
+.|++.-=.-.+|
T Consensus 134 ~~CgkiYW~GsHw 146 (165)
T COG1656 134 PKCGKIYWKGSHW 146 (165)
T ss_pred CCCcccccCchHH
Confidence 9999986433333
No 177
>PRK12366 replication factor A; Reviewed
Probab=20.23 E-value=72 Score=38.17 Aligned_cols=26 Identities=19% Similarity=0.597 Sum_probs=20.0
Q ss_pred CccCCCCCeeEcCceEEecCCCeEEecCCCCC
Q 004188 53 PLICSKCGAVLNPYGRVDYASRIWTCPFCYGK 84 (770)
Q Consensus 53 p~RC~~C~ayiNp~~~~~~~~~~w~C~~C~~~ 84 (770)
..+|..|+--+ ..+.+.|+|+-|+..
T Consensus 532 y~aCp~CnkKv------~~~~g~~~C~~c~~~ 557 (637)
T PRK12366 532 LYLCPNCRKRV------EEVDGEYICEFCGEV 557 (637)
T ss_pred EecccccCeEe------EcCCCcEECCCCCCC
Confidence 47899997644 334568999999988
Done!