Query 022678
Match_columns 293
No_of_seqs 117 out of 354
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 05:20:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022678.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022678hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03850 Tfb4: Transcription f 100.0 1.8E-72 4E-77 516.1 25.1 251 13-268 1-276 (276)
2 TIGR00627 tfb4 transcription f 100.0 3.5E-71 7.5E-76 506.5 24.2 254 12-271 1-279 (279)
3 KOG2487 RNA polymerase II tran 100.0 4.7E-71 1E-75 490.3 19.1 275 4-289 14-311 (314)
4 COG5242 TFB4 RNA polymerase II 100.0 2.7E-61 5.8E-66 418.3 20.5 254 8-273 15-286 (296)
5 KOG2807 RNA polymerase II tran 100.0 6.5E-47 1.4E-51 343.2 17.2 226 15-275 62-304 (378)
6 COG5151 SSL1 RNA polymerase II 100.0 7.7E-35 1.7E-39 263.1 13.6 227 14-275 88-336 (421)
7 PF04056 Ssl1: Ssl1-like; Int 100.0 1.4E-32 3E-37 239.5 15.9 168 19-219 1-179 (193)
8 cd01453 vWA_transcription_fact 99.8 1.5E-17 3.2E-22 144.7 16.9 168 15-217 5-183 (183)
9 cd01452 VWA_26S_proteasome_sub 99.6 1.9E-13 4.2E-18 119.2 18.0 147 15-194 5-163 (187)
10 PRK13685 hypothetical protein; 98.9 1.5E-07 3.3E-12 88.9 18.4 171 11-211 86-285 (326)
11 PF13519 VWA_2: von Willebrand 98.8 2.2E-07 4.8E-12 77.4 15.4 159 16-210 2-170 (172)
12 cd01467 vWA_BatA_type VWA BatA 98.7 8.4E-07 1.8E-11 75.7 16.2 157 15-204 4-179 (180)
13 cd01461 vWA_interalpha_trypsin 98.7 2.4E-06 5.3E-11 71.8 17.4 161 13-210 2-170 (171)
14 cd01451 vWA_Magnesium_chelatas 98.6 5.4E-06 1.2E-10 71.3 17.7 157 15-203 2-168 (178)
15 TIGR00622 ssl1 transcription f 98.6 1.9E-08 4E-13 80.2 1.8 29 247-275 1-29 (112)
16 TIGR03436 acidobact_VWFA VWFA- 98.5 8.3E-06 1.8E-10 75.6 18.7 175 12-212 52-250 (296)
17 cd01465 vWA_subgroup VWA subgr 98.5 1.1E-05 2.5E-10 67.7 17.7 160 15-208 2-169 (170)
18 cd01466 vWA_C3HC4_type VWA C3H 98.5 3.8E-06 8.2E-11 70.7 14.4 148 16-199 3-154 (155)
19 cd01456 vWA_ywmD_type VWA ywmD 98.3 1.9E-05 4.1E-10 69.4 14.9 170 6-202 13-203 (206)
20 TIGR00868 hCaCC calcium-activa 98.3 2.7E-05 6E-10 81.7 17.8 155 15-203 306-464 (863)
21 smart00327 VWA von Willebrand 98.3 4E-05 8.7E-10 64.0 14.5 157 15-198 3-164 (177)
22 cd01472 vWA_collagen von Wille 98.2 4E-05 8.7E-10 64.6 14.2 155 16-200 3-161 (164)
23 cd01463 vWA_VGCC_like VWA Volt 98.2 3.9E-05 8.5E-10 66.5 13.9 165 11-202 11-189 (190)
24 cd01455 vWA_F11C1-5a_type Von 98.1 0.0002 4.2E-09 62.8 16.3 172 15-213 2-186 (191)
25 PF13768 VWA_3: von Willebrand 98.1 0.00013 2.8E-09 60.8 14.6 144 16-197 3-154 (155)
26 cd01480 vWA_collagen_alpha_1-V 98.0 0.00023 5E-09 61.6 15.1 167 15-215 4-182 (186)
27 cd01474 vWA_ATR ATR (Anthrax T 98.0 0.00026 5.7E-09 61.1 15.4 161 14-206 5-171 (185)
28 PRK13406 bchD magnesium chelat 98.0 0.0002 4.4E-09 72.8 16.7 159 10-202 398-570 (584)
29 cd01470 vWA_complement_factors 98.0 0.00061 1.3E-08 59.3 16.8 172 16-208 3-196 (198)
30 cd00198 vWFA Von Willebrand fa 97.9 0.00064 1.4E-08 55.0 14.7 152 15-196 2-160 (161)
31 TIGR03788 marine_srt_targ mari 97.8 0.0018 4E-08 66.1 19.6 165 10-209 268-438 (596)
32 cd01475 vWA_Matrilin VWA_Matri 97.8 0.002 4.3E-08 57.4 17.6 163 15-206 4-173 (224)
33 cd01450 vWFA_subfamily_ECM Von 97.8 0.0007 1.5E-08 55.7 13.2 152 16-196 3-159 (161)
34 cd01482 vWA_collagen_alphaI-XI 97.8 0.0011 2.5E-08 55.9 14.4 152 16-197 3-158 (164)
35 KOG2884 26S proteasome regulat 97.8 0.0018 4E-08 57.4 15.6 151 15-195 5-164 (259)
36 TIGR02442 Cob-chelat-sub cobal 97.6 0.0029 6.3E-08 65.1 17.1 156 13-199 465-632 (633)
37 cd01477 vWA_F09G8-8_type VWA F 97.6 0.0041 8.9E-08 54.6 15.4 163 10-197 16-190 (193)
38 cd01458 vWA_ku Ku70/Ku80 N-ter 97.6 0.0067 1.5E-07 53.8 16.9 149 14-180 2-173 (218)
39 PTZ00441 sporozoite surface pr 97.4 0.0099 2.1E-07 60.0 17.7 169 13-205 42-219 (576)
40 cd01469 vWA_integrins_alpha_su 97.4 0.0089 1.9E-07 51.2 14.7 157 16-204 3-173 (177)
41 cd01471 vWA_micronemal_protein 97.3 0.0067 1.5E-07 52.0 13.6 154 16-192 3-161 (186)
42 TIGR02031 BchD-ChlD magnesium 97.2 0.011 2.3E-07 60.5 15.6 158 11-202 405-583 (589)
43 COG1240 ChlD Mg-chelatase subu 97.2 0.024 5.2E-07 51.7 15.9 162 9-204 74-249 (261)
44 COG5148 RPN10 26S proteasome r 97.0 0.03 6.4E-07 48.8 13.7 150 15-194 5-162 (243)
45 cd01476 VWA_integrin_invertebr 97.0 0.048 1E-06 45.5 15.1 147 16-193 3-158 (163)
46 cd01473 vWA_CTRP CTRP for CS 96.9 0.057 1.2E-06 47.1 15.0 150 16-191 3-161 (192)
47 PF00092 VWA: von Willebrand f 96.5 0.032 6.8E-07 46.6 10.5 165 16-207 2-173 (178)
48 PF04811 Sec23_trunk: Sec23/Se 96.5 0.19 4.1E-06 45.3 15.9 175 14-203 4-227 (243)
49 cd01464 vWA_subfamily VWA subf 96.4 0.1 2.2E-06 44.4 13.2 142 16-190 6-159 (176)
50 cd01462 VWA_YIEM_type VWA YIEM 96.0 0.38 8.3E-06 39.6 14.1 137 16-189 3-144 (152)
51 cd01454 vWA_norD_type norD typ 95.7 1.1 2.3E-05 37.9 16.3 132 15-179 2-152 (174)
52 cd01460 vWA_midasin VWA_Midasi 95.4 0.66 1.4E-05 42.8 14.4 148 13-195 60-224 (266)
53 cd01479 Sec24-like Sec24-like: 94.7 3.2 6.9E-05 37.6 18.0 171 13-200 3-219 (244)
54 PF09538 FYDLN_acid: Protein o 94.7 0.022 4.9E-07 45.5 2.3 29 246-274 8-39 (108)
55 cd01481 vWA_collagen_alpha3-VI 94.4 2.8 6E-05 35.5 15.2 147 16-190 3-154 (165)
56 PF03731 Ku_N: Ku70/Ku80 N-ter 94.3 1.2 2.7E-05 39.2 13.0 151 16-177 2-172 (224)
57 cd01468 trunk_domain trunk dom 94.0 4.3 9.4E-05 36.4 19.0 181 13-201 3-223 (239)
58 cd00729 rubredoxin_SM Rubredox 93.7 0.058 1.3E-06 34.0 2.3 23 247-269 2-26 (34)
59 PRK12496 hypothetical protein; 93.6 0.047 1E-06 46.8 2.3 34 242-275 122-157 (164)
60 COG1592 Rubrerythrin [Energy p 93.1 0.06 1.3E-06 46.2 2.1 24 247-270 134-158 (166)
61 cd01457 vWA_ORF176_type VWA OR 92.6 6.4 0.00014 34.1 15.2 144 15-191 4-165 (199)
62 cd00350 rubredoxin_like Rubred 92.4 0.12 2.7E-06 32.1 2.4 23 248-270 2-26 (33)
63 TIGR00578 ku70 ATP-dependent D 92.1 9.5 0.00021 39.2 16.9 151 11-178 8-182 (584)
64 TIGR02300 FYDLN_acid conserved 90.8 0.16 3.5E-06 41.5 2.1 30 246-275 8-40 (129)
65 PF05191 ADK_lid: Adenylate ki 90.5 0.26 5.7E-06 31.4 2.5 26 248-273 2-33 (36)
66 TIGR00373 conserved hypothetic 90.3 0.19 4.1E-06 42.7 2.2 30 245-274 107-141 (158)
67 PRK10997 yieM hypothetical pro 90.0 13 0.00029 37.3 15.2 144 8-190 318-468 (487)
68 PF10571 UPF0547: Uncharacteri 89.6 0.2 4.3E-06 29.7 1.2 24 249-272 2-25 (26)
69 PRK06266 transcription initiat 89.4 0.26 5.6E-06 42.8 2.3 30 245-274 115-149 (178)
70 PF10138 vWA-TerF-like: vWA fo 88.2 18 0.00039 32.1 15.3 169 16-213 4-187 (200)
71 PRK00398 rpoP DNA-directed RNA 86.7 0.73 1.6E-05 30.7 2.8 31 247-277 3-37 (46)
72 PF13248 zf-ribbon_3: zinc-rib 84.0 0.49 1.1E-05 27.8 0.8 24 248-271 3-26 (26)
73 PF13240 zinc_ribbon_2: zinc-r 83.9 0.55 1.2E-05 26.9 0.9 22 250-271 2-23 (23)
74 cd00730 rubredoxin Rubredoxin; 83.7 0.85 1.8E-05 31.3 2.0 23 248-270 2-43 (50)
75 COG4245 TerY Uncharacterized p 82.6 34 0.00073 30.2 14.2 158 16-209 6-177 (207)
76 PF00301 Rubredoxin: Rubredoxi 81.6 1.3 2.7E-05 30.0 2.2 23 248-270 2-43 (47)
77 smart00531 TFIIE Transcription 81.2 0.86 1.9E-05 38.1 1.6 31 245-275 97-137 (147)
78 COG1439 Predicted nucleic acid 80.3 1.2 2.6E-05 38.6 2.1 34 242-275 134-167 (177)
79 TIGR02098 MJ0042_CXXC MJ0042 f 79.4 1.2 2.6E-05 28.2 1.5 25 248-272 3-36 (38)
80 COG1675 TFA1 Transcription ini 77.7 1.4 3E-05 38.3 1.7 31 245-275 111-146 (176)
81 smart00834 CxxC_CXXC_SSSS Puta 77.0 2.4 5.2E-05 27.0 2.4 25 247-271 5-36 (41)
82 COG1996 RPC10 DNA-directed RNA 76.6 1.7 3.7E-05 29.7 1.6 35 244-278 3-41 (49)
83 TIGR01206 lysW lysine biosynth 75.6 1.5 3.3E-05 30.6 1.1 30 247-277 2-38 (54)
84 PF08271 TF_Zn_Ribbon: TFIIB z 75.3 1 2.2E-05 29.5 0.2 28 248-275 1-33 (43)
85 PF13717 zinc_ribbon_4: zinc-r 72.7 2.3 5E-05 27.0 1.4 24 248-271 3-35 (36)
86 PF12257 DUF3608: Protein of u 72.3 49 0.0011 30.9 10.5 52 12-63 69-124 (281)
87 COG1645 Uncharacterized Zn-fin 71.9 1.4 3.1E-05 36.3 0.3 27 246-272 27-55 (131)
88 PRK14892 putative transcriptio 71.2 2.4 5.1E-05 33.4 1.4 31 245-275 19-56 (99)
89 PF12760 Zn_Tnp_IS1595: Transp 70.0 2.1 4.6E-05 28.5 0.8 23 246-268 17-44 (46)
90 PF04438 zf-HIT: HIT zinc fing 68.5 3 6.5E-05 25.4 1.2 16 245-260 11-26 (30)
91 PTZ00395 Sec24-related protein 68.2 1.2E+02 0.0026 34.5 13.7 192 12-214 951-1199(1560)
92 PF14446 Prok-RING_1: Prokaryo 67.8 2.3 4.9E-05 29.7 0.6 13 245-257 19-31 (54)
93 PRK00420 hypothetical protein; 66.6 2.9 6.4E-05 33.6 1.1 29 247-275 23-54 (112)
94 PF05290 Baculo_IE-1: Baculovi 66.1 2.7 5.9E-05 34.7 0.8 26 250-275 107-135 (140)
95 PF06221 zf-C2HC5: Putative zi 64.6 4.4 9.6E-05 28.6 1.6 42 234-275 2-49 (57)
96 PF09723 Zn-ribbon_8: Zinc rib 64.3 6.5 0.00014 25.7 2.3 23 247-269 5-34 (42)
97 PF07975 C1_4: TFIIH C1-like d 64.0 4.5 9.8E-05 27.9 1.5 24 245-268 19-50 (51)
98 PF03604 DNA_RNApol_7kD: DNA d 63.8 5.5 0.00012 24.7 1.7 25 248-272 1-28 (32)
99 KOG4317 Predicted Zn-finger pr 62.7 3.4 7.3E-05 38.9 0.9 35 238-272 9-47 (383)
100 PF13719 zinc_ribbon_5: zinc-r 62.1 4.8 0.0001 25.6 1.3 10 249-258 4-13 (37)
101 KOG2593 Transcription initiati 61.4 2.9 6.2E-05 41.0 0.2 30 246-275 127-167 (436)
102 TIGR02605 CxxC_CxxC_SSSS putat 61.0 5 0.00011 27.1 1.3 23 247-269 5-34 (52)
103 COG1545 Predicted nucleic-acid 60.5 6.8 0.00015 32.6 2.3 27 245-271 27-53 (140)
104 PRK11788 tetratricopeptide rep 60.2 4.9 0.00011 37.8 1.5 30 246-275 353-382 (389)
105 PRK13130 H/ACA RNA-protein com 59.1 8.6 0.00019 27.0 2.2 26 248-275 6-31 (56)
106 PHA02768 hypothetical protein; 58.9 5.9 0.00013 27.7 1.4 28 245-272 3-42 (55)
107 PRK00415 rps27e 30S ribosomal 58.7 5.5 0.00012 28.3 1.2 27 249-275 13-44 (59)
108 PRK05978 hypothetical protein; 55.2 7.8 0.00017 32.7 1.8 27 249-275 35-66 (148)
109 PF12172 DUF35_N: Rubredoxin-l 55.1 7.6 0.00017 24.4 1.3 25 245-269 9-33 (37)
110 smart00659 RPOLCX RNA polymera 55.0 11 0.00023 25.1 2.0 31 247-277 2-35 (44)
111 PF14206 Cys_rich_CPCC: Cystei 54.8 7.5 0.00016 29.2 1.4 26 248-273 2-32 (78)
112 PF14205 Cys_rich_KTR: Cystein 53.7 11 0.00024 26.3 2.0 28 248-275 5-42 (55)
113 COG2093 DNA-directed RNA polym 52.5 7.2 0.00016 28.0 1.0 24 249-272 6-30 (64)
114 COG4888 Uncharacterized Zn rib 51.9 6.4 0.00014 30.9 0.7 32 244-275 19-60 (104)
115 PRK11595 DNA utilization prote 51.1 5.8 0.00013 35.4 0.4 40 233-272 4-45 (227)
116 smart00154 ZnF_AN1 AN1-like Zi 49.9 11 0.00024 24.3 1.4 22 239-260 4-25 (39)
117 PF05129 Elf1: Transcription e 49.4 4.4 9.5E-05 30.6 -0.6 32 244-275 19-60 (81)
118 PF00096 zf-C2H2: Zinc finger, 48.2 12 0.00025 20.5 1.2 10 264-273 3-12 (23)
119 smart00547 ZnF_RBZ Zinc finger 47.1 9.8 0.00021 21.8 0.8 24 247-270 2-25 (26)
120 PF13894 zf-C2H2_4: C2H2-type 47.1 12 0.00026 20.1 1.2 10 248-257 1-10 (24)
121 PF13824 zf-Mss51: Zinc-finger 46.9 14 0.0003 25.9 1.6 23 250-272 2-25 (55)
122 COG1721 Uncharacterized conser 46.6 82 0.0018 30.7 7.7 68 8-77 219-288 (416)
123 PF00641 zf-RanBP: Zn-finger i 46.4 20 0.00043 21.3 2.2 25 246-270 3-27 (30)
124 PF09862 DUF2089: Protein of u 46.0 7.4 0.00016 31.3 0.2 21 239-259 4-24 (113)
125 PF05605 zf-Di19: Drought indu 45.4 12 0.00027 25.5 1.2 25 247-272 2-42 (54)
126 KOG1985 Vesicle coat complex C 44.7 4.4E+02 0.0094 28.5 14.1 176 2-195 283-504 (887)
127 PHA00626 hypothetical protein 44.7 14 0.00031 26.0 1.4 27 249-275 2-37 (59)
128 PRK03824 hypA hydrogenase nick 44.6 17 0.00036 30.1 2.1 14 246-259 69-82 (135)
129 PF01428 zf-AN1: AN1-like Zinc 44.0 13 0.00029 24.2 1.2 20 239-259 6-25 (43)
130 COG2051 RPS27A Ribosomal prote 43.2 10 0.00022 27.5 0.6 27 249-275 21-52 (67)
131 PRK14890 putative Zn-ribbon RN 42.9 19 0.00041 25.6 1.9 24 246-269 24-56 (59)
132 KOG0978 E3 ubiquitin ligase in 42.4 9.6 0.00021 39.8 0.4 25 251-275 659-692 (698)
133 PF12773 DZR: Double zinc ribb 41.7 15 0.00031 24.5 1.1 32 239-270 4-38 (50)
134 COG1997 RPL43A Ribosomal prote 41.5 12 0.00027 28.6 0.8 32 247-278 35-70 (89)
135 COG4530 Uncharacterized protei 40.8 12 0.00026 29.9 0.7 29 247-275 9-40 (129)
136 PF07754 DUF1610: Domain of un 40.1 20 0.00042 20.8 1.3 10 245-254 14-23 (24)
137 PRK00448 polC DNA polymerase I 39.6 14 0.0003 42.0 1.1 28 244-273 905-945 (1437)
138 PF07191 zinc-ribbons_6: zinc- 39.2 13 0.00028 27.3 0.6 33 239-272 7-41 (70)
139 COG2176 PolC DNA polymerase II 38.9 19 0.00041 39.9 2.0 28 246-273 913-951 (1444)
140 cd01407 SIR2-fam SIR2 family o 38.6 74 0.0016 28.0 5.5 36 235-272 99-144 (218)
141 TIGR00622 ssl1 transcription f 38.6 22 0.00048 28.6 1.9 25 245-269 79-111 (112)
142 TIGR01405 polC_Gram_pos DNA po 37.6 15 0.00033 41.0 1.1 27 245-273 681-720 (1213)
143 PF10013 DUF2256: Uncharacteri 37.4 18 0.0004 23.9 1.0 14 259-272 5-19 (42)
144 PF03854 zf-P11: P-11 zinc fin 36.2 4.5 9.8E-05 27.5 -2.0 27 247-273 21-47 (50)
145 PF05762 VWA_CoxE: VWA domain 34.9 3.2E+02 0.0069 24.1 9.2 44 11-64 55-98 (222)
146 KOG3768 DEAD box RNA helicase 34.6 5.3E+02 0.011 27.0 11.1 29 181-209 193-221 (888)
147 COG1867 TRM1 N2,N2-dimethylgua 33.0 30 0.00066 33.5 2.2 31 245-275 236-271 (380)
148 PRK05452 anaerobic nitric oxid 32.9 31 0.00067 34.5 2.3 27 244-270 422-467 (479)
149 PRK08270 anaerobic ribonucleos 32.5 40 0.00086 35.2 3.1 22 235-256 627-648 (656)
150 KOG2858 Uncharacterized conser 32.4 15 0.00032 35.3 -0.0 18 244-261 26-43 (390)
151 PRK06393 rpoE DNA-directed RNA 32.2 23 0.00051 25.6 1.0 23 249-273 7-29 (64)
152 PRK00432 30S ribosomal protein 31.9 26 0.00057 23.9 1.2 24 248-271 21-47 (50)
153 COG1379 PHP family phosphoeste 31.8 15 0.00032 35.1 -0.1 42 155-201 151-193 (403)
154 PF09237 GAGA: GAGA factor; I 31.5 14 0.00031 25.5 -0.2 16 259-274 22-37 (54)
155 COG5028 Vesicle coat complex C 31.5 6.9E+02 0.015 26.9 13.2 181 8-198 271-483 (861)
156 PRK04860 hypothetical protein; 31.0 57 0.0012 27.8 3.3 47 122-178 10-56 (160)
157 PLN00209 ribosomal protein S27 30.9 22 0.00048 27.1 0.7 27 249-275 38-69 (86)
158 KOG4602 Nanos and related prot 30.8 26 0.00056 32.2 1.2 21 246-266 267-295 (318)
159 PF06957 COPI_C: Coatomer (COP 30.7 27 0.00058 34.5 1.4 40 235-274 363-409 (422)
160 PF08792 A2L_zn_ribbon: A2L zi 30.2 38 0.00082 21.0 1.6 22 236-257 5-31 (33)
161 PF01667 Ribosomal_S27e: Ribos 29.7 26 0.00056 24.6 0.8 27 249-275 9-40 (55)
162 PF02701 zf-Dof: Dof domain, z 29.4 27 0.00059 25.0 0.9 43 247-289 5-59 (63)
163 PTZ00083 40S ribosomal protein 29.2 25 0.00053 26.8 0.7 27 249-275 37-68 (85)
164 PRK08351 DNA-directed RNA poly 29.0 30 0.00066 24.7 1.1 21 249-271 5-25 (61)
165 COG4867 Uncharacterized protei 28.8 1.1E+02 0.0023 30.6 5.1 163 13-214 463-647 (652)
166 PRK14714 DNA polymerase II lar 28.7 52 0.0011 36.8 3.3 13 263-275 711-723 (1337)
167 PF07295 DUF1451: Protein of u 28.1 43 0.00094 28.1 2.1 37 237-273 101-143 (146)
168 PHA00733 hypothetical protein 28.0 37 0.00079 27.7 1.6 31 245-275 71-113 (128)
169 PF06906 DUF1272: Protein of u 27.7 28 0.0006 24.5 0.7 28 248-275 27-55 (57)
170 KOG3362 Predicted BBOX Zn-fing 27.6 28 0.0006 29.3 0.8 27 233-261 117-143 (156)
171 KOG2164 Predicted E3 ubiquitin 27.5 27 0.00059 35.0 0.9 31 247-277 186-241 (513)
172 COG5415 Predicted integral mem 27.0 48 0.001 29.7 2.2 50 199-257 165-224 (251)
173 PF10221 DUF2151: Cell cycle a 26.3 4.5E+02 0.0097 27.8 9.4 58 15-72 7-84 (695)
174 PF01927 Mut7-C: Mut7-C RNAse 26.3 1.9E+02 0.0041 23.9 5.7 11 247-257 124-134 (147)
175 KOG2462 C2H2-type Zn-finger pr 26.1 38 0.00083 31.4 1.5 13 263-275 163-175 (279)
176 TIGR00686 phnA alkylphosphonat 26.0 26 0.00057 27.9 0.4 26 249-274 4-32 (109)
177 PRK12380 hydrogenase nickel in 25.9 58 0.0013 26.0 2.4 24 247-270 70-95 (113)
178 PRK03681 hypA hydrogenase nick 25.4 57 0.0012 26.1 2.2 24 247-270 70-96 (114)
179 smart00661 RPOL9 RNA polymeras 25.4 34 0.00074 22.7 0.8 27 249-275 2-34 (52)
180 PF03119 DNA_ligase_ZBD: NAD-d 24.8 32 0.00069 20.5 0.5 13 263-275 1-13 (28)
181 KOG0823 Predicted E3 ubiquitin 24.7 40 0.00086 30.5 1.3 30 246-275 46-98 (230)
182 PF01194 RNA_pol_N: RNA polyme 24.7 39 0.00084 24.1 1.0 14 260-273 3-16 (60)
183 PF10263 SprT-like: SprT-like 24.5 46 0.001 27.4 1.6 25 38-62 1-25 (157)
184 PF04216 FdhE: Protein involve 24.4 44 0.00096 30.9 1.6 26 248-273 198-223 (290)
185 PRK10220 hypothetical protein; 24.3 38 0.00083 27.1 1.0 25 249-273 5-32 (111)
186 KOG2462 C2H2-type Zn-finger pr 23.9 44 0.00096 31.0 1.5 27 246-272 186-226 (279)
187 PF11405 Inhibitor_I67: Bromel 23.8 29 0.00064 21.9 0.2 18 256-273 10-27 (41)
188 PRK08271 anaerobic ribonucleos 23.8 70 0.0015 33.3 3.1 40 184-255 548-588 (623)
189 PRK04338 N(2),N(2)-dimethylgua 23.7 66 0.0014 31.2 2.7 31 245-275 240-275 (382)
190 PRK11827 hypothetical protein; 23.6 40 0.00088 24.0 0.9 27 248-274 9-39 (60)
191 PF01882 DUF58: Protein of unk 23.4 2.2E+02 0.0048 20.6 5.1 44 9-52 36-81 (86)
192 PRK11032 hypothetical protein; 23.4 75 0.0016 27.1 2.7 39 240-278 116-160 (160)
193 PF10058 DUF2296: Predicted in 23.2 47 0.001 23.0 1.2 12 245-256 42-53 (54)
194 TIGR00280 L37a ribosomal prote 23.1 35 0.00076 26.4 0.6 32 247-278 35-70 (91)
195 PF03833 PolC_DP2: DNA polymer 22.9 28 0.0006 37.2 0.0 32 242-275 675-706 (900)
196 PF04641 Rtf2: Rtf2 RING-finge 22.9 64 0.0014 29.5 2.4 22 253-274 135-163 (260)
197 PF09186 DUF1949: Domain of un 22.6 1.4E+02 0.003 19.7 3.5 15 181-195 42-56 (56)
198 PF09967 DUF2201: VWA-like dom 22.6 1.6E+02 0.0035 23.6 4.5 40 16-63 1-40 (126)
199 PF09297 zf-NADH-PPase: NADH p 22.5 31 0.00068 20.9 0.2 20 250-269 6-29 (32)
200 cd01413 SIR2_Af2 SIR2_Af2: Arc 22.4 76 0.0016 28.2 2.7 35 236-272 104-147 (222)
201 PF04423 Rad50_zn_hook: Rad50 21.3 36 0.00077 23.2 0.3 10 263-272 22-31 (54)
202 PF13913 zf-C2HC_2: zinc-finge 21.2 47 0.001 19.1 0.7 13 262-274 3-15 (25)
203 PRK12495 hypothetical protein; 21.0 44 0.00096 30.0 0.9 27 247-273 42-70 (226)
204 PF13912 zf-C2H2_6: C2H2-type 21.0 62 0.0013 18.2 1.2 11 248-258 2-12 (27)
205 PF13465 zf-H2C2_2: Zinc-finge 20.8 61 0.0013 18.6 1.2 12 246-257 13-24 (26)
206 PF08772 NOB1_Zn_bind: Nin one 20.6 76 0.0016 23.5 1.9 28 243-270 5-33 (73)
207 PF13878 zf-C2H2_3: zinc-finge 20.4 51 0.0011 21.4 0.9 15 261-275 13-27 (41)
208 PF11781 RRN7: RNA polymerase 20.3 40 0.00086 21.4 0.3 24 247-270 6-34 (36)
No 1
>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=100.00 E-value=1.8e-72 Score=516.08 Aligned_cols=251 Identities=50% Similarity=0.860 Sum_probs=218.6
Q ss_pred CCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCC---C--CC-CC--
Q 022678 13 VSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTG---N--QS-VG-- 82 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~---~--~~-~~-- 82 (293)
||+|+||||+||..|.. .+..|.++++++++|+|+||++|+.|+|+|||++.++++||||.+... . +. .+
T Consensus 1 pSLLvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~ 80 (276)
T PF03850_consen 1 PSLLVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSS 80 (276)
T ss_pred CcEEEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCccccccc
Confidence 68999999999999998 568999999999999999999999999999999999999999998821 1 00 00
Q ss_pred CCCchhHH----HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCC---CCCCCC------CCC
Q 022678 83 NGRMPSLC----ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGL---LHPQPR------GSP 149 (293)
Q Consensus 83 ~~~~~~~~----~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~---~~~~sR------~S~ 149 (293)
...+...+ +.+.+++++++++....+.. ...+.|+|||++|||||||+.++.. ...++| +|+
T Consensus 81 ~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~-----~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~ 155 (276)
T PF03850_consen 81 DSNKYRQFRNVDETVLEELKKLMSETSESSDS-----TTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSP 155 (276)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHhhccccccc-----ccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCC
Confidence 01111112 24778888888765332221 1238999999999999999987654 468889 699
Q ss_pred CCchhHHHHHHHHHHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCC
Q 022678 150 DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPV 229 (293)
Q Consensus 150 D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~~l~~P~~~ 229 (293)
|.++|||++||+||+|||++|+||||.|+..++.|||||||+|||+|+++.++++|+||||++|+|+|..|+.+.+|.+.
T Consensus 156 d~~~QYi~~MN~iFaAqk~~v~IDv~~L~~~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L~~~fl~~~~~R~~l~~p~~~ 235 (276)
T PF03850_consen 156 DSSSQYIPLMNCIFAAQKQKVPIDVCKLGGKDSTFLQQASDITGGIYLKVSKPEGLLQYLLTAFLPDPSSRSFLILPTQS 235 (276)
T ss_pred CccHHHHHHHHHHHHHhcCCceeEEEEecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHHHHhhccCCCCC
Confidence 99999999999999999999999999997559999999999999999999999999999999999999999999999999
Q ss_pred CCCCceeeeeccCcccceeEcCCCCeeecCCCC--CCCccc
Q 022678 230 GVDFRASCFCHKNTIDMGYICSVCLSIYCKHLK--KCSTCG 268 (293)
Q Consensus 230 ~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~p~--~C~~C~ 268 (293)
.|||||.||||++.+++|||||+||||||++|. +|+|||
T Consensus 236 ~vd~ra~Cfch~k~vd~g~vCsvCLsIfc~~p~~~~C~tC~ 276 (276)
T PF03850_consen 236 SVDFRASCFCHRKVVDIGYVCSVCLSIFCEFPDGGICPTCG 276 (276)
T ss_pred CCCcceeeeecCCcccceeEchhhhhhhhCCCCCCCCCCCC
Confidence 999999999999999999999999999999973 999997
No 2
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.5e-71 Score=506.47 Aligned_cols=254 Identities=36% Similarity=0.620 Sum_probs=220.0
Q ss_pred CCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCC-C----
Q 022678 12 DVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQS-V---- 81 (293)
Q Consensus 12 ~~s~LviIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~-~---- 81 (293)
++|+|+||||+||..|+. ++..|.++++++++|+|+||++|+.|||+|||++.++++||||++..+.+. .
T Consensus 1 ~~slL~vvlD~np~~W~~~~~~~~~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~ 80 (279)
T TIGR00627 1 NPSLLVVIIEANPCSWGMLALAHGKRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDP 80 (279)
T ss_pred CCcEEEEEEeCCHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCcccccccccccc
Confidence 479999999999999954 477999999999999999999999999999999999999999987543211 1
Q ss_pred ---CCCCchhH---HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCC--CCCCCC-----CC
Q 022678 82 ---GNGRMPSL---CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGL--LHPQPR-----GS 148 (293)
Q Consensus 82 ---~~~~~~~~---~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~--~~~~sR-----~S 148 (293)
..+.+..+ -+.+.++|++++.+....+.. ..++.|+|||++|||||||+.++.. .+.++| +|
T Consensus 81 ~~~~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~-----~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s 155 (279)
T TIGR00627 81 KRLRELLYRDFRTVDETIVEEIKPLMAHADKHMKK-----DSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISIT 155 (279)
T ss_pred ccccchhccchhHHHHHHHHHHHHHHhhchhcccc-----cccccchhHHHhhhhhhcccccccccCcCCcceEEEEECC
Confidence 01111111 124788888888765332211 1467899999999999999876533 467888 79
Q ss_pred CCCchhHHHHHHHHHHHHcCCeeEEEEEcCCcC--hHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCC
Q 022678 149 PDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQN--SAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLP 226 (293)
Q Consensus 149 ~D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~e--~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~~l~~P 226 (293)
+|.++|||++||+||+|||+||+||||+|+ +| +.|||||||+|||+|+++.+++||+||||++|+|||..|+.+..|
T Consensus 156 ~~~~~qYi~~mn~Ifaaqk~~I~Idv~~L~-~e~~~~~lqQa~~~TgG~Y~~~~~~~~L~q~L~~~~~pp~~~r~~Li~P 234 (279)
T TIGR00627 156 PDMALQYIPLMNCIFSAQKQNIPIDVVSIG-GDFTSGFLQQAADITGGSYLHVKKPQGLLQYLMTNMLPDPTLRAVLSKP 234 (279)
T ss_pred CCchHHHHHHHHHHHHHHHcCceEEEEEeC-CccccHHHHHHHHHhCCEEeccCCHhHHHHHHHHhcCCChhhhHhhcCC
Confidence 999999999999999999999999999995 55 999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCceeeeeccCcccceeEcCCCCeeecCCCCCCCcccccc
Q 022678 227 KPVGVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVF 271 (293)
Q Consensus 227 ~~~~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f 271 (293)
.+..+||||+||||++++++|||||+|++|||++|++|++||++|
T Consensus 235 ~~~~vd~ra~CfCh~k~v~~GyvCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 235 NHNSVDYRASCFCHHQLVSIGFVCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred CCCCCCCcceeeecCccccceEECCCccCCcCCCCCCCCCCCCCC
Confidence 999999999999999999999999999999999999999999987
No 3
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=4.7e-71 Score=490.26 Aligned_cols=275 Identities=37% Similarity=0.600 Sum_probs=235.0
Q ss_pred CCCCCCCCCCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC
Q 022678 4 APSKLYSDDVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN 78 (293)
Q Consensus 4 ~~~~~~~~~~s~LviIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~ 78 (293)
+.+..+++.+|+|+||||+||..|+. +..++..+|+++++|+|+||.+|+.|+|+|||++.+..+++||++..-+
T Consensus 14 ~~~~~dn~~~slL~vlId~~p~~Wg~~as~~~~~ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e 93 (314)
T KOG2487|consen 14 PASHRDNLNPSLLVVLIDANPCSWGMLASAENWETISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCE 93 (314)
T ss_pred cCcccccCCceeEEEEEecCcchhhhhhhhcCceeHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCC
Confidence 45566677899999999999999987 5568999999999999999999999999999999999999999755432
Q ss_pred C--CC--CCC----CchhHH----HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcC-CCCCCC
Q 022678 79 Q--SV--GNG----RMPSLC----ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSG-LLHPQP 145 (293)
Q Consensus 79 ~--~~--~~~----~~~~~~----~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~-~~~~~s 145 (293)
+ +. +.. .+.+.+ +.++++|..++......+.. ..+.|+|||+.||+|+||+.++. ..+.++
T Consensus 94 ~~n~~~~~~t~~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~~------~rt~lagals~~L~yi~~~~ke~~~~~lkS 167 (314)
T KOG2487|consen 94 DRNASELDPTRLVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDVG------DRTVLAGALSDALGYINRLHKEEASEKLKS 167 (314)
T ss_pred ccCccccCchhhhcchhhhhcccchHHHHHHHHHHhCccccccc------cceeeccchhhccchHhhhhhhhhhhhhhc
Confidence 1 10 101 111112 34899999999875433331 26789999999999999998764 345788
Q ss_pred C-----CCCCCchhHHHHHHHHHHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCcccc
Q 022678 146 R-----GSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSR 220 (293)
Q Consensus 146 R-----~S~D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r 220 (293)
| .+.|.+.|||++||+||+|||+||+||||+|| +++.||||+||+|||.|+++.++++|+||||+.++|+|..|
T Consensus 168 RilV~t~t~d~~~qyi~~MNciFaAqKq~I~Idv~~l~-~~s~~LqQa~D~TGG~YL~v~~~~gLLqyLlt~~~~D~~~R 246 (314)
T KOG2487|consen 168 RILVFTLTRDRALQYIPYMNCIFAAQKQNIPIDVVSLG-GDSGFLQQACDITGGDYLHVEKPDGLLQYLLTLLLTDPELR 246 (314)
T ss_pred eEEEEEechHHHhhhhhHHHHHHHHHhcCceeEEEEec-CCchHHHHHHhhcCCeeEecCCcchHHHHHHHHhcCCcchh
Confidence 9 69999999999999999999999999999995 78999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCCCceeeeeccCcccceeEcCCCCeeecCCCCCCCcccccccccccCCCCCcccccccc
Q 022678 221 NFLQLPKPVGVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQTQSDEPSATNRKRK 289 (293)
Q Consensus 221 ~~l~~P~~~~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~~~~~~~~~~~~~~~ 289 (293)
+.+..|.+..|||||.||||++++++|||||+|||+||.++|+|++|++.|+.+. .|++..+|||
T Consensus 247 ~~l~kpnh~~VDfRAtC~CH~~lv~iG~VCSVCLSVfC~~~PiC~~C~s~F~~t~----~Pv~p~~kkk 311 (314)
T KOG2487|consen 247 AVLSKPNHNSVDFRATCYCHNRLVLIGFVCSVCLSVFCRFVPICKTCKSKFSFTK----YPVKPNRKKK 311 (314)
T ss_pred hhccCCCCCCcCcceeeeeecceeeeeeehHHHHHHhhCCCCccchhhhhccccc----Cccchhhhhh
Confidence 9999999999999999999999999999999999999999999999999998544 2455444444
No 4
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.7e-61 Score=418.35 Aligned_cols=254 Identities=31% Similarity=0.512 Sum_probs=224.2
Q ss_pred CCCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC---CCCC
Q 022678 8 LYSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN---QSVG 82 (293)
Q Consensus 8 ~~~~~~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~---~~~~ 82 (293)
-.||.||+|+||||++|..|.. ++.+.+.+|+.+.+|+|+|++.|+.|+++|||.+..+.++|||++.+.. +.++
T Consensus 15 vteespslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~ 94 (296)
T COG5242 15 VTEESPSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESEN 94 (296)
T ss_pred ccccCCceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccC
Confidence 4567799999999999999998 6778999999999999999999999999999999999999999987754 2222
Q ss_pred CCCchhH---HH----HHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CCC-
Q 022678 83 NGRMPSL---CA----TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GSP- 149 (293)
Q Consensus 83 ~~~~~~~---~~----~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S~- 149 (293)
.. ..+. |+ ..++++..++..+...+ ....++|||+.+|.|+|++..+ ...++| .|.
T Consensus 95 tr-~sd~yrrfr~vde~~i~eiyrl~e~~~k~s--------qr~~v~gams~glay~n~~~~e--~slkSriliftlsG~ 163 (296)
T COG5242 95 TR-NSDMYRRFRNVDETDITEIYRLIEHPHKNS--------QRYDVGGAMSLGLAYCNHRDEE--TSLKSRILIFTLSGR 163 (296)
T ss_pred cc-chhhhhhhcccchHHHHHHHHHHhCccccc--------ceeehhhhhhhhHHHHhhhccc--ccccceEEEEEecCc
Confidence 11 1122 22 37888888887654322 3578999999999999998654 568899 333
Q ss_pred CCchhHHHHHHHHHHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCC
Q 022678 150 DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPV 229 (293)
Q Consensus 150 D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~~l~~P~~~ 229 (293)
|...|||++|||||+|||.||+||||.+ .+.+.||+|+||.|||.|+.+.+++||+|||++.++|++..|+.+.-|.+.
T Consensus 164 d~~~qYip~mnCiF~Aqk~~ipI~v~~i-~g~s~fl~Q~~daTgG~Yl~ve~~eGllqyL~~~lf~d~~lrp~~~~pn~~ 242 (296)
T COG5242 164 DRKDQYIPYMNCIFAAQKFGIPISVFSI-FGNSKFLLQCCDATGGDYLTVEDTEGLLQYLLSLLFTDGELRPLGVKPNHG 242 (296)
T ss_pred hhhhhhchhhhheeehhhcCCceEEEEe-cCccHHHHHHhhccCCeeEeecCchhHHHHHHHHhcCCCCccccccCCCcc
Confidence 8999999999999999999999999999 477999999999999999999999999999999999999999999999999
Q ss_pred CCCCceeeeeccCcccceeEcCCCCeeecCCCCCCCcccccccc
Q 022678 230 GVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQ 273 (293)
Q Consensus 230 ~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~ 273 (293)
.|||||.|+||++++++|||||+||++||+..+.|++|.+.|..
T Consensus 243 svdFratCych~rvv~~GfvCsVCLsvfc~p~~~C~~C~skF~~ 286 (296)
T COG5242 243 SVDFRATCYCHNRVVLLGFVCSVCLSVFCRPVPVCKKCKSKFSF 286 (296)
T ss_pred cccccceeEEeccEEEEeeehhhhheeecCCcCcCccccccccc
Confidence 99999999999999999999999999999999999999999974
No 5
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=6.5e-47 Score=343.24 Aligned_cols=226 Identities=15% Similarity=0.222 Sum_probs=209.4
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
||+||||+|..|-++ +|+|+..+++.+..|+.+||+|||++|++||.++++.|+.+...+||+ +.
T Consensus 62 hl~iviD~S~am~e~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~ltgnp-------------~~ 128 (378)
T KOG2807|consen 62 HLYIVIDCSRAMEEKDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLTGNP-------------RI 128 (378)
T ss_pred eEEEEEEhhhhhhhccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhcCCH-------------HH
Confidence 899999999999988 999999999999999999999999999999999999999999999999 45
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---------CCCCCchhHHHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---------GSPDGPEQYVAIMNAIF 163 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---------~S~D~~~qYi~lmN~if 163 (293)
++++|..+.. . .+.++|||||++|...++.+ +.+.+| .|+||+ +|+.+|.
T Consensus 129 hI~aL~~~~~---~---------~g~fSLqNaLe~a~~~Lk~~-----p~H~sREVLii~sslsT~DPg----di~~tI~ 187 (378)
T KOG2807|consen 129 HIHALKGLTE---C---------SGDFSLQNALELAREVLKHM-----PGHVSREVLIIFSSLSTCDPG----DIYETID 187 (378)
T ss_pred HHHHHhcccc---c---------CCChHHHHHHHHHHHHhcCC-----CcccceEEEEEEeeecccCcc----cHHHHHH
Confidence 7777766641 1 25789999999999999987 467888 689999 6778999
Q ss_pred HHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccc------cccCCCCCCCCCceee
Q 022678 164 SAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRN------FLQLPKPVGVDFRASC 237 (293)
Q Consensus 164 aAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~------~l~~P~~~~vd~~a~C 237 (293)
+.++.||||.|++| ++|++|++.+|..|||.|.++.|+.||..+|+.+..|||.... .||||++...+.+++|
T Consensus 188 ~lk~~kIRvsvIgL-saEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~~~Pp~~~~~~~~sLvkmGFP~~~~e~~ps~C 266 (378)
T KOG2807|consen 188 KLKAYKIRVSVIGL-SAEVFICKELCKATGGRYSVALDEGHLKELLLEHTHPPPANKSKECSLVKMGFPSRSPEDTPSFC 266 (378)
T ss_pred HHHhhCeEEEEEee-chhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhcCCCCCcccccCCceEEecCCCcccccCcchh
Confidence 99999999999999 7999999999999999999999999999999999999987643 6899999999999999
Q ss_pred eeccCcccceeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 238 FCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 238 ~CH~~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
+||..++..||.||+|.+++|++|..||+|+++|+++|
T Consensus 267 ~CH~~~~~~Gy~CP~CkakvCsLP~eCpiC~ltLVss~ 304 (378)
T KOG2807|consen 267 ACHSELSGGGYFCPQCKAKVCSLPIECPICSLTLVSSP 304 (378)
T ss_pred eeccccccCceeCCcccCeeecCCccCCccceeEecch
Confidence 99999999999999999999999999999999999998
No 6
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=7.7e-35 Score=263.15 Aligned_cols=227 Identities=16% Similarity=0.203 Sum_probs=198.5
Q ss_pred CeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022678 14 SLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (293)
Q Consensus 14 s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~ 91 (293)
-+|+||||+|.+|-+. .|.|...+++....|+-+||.|||++|++||..+++-++++....+|+ .
T Consensus 88 Rhl~l~lD~Seam~e~Df~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~~~s~~~gnp-------------q 154 (421)
T COG5151 88 RHLHLILDVSEAMDESDFLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAKYTSSMDGNP-------------Q 154 (421)
T ss_pred heeEEEEEhhhhhhhhhccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHHHHhhhcCCCH-------------H
Confidence 3899999999999888 899999999999999999999999999999999999999999999998 3
Q ss_pred HHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---------CCCCCchhHHHHHHHH
Q 022678 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---------GSPDGPEQYVAIMNAI 162 (293)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---------~S~D~~~qYi~lmN~i 162 (293)
.++.+|+.+.+ . .+..+|+|||+||---+-+. +-+..| .|.||+ ++..+|
T Consensus 155 ~hi~~lkS~rd---~---------~gnfSLqNaLEmar~~l~~~-----~~H~trEvLiifgS~st~DPg----di~~ti 213 (421)
T COG5151 155 AHIGQLKSKRD---C---------SGNFSLQNALEMARIELMKN-----TMHGTREVLIIFGSTSTRDPG----DIAETI 213 (421)
T ss_pred HHHHHhhcccc---c---------CCChhHHhHHHHhhhhhccc-----ccccceEEEEEEeecccCCCc----cHHHHH
Confidence 46666655531 1 24589999999995444333 245677 577999 677899
Q ss_pred HHHHcCCeeEEEEEcCCcChHHHHHHHhhc----CCeeeeeCCcchHHHHHHHhcCCCccccc-------cccCCCCCCC
Q 022678 163 FSAQRSMVPIDSCYLGAQNSAFLQQASYIT----GGVHHKPQQLDGLFQYLLTIFGTDLHSRN-------FLQLPKPVGV 231 (293)
Q Consensus 163 faAqk~~I~Idv~~L~~~e~~iLqQa~~~T----~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~-------~l~~P~~~~v 231 (293)
.++...+|||.+++| .+|..|++.+|..| .|.|.++.|+.||.+++.....|++.-.. .||||++.--
T Consensus 214 d~Lv~~~IrV~~igL-~aevaicKeickaTn~~~e~~y~v~vde~Hl~el~~E~~~P~~~n~~k~~~sLVkmGFPs~~~E 292 (421)
T COG5151 214 DKLVAYNIRVHFIGL-CAEVAICKEICKATNSSTEGRYYVPVDEGHLSELMRELSHPTDFNGTKTDLSLVKMGFPSPMME 292 (421)
T ss_pred HHHHhhceEEEEEee-hhHHHHHHHHHhhcCcCcCceeEeeecHHHHHHHHHhcCCCCCCCccccCceEEEecCCchhhh
Confidence 999999999999999 69999999999999 69999999999999999988887775321 6899998877
Q ss_pred CCceeeeeccCcccceeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 232 DFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 232 d~~a~C~CH~~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
+.++.|+||.+++..||.||+|.+++|.+|..||.|.+.|++++
T Consensus 293 ~~Ps~CaCHs~~~~gGy~CP~CktkVCsLPi~CP~Csl~Lilst 336 (421)
T COG5151 293 QLPSVCACHSEVKGGGYECPVCKTKVCSLPISCPICSLQLILST 336 (421)
T ss_pred cCccceeeeeeeccCceeCCcccceeecCCccCcchhHHHHHHH
Confidence 89999999999999999999999999999999999999999776
No 7
>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=100.00 E-value=1.4e-32 Score=239.50 Aligned_cols=168 Identities=15% Similarity=0.151 Sum_probs=151.8
Q ss_pred EEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHHH
Q 022678 19 LLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQN 96 (293)
Q Consensus 19 IlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~~ 96 (293)
|||+|..|-+. +|+|+..+++.+..|+.+||+|||++||+||+++++.++.+.+.++|+ +.++++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls~lsgn~-------------~~h~~~ 67 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLSELSGNP-------------QEHIEA 67 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEeeecCCCH-------------HHHHHH
Confidence 79999999887 999999999999999999999999999999999999999999999998 458888
Q ss_pred HHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---------CCCCCchhHHHHHHHHHHHHc
Q 022678 97 LEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---------GSPDGPEQYVAIMNAIFSAQR 167 (293)
Q Consensus 97 L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---------~S~D~~~qYi~lmN~ifaAqk 167 (293)
|.++.+... .|+++|||||++|...+... +.+.+| .|+||+ ++..+|..+++
T Consensus 68 L~~~~~~~~----------~G~~SLqN~Le~A~~~L~~~-----p~~~srEIlvi~gSl~t~Dp~----di~~ti~~l~~ 128 (193)
T PF04056_consen 68 LKKLRKLEP----------SGEPSLQNGLEMARSSLKHM-----PSHGSREILVIFGSLTTCDPG----DIHETIESLKK 128 (193)
T ss_pred HHHhccCCC----------CCChhHHHHHHHHHHHHhhC-----ccccceEEEEEEeecccCCch----hHHHHHHHHHH
Confidence 877753321 36899999999999999876 457788 599999 57789999999
Q ss_pred CCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccc
Q 022678 168 SMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHS 219 (293)
Q Consensus 168 ~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~ 219 (293)
.+|||||++| ++|+++|+++|+.|||.|.++.|++||.++|+.+..|||..
T Consensus 129 ~~IrvsvI~l-aaEv~I~k~i~~~T~G~y~V~lde~H~~~lL~~~~~PP~~~ 179 (193)
T PF04056_consen 129 ENIRVSVISL-AAEVYICKKICKETGGTYGVILDEDHFKELLMEHVPPPPTS 179 (193)
T ss_pred cCCEEEEEEE-hHHHHHHHHHHHhhCCEEEEecCHHHHHHHHHhhCCCCccc
Confidence 9999999999 69999999999999999999999999999999998888864
No 8
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=99.77 E-value=1.5e-17 Score=144.69 Aligned_cols=168 Identities=15% Similarity=0.128 Sum_probs=133.3
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
.++|+||+|..|-.. .|+||..+-..+..|++.++..||..++++|+...+.++.+.|.+.+. +.
T Consensus 5 ~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~PlT~D~-------------~~ 71 (183)
T cd01453 5 HLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLTDLTGNP-------------RK 71 (183)
T ss_pred EEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEECCCCCH-------------HH
Confidence 589999999999876 899999999999999999999999999999999889999999998765 22
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CC----CCCchhHHHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GS----PDGPEQYVAIMNAIF 163 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S----~D~~~qYi~lmN~if 163 (293)
++..|..++. . .+.+.|..||.+|+.++.+. +....| .| .|+. .+-+.+.
T Consensus 72 ~~~~L~~~~~------~------~G~t~l~~aL~~A~~~l~~~-----~~~~~~~iiil~sd~~~~~~~----~~~~~~~ 130 (183)
T cd01453 72 HIQALKTARE------C------SGEPSLQNGLEMALESLKHM-----PSHGSREVLIIFSSLSTCDPG----NIYETID 130 (183)
T ss_pred HHHHhhcccC------C------CCchhHHHHHHHHHHHHhcC-----CccCceEEEEEEcCCCcCChh----hHHHHHH
Confidence 4444443310 0 13578999999999888653 112223 12 1221 2346788
Q ss_pred HHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCc
Q 022678 164 SAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDL 217 (293)
Q Consensus 164 aAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~ 217 (293)
.+++.+|+|+++++| .+..+|+++|+.|||.|+.+.+.++|.+.+..+..|||
T Consensus 131 ~l~~~~I~v~~IgiG-~~~~~L~~ia~~tgG~~~~~~~~~~l~~~~~~~~~p~~ 183 (183)
T cd01453 131 KLKKENIRVSVIGLS-AEMHICKEICKATNGTYKVILDETHLKELLLEHVTPPP 183 (183)
T ss_pred HHHHcCcEEEEEEec-hHHHHHHHHHHHhCCeeEeeCCHHHHHHHHHhcCCCCC
Confidence 899999999999996 78899999999999999999999999998888666654
No 9
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=99.57 E-value=1.9e-13 Score=119.19 Aligned_cols=147 Identities=14% Similarity=0.144 Sum_probs=116.5
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
-.+|+||+|..|... +|+||....+.+..|+++|+.+||.+++|||++..+.+..+.|.+++. ..
T Consensus 5 a~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~plT~D~-------------~~ 71 (187)
T cd01452 5 ATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLVTLTNDQ-------------GK 71 (187)
T ss_pred EEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEECCCCCH-------------HH
Confidence 579999999999877 899999999999999999999999999999999988999999998876 23
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC--------CCCCCchhHHHHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR--------GSPDGPEQYVAIMNAIFS 164 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR--------~S~D~~~qYi~lmN~ifa 164 (293)
+...|..+ .. .+.++|++||.+|+-.+..... ...+.| +++|++ .+.+++..
T Consensus 72 ~~~~L~~i----~~---------~g~~~l~~AL~~A~~~L~~~~~---~~~~~rivi~v~S~~~~d~~----~i~~~~~~ 131 (187)
T cd01452 72 ILSKLHDV----QP---------KGKANFITGIQIAQLALKHRQN---KNQKQRIVAFVGSPIEEDEK----DLVKLAKR 131 (187)
T ss_pred HHHHHHhC----CC---------CCcchHHHHHHHHHHHHhcCCC---cCCcceEEEEEecCCcCCHH----HHHHHHHH
Confidence 44444322 11 1467899999999988766421 112235 344555 56789999
Q ss_pred HHcCCeeEEEEEcCCc--ChHHHHHHHhhcCC
Q 022678 165 AQRSMVPIDSCYLGAQ--NSAFLQQASYITGG 194 (293)
Q Consensus 165 Aqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G 194 (293)
++|+||+||++++|+. ....|+...+..++
T Consensus 132 lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~~ 163 (187)
T cd01452 132 LKKNNVSVDIINFGEIDDNTEKLTAFIDAVNG 163 (187)
T ss_pred HHHcCCeEEEEEeCCCCCCHHHHHHHHHHhcC
Confidence 9999999999999844 56788888888864
No 10
>PRK13685 hypothetical protein; Provisional
Probab=98.88 E-value=1.5e-07 Score=88.91 Aligned_cols=171 Identities=15% Similarity=0.182 Sum_probs=112.9
Q ss_pred CCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022678 11 DDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (293)
Q Consensus 11 ~~~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~ 88 (293)
..+..+++|||+|..|... .|.|+...-..+..|++.. .+..++++|+.. +.+..+.|...+.
T Consensus 86 ~~~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l---~~~d~vglv~Fa-~~a~~~~p~t~d~----------- 150 (326)
T PRK13685 86 RNRAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADEL---TPGINLGLIAFA-GTATVLVSPTTNR----------- 150 (326)
T ss_pred CCCceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhC---CCCCeEEEEEEc-CceeecCCCCCCH-----------
Confidence 3456799999999999876 7899999999999998763 567899999987 4577777765332
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc--CCCCCCCC----CCC---CCc---hhHH
Q 022678 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS--GLLHPQPR----GSP---DGP---EQYV 156 (293)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~--~~~~~~sR----~S~---D~~---~qYi 156 (293)
+.+...|..+- . + +.+.+..+|..|+..+.+.... .......+ .|+ ..+ ..-.
T Consensus 151 --~~l~~~l~~l~----~-~--------~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~~ 215 (326)
T PRK13685 151 --EATKNAIDKLQ----L-A--------DRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNPR 215 (326)
T ss_pred --HHHHHHHHhCC----C-C--------CCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCcc
Confidence 12333333221 1 1 2345677888888776542110 00011122 122 111 0001
Q ss_pred HHHHHHHHHHcCCeeEEEEEcCCc---------------ChHHHHHHHhhcCCeeeeeCCcchHHHHHHH
Q 022678 157 AIMNAIFSAQRSMVPIDSCYLGAQ---------------NSAFLQQASYITGGVHHKPQQLDGLFQYLLT 211 (293)
Q Consensus 157 ~lmN~ifaAqk~~I~Idv~~L~~~---------------e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~ 211 (293)
..+.+...|++.+|+|.++.+|.. +...||++|+.|||.|+.+.+.+.|.+.+-.
T Consensus 216 ~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~~L~~if~~ 285 (326)
T PRK13685 216 GAYTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAASLEELRAVYAT 285 (326)
T ss_pred cHHHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCCHHHHHHHHHH
Confidence 234677888999999999999852 4579999999999999999987776555433
No 11
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=98.82 E-value=2.2e-07 Score=77.45 Aligned_cols=159 Identities=15% Similarity=0.122 Sum_probs=106.3
Q ss_pred EEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHH
Q 022678 16 VVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATL 93 (293)
Q Consensus 16 LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i 93 (293)
+++|||.|..|... .+.++..+...+..+++.+ +.++++|+....+ +...+|...+. +.+
T Consensus 2 vv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~----~~~~v~l~~f~~~-~~~~~~~t~~~-------------~~~ 63 (172)
T PF13519_consen 2 VVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANL----PGDRVGLVSFSDS-SRTLSPLTSDK-------------DEL 63 (172)
T ss_dssp EEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHH----TTSEEEEEEESTS-CEEEEEEESSH-------------HHH
T ss_pred EEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHC----CCCEEEEEEeccc-ccccccccccH-------------HHH
Confidence 78999999999877 5678888888888888874 6779999998864 56677755332 235
Q ss_pred HHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCC-CchhHHHHHHHHHHHHcC
Q 022678 94 LQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPD-GPEQYVAIMNAIFSAQRS 168 (293)
Q Consensus 94 ~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D-~~~qYi~lmN~ifaAqk~ 168 (293)
.+.+..+...... .+.+.+..||..|..++... ....| .|.. +..... +.+..+++.
T Consensus 64 ~~~l~~~~~~~~~---------~~~t~~~~al~~a~~~~~~~------~~~~~~iv~iTDG~~~~~~~---~~~~~~~~~ 125 (172)
T PF13519_consen 64 KNALNKLSPQGMP---------GGGTNLYDALQEAAKMLASS------DNRRRAIVLITDGEDNSSDI---EAAKALKQQ 125 (172)
T ss_dssp HHHHHTHHHHG-----------SSS--HHHHHHHHHHHHHC-------SSEEEEEEEEES-TTHCHHH---HHHHHHHCT
T ss_pred HHHhhcccccccC---------ccCCcHHHHHHHHHHHHHhC------CCCceEEEEecCCCCCcchh---HHHHHHHHc
Confidence 5555544322111 13467888888888776553 11223 2332 222222 577788999
Q ss_pred CeeEEEEEcCCcCh--HHHHHHHhhcCCeeeee-CCcchHHHHHH
Q 022678 169 MVPIDSCYLGAQNS--AFLQQASYITGGVHHKP-QQLDGLFQYLL 210 (293)
Q Consensus 169 ~I~Idv~~L~~~e~--~iLqQa~~~T~G~Y~~~-~~~~~l~~~L~ 210 (293)
+|+|.++.++..+. ..|++++..|||.|+.+ .+.+.|.+.|-
T Consensus 126 ~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~~l~~~~~ 170 (172)
T PF13519_consen 126 GITIYTVGIGSDSDANEFLQRLAEATGGRYFHVDNDPEDLDDAFQ 170 (172)
T ss_dssp TEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-SSSHHHHHHHH
T ss_pred CCeEEEEEECCCccHHHHHHHHHHhcCCEEEEecCCHHHHHHHHh
Confidence 99999999974433 59999999999999999 67777766653
No 12
>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=98.72 E-value=8.4e-07 Score=75.73 Aligned_cols=157 Identities=10% Similarity=0.003 Sum_probs=95.9
Q ss_pred eEEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022678 15 LVVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (293)
Q Consensus 15 ~LviIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~ 91 (293)
.++++||.|..|... .+.++..+-.. +..++...+..+++||.... ..+.+.|..... .
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~----~~~~~~~~~~~~v~lv~f~~-~~~~~~~~~~~~-------------~ 65 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEV----LSDFIDRRENDRIGLVVFAG-AAFTQAPLTLDR-------------E 65 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHH----HHHHHHhCCCCeEEEEEEcC-CeeeccCCCccH-------------H
Confidence 589999999999654 24455544443 44556667888999999764 455555554322 1
Q ss_pred HHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCCCC-chhHHHHHHHHHHHHc
Q 022678 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSPDG-PEQYVAIMNAIFSAQR 167 (293)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~D~-~~qYi~lmN~ifaAqk 167 (293)
.+.+.|..+.... . .+.+.+..+|..|+..+.+.. ..... .|.-. ...+.........+++
T Consensus 66 ~~~~~l~~l~~~~--~--------~g~T~l~~al~~a~~~l~~~~-----~~~~~iiliTDG~~~~g~~~~~~~~~~~~~ 130 (180)
T cd01467 66 SLKELLEDIKIGL--A--------GQGTAIGDAIGLAIKRLKNSE-----AKERVIVLLTDGENNAGEIDPATAAELAKN 130 (180)
T ss_pred HHHHHHHHhhhcc--c--------CCCCcHHHHHHHHHHHHHhcC-----CCCCEEEEEeCCCCCCCCCCHHHHHHHHHH
Confidence 1222232221110 0 134678888888877764421 11111 22211 1111122345666788
Q ss_pred CCeeEEEEEcCC------------cChHHHHHHHhhcCCeeeeeCCcch
Q 022678 168 SMVPIDSCYLGA------------QNSAFLQQASYITGGVHHKPQQLDG 204 (293)
Q Consensus 168 ~~I~Idv~~L~~------------~e~~iLqQa~~~T~G~Y~~~~~~~~ 204 (293)
.+|+|.++.+|. .+...|+++|+.|||.|+.+.++..
T Consensus 131 ~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~ 179 (180)
T cd01467 131 KGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALDGFE 179 (180)
T ss_pred CCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecCccc
Confidence 999999999985 4678999999999999999987654
No 13
>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=98.67 E-value=2.4e-06 Score=71.84 Aligned_cols=161 Identities=16% Similarity=0.157 Sum_probs=102.1
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
|--++++||.|..|... ++..+.+.+..|+.. ..+..+++||+..+. .+.++|...... ..
T Consensus 2 ~~~v~~vlD~S~SM~~~---~~~~~~~al~~~l~~---l~~~~~~~l~~Fs~~-~~~~~~~~~~~~------------~~ 62 (171)
T cd01461 2 PKEVVFVIDTSGSMSGT---KIEQTKEALLTALKD---LPPGDYFNIIGFSDT-VEEFSPSSVSAT------------AE 62 (171)
T ss_pred CceEEEEEECCCCCCCh---hHHHHHHHHHHHHHh---CCCCCEEEEEEeCCC-ceeecCcceeCC------------HH
Confidence 34589999999999754 466666677666654 345668999987644 444444321110 01
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCC---CCchhHHHHHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSP---DGPEQYVAIMNAIFSA 165 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~---D~~~qYi~lmN~ifaA 165 (293)
-++.+.+.+..-.. .+.+.+..+|..|+..+.+. ....+ .|. +... .+.+.+..+
T Consensus 63 ~~~~~~~~l~~~~~---------~g~T~l~~al~~a~~~l~~~------~~~~~~iillTDG~~~~~~---~~~~~~~~~ 124 (171)
T cd01461 63 NVAAAIEYVNRLQA---------LGGTNMNDALEAALELLNSS------PGSVPQIILLTDGEVTNES---QILKNVREA 124 (171)
T ss_pred HHHHHHHHHHhcCC---------CCCcCHHHHHHHHHHhhccC------CCCccEEEEEeCCCCCCHH---HHHHHHHHh
Confidence 12223333332111 13567888888877665431 11223 222 2222 344666667
Q ss_pred HcCCeeEEEEEcCC-cChHHHHHHHhhcCCeeeeeCCcchHHHHHH
Q 022678 166 QRSMVPIDSCYLGA-QNSAFLQQASYITGGVHHKPQQLDGLFQYLL 210 (293)
Q Consensus 166 qk~~I~Idv~~L~~-~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~ 210 (293)
.+.+|+|-++.+|. .+..+|+++|+.|||.|..+.+.+.+.+.|+
T Consensus 125 ~~~~i~i~~i~~g~~~~~~~l~~ia~~~gG~~~~~~~~~~~~~~~~ 170 (171)
T cd01461 125 LSGRIRLFTFGIGSDVNTYLLERLAREGRGIARRIYETDDIESQLL 170 (171)
T ss_pred cCCCceEEEEEeCCccCHHHHHHHHHcCCCeEEEecChHHHHHHhc
Confidence 77799999999974 4789999999999999999999998888764
No 14
>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=98.60 E-value=5.4e-06 Score=71.28 Aligned_cols=157 Identities=12% Similarity=0.069 Sum_probs=99.7
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
.++++||.|..|... .++..+...+..|+..-+ .+..+++||+..++..+++.|...+. ..+.
T Consensus 2 ~v~lvlD~SgSM~~~--~rl~~ak~a~~~~~~~~~--~~~d~v~lv~F~~~~~~~~~~~t~~~-------------~~~~ 64 (178)
T cd01451 2 LVIFVVDASGSMAAR--HRMAAAKGAVLSLLRDAY--QRRDKVALIAFRGTEAEVLLPPTRSV-------------ELAK 64 (178)
T ss_pred eEEEEEECCccCCCc--cHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEeCCCCCH-------------HHHH
Confidence 588999999999764 457766666666665433 46789999998766667777765432 1122
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCC---CCchh-H-HHHHHHHHHHH
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSP---DGPEQ-Y-VAIMNAIFSAQ 166 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~---D~~~q-Y-i~lmN~ifaAq 166 (293)
+.|..+ . . .+.+.|..+|..|+..+++..+. +....+ .|. ..+.. . .........++
T Consensus 65 ~~l~~l----~-~--------~G~T~l~~aL~~a~~~l~~~~~~--~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~ 129 (178)
T cd01451 65 RRLARL----P-T--------GGGTPLAAGLLAAYELAAEQARD--PGQRPLIVVITDGRANVGPDPTADRALAAARKLR 129 (178)
T ss_pred HHHHhC----C-C--------CCCCcHHHHHHHHHHHHHHHhcC--CCCceEEEEECCCCCCCCCCchhHHHHHHHHHHH
Confidence 333222 1 1 13578899999999887221110 001112 121 11100 0 11245677889
Q ss_pred cCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCCcc
Q 022678 167 RSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQLD 203 (293)
Q Consensus 167 k~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~~~ 203 (293)
+.+|.|.++..+.. +..+|+++|+.|||.|+.+.+.+
T Consensus 130 ~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~ 168 (178)
T cd01451 130 ARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLS 168 (178)
T ss_pred hcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCC
Confidence 99999999988632 35799999999999999998764
No 15
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.59 E-value=1.9e-08 Score=80.24 Aligned_cols=29 Identities=28% Similarity=0.750 Sum_probs=28.4
Q ss_pred eeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 247 GYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 247 GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
||+||+|.+++|++|+.|++||++|++++
T Consensus 1 GY~CPrC~skvC~LP~~CpiCgLtLVss~ 29 (112)
T TIGR00622 1 GYFCPQCRAKVCELPVECPICGLTLILST 29 (112)
T ss_pred CccCCCCCCCccCCCCcCCcCCCEEeccc
Confidence 89999999999999999999999999998
No 16
>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=98.55 E-value=8.3e-06 Score=75.64 Aligned_cols=175 Identities=18% Similarity=0.098 Sum_probs=108.6
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022678 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (293)
Q Consensus 12 ~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~ 91 (293)
.|-.++++||+|..|-. .+..+.+++..|+...+ .+..+++||... +..+++.|...+. +
T Consensus 52 ~p~~vvlvlD~SgSM~~----~~~~a~~a~~~~l~~~l--~~~d~v~lv~f~-~~~~~~~~~t~~~-------------~ 111 (296)
T TIGR03436 52 LPLTVGLVIDTSGSMRN----DLDRARAAAIRFLKTVL--RPNDRVFVVTFN-TRLRLLQDFTSDP-------------R 111 (296)
T ss_pred CCceEEEEEECCCCchH----HHHHHHHHHHHHHHhhC--CCCCEEEEEEeC-CceeEeecCCCCH-------------H
Confidence 36789999999999864 37778888888887754 578999999877 4677777765443 2
Q ss_pred HHHHHHHHHHhhhhhcCC--CCCCccccccchHHHHHHHHH-HHHHhhhcCCCCCCCC-----CCC--CCchhHHHHHHH
Q 022678 92 TLLQNLEEFMNKDEQLGK--QEPEGRIACSLLSGSLSMALC-YIQRVFRSGLLHPQPR-----GSP--DGPEQYVAIMNA 161 (293)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~--~~~~~~~~~s~L~~aLs~ALc-~inr~~~~~~~~~~sR-----~S~--D~~~qYi~lmN~ 161 (293)
.+.+.|..+-........ .......+.+.|..||.+|.- .+.+... ....| .|. |..+++ .+-.+
T Consensus 112 ~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~----~~p~rk~iIllTDG~~~~~~~-~~~~~ 186 (296)
T TIGR03436 112 LLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALA----GIPGRKALIVISDGGDNRSRD-TLERA 186 (296)
T ss_pred HHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhc----CCCCCeEEEEEecCCCcchHH-HHHHH
Confidence 355555544210000000 000001245678888766643 2222210 11123 232 333333 45678
Q ss_pred HHHHHcCCeeEEEEEcCC--------------cChHHHHHHHhhcCCeeeeeCCcchHHHHHHHh
Q 022678 162 IFSAQRSMVPIDSCYLGA--------------QNSAFLQQASYITGGVHHKPQQLDGLFQYLLTI 212 (293)
Q Consensus 162 ifaAqk~~I~Idv~~L~~--------------~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~ 212 (293)
+..|++.+|+|.++.++. .....|+++|+.|||.|+.+ +.+.|.+.+...
T Consensus 187 ~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~-~~~~l~~~f~~i 250 (296)
T TIGR03436 187 IDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGRAFYV-NSNDLDGAFAQI 250 (296)
T ss_pred HHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCeEecc-cCccHHHHHHHH
Confidence 888999999999999952 13569999999999999887 666655544433
No 17
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=98.54 E-value=1.1e-05 Score=67.74 Aligned_cols=160 Identities=8% Similarity=0.085 Sum_probs=101.1
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
.++++||.|..|-.. ++....+.+..++. ..++..+++||+... ..+.++|...... .
T Consensus 2 ~~~~vlD~S~SM~~~---~~~~~k~a~~~~~~---~l~~~~~v~li~f~~-~~~~~~~~~~~~~--------------~- 59 (170)
T cd01465 2 NLVFVIDRSGSMDGP---KLPLVKSALKLLVD---QLRPDDRLAIVTYDG-AAETVLPATPVRD--------------K- 59 (170)
T ss_pred cEEEEEECCCCCCCh---hHHHHHHHHHHHHH---hCCCCCEEEEEEecC-CccEEecCcccch--------------H-
Confidence 478999999999543 35555555555554 336677999998774 5677777543221 1
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC------CCCCCc-hhHHHHHHHHHHHHc
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR------GSPDGP-EQYVAIMNAIFSAQR 167 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR------~S~D~~-~qYi~lmN~ifaAqk 167 (293)
+.+.+.+..-.. .+.+.+..+|..|+..+.+.... .-..+ +-+..+ ..+-.+...+..+++
T Consensus 60 ~~l~~~l~~~~~---------~g~T~~~~al~~a~~~~~~~~~~---~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~ 127 (170)
T cd01465 60 AAILAAIDRLTA---------GGSTAGGAGIQLGYQEAQKHFVP---GGVNRILLATDGDFNVGETDPDELARLVAQKRE 127 (170)
T ss_pred HHHHHHHHcCCC---------CCCCCHHHHHHHHHHHHHhhcCC---CCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhc
Confidence 333333322111 13567889999999887654210 11122 211111 112234556667788
Q ss_pred CCeeEEEEEcCCc-ChHHHHHHHhhcCCeeeeeCCcchHHHH
Q 022678 168 SMVPIDSCYLGAQ-NSAFLQQASYITGGVHHKPQQLDGLFQY 208 (293)
Q Consensus 168 ~~I~Idv~~L~~~-e~~iLqQa~~~T~G~Y~~~~~~~~l~~~ 208 (293)
.+|+|.++.+|.. +...|+++|..++|.|+.+.+.+.+-++
T Consensus 128 ~~v~i~~i~~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~~~~ 169 (170)
T cd01465 128 SGITLSTLGFGDNYNEDLMEAIADAGNGNTAYIDNLAEARKV 169 (170)
T ss_pred CCeEEEEEEeCCCcCHHHHHHHHhcCCceEEEeCCHHHHHhh
Confidence 9999999999743 6789999999999999999887766543
No 18
>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=98.53 E-value=3.8e-06 Score=70.70 Aligned_cols=148 Identities=16% Similarity=0.160 Sum_probs=91.1
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
+++|||.|..|... ++..+-.++. ++...| .+.++++||+... .+++++|...-.. .-.+
T Consensus 3 v~~vlD~S~SM~~~---rl~~ak~a~~-~l~~~l--~~~~~~~li~F~~-~~~~~~~~~~~~~-------------~~~~ 62 (155)
T cd01466 3 LVAVLDVSGSMAGD---KLQLVKHALR-FVISSL--GDADRLSIVTFST-SAKRLSPLRRMTA-------------KGKR 62 (155)
T ss_pred EEEEEECCCCCCcH---HHHHHHHHHH-HHHHhC--CCcceEEEEEecC-CccccCCCcccCH-------------HHHH
Confidence 78999999999764 5666655544 333333 3457899999764 5677777543210 0112
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCCCCchhHHHHHHHHHHHHcCCeeE
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSPDGPEQYVAIMNAIFSAQRSMVPI 172 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~D~~~qYi~lmN~ifaAqk~~I~I 172 (293)
.+.+.+..-.. .+.+.+..||..|...+.+.. .+....+ .|.-..+.- .....+++.+|+|
T Consensus 63 ~~~~~i~~~~~---------~g~T~~~~al~~a~~~~~~~~---~~~~~~~iillTDG~~~~~----~~~~~~~~~~v~v 126 (155)
T cd01466 63 SAKRVVDGLQA---------GGGTNVVGGLKKALKVLGDRR---QKNPVASIMLLSDGQDNHG----AVVLRADNAPIPI 126 (155)
T ss_pred HHHHHHHhccC---------CCCccHHHHHHHHHHHHhhcc---cCCCceEEEEEcCCCCCcc----hhhhcccCCCceE
Confidence 33333332111 135788999999987765421 1111223 232111100 2344567789999
Q ss_pred EEEEcC-CcChHHHHHHHhhcCCeeeee
Q 022678 173 DSCYLG-AQNSAFLQQASYITGGVHHKP 199 (293)
Q Consensus 173 dv~~L~-~~e~~iLqQa~~~T~G~Y~~~ 199 (293)
.++.+| ..+..+|+++|++|||.|+.+
T Consensus 127 ~~igig~~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 127 HTFGLGASHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred EEEecCCCCCHHHHHHHHhccCceEEEe
Confidence 999997 357889999999999999876
No 19
>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=98.34 E-value=1.9e-05 Score=69.40 Aligned_cols=170 Identities=14% Similarity=0.086 Sum_probs=98.7
Q ss_pred CCCCCCCCCeEEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecC-----ceEEEecCCCCC
Q 022678 6 SKLYSDDVSLVVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYN-----SCDYVYDSSSTG 77 (293)
Q Consensus 6 ~~~~~~~~s~LviIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~-----~s~~lyp~~~~~ 77 (293)
+......+..+++|||.|..|... .+.++..+-+.+..|++. +.+.++++||..... ..+.+.|.....
T Consensus 13 ~~~~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~ 89 (206)
T cd01456 13 VETEPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNPLDVRVLVPKGCLT 89 (206)
T ss_pred cccccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCCccccccccccccc
Confidence 334555678999999999999842 467899998888888875 456789999997652 123333211110
Q ss_pred CCCCCCCCchhHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCC---C
Q 022678 78 NQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSP---D 150 (293)
Q Consensus 78 ~~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~---D 150 (293)
........ ...+.+.+.|..+. . . .+.+.|..+|..|+.++. . ...+ .|. +
T Consensus 90 ~~~~~~~~--~~~~~l~~~i~~i~--~-~---------~G~T~l~~aL~~a~~~l~---~-----~~~~~iillTDG~~~ 147 (206)
T cd01456 90 APVNGFPS--AQRSALDAALNSLQ--T-P---------TGWTPLAAALAEAAAYVD---P-----GRVNVVVLITDGEDT 147 (206)
T ss_pred cccCCCCc--ccHHHHHHHHHhhc--C-C---------CCcChHHHHHHHHHHHhC---C-----CCcceEEEEcCCCcc
Confidence 00000000 00012333333331 0 1 245788999999987763 0 1112 122 1
Q ss_pred CchhHHHHHHHHHHHHc----CCeeEEEEEcCCc-ChHHHHHHHhhcCCee-eeeCCc
Q 022678 151 GPEQYVAIMNAIFSAQR----SMVPIDSCYLGAQ-NSAFLQQASYITGGVH-HKPQQL 202 (293)
Q Consensus 151 ~~~qYi~lmN~ifaAqk----~~I~Idv~~L~~~-e~~iLqQa~~~T~G~Y-~~~~~~ 202 (293)
.+...... +-..++. .+|+|.++.+|.. +..+|+++|+.|||.| +.+.+.
T Consensus 148 ~~~~~~~~--~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~iA~~tgG~~~~~~~~~ 203 (206)
T cd01456 148 CGPDPCEV--ARELAKRRTPAPPIKVNVIDFGGDADRAELEAIAEATGGTYAYNQSDL 203 (206)
T ss_pred CCCCHHHH--HHHHHHhcCCCCCceEEEEEecCcccHHHHHHHHHhcCCeEecccccc
Confidence 11111111 2222333 5999999999743 5789999999999999 655543
No 20
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.32 E-value=2.7e-05 Score=81.69 Aligned_cols=155 Identities=13% Similarity=0.116 Sum_probs=104.9
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
.++||||.|..|-.. .++..+-+++..|+...+ .+..+++||.... .+.++.|+..-.. ....
T Consensus 306 ~VVLVLDvSGSM~g~--dRL~~lkqAA~~fL~~~l--~~~DrVGLVtFss-sA~vl~pLt~Its------------~~dr 368 (863)
T TIGR00868 306 IVCLVLDKSGSMTVE--DRLKRMNQAAKLFLLQTV--EKGSWVGMVTFDS-AAYIKNELIQITS------------SAER 368 (863)
T ss_pred eEEEEEECCcccccc--CHHHHHHHHHHHHHHHhC--CCCCEEEEEEECC-ceeEeeccccCCc------------HHHH
Confidence 588999999999553 367777777778876664 4678999998774 5677777653221 0122
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCe
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I 170 (293)
++|...+...+ .+.+.|..||.+|+..+++... ....+ .|+...+. .-.++..+++.+|
T Consensus 369 ~aL~~~L~~~A----------~GGT~I~~GL~~Alq~L~~~~~----~~~~~~IILLTDGedn~---~~~~l~~lk~~gV 431 (863)
T TIGR00868 369 DALTANLPTAA----------SGGTSICSGLKAAFQVIKKSYQ----STDGSEIVLLTDGEDNT---ISSCFEEVKQSGA 431 (863)
T ss_pred HHHHHhhcccc----------CCCCcHHHHHHHHHHHHHhccc----ccCCCEEEEEeCCCCCC---HHHHHHHHHHcCC
Confidence 33333332111 2467899999999988876421 11223 33322211 2356777888999
Q ss_pred eEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcc
Q 022678 171 PIDSCYLGAQNSAFLQQASYITGGVHHKPQQLD 203 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~ 203 (293)
+|.++.+|......|+++|+.|||.|+.+.+.+
T Consensus 432 tI~TIg~G~dad~~L~~IA~~TGG~~f~asd~~ 464 (863)
T TIGR00868 432 IIHTIALGPSAAKELEELSDMTGGLRFYASDQA 464 (863)
T ss_pred EEEEEEeCCChHHHHHHHHHhcCCEEEEeCCHH
Confidence 999999996666779999999999999998754
No 21
>smart00327 VWA von Willebrand factor (vWF) type A domain. VWA domains in extracellular eukaryotic proteins mediate adhesion via metal ion-dependent adhesion sites (MIDAS). Intracellular VWA domains and homologues in prokaryotes have recently been identified. The proposed VWA domains in integrin beta subunits have recently been substantiated using sequence-based methods.
Probab=98.26 E-value=4e-05 Score=64.01 Aligned_cols=157 Identities=17% Similarity=0.128 Sum_probs=104.5
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
-++++||.|..|- ..++..+...+..|+..+...++..+++|+...++. ....|...... .+.+.
T Consensus 3 ~v~l~vD~S~SM~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~~~-~~~~~~~~~~~-----------~~~~~ 67 (177)
T smart00327 3 DVVFLLDGSGSMG---PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSDDA-TVLFPLNDSRS-----------KDALL 67 (177)
T ss_pred cEEEEEeCCCccc---hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCc-eEEEcccccCC-----------HHHHH
Confidence 4789999999994 346888888899999999988889999999998754 44444431110 02344
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCe
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I 170 (293)
+.+..+.-. . .+.+.+..||..|+..+........ ....+ .|......+-.+...+..+++.+|
T Consensus 68 ~~i~~~~~~-----~------~~~~~~~~al~~~~~~~~~~~~~~~-~~~~~~iviitDg~~~~~~~~~~~~~~~~~~~i 135 (177)
T smart00327 68 EALASLSYK-----L------GGGTNLGAALQYALENLFSKSAGSR-RGAPKVLILITDGESNDGGDLLKAAKELKRSGV 135 (177)
T ss_pred HHHHhcCCC-----C------CCCchHHHHHHHHHHHhcCcCCCCC-CCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCC
Confidence 444433210 0 1356788888888866642211111 11122 232222111245678999999999
Q ss_pred eEEEEEcCCc-ChHHHHHHHhhcCCeeee
Q 022678 171 PIDSCYLGAQ-NSAFLQQASYITGGVHHK 198 (293)
Q Consensus 171 ~Idv~~L~~~-e~~iLqQa~~~T~G~Y~~ 198 (293)
.|.++.++.. ....+++++..++|.|..
T Consensus 136 ~i~~i~~~~~~~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 136 KVFVVGVGNDVDEEELKKLASAPGGVYVF 164 (177)
T ss_pred EEEEEEccCccCHHHHHHHhCCCcceEEe
Confidence 9999999755 899999999999999975
No 22
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=98.25 E-value=4e-05 Score=64.62 Aligned_cols=155 Identities=10% Similarity=0.038 Sum_probs=98.4
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
+++|||.|..|+.. ++..+.+.+..+++.+...+...+++||... +.++.+.|.....+ . +.+.+
T Consensus 3 vv~vlD~SgSm~~~---~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs-~~~~~~~~~~~~~~-------~----~~~~~ 67 (164)
T cd01472 3 IVFLVDGSESIGLS---NFNLVKDFVKRVVERLDIGPDGVRVGVVQYS-DDPRTEFYLNTYRS-------K----DDVLE 67 (164)
T ss_pred EEEEEeCCCCCCHH---HHHHHHHHHHHHHhhcccCCCCeEEEEEEEc-CceeEEEecCCCCC-------H----HHHHH
Confidence 68999999999874 4666666677777766544556799999876 56777777653211 0 22444
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCee
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMVP 171 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I~ 171 (293)
.|..+-. .+ +.+.+..||..|...+.... ........| .|...+.. ........+++.+|+
T Consensus 68 ~l~~l~~----~~--------g~T~~~~al~~a~~~l~~~~-~~~~~~~~~~iiliTDG~~~~--~~~~~~~~l~~~gv~ 132 (164)
T cd01472 68 AVKNLRY----IG--------GGTNTGKALKYVRENLFTEA-SGSREGVPKVLVVITDGKSQD--DVEEPAVELKQAGIE 132 (164)
T ss_pred HHHhCcC----CC--------CCchHHHHHHHHHHHhCCcc-cCCCCCCCEEEEEEcCCCCCc--hHHHHHHHHHHCCCE
Confidence 4443311 11 24578888888887665421 001011122 23221111 223455567789999
Q ss_pred EEEEEcCCcChHHHHHHHhhcCCeeeeeC
Q 022678 172 IDSCYLGAQNSAFLQQASYITGGVHHKPQ 200 (293)
Q Consensus 172 Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~ 200 (293)
|-++.+|..+...|+++|..++|.|.-..
T Consensus 133 i~~ig~g~~~~~~L~~ia~~~~~~~~~~~ 161 (164)
T cd01472 133 VFAVGVKNADEEELKQIASDPKELYVFNV 161 (164)
T ss_pred EEEEECCcCCHHHHHHHHCCCchheEEec
Confidence 99999987799999999999999987654
No 23
>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=98.22 E-value=3.9e-05 Score=66.53 Aligned_cols=165 Identities=16% Similarity=0.139 Sum_probs=95.0
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022678 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (293)
Q Consensus 11 ~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~ 90 (293)
..|..++++||.|..|... ++..+-..+..++.. +.+..+++||+.. +..+.++|......... . ....
T Consensus 11 ~~p~~vv~llD~SgSM~~~---~l~~ak~~~~~ll~~---l~~~d~v~lv~F~-~~~~~~~~~~~~~~~~~--~--~~~~ 79 (190)
T cd01463 11 TSPKDIVILLDVSGSMTGQ---RLHLAKQTVSSILDT---LSDNDFFNIITFS-NEVNPVVPCFNDTLVQA--T--TSNK 79 (190)
T ss_pred cCCceEEEEEECCCCCCcH---HHHHHHHHHHHHHHh---CCCCCEEEEEEeC-CCeeEEeeecccceEec--C--HHHH
Confidence 4688999999999999753 566555555555543 3566699999876 45677777443210000 0 0001
Q ss_pred HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCC--CCC-CC----CCCCCchhHHHHHHHHH
Q 022678 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLL--HPQ-PR----GSPDGPEQYVAIMNAIF 163 (293)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~--~~~-sR----~S~D~~~qYi~lmN~if 163 (293)
..+.+.|..+ .. .+.+.+..||..|+..+.+....... ... .+ .|....+... +++.
T Consensus 80 ~~~~~~l~~l----~~---------~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~---~~~~ 143 (190)
T cd01463 80 KVLKEALDML----EA---------KGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK---EIFD 143 (190)
T ss_pred HHHHHHHhhC----CC---------CCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh---HHHH
Confidence 1233333222 01 13467888898888777652110000 111 12 3433222221 2222
Q ss_pred HHH--c---CCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCCc
Q 022678 164 SAQ--R---SMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQL 202 (293)
Q Consensus 164 aAq--k---~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~~ 202 (293)
... + .+|+|.++++|.. +..+||++|..+||.|..+.+.
T Consensus 144 ~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 144 KYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred HhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEcccC
Confidence 222 2 2599999999853 5789999999999999998765
No 24
>cd01455 vWA_F11C1-5a_type Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=98.13 E-value=0.0002 Score=62.82 Aligned_cols=172 Identities=12% Similarity=0.019 Sum_probs=98.4
Q ss_pred eEEEEEeCCcccc-----ccC-CccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022678 15 LVVVLLDTNPFFW-----SSS-SLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (293)
Q Consensus 15 ~LviIlD~s~~~w-----~~~-~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~ 88 (293)
.|+|+||+|.+|. ..+ ..||..+...+..| ..|......-.++. .+.+.++-|..-..+ +. .+.+
T Consensus 2 ~l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f-~~f~~~r~~DriG~----~g~~~~~~~lt~d~p-~t--~d~~- 72 (191)
T cd01455 2 RLKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAF-DGFEDKIQYDIIGH----SGDGPCVPFVKTNHP-PK--NNKE- 72 (191)
T ss_pred ceEEEEECcHhHHHHhccCCccccHHHHHHHHHHHH-HHHHHhCccceeee----cCcccccCccccccC-cc--cchh-
Confidence 4899999999994 333 45666666665556 34456666666663 444444333221110 00 0011
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCC--chhHHHHHH-H
Q 022678 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDG--PEQYVAIMN-A 161 (293)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~--~~qYi~lmN-~ 161 (293)
=++.+..++.+. ..+- .++.. +-||.+|+-.+.+. + .-.+| .|.-. ... |+=.. .
T Consensus 73 ----~~~~l~~~l~~~-q~g~------ag~~T-adAi~~av~rl~~~--~---~a~~kvvILLTDG~n~~~~-i~P~~aA 134 (191)
T cd01455 73 ----RLETLKMMHAHS-QFCW------SGDHT-VEATEFAIKELAAK--E---DFDEAIVIVLSDANLERYG-IQPKKLA 134 (191)
T ss_pred ----HHHHHHHHHHhc-ccCc------cCccH-HHHHHHHHHHHHhc--C---cCCCcEEEEEeCCCcCCCC-CChHHHH
Confidence 112333333321 1111 11222 27888887665411 1 23456 22211 111 22223 3
Q ss_pred HHHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhc
Q 022678 162 IFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIF 213 (293)
Q Consensus 162 ifaAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~ 213 (293)
...|++.+|+|-+|.+|..+-.-|++++++|||.|+++.+.+.|-+.+-.+|
T Consensus 135 a~lA~~~gV~iytIgiG~~d~~~l~~iA~~tgG~~F~A~d~~~L~~iy~~I~ 186 (191)
T cd01455 135 DALAREPNVNAFVIFIGSLSDEADQLQRELPAGKAFVCMDTSELPHIMQQIF 186 (191)
T ss_pred HHHHHhCCCEEEEEEecCCCHHHHHHHHhCCCCcEEEeCCHHHHHHHHHHHH
Confidence 5668899999999999866777899999999999999999988877665544
No 25
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.12 E-value=0.00013 Score=60.83 Aligned_cols=144 Identities=23% Similarity=0.278 Sum_probs=88.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
+++|||+|..|-... ..+-+.+..+++. +.+.-++.||+..+ ..+.++|...... ..-++
T Consensus 3 vvilvD~S~Sm~g~~----~~~k~al~~~l~~---L~~~d~fnii~f~~-~~~~~~~~~~~~~------------~~~~~ 62 (155)
T PF13768_consen 3 VVILVDTSGSMSGEK----ELVKDALRAILRS---LPPGDRFNIIAFGS-SVRPLFPGLVPAT------------EENRQ 62 (155)
T ss_pred EEEEEeCCCCCCCcH----HHHHHHHHHHHHh---CCCCCEEEEEEeCC-EeeEcchhHHHHh------------HHHHH
Confidence 799999999987763 4555555566655 66777999998875 6667776522211 11223
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-------CCCCCchhHHHHHHHHHHHHcC
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-------GSPDGPEQYVAIMNAIFSAQRS 168 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-------~S~D~~~qYi~lmN~ifaAqk~ 168 (293)
.+.+.++.-.. +.+.+.+..||..|+.... .....| +.++.+.+ .+.+.+..+. .
T Consensus 63 ~a~~~I~~~~~--------~~G~t~l~~aL~~a~~~~~-------~~~~~~~IilltDG~~~~~~~--~i~~~v~~~~-~ 124 (155)
T PF13768_consen 63 EALQWIKSLEA--------NSGGTDLLAALRAALALLQ-------RPGCVRAIILLTDGQPVSGEE--EILDLVRRAR-G 124 (155)
T ss_pred HHHHHHHHhcc--------cCCCccHHHHHHHHHHhcc-------cCCCccEEEEEEeccCCCCHH--HHHHHHHhcC-C
Confidence 33333333211 0245778888887775431 112334 23222322 3445554433 6
Q ss_pred CeeEEEEEcCC-cChHHHHHHHhhcCCeee
Q 022678 169 MVPIDSCYLGA-QNSAFLQQASYITGGVHH 197 (293)
Q Consensus 169 ~I~Idv~~L~~-~e~~iLqQa~~~T~G~Y~ 197 (293)
+|+|.++++|. .+..+|+++|..|+|.|.
T Consensus 125 ~~~i~~~~~g~~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 125 HIRIFTFGIGSDADADFLRELARATGGSFH 154 (155)
T ss_pred CceEEEEEECChhHHHHHHHHHHcCCCEEE
Confidence 79999999985 367899999999999985
No 26
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.05 E-value=0.00023 Score=61.59 Aligned_cols=167 Identities=12% Similarity=0.022 Sum_probs=105.1
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC------CCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL------NQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~------n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~ 88 (293)
-+++|||.|..|-.. +|....+.+..|++.++.. +...+++||... ..++..+|...... ..
T Consensus 4 dvv~vlD~S~Sm~~~---~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs-~~~~~~~~l~~~~~------~~-- 71 (186)
T cd01480 4 DITFVLDSSESVGLQ---NFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYS-DQQEVEAGFLRDIR------NY-- 71 (186)
T ss_pred eEEEEEeCCCccchh---hHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEec-CCceeeEecccccC------CH--
Confidence 479999999988543 5777777777888887653 445799999887 45677777653110 00
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCC--chhHHHHHHHH
Q 022678 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDG--PEQYVAIMNAI 162 (293)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~--~~qYi~lmN~i 162 (293)
..+.+.|..+- .. .+.+.+..||..|...+.+. ......| .|.-. +..-..+.+.+
T Consensus 72 --~~l~~~i~~l~----~~--------gg~T~~~~AL~~a~~~l~~~----~~~~~~~~iillTDG~~~~~~~~~~~~~~ 133 (186)
T cd01480 72 --TSLKEAVDNLE----YI--------GGGTFTDCALKYATEQLLEG----SHQKENKFLLVITDGHSDGSPDGGIEKAV 133 (186)
T ss_pred --HHHHHHHHhCc----cC--------CCCccHHHHHHHHHHHHhcc----CCCCCceEEEEEeCCCcCCCcchhHHHHH
Confidence 22444444331 01 13467788888887666541 1112233 12211 11112345778
Q ss_pred HHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCC
Q 022678 163 FSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGT 215 (293)
Q Consensus 163 faAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp 215 (293)
..+++.+|.|-++.+|..+...|+++|...+|.|+.. .+.+++..+|+-
T Consensus 134 ~~~~~~gi~i~~vgig~~~~~~L~~IA~~~~~~~~~~----~~~~l~~~~~~~ 182 (186)
T cd01480 134 NEADHLGIKIFFVAVGSQNEEPLSRIACDGKSALYRE----NFAELLWSFFID 182 (186)
T ss_pred HHHHHCCCEEEEEecCccchHHHHHHHcCCcchhhhc----chhhhccccccc
Confidence 8899999999999998778889999999999987643 344445455543
No 27
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=98.04 E-value=0.00026 Score=61.05 Aligned_cols=161 Identities=8% Similarity=-0.042 Sum_probs=98.7
Q ss_pred CeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHH
Q 022678 14 SLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATL 93 (293)
Q Consensus 14 s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i 93 (293)
--++++||.|..|-.. +...++.+..++..+. ++..+++||... +.++.++|..... +.+
T Consensus 5 ~Dvv~llD~SgSm~~~----~~~~~~~~~~l~~~~~--~~~~rvglv~Fs-~~~~~~~~l~~~~-------------~~~ 64 (185)
T cd01474 5 FDLYFVLDKSGSVAAN----WIEIYDFVEQLVDRFN--SPGLRFSFITFS-TRATKILPLTDDS-------------SAI 64 (185)
T ss_pred eeEEEEEeCcCchhhh----HHHHHHHHHHHHHHcC--CCCcEEEEEEec-CCceEEEeccccH-------------HHH
Confidence 3589999999998543 2333455555665553 467999999976 5578888876433 123
Q ss_pred HHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCc--hhHHHHHHHHHHHHc
Q 022678 94 LQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGP--EQYVAIMNAIFSAQR 167 (293)
Q Consensus 94 ~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~--~qYi~lmN~ifaAqk 167 (293)
.+.+..+-.-.+ .+.+.+..||..|...+.+...... .. .+ .|.-.. ............+++
T Consensus 65 ~~~l~~l~~~~~----------~g~T~~~~aL~~a~~~l~~~~~~~r-~~-~~~villTDG~~~~~~~~~~~~~a~~l~~ 132 (185)
T cd01474 65 IKGLEVLKKVTP----------SGQTYIHEGLENANEQIFNRNGGGR-ET-VSVIIALTDGQLLLNGHKYPEHEAKLSRK 132 (185)
T ss_pred HHHHHHHhccCC----------CCCCcHHHHHHHHHHHHHhhccCCC-CC-CeEEEEEcCCCcCCCCCcchHHHHHHHHH
Confidence 333322211110 1356788899888877654211111 11 13 122111 111123456778899
Q ss_pred CCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCcchHH
Q 022678 168 SMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLF 206 (293)
Q Consensus 168 ~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~~~l~ 206 (293)
.+|+|-+++++..+...|+++|..+++.|....+.+.|.
T Consensus 133 ~gv~i~~vgv~~~~~~~L~~iA~~~~~~f~~~~~~~~l~ 171 (185)
T cd01474 133 LGAIVYCVGVTDFLKSQLINIADSKEYVFPVTSGFQALS 171 (185)
T ss_pred cCCEEEEEeechhhHHHHHHHhCCCCeeEecCccHHHHH
Confidence 999999999976688899999999988886665554443
No 28
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=98.04 E-value=0.0002 Score=72.79 Aligned_cols=159 Identities=11% Similarity=0.027 Sum_probs=108.5
Q ss_pred CCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhH
Q 022678 10 SDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSL 89 (293)
Q Consensus 10 ~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~ 89 (293)
...+..++++||+|-+|... ++..+-..+..|+.. ...+..+|+||+.+...++++.|...+.
T Consensus 398 ~~~~~~vvfvvD~SGSM~~~---rl~~aK~a~~~ll~~--ay~~rD~v~lI~F~g~~a~~~lppT~~~------------ 460 (584)
T PRK13406 398 QRSETTTIFVVDASGSAALH---RLAEAKGAVELLLAE--AYVRRDQVALVAFRGRGAELLLPPTRSL------------ 460 (584)
T ss_pred ccCCccEEEEEECCCCCcHh---HHHHHHHHHHHHHHh--hcCCCCEEEEEEECCCceeEEcCCCcCH------------
Confidence 34568999999999998543 788888888888765 2346779999999888899999976543
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCC-------C----CchhH
Q 022678 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSP-------D----GPEQY 155 (293)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~-------D----~~~qY 155 (293)
..+.+.|..+ .. .+.+.|..+|..|...+.+.... ....+ .|+ + .....
T Consensus 461 -~~~~~~L~~l-----~~--------gGgTpL~~gL~~A~~~l~~~~~~---~~~~~iVLlTDG~~n~~~~~~~~~~~~~ 523 (584)
T PRK13406 461 -VRAKRSLAGL-----PG--------GGGTPLAAGLDAAAALALQVRRK---GMTPTVVLLTDGRANIARDGTAGRAQAE 523 (584)
T ss_pred -HHHHHHHhcC-----CC--------CCCChHHHHHHHHHHHHHHhccC---CCceEEEEEeCCCCCCCccccccccchh
Confidence 1233333322 11 24678999999999887665321 11111 111 1 01111
Q ss_pred HHHHHHHHHHHcCCeeEEEEEcCCcChHHHHHHHhhcCCeeeeeCCc
Q 022678 156 VAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQL 202 (293)
Q Consensus 156 i~lmN~ifaAqk~~I~Idv~~L~~~e~~iLqQa~~~T~G~Y~~~~~~ 202 (293)
.........+.+.+|.+-+|-.+.....+++++|+.|||.|+.+.+-
T Consensus 524 ~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~y~~l~~~ 570 (584)
T PRK13406 524 EDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGARYLPLPRA 570 (584)
T ss_pred hHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCeEEECCCC
Confidence 23455677788899999999986555568999999999999988753
No 29
>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=97.98 E-value=0.00061 Score=59.33 Aligned_cols=172 Identities=10% Similarity=0.084 Sum_probs=97.7
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
++++||.|..|-. .+|..+-..+..|++..-.....-+++||... +.++.++|...... ... ..+.+
T Consensus 3 i~~vlD~SgSM~~---~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs-~~~~~~~~~~~~~~-----~~~----~~~~~ 69 (198)
T cd01470 3 IYIALDASDSIGE---EDFDEAKNAIKTLIEKISSYEVSPRYEIISYA-SDPKEIVSIRDFNS-----NDA----DDVIK 69 (198)
T ss_pred EEEEEECCCCccH---HHHHHHHHHHHHHHHHccccCCCceEEEEEec-CCceEEEecccCCC-----CCH----HHHHH
Confidence 7899999998843 36777777777777765444456789999866 45677777643221 000 12444
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc-CCCCCCCC-----CCC---CCchhHHHHHHHHHHH-
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS-GLLHPQPR-----GSP---DGPEQYVAIMNAIFSA- 165 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~-~~~~~~sR-----~S~---D~~~qYi~lmN~ifaA- 165 (293)
.|..+--.. .+. .+.+.+..||.+|...+.+.... .......| .|. +.+.........+..+
T Consensus 70 ~l~~~~~~~--~~~------~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~~~~ 141 (198)
T cd01470 70 RLEDFNYDD--HGD------KTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIKNLV 141 (198)
T ss_pred HHHhCCccc--ccC------ccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHHHHH
Confidence 443331100 000 13467888888877665332110 00001112 122 1111111222333322
Q ss_pred ---------HcCCeeEEEEEcCC-cChHHHHHHHhhcCC--eeeeeCCcchHHHH
Q 022678 166 ---------QRSMVPIDSCYLGA-QNSAFLQQASYITGG--VHHKPQQLDGLFQY 208 (293)
Q Consensus 166 ---------qk~~I~Idv~~L~~-~e~~iLqQa~~~T~G--~Y~~~~~~~~l~~~ 208 (293)
++.+|.|-++++|. .+...|+++|..|+| .|+.+.+.+.|.+.
T Consensus 142 ~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L~~iA~~~~g~~~~f~~~~~~~l~~v 196 (198)
T cd01470 142 YKNNKSDNPREDYLDVYVFGVGDDVNKEELNDLASKKDNERHFFKLKDYEDLQEV 196 (198)
T ss_pred hcccccccchhcceeEEEEecCcccCHHHHHHHhcCCCCCceEEEeCCHHHHHHh
Confidence 55689999999984 478999999999999 46777777666543
No 30
>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=97.92 E-value=0.00064 Score=54.97 Aligned_cols=152 Identities=16% Similarity=0.176 Sum_probs=98.0
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
.++++||.|..| .+.++..+.+.+..++..+...+...+++|++..+ ....+.+...... . +.+.
T Consensus 2 ~v~~viD~S~Sm---~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~-~~~~~~~~~~~~~-------~----~~~~ 66 (161)
T cd00198 2 DIVFLLDVSGSM---GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGS-NARVVLPLTTDTD-------K----ADLL 66 (161)
T ss_pred cEEEEEeCCCCc---CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecC-ccceeecccccCC-------H----HHHH
Confidence 478999999998 23468888888888888888888899999999875 3444455433110 0 1233
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhH-HHHHHHHHHHHcCC
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQY-VAIMNAIFSAQRSM 169 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qY-i~lmN~ifaAqk~~ 169 (293)
+.+..+.. . . .+.+.+..||..|+..+.+.. .....| .|....... ..+-..+..+++.+
T Consensus 67 ~~~~~~~~-~--~--------~~~t~~~~al~~~~~~~~~~~----~~~~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~ 131 (161)
T cd00198 67 EAIDALKK-G--L--------GGGTNIGAALRLALELLKSAK----RPNARRVIILLTDGEPNDGPELLAEAARELRKLG 131 (161)
T ss_pred HHHHhccc-C--C--------CCCccHHHHHHHHHHHhcccC----CCCCceEEEEEeCCCCCCCcchhHHHHHHHHHcC
Confidence 44433311 0 1 135677888877777665531 112233 222111111 13456788889999
Q ss_pred eeEEEEEcCC-cChHHHHHHHhhc-CCee
Q 022678 170 VPIDSCYLGA-QNSAFLQQASYIT-GGVH 196 (293)
Q Consensus 170 I~Idv~~L~~-~e~~iLqQa~~~T-~G~Y 196 (293)
|.|.++.+|. .....|+.++..| +|.|
T Consensus 132 v~v~~v~~g~~~~~~~l~~l~~~~~~~~~ 160 (161)
T cd00198 132 ITVYTIGIGDDANEDELKEIADKTTGGAV 160 (161)
T ss_pred CEEEEEEcCCCCCHHHHHHHhcccccccc
Confidence 9999999986 6788999999998 5544
No 31
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=97.83 E-value=0.0018 Score=66.07 Aligned_cols=165 Identities=16% Similarity=0.106 Sum_probs=100.6
Q ss_pred CCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhH
Q 022678 10 SDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSL 89 (293)
Q Consensus 10 ~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~ 89 (293)
...+..+++|||.|..|.+. .+..+-+.+..+++ .+.+.-+++||+.. +..+.++|......
T Consensus 268 ~~~p~~vvfvlD~SgSM~g~---~i~~ak~al~~~l~---~L~~~d~~~ii~F~-~~~~~~~~~~~~~~----------- 329 (596)
T TIGR03788 268 QVLPRELVFVIDTSGSMAGE---SIEQAKSALLLALD---QLRPGDRFNIIQFD-SDVTLLFPVPVPAT----------- 329 (596)
T ss_pred cCCCceEEEEEECCCCCCCc---cHHHHHHHHHHHHH---hCCCCCEEEEEEEC-CcceEeccccccCC-----------
Confidence 34466799999999999865 35555555555554 34677799999876 55677787543221
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCC-CchhHHHHHHHHHH
Q 022678 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPD-GPEQYVAIMNAIFS 164 (293)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D-~~~qYi~lmN~ifa 164 (293)
..-++++.+++..-.. .+.+.|..||..|+..... ......| .|+. .++ --.++..+..
T Consensus 330 -~~~~~~a~~~i~~l~a---------~GgT~l~~aL~~a~~~~~~-----~~~~~~~~iillTDG~~~~-~~~~~~~~~~ 393 (596)
T TIGR03788 330 -AHNLARARQFVAGLQA---------DGGTEMAGALSAALRDDGP-----ESSGALRQVVFLTDGAVGN-EDALFQLIRT 393 (596)
T ss_pred -HHHHHHHHHHHhhCCC---------CCCccHHHHHHHHHHhhcc-----cCCCceeEEEEEeCCCCCC-HHHHHHHHHH
Confidence 1112333333332111 1356788889888854111 1112234 2332 111 1134444433
Q ss_pred HHcCCeeEEEEEcCCc-ChHHHHHHHhhcCCeeeeeCCcchHHHHH
Q 022678 165 AQRSMVPIDSCYLGAQ-NSAFLQQASYITGGVHHKPQQLDGLFQYL 209 (293)
Q Consensus 165 Aqk~~I~Idv~~L~~~-e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L 209 (293)
+..+++|.++++|.. +..+|+++|+.+||.|..+.+++.+-+-+
T Consensus 394 -~~~~~ri~tvGiG~~~n~~lL~~lA~~g~G~~~~i~~~~~~~~~~ 438 (596)
T TIGR03788 394 -KLGDSRLFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQRKM 438 (596)
T ss_pred -hcCCceEEEEEeCCCcCHHHHHHHHHcCCCEEEECCCHHHHHHHH
Confidence 345799999999854 78999999999999999998876554333
No 32
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=97.83 E-value=0.002 Score=57.44 Aligned_cols=163 Identities=9% Similarity=0.064 Sum_probs=95.7
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
=|+++||.|..|... +|..+.+.+..+++.+-......+++||... ..++..+|...... . ..+.
T Consensus 4 DlvfllD~S~Sm~~~---~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs-~~~~~~~~l~~~~~-------~----~~l~ 68 (224)
T cd01475 4 DLVFLIDSSRSVRPE---NFELVKQFLNQIIDSLDVGPDATRVGLVQYS-STVKQEFPLGRFKS-------K----ADLK 68 (224)
T ss_pred cEEEEEeCCCCCCHH---HHHHHHHHHHHHHHhcccCCCccEEEEEEec-CceeEEecccccCC-------H----HHHH
Confidence 379999999988644 5777777677777665444456799999866 45788888764321 0 1234
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCC--CCC----CCCCCchhHHHHHHHHHHHHcC
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHP--QPR----GSPDGPEQYVAIMNAIFSAQRS 168 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~--~sR----~S~D~~~qYi~lmN~ifaAqk~ 168 (293)
+.|..+- ..+ +.+....||..|+...-....+..+.. ..| .|...+.+ ++...+..+++.
T Consensus 69 ~~i~~i~----~~~--------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~--~~~~~a~~lk~~ 134 (224)
T cd01475 69 RAVRRME----YLE--------TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQD--DVSEVAAKARAL 134 (224)
T ss_pred HHHHhCc----CCC--------CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcc--cHHHHHHHHHHC
Confidence 4443321 011 122334455555433211111111111 133 23221111 345667888999
Q ss_pred CeeEEEEEcCCcChHHHHHHHhhcCC-eeeeeCCcchHH
Q 022678 169 MVPIDSCYLGAQNSAFLQQASYITGG-VHHKPQQLDGLF 206 (293)
Q Consensus 169 ~I~Idv~~L~~~e~~iLqQa~~~T~G-~Y~~~~~~~~l~ 206 (293)
+|.|-++++|..+...|+++|..+++ .|+.+.+.+.|-
T Consensus 135 gv~i~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~l~ 173 (224)
T cd01475 135 GIEMFAVGVGRADEEELREIASEPLADHVFYVEDFSTIE 173 (224)
T ss_pred CcEEEEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHHHH
Confidence 99999999998788899999988765 556666655543
No 33
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=97.80 E-value=0.0007 Score=55.72 Aligned_cols=152 Identities=11% Similarity=0.052 Sum_probs=97.3
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
+++|||.|..|-.. .+..+.+.+..|+..+....+.-+++++...+ ......+...... .+.+.+
T Consensus 3 i~~llD~S~Sm~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~-~~~~~~~~~~~~~-----------~~~~~~ 67 (161)
T cd01450 3 IVFLLDGSESVGPE---NFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSD-DVRVEFSLNDYKS-----------KDDLLK 67 (161)
T ss_pred EEEEEeCCCCcCHH---HHHHHHHHHHHHHHheeeCCCceEEEEEEEcC-CceEEEECCCCCC-----------HHHHHH
Confidence 67999999988643 56777777777777777777788999998775 4566666554421 022444
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CCCCCchhHHHHHHHHHHHHcCCe
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GSPDGPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S~D~~~qYi~lmN~ifaAqk~~I 170 (293)
.|..+.... + +.+.+..||..|...+.+... .....| .|.-........-..+..+++.+|
T Consensus 68 ~i~~~~~~~---~--------~~t~~~~al~~a~~~~~~~~~---~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v 133 (161)
T cd01450 68 AVKNLKYLG---G--------GGTNTGKALQYALEQLFSESN---ARENVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGI 133 (161)
T ss_pred HHHhcccCC---C--------CCccHHHHHHHHHHHhccccc---ccCCCCeEEEEECCCCCCCCcchHHHHHHHHHCCC
Confidence 444332111 0 246788888888877765421 011222 122111110034577888899999
Q ss_pred eEEEEEcCCcChHHHHHHHhhcCCee
Q 022678 171 PIDSCYLGAQNSAFLQQASYITGGVH 196 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~~~T~G~Y 196 (293)
+|.++.+|..+...|.++++.||+.|
T Consensus 134 ~v~~i~~g~~~~~~l~~la~~~~~~~ 159 (161)
T cd01450 134 KVFVVGVGPADEEELREIASCPSERH 159 (161)
T ss_pred EEEEEeccccCHHHHHHHhCCCCCCc
Confidence 99999997668999999999995544
No 34
>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=97.77 E-value=0.0011 Score=55.89 Aligned_cols=152 Identities=10% Similarity=-0.037 Sum_probs=97.1
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
++++||.|..|-. .++..+.+.+..+++.+-...+..+++||.... .++..+|...... .+.+.+
T Consensus 3 v~~vlD~S~Sm~~---~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~-~~~~~~~l~~~~~-----------~~~l~~ 67 (164)
T cd01482 3 IVFLVDGSWSIGR---SNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSD-DPRTEFDLNAYTS-----------KEDVLA 67 (164)
T ss_pred EEEEEeCCCCcCh---hhHHHHHHHHHHHHhheeeCCCceEEEEEEECC-CeeEEEecCCCCC-----------HHHHHH
Confidence 7899999998854 357777777778888764456788999999774 4677777653221 022444
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCee
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMVP 171 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I~ 171 (293)
.|..+.- . .+.+.+..||..|...+.+... +......| .|...++ ..+......+++.+|.
T Consensus 68 ~l~~~~~----~--------~g~T~~~~aL~~a~~~~~~~~~-~~r~~~~k~iillTDG~~~--~~~~~~a~~lk~~gi~ 132 (164)
T cd01482 68 AIKNLPY----K--------GGNTRTGKALTHVREKNFTPDA-GARPGVPKVVILITDGKSQ--DDVELPARVLRNLGVN 132 (164)
T ss_pred HHHhCcC----C--------CCCChHHHHHHHHHHHhccccc-CCCCCCCEEEEEEcCCCCC--chHHHHHHHHHHCCCE
Confidence 4433310 1 1345778888777765433211 11111222 2332221 1345778899999999
Q ss_pred EEEEEcCCcChHHHHHHHhhcCCeee
Q 022678 172 IDSCYLGAQNSAFLQQASYITGGVHH 197 (293)
Q Consensus 172 Idv~~L~~~e~~iLqQa~~~T~G~Y~ 197 (293)
|-+++++..+...|+|++..+++.++
T Consensus 133 i~~ig~g~~~~~~L~~ia~~~~~~~~ 158 (164)
T cd01482 133 VFAVGVKDADESELKMIASKPSETHV 158 (164)
T ss_pred EEEEecCcCCHHHHHHHhCCCchheE
Confidence 99999987788899999999876554
No 35
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=0.0018 Score=57.35 Aligned_cols=151 Identities=16% Similarity=0.153 Sum_probs=109.6
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
-.+|.||=|..|... .|.||..=-+++.....+-+..||.|.++||..-+..++.|...+... -.
T Consensus 5 atmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T~d~-------------gk 71 (259)
T KOG2884|consen 5 ATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDR-------------GK 71 (259)
T ss_pred eEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccc-------------hH
Confidence 457888987744444 799999999999999999999999999999999877777776544332 12
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CCCCCchhHHHHHHHHHHHHc
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GSPDGPEQYVAIMNAIFSAQR 167 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S~D~~~qYi~lmN~ifaAqk 167 (293)
|+..+..+ .. .+...+..+|..|.--++... .+.++-| +|+-.-+.- .+...+...+|
T Consensus 72 ils~lh~i----~~---------~g~~~~~~~i~iA~lalkhRq---nk~~~~riVvFvGSpi~e~ek-eLv~~akrlkk 134 (259)
T KOG2884|consen 72 ILSKLHGI----QP---------HGKANFMTGIQIAQLALKHRQ---NKNQKQRIVVFVGSPIEESEK-ELVKLAKRLKK 134 (259)
T ss_pred HHHHhcCC----Cc---------CCcccHHHHHHHHHHHHHhhc---CCCcceEEEEEecCcchhhHH-HHHHHHHHHHh
Confidence 44444322 11 245678888988877776652 2345566 677443333 67788999999
Q ss_pred CCeeEEEEEcCCcCh--HHHHHHHhhcCCe
Q 022678 168 SMVPIDSCYLGAQNS--AFLQQASYITGGV 195 (293)
Q Consensus 168 ~~I~Idv~~L~~~e~--~iLqQa~~~T~G~ 195 (293)
++|.||++.+|+.+. -.|..--+.+||.
T Consensus 135 ~~Vaidii~FGE~~~~~e~l~~fida~N~~ 164 (259)
T KOG2884|consen 135 NKVAIDIINFGEAENNTEKLFEFIDALNGK 164 (259)
T ss_pred cCeeEEEEEeccccccHHHHHHHHHHhcCC
Confidence 999999999986532 5788888888885
No 36
>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=97.61 E-value=0.0029 Score=65.14 Aligned_cols=156 Identities=13% Similarity=0.067 Sum_probs=97.0
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
...+++|||+|.+|... .++..+-..+..|+..-+ ....+++||+.+...++++.|.+.+. ..
T Consensus 465 ~~~vv~vvD~SgSM~~~--~rl~~ak~a~~~ll~~a~--~~~D~v~lI~F~g~~a~~~~p~t~~~-------------~~ 527 (633)
T TIGR02442 465 GNLVIFVVDASGSMAAR--GRMAAAKGAVLSLLRDAY--QKRDKVALITFRGEEAEVLLPPTSSV-------------EL 527 (633)
T ss_pred CceEEEEEECCccCCCc--cHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEcCCCCCH-------------HH
Confidence 45889999999999754 467666666666665433 45689999999877788888876443 11
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCC------CCchh-HHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSP------DGPEQ-YVAIMNAI 162 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~------D~~~q-Yi~lmN~i 162 (293)
+...|..+ . . .+.+.|..||..|...+.+...... ...+. .|+ +.+.. .-......
T Consensus 528 ~~~~L~~l----~-~--------gG~Tpl~~aL~~A~~~l~~~~~~~~-~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a 593 (633)
T TIGR02442 528 AARRLEEL----P-T--------GGRTPLAAGLLKAAEVLSNELLRDD-DGRPLLVVITDGRANVADGGEPPTDDARTIA 593 (633)
T ss_pred HHHHHHhC----C-C--------CCCCCHHHHHHHHHHHHHHhhccCC-CCceEEEEECCCCCCCCCCCCChHHHHHHHH
Confidence 22333222 1 1 1457899999999988875321100 11111 111 11111 11123344
Q ss_pred HHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeee
Q 022678 163 FSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKP 199 (293)
Q Consensus 163 faAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~ 199 (293)
..+++.+|.+.++-.... ...+++++|+.|||.|+.+
T Consensus 594 ~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 594 AKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred HHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 555668888888877432 4579999999999999865
No 37
>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=97.58 E-value=0.0041 Score=54.58 Aligned_cols=163 Identities=10% Similarity=0.028 Sum_probs=94.6
Q ss_pred CCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC--C----CCCCEEEEEEecCceEEEecCCCCCCCCCCC
Q 022678 10 SDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL--N----QLNQVVVIATGYNSCDYVYDSSSTGNQSVGN 83 (293)
Q Consensus 10 ~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~--n----~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~ 83 (293)
.+-.-=++++||.|..|-. .+|..+.+-+..+++.+-.. + ...+++||... ..+++.+|+..-..
T Consensus 16 ~~~~~DivfvlD~S~Sm~~---~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs-~~a~~~~~L~d~~~----- 86 (193)
T cd01477 16 KNLWLDIVFVVDNSKGMTQ---GGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYN-SNATVVADLNDLQS----- 86 (193)
T ss_pred ccceeeEEEEEeCCCCcch---hhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEcc-CceEEEEecccccC-----
Confidence 3344568999999998843 35655544444444433221 1 13699998876 67899999853221
Q ss_pred CCchhHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCch-hHHHH
Q 022678 84 GRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPE-QYVAI 158 (293)
Q Consensus 84 ~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~-qYi~l 158 (293)
...+.+.|...+.... . .+.+.+..||.+|+..+..-.+ ......+| .|.|.++ .-.+.
T Consensus 87 ------~~~~~~ai~~~~~~~~-~--------~ggT~ig~aL~~A~~~l~~~~~-~~R~~v~kvvIllTDg~~~~~~~~~ 150 (193)
T cd01477 87 ------FDDLYSQIQGSLTDVS-S--------TNASYLDTGLQAAEQMLAAGKR-TSRENYKKVVIVFASDYNDEGSNDP 150 (193)
T ss_pred ------HHHHHHHHHHHhhccc-c--------CCcchHHHHHHHHHHHHHhhhc-cccCCCCeEEEEEecCccCCCCCCH
Confidence 0234445543221110 0 1246788899888777653211 11112344 3432110 00112
Q ss_pred HHHHHHHHcCCeeEEEEEcCCc-ChHHHHHHHhhcCCeee
Q 022678 159 MNAIFSAQRSMVPIDSCYLGAQ-NSAFLQQASYITGGVHH 197 (293)
Q Consensus 159 mN~ifaAqk~~I~Idv~~L~~~-e~~iLqQa~~~T~G~Y~ 197 (293)
-.....+++.+|.|-++.+|.. +...++|++++..+.|.
T Consensus 151 ~~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~~ias~~~~ 190 (193)
T cd01477 151 RPIAARLKSTGIAIITVAFTQDESSNLLDKLGKIASPGMN 190 (193)
T ss_pred HHHHHHHHHCCCEEEEEEeCCCCCHHHHHHHHHhcCCCCC
Confidence 2456778999999999999853 55789999999887664
No 38
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=97.57 E-value=0.0067 Score=53.79 Aligned_cols=149 Identities=15% Similarity=0.147 Sum_probs=92.8
Q ss_pred CeEEEEEeCCcccccc----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceE---------EEecCCCCCCCC
Q 022678 14 SLVVVLLDTNPFFWSS----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCD---------YVYDSSSTGNQS 80 (293)
Q Consensus 14 s~LviIlD~s~~~w~~----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~---------~lyp~~~~~~~~ 80 (293)
..++++||+|+.|-.. .|.+|..+++.+..|+..=+..++..++|+|+....... .++|.....
T Consensus 2 e~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~--- 78 (218)
T cd01458 2 ESVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPG--- 78 (218)
T ss_pred cEEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCC---
Confidence 4689999999999844 378999999999999988888899999999998765322 223322211
Q ss_pred CCCCCchhHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCC--CC---
Q 022678 81 VGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSP--DG--- 151 (293)
Q Consensus 81 ~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~--D~--- 151 (293)
...++.|.+++......... ..+....+.|..||..|+-.+.+. .+....| .|. ++
T Consensus 79 ----------~~~l~~l~~~~~~~~~~~~~-~~~~~~~~~l~~aL~~a~~~~~~~----~~~~~~k~IvL~TDg~~p~~~ 143 (218)
T cd01458 79 ----------AERVEDLKELIEPGGLSFAG-QVGDSGQVSLSDALWVCLDLFSKG----KKKKSHKRIFLFTNNDDPHGG 143 (218)
T ss_pred ----------HHHHHHHHHHhhcchhhhcc-cCCCCCCccHHHHHHHHHHHHHhc----cccccccEEEEECCCCCCCCC
Confidence 12445555544321000000 000123568899999888877662 1123344 333 22
Q ss_pred -chhHHHHHHHHHHHHcCCeeEEEEEcCCc
Q 022678 152 -PEQYVAIMNAIFSAQRSMVPIDSCYLGAQ 180 (293)
Q Consensus 152 -~~qYi~lmN~ifaAqk~~I~Idv~~L~~~ 180 (293)
......+-..+..+++.+|.|.++.++..
T Consensus 144 ~~~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 144 DSIKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred CHHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 11223344567777888999999999744
No 39
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.43 E-value=0.0099 Score=60.00 Aligned_cols=169 Identities=7% Similarity=-0.049 Sum_probs=94.8
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
.--|++|||.|..|-.. ..+..+..-+..|+..+....-.-+|+|+. .+..+.++++...... ... +.
T Consensus 42 ~lDIvFLLD~SgSMg~~--Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~-FSd~~r~vfpL~s~~s-----~Dk----~~ 109 (576)
T PTZ00441 42 EVDLYLLVDGSGSIGYH--NWITHVIPMLMGLIQQLNLSDDAINLYMSL-FSNNTTELIRLGSGAS-----KDK----EQ 109 (576)
T ss_pred CceEEEEEeCCCccCCc--cHHHHHHHHHHHHHHHhccCCCceEEEEEE-eCCCceEEEecCCCcc-----ccH----HH
Confidence 44799999999988432 223444444555555444333333444444 4566777777654321 000 13
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcC
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRS 168 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~ 168 (293)
++..|..+...... .+.+.+..||..|..++.+.. ......+ .|.-.+......+..+..+++.
T Consensus 110 aL~~I~sL~~~~~p---------gGgTnig~AL~~Aae~L~sr~---~R~nvpKVVILLTDG~sns~~dvleaAq~LR~~ 177 (576)
T PTZ00441 110 ALIIVKSLRKTYLP---------YGKTNMTDALLEVRKHLNDRV---NRENAIQLVILMTDGIPNSKYRALEESRKLKDR 177 (576)
T ss_pred HHHHHHHHHhhccC---------CCCccHHHHHHHHHHHHhhcc---cccCCceEEEEEecCCCCCcccHHHHHHHHHHC
Confidence 45555555332111 135678888888877765421 1011223 2332211111344667788999
Q ss_pred CeeEEEEEcCC-cChHHHHHHH----hhcCCeeeeeCCcchH
Q 022678 169 MVPIDSCYLGA-QNSAFLQQAS----YITGGVHHKPQQLDGL 205 (293)
Q Consensus 169 ~I~Idv~~L~~-~e~~iLqQa~----~~T~G~Y~~~~~~~~l 205 (293)
+|.|-++++|. .+..+|++++ ..++|.|+...+-+.|
T Consensus 178 GVeI~vIGVG~g~n~e~LrlIAgC~p~~g~c~~Y~vadf~eL 219 (576)
T PTZ00441 178 NVKLAVIGIGQGINHQFNRLLAGCRPREGKCKFYSDADWEEA 219 (576)
T ss_pred CCEEEEEEeCCCcCHHHHHHHhccCCCCCCCceEEeCCHHHH
Confidence 99999999974 3567889888 4466778877665443
No 40
>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=97.38 E-value=0.0089 Score=51.25 Aligned_cols=157 Identities=11% Similarity=0.097 Sum_probs=93.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
|++|||.|..+- +..|..+.+.+..|++.+-...+..+++||.... ..+..+|...... . ..+.+
T Consensus 3 i~fvlD~S~S~~---~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs~-~~~~~~~l~~~~~-------~----~~~~~ 67 (177)
T cd01469 3 IVFVLDGSGSIY---PDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYSE-SFRTEFTLNEYRT-------K----EEPLS 67 (177)
T ss_pred EEEEEeCCCCCC---HHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEECC-ceeEEEecCccCC-------H----HHHHH
Confidence 789999988764 3467777777788887666556678999999874 4677787764321 0 12334
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----C----CCCCchhHHHHHHHHHHHHc
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----G----SPDGPEQYVAIMNAIFSAQR 167 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~----S~D~~~qYi~lmN~ifaAqk 167 (293)
.+..+.. . .+.+.+..||..|+..+..... +......| . +.|.. ..-..+..|++
T Consensus 68 ~i~~~~~----~--------~g~T~~~~AL~~a~~~l~~~~~-g~R~~~~kv~illTDG~~~~~~----~~~~~~~~~k~ 130 (177)
T cd01469 68 LVKHISQ----L--------LGLTNTATAIQYVVTELFSESN-GARKDATKVLVVITDGESHDDP----LLKDVIPQAER 130 (177)
T ss_pred HHHhCcc----C--------CCCccHHHHHHHHHHHhcCccc-CCCCCCCeEEEEEeCCCCCCcc----ccHHHHHHHHH
Confidence 4433211 1 1235667777776655422110 11011223 1 22222 11346778899
Q ss_pred CCeeEEEEEcCCc-----ChHHHHHHHhhcCCee-eeeCCcch
Q 022678 168 SMVPIDSCYLGAQ-----NSAFLQQASYITGGVH-HKPQQLDG 204 (293)
Q Consensus 168 ~~I~Idv~~L~~~-----e~~iLqQa~~~T~G~Y-~~~~~~~~ 204 (293)
.+|.|-++++|.. ....|..+|..+++.| +.+.+.+.
T Consensus 131 ~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~~ 173 (177)
T cd01469 131 EGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFAA 173 (177)
T ss_pred CCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHHH
Confidence 9999999999742 1578888888887644 44555443
No 41
>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=97.35 E-value=0.0067 Score=52.04 Aligned_cols=154 Identities=10% Similarity=0.029 Sum_probs=87.6
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
++++||.|..|-.. .++..+...+..|+..+-..+..-+++||... +.++.++|....... .. ..+.+
T Consensus 3 v~~vlD~SgSm~~~--~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs-~~~~~~~~l~~~~~~-----~~----~~~~~ 70 (186)
T cd01471 3 LYLLVDGSGSIGYS--NWVTHVVPFLHTFVQNLNISPDEINLYLVTFS-TNAKELIRLSSPNST-----NK----DLALN 70 (186)
T ss_pred EEEEEeCCCCccch--hhHHHHHHHHHHHHHhcccCCCceEEEEEEec-CCceEEEECCCcccc-----ch----HHHHH
Confidence 78999999988554 23666655566666554333445589999876 566777776553210 00 11122
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCee
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMVP 171 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I~ 171 (293)
.+..+..... . .+.+.+..||..|...+.+. +... ....+ .|.-.++...........+++.+|.
T Consensus 71 ~i~~l~~~~~-~--------~G~T~l~~aL~~a~~~l~~~-~~~r-~~~~~~villTDG~~~~~~~~~~~a~~l~~~gv~ 139 (186)
T cd01471 71 AIRALLSLYY-P--------NGSTNTTSALLVVEKHLFDT-RGNR-ENAPQLVIIMTDGIPDSKFRTLKEARKLRERGVI 139 (186)
T ss_pred HHHHHHhCcC-C--------CCCccHHHHHHHHHHHhhcc-CCCc-ccCceEEEEEccCCCCCCcchhHHHHHHHHCCCE
Confidence 2222221110 1 13567888998887776552 1111 11222 1221111111233567788889999
Q ss_pred EEEEEcCC-cChHHHHHHHhhc
Q 022678 172 IDSCYLGA-QNSAFLQQASYIT 192 (293)
Q Consensus 172 Idv~~L~~-~e~~iLqQa~~~T 192 (293)
|-++.+|. .+..+|+.++..=
T Consensus 140 v~~igiG~~~d~~~l~~ia~~~ 161 (186)
T cd01471 140 IAVLGVGQGVNHEENRSLVGCD 161 (186)
T ss_pred EEEEEeehhhCHHHHHHhcCCC
Confidence 99999974 4778888887754
No 42
>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=97.23 E-value=0.011 Score=60.51 Aligned_cols=158 Identities=15% Similarity=0.066 Sum_probs=99.1
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022678 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (293)
Q Consensus 11 ~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~ 90 (293)
....++++|||.|-.|-. .++..+-..+..|++..+ .+..+++||+..+..++++.|...+.
T Consensus 405 ~~~~~v~fvvD~SGSM~~---~rl~~aK~av~~Ll~~~~--~~~D~v~Li~F~~~~a~~~lp~t~~~------------- 466 (589)
T TIGR02031 405 KSGRLLIFVVDASGSAAV---ARMSEAKGAVELLLGEAY--VHRDQVSLIAFRGTAAEVLLPPSRSV------------- 466 (589)
T ss_pred ccCceEEEEEECCCCCCh---HHHHHHHHHHHHHHHhhc--cCCCEEEEEEECCCCceEECCCCCCH-------------
Confidence 345568899999998833 356666666666665433 34568999999877778888765432
Q ss_pred HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCC-------CCc----h---
Q 022678 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSP-------DGP----E--- 153 (293)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~-------D~~----~--- 153 (293)
..+.+.|..+ . . .+.+.|..+|.+|+..+.+.... ....+ .|+ +.. .
T Consensus 467 ~~~~~~L~~l----~-~--------gGgTpL~~gL~~A~~~~~~~~~~---~~~~~ivllTDG~~nv~~~~~~~~~~~~~ 530 (589)
T TIGR02031 467 EQAKRRLDVL----P-G--------GGGTPLAAGLAAAFQTALQARSS---GGTPTIVLITDGRGNIPLDGDPESIKADR 530 (589)
T ss_pred HHHHHHHhcC----C-C--------CCCCcHHHHHHHHHHHHHHhccc---CCceEEEEECCCCCCCCCCcccccccccc
Confidence 1122233222 1 1 24678999999999887654221 11112 111 100 0
Q ss_pred -hH-HHHHHHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCCc
Q 022678 154 -QY-VAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQL 202 (293)
Q Consensus 154 -qY-i~lmN~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~~ 202 (293)
+. -.+.-.....++.+|.+-|+..+.. +..+++++|+..||.|+.+.+.
T Consensus 531 ~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~ 583 (589)
T TIGR02031 531 EQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNA 583 (589)
T ss_pred hhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCC
Confidence 11 1223445666888999888888532 3568999999999999988764
No 43
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.20 E-value=0.024 Score=51.75 Aligned_cols=162 Identities=15% Similarity=0.109 Sum_probs=105.3
Q ss_pred CCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022678 9 YSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (293)
Q Consensus 9 ~~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~ 88 (293)
+.-...++++|||.|-.|-.. .++..+=-.++.|+++= ...-++|+||+.+..++++|-|.+.+.
T Consensus 74 ~~r~g~lvvfvVDASgSM~~~--~Rm~aaKG~~~~lL~dA--Yq~RdkvavI~F~G~~A~lll~pT~sv----------- 138 (261)
T COG1240 74 EGRAGNLIVFVVDASGSMAAR--RRMAAAKGAALSLLRDA--YQRRDKVAVIAFRGEKAELLLPPTSSV----------- 138 (261)
T ss_pred ccCcCCcEEEEEeCcccchhH--HHHHHHHHHHHHHHHHH--HHccceEEEEEecCCcceEEeCCcccH-----------
Confidence 344567999999999998776 34666666667777653 456789999999999999999988765
Q ss_pred HHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCC--------CC-CCCCCchhHHHHH
Q 022678 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQ--------PR-GSPDGPEQYVAIM 159 (293)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~--------sR-~S~D~~~qYi~lm 159 (293)
+.+.++|..+- . .+.+.|+.||-+|...+-|..+.+. ... .| .-+++.. +.-
T Consensus 139 --~~~~~~L~~l~-----~--------GG~TPL~~aL~~a~ev~~r~~r~~p-~~~~~~vviTDGr~n~~~~~~---~~~ 199 (261)
T COG1240 139 --ELAERALERLP-----T--------GGKTPLADALRQAYEVLAREKRRGP-DRRPVMVVITDGRANVPIPLG---PKA 199 (261)
T ss_pred --HHHHHHHHhCC-----C--------CCCCchHHHHHHHHHHHHHhhccCC-CcceEEEEEeCCccCCCCCCc---hHH
Confidence 23444454441 1 2467899999999999888754221 111 22 1111111 122
Q ss_pred HHHHHHH---cCCeeEEEEEcCCcC--hHHHHHHHhhcCCeeeeeCCcch
Q 022678 160 NAIFSAQ---RSMVPIDSCYLGAQN--SAFLQQASYITGGVHHKPQQLDG 204 (293)
Q Consensus 160 N~ifaAq---k~~I~Idv~~L~~~e--~~iLqQa~~~T~G~Y~~~~~~~~ 204 (293)
.+..+|. ..++.+-|+..-..+ ..+.+++|..-||.|+.+.+..+
T Consensus 200 e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 200 ETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred HHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 3333333 355655555552122 56999999999999999987544
No 44
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.03 Score=48.84 Aligned_cols=150 Identities=17% Similarity=0.107 Sum_probs=100.9
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
..+|+||-+..+... -|.||..-.+++....+.-+-.||.|.+++|..-......|....... -.
T Consensus 5 atvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vlsT~T~~~-------------gk 71 (243)
T COG5148 5 ATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLSTPTKQR-------------GK 71 (243)
T ss_pred eEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhccchhhh-------------hH
Confidence 468889987643333 689999999999999999999999999999986654444443222111 12
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CCCCCchhHHHHHHHHHHHHc
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GSPDGPEQYVAIMNAIFSAQR 167 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S~D~~~qYi~lmN~ifaAqk 167 (293)
++..|.++.- .+..-+..+|..|+-.++... .+.-.-| +|+-..+. -.+.-.+...+|
T Consensus 72 ilt~lhd~~~-------------~g~a~~~~~lqiaql~lkhR~---nk~q~qriVaFvgSpi~ese-deLirlak~lkk 134 (243)
T COG5148 72 ILTFLHDIRL-------------HGGADIMRCLQIAQLILKHRD---NKGQRQRIVAFVGSPIQESE-DELIRLAKQLKK 134 (243)
T ss_pred HHHHhccccc-------------cCcchHHHHHHHHHHHHhccc---CCccceEEEEEecCcccccH-HHHHHHHHHHHh
Confidence 4444433311 134567778888877766642 1122234 56533332 356678889999
Q ss_pred CCeeEEEEEcCCc-ChHHHHHHHhhcCC
Q 022678 168 SMVPIDSCYLGAQ-NSAFLQQASYITGG 194 (293)
Q Consensus 168 ~~I~Idv~~L~~~-e~~iLqQa~~~T~G 194 (293)
+||.||++.+|+. ++.-|+.--|.||-
T Consensus 135 nnVAidii~fGE~~n~~~l~efIda~N~ 162 (243)
T COG5148 135 NNVAIDIIFFGEAANMAGLFEFIDATNF 162 (243)
T ss_pred cCeeEEEEehhhhhhhhHHHHHHHhhcc
Confidence 9999999999854 67778888888886
No 45
>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=97.00 E-value=0.048 Score=45.47 Aligned_cols=147 Identities=10% Similarity=0.095 Sum_probs=84.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecC-ceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYN-SCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~-~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
++++||.|..|-. .+....+.+..++..+.......+++||..... .+.+.++...... . +.+.
T Consensus 3 v~~llD~S~Sm~~----~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~~~~-------~----~~l~ 67 (163)
T cd01476 3 LLFVLDSSGSVRG----KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPKHND-------G----EELL 67 (163)
T ss_pred EEEEEeCCcchhh----hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCCCCC-------H----HHHH
Confidence 6899999998853 366677777788877766666899999997653 6677777654321 0 1234
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHc-CC
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQR-SM 169 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk-~~ 169 (293)
+.+..+. ..+ +.+.+..||..|...+.+.. .......+ .|...+. . +.......+++ .+
T Consensus 68 ~~i~~l~----~~g--------g~T~l~~aL~~a~~~l~~~~--~~r~~~~~~villTDG~~~-~-~~~~~~~~l~~~~~ 131 (163)
T cd01476 68 EKVDNLR----FIG--------GTTATGAAIEVALQQLDPSE--GRREGIPKVVVVLTDGRSH-D-DPEKQARILRAVPN 131 (163)
T ss_pred HHHHhCc----cCC--------CCccHHHHHHHHHHHhcccc--CCCCCCCeEEEEECCCCCC-C-chHHHHHHHhhcCC
Confidence 4443321 111 24678888988887775311 11011123 2321111 0 12234556666 89
Q ss_pred eeEEEEEcCCc---ChHHHHHHHhhcC
Q 022678 170 VPIDSCYLGAQ---NSAFLQQASYITG 193 (293)
Q Consensus 170 I~Idv~~L~~~---e~~iLqQa~~~T~ 193 (293)
|.|-++.+|.. +...|++++.--+
T Consensus 132 v~v~~vg~g~~~~~~~~~L~~ia~~~~ 158 (163)
T cd01476 132 IETFAVGTGDPGTVDTEELHSITGNED 158 (163)
T ss_pred CEEEEEECCCccccCHHHHHHHhCCCc
Confidence 99999999743 3444444443333
No 46
>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=96.88 E-value=0.057 Score=47.15 Aligned_cols=150 Identities=12% Similarity=0.117 Sum_probs=89.1
Q ss_pred EEEEEeCCccccccCCccHH-HHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFS-QFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~-~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
|+++||.|..+-.. .+. .+.+-+..+++.+--.....+++||... +.++..+|...... . + -..+.
T Consensus 3 i~fllD~S~Si~~~---~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs-~~~~~~~~~~~~~~-----~---~-~~~l~ 69 (192)
T cd01473 3 LTLILDESASIGYS---NWRKDVIPFTEKIINNLNISKDKVHVGILLFA-EKNRDVVPFSDEER-----Y---D-KNELL 69 (192)
T ss_pred EEEEEeCCCcccHH---HHHHHHHHHHHHHHHhCccCCCccEEEEEEec-CCceeEEecCcccc-----c---C-HHHHH
Confidence 78999999877433 344 2455566667776666778899999977 45577777754321 0 0 02355
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-------C-CCCCchhHHHHHHHHHHHH
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-------G-SPDGPEQYVAIMNAIFSAQ 166 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-------~-S~D~~~qYi~lmN~ifaAq 166 (293)
+++.++...... .+.+.+..||.+|+..+-+. .+.....+| + +.++... .+......++
T Consensus 70 ~~i~~l~~~~~~---------~g~T~~~~AL~~a~~~~~~~--~~~r~~~~kv~IllTDG~s~~~~~~--~~~~~a~~lk 136 (192)
T cd01473 70 KKINDLKNSYRS---------GGETYIVEALKYGLKNYTKH--GNRRKDAPKVTMLFTDGNDTSASKK--ELQDISLLYK 136 (192)
T ss_pred HHHHHHHhccCC---------CCcCcHHHHHHHHHHHhccC--CCCcccCCeEEEEEecCCCCCcchh--hHHHHHHHHH
Confidence 555555322110 12456677777776554321 111111244 1 2222111 3445677889
Q ss_pred cCCeeEEEEEcCCcChHHHHHHHhh
Q 022678 167 RSMVPIDSCYLGAQNSAFLQQASYI 191 (293)
Q Consensus 167 k~~I~Idv~~L~~~e~~iLqQa~~~ 191 (293)
+.+|.|-++++|..+..-|+.+|.-
T Consensus 137 ~~gV~i~~vGiG~~~~~el~~ia~~ 161 (192)
T cd01473 137 EENVKLLVVGVGAASENKLKLLAGC 161 (192)
T ss_pred HCCCEEEEEEeccccHHHHHHhcCC
Confidence 9999999999997777788888863
No 47
>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=96.52 E-value=0.032 Score=46.60 Aligned_cols=165 Identities=12% Similarity=0.072 Sum_probs=95.4
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
+++|||.|..|-.. .+..+.+.+..|++.+-..++..+++|+.... ..+.+++...... . ..+.+
T Consensus 2 ivflvD~S~sm~~~---~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~~-~~~~~~~~~~~~~-------~----~~~~~ 66 (178)
T PF00092_consen 2 IVFLVDTSGSMSGD---NFEKAKQFVKSIISRLSISNNGTRVGIVTFSD-SARVLFSLTDYQS-------K----NDLLN 66 (178)
T ss_dssp EEEEEE-STTSCHH---HHHHHHHHHHHHHHHSTBSTTSEEEEEEEESS-SEEEEEETTSHSS-------H----HHHHH
T ss_pred EEEEEeCCCCCchH---HHHHHHHHHHHHHHhhhccccccccceeeeec-ccccccccccccc-------c----ccccc
Confidence 68999999988664 58888888888888777899999999998774 4566776654321 0 12233
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHH-cCCe
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQ-RSMV 170 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAq-k~~I 170 (293)
.+ ....... .+.+.+..||..|...+...... ......+ .|..........-...-..+ +.+|
T Consensus 67 ~i---~~~~~~~--------~g~t~~~~aL~~a~~~l~~~~~~-~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~i 134 (178)
T PF00092_consen 67 AI---NDSIPSS--------GGGTNLGAALKFAREQLFSSNNG-GRPNSPKVIILITDGNSNDSDSPSEEAANLKKSNGI 134 (178)
T ss_dssp HH---HTTGGCC--------BSSB-HHHHHHHHHHHTTSGGGT-TGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHHCTE
T ss_pred cc---ccccccc--------chhhhHHHHHhhhhhcccccccc-cccccccceEEEEeecccCCcchHHHHHHHHHhcCc
Confidence 33 1211111 24567888888888776553111 1011112 12211111111112222223 3577
Q ss_pred eEEEEEcCCcChHHHHHHHhhc-C-CeeeeeCCcchHHH
Q 022678 171 PIDSCYLGAQNSAFLQQASYIT-G-GVHHKPQQLDGLFQ 207 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~~~T-~-G~Y~~~~~~~~l~~ 207 (293)
.+=+++.+..+...|+.++..+ + |.++.+.+...+.+
T Consensus 135 ~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~~l~~ 173 (178)
T PF00092_consen 135 KVIAIGIDNADNEELRELASCPTSEGHVFYLADFSDLSQ 173 (178)
T ss_dssp EEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHHHHHH
T ss_pred EEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHHHHHH
Confidence 7777777447899999999775 3 56666776655544
No 48
>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=96.48 E-value=0.19 Score=45.26 Aligned_cols=175 Identities=17% Similarity=0.158 Sum_probs=95.0
Q ss_pred CeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCC-------------
Q 022678 14 SLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQS------------- 80 (293)
Q Consensus 14 s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~------------- 80 (293)
=..+.|||+|...-+. .-+..++++|...+ ..+...+..++++|... ....+|....+....
T Consensus 4 p~y~FvID~s~~av~~--g~~~~~~~sl~~~l-~~l~~~~~~~vgiitfd--~~V~~y~l~~~~~~~~~~v~~dl~~~~~ 78 (243)
T PF04811_consen 4 PVYVFVIDVSYEAVQS--GLLQSLIESLKSAL-DSLPGDERTRVGIITFD--SSVHFYNLSSSLSQPQMIVVSDLDDPFI 78 (243)
T ss_dssp -EEEEEEE-SHHHHHH--THHHHHHHHHHHHG-CTSSTSTT-EEEEEEES--SSEEEEETTTTSSSTEEEEEHHTTSHHS
T ss_pred CEEEEEEECchhhhhc--cHHHHHHHHHHHHH-HhccCCCCcEEEEEEeC--CEEEEEECCCCcCCCcccchHHHhhccc
Confidence 3678999999754433 34677777777776 33335678899999885 335567765533200
Q ss_pred --CC-----CCCchhHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc--------CCCCCCC
Q 022678 81 --VG-----NGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS--------GLLHPQP 145 (293)
Q Consensus 81 --~~-----~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~--------~~~~~~s 145 (293)
.+ ..+..+.+..+++.|........ +......+..||..|...+.....+ +.++.++
T Consensus 79 p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~--------~~~~~~c~G~Al~~A~~ll~~~~~gGkI~~F~s~~pt~G~ 150 (243)
T PF04811_consen 79 PLPDGLLVPLSECRDAIEELLESLPSIFPETA--------GKRPERCLGSALSAALSLLSSRNTGGKILVFTSGPPTYGP 150 (243)
T ss_dssp STSSSSSEETTTCHHHHHHHHHHHHHHSTT-T--------TB-----HHHHHHHHHHHHHHHTS-EEEEEEESS---SSS
T ss_pred CCcccEEEEhHHhHHHHHHHHHHhhhhccccc--------ccCccccHHHHHHHHHHHHhccccCCEEEEEeccCCCCCC
Confidence 00 01111222334444443222210 1123567788899898888843321 1122222
Q ss_pred ------C------CC-CC------CchhHHHHHHHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCCcc
Q 022678 146 ------R------GS-PD------GPEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQLD 203 (293)
Q Consensus 146 ------R------~S-~D------~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~~~ 203 (293)
| .+ .+ ...+ -+-+....+.+++|.||++..+.. +..-|..++..|||.-+...+-.
T Consensus 151 Gg~l~~~~~~~~~~~~~~~~~~~~~~~~--fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~f~ 227 (243)
T PF04811_consen 151 GGSLKKREDSSHYDTEKEKALLLPPANE--FYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPNFN 227 (243)
T ss_dssp TTSS-SBTTSCCCCHCTTHHCHSHSSSH--HHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETTTT
T ss_pred Cceecccccccccccccchhhhccccch--HHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCCCC
Confidence 2 00 01 1111 134788899999999999999632 57789999999999877776543
No 49
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=96.43 E-value=0.1 Score=44.42 Aligned_cols=142 Identities=15% Similarity=0.129 Sum_probs=84.0
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC---CCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL---NQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~---n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (293)
++++||.|..|-.. ++..+-+.+..|+...... .+.-+++||...+ .++.+.|......
T Consensus 6 v~~llD~SgSM~~~---~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~~-~a~~~~~l~~~~~-------------- 67 (176)
T cd01464 6 IYLLLDTSGSMAGE---PIEALNQGLQMLQSELRQDPYALESVEISVITFDS-AARVIVPLTPLES-------------- 67 (176)
T ss_pred EEEEEECCCCCCCh---HHHHHHHHHHHHHHHHhcChhhccccEEEEEEecC-CceEecCCccHHh--------------
Confidence 68999999998544 4555556666666554332 2456899998775 6788888653210
Q ss_pred HHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc--CC--CCCCCC---CCC-CCchhHHHHHHHHHH
Q 022678 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS--GL--LHPQPR---GSP-DGPEQYVAIMNAIFS 164 (293)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~--~~--~~~~sR---~S~-D~~~qYi~lmN~ifa 164 (293)
..+..+ . ..+.+.+..||..|+..+.+.... .. +..... .|+ .+.+........+..
T Consensus 68 --~~~~~l-------~------~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~ 132 (176)
T cd01464 68 --FQPPRL-------T------ASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIERIKE 132 (176)
T ss_pred --cCCCcc-------c------CCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHHHHh
Confidence 000000 0 023568888999998887654211 00 011112 232 222222223355667
Q ss_pred HHcCCeeEEEEEcCC-cChHHHHHHHh
Q 022678 165 AQRSMVPIDSCYLGA-QNSAFLQQASY 190 (293)
Q Consensus 165 Aqk~~I~Idv~~L~~-~e~~iLqQa~~ 190 (293)
+++.+++|-++++|. .+..+|+++|+
T Consensus 133 ~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 133 ARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred hcccCCcEEEEEeccccCHHHHHHHHC
Confidence 777789999999984 57778888885
No 50
>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=95.99 E-value=0.38 Score=39.58 Aligned_cols=137 Identities=15% Similarity=0.098 Sum_probs=73.2
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
++|+||+|..|-.. ++...-..+..++..... +..+++||...... ...+.+... . ..++++
T Consensus 3 v~illD~SgSM~~~---k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~--~~~~~~~~~----------~-~~~~~~ 64 (152)
T cd01462 3 VILLVDQSGSMYGA---PEEVAKAVALALLRIALA--ENRDTYLILFDSEF--QTKIVDKTD----------D-LEEPVE 64 (152)
T ss_pred EEEEEECCCCCCCC---HHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCc--eEEecCCcc----------c-HHHHHH
Confidence 68999999999643 344444444445444433 46689999887662 233322211 0 012333
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC---CCCC--CchhHHHHHHHHHHHHcCCe
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR---GSPD--GPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR---~S~D--~~~qYi~lmN~ifaAqk~~I 170 (293)
.|..+ . . .+.+.+..+|..++..+.+.. ..... .|+- .... ..++...+.+++.++
T Consensus 65 ~l~~~---~--~--------~ggT~l~~al~~a~~~l~~~~-----~~~~~ivliTDG~~~~~~-~~~~~~~~~~~~~~~ 125 (152)
T cd01462 65 FLSGV---Q--L--------GGGTDINKALRYALELIERRD-----PRKADIVLITDGYEGGVS-DELLREVELKRSRVA 125 (152)
T ss_pred HHhcC---C--C--------CCCcCHHHHHHHHHHHHHhcC-----CCCceEEEECCCCCCCCC-HHHHHHHHHHHhcCc
Confidence 33211 1 1 135678888888887765521 11122 2321 1111 123355667778899
Q ss_pred eEEEEEcCCcChHHHHHHH
Q 022678 171 PIDSCYLGAQNSAFLQQAS 189 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~ 189 (293)
+|.++++|...-..|-+.+
T Consensus 126 ~v~~~~~g~~~~~~~~~~~ 144 (152)
T cd01462 126 RFVALALGDHGNPGYDRIS 144 (152)
T ss_pred EEEEEEecCCCCchHHHHh
Confidence 9999999855333444443
No 51
>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=95.74 E-value=1.1 Score=37.94 Aligned_cols=132 Identities=11% Similarity=0.071 Sum_probs=75.1
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCc-----eEEEecCCCCCCCCCCCCCchhH
Q 022678 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNS-----CDYVYDSSSTGNQSVGNGRMPSL 89 (293)
Q Consensus 15 ~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~-----s~~lyp~~~~~~~~~~~~~~~~~ 89 (293)
.++++||+|..|... .++..+-+.+..|+..... +..+++|++..+.. ..++.+.+.... .
T Consensus 2 ~v~~llD~SgSM~~~--~kl~~ak~a~~~l~~~l~~--~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~----------~ 67 (174)
T cd01454 2 AVTLLLDLSGSMRSD--RRIDVAKKAAVLLAEALEA--CGVPHAILGFTTDAGGRERVRWIKIKDFDES----------L 67 (174)
T ss_pred EEEEEEECCCCCCCC--cHHHHHHHHHHHHHHHHHH--cCCcEEEEEecCCCCCccceEEEEecCcccc----------c
Confidence 368999999999754 4677777777766555443 67889999876541 233332121110 0
Q ss_pred HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-------CCCCCch----hHHHH
Q 022678 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-------GSPDGPE----QYVAI 158 (293)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-------~S~D~~~----qYi~l 158 (293)
...+.++|..+. . .+.+.+..||..|+..+.+. ....| +-++.+. ++..+
T Consensus 68 ~~~~~~~l~~~~----~---------~g~T~~~~al~~a~~~l~~~------~~~~~~iiliTDG~~~~~~~~~~~~~~~ 128 (174)
T cd01454 68 HERARKRLAALS----P---------GGNTRDGAAIRHAAERLLAR------PEKRKILLVISDGEPNDLDYYEGNVFAT 128 (174)
T ss_pred chhHHHHHHccC----C---------CCCCcHHHHHHHHHHHHhcC------CCcCcEEEEEeCCCcCcccccCcchhHH
Confidence 011223332221 0 12467888888888777642 11223 2221111 11123
Q ss_pred HHH---HHHHHcCCeeEEEEEcCC
Q 022678 159 MNA---IFSAQRSMVPIDSCYLGA 179 (293)
Q Consensus 159 mN~---ifaAqk~~I~Idv~~L~~ 179 (293)
-.+ +..|++.+|.+.++.+|.
T Consensus 129 ~~~~~~~~~~~~~gi~v~~igig~ 152 (174)
T cd01454 129 EDALRAVIEARKLGIEVFGITIDR 152 (174)
T ss_pred HHHHHHHHHHHhCCcEEEEEEecC
Confidence 334 788899999999999974
No 52
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=95.39 E-value=0.66 Score=42.85 Aligned_cols=148 Identities=11% Similarity=0.076 Sum_probs=93.1
Q ss_pred CCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022678 13 VSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~ 90 (293)
.-.++|+||.|..|... .|.++. .+..+..++.+.+..+++|++.. +.+..+-|......
T Consensus 60 ~~qIvlaID~S~SM~~~~~~~~ale-----ak~lIs~al~~Le~g~vgVv~Fg-~~~~~v~Plt~d~~------------ 121 (266)
T cd01460 60 DYQILIAIDDSKSMSENNSKKLALE-----SLCLVSKALTLLEVGQLGVCSFG-EDVQILHPFDEQFS------------ 121 (266)
T ss_pred CceEEEEEecchhcccccccccHHH-----HHHHHHHHHHhCcCCcEEEEEeC-CCceEeCCCCCCch------------
Confidence 44789999999999987 677765 34477888889999999999987 46788888866441
Q ss_pred HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCC--C----CCC-----CCchhHHHHH
Q 022678 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQP--R----GSP-----DGPEQYVAIM 159 (293)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~s--R----~S~-----D~~~qYi~lm 159 (293)
-...+ +.++.. ..+ ...+.+..+|..|+.+......+ ....+ | .|+ +.+.+-
T Consensus 122 --~~a~~-~~l~~~-~f~-------~~~Tni~~aL~~a~~~f~~~~~~--~~s~~~~qlilLISDG~~~~~e~~~~---- 184 (266)
T cd01460 122 --SQSGP-RILNQF-TFQ-------QDKTDIANLLKFTAQIFEDARTQ--SSSGSLWQLLLIISDGRGEFSEGAQK---- 184 (266)
T ss_pred --hhHHH-HHhCcc-cCC-------CCCCcHHHHHHHHHHHHHhhhcc--ccccccccEEEEEECCCcccCccHHH----
Confidence 01112 122211 111 13467899999999988664221 11222 5 222 223221
Q ss_pred HHHHHHHcCCeeEEEEEcCCc--ChHHH--HHHHhhcCCe
Q 022678 160 NAIFSAQRSMVPIDSCYLGAQ--NSAFL--QQASYITGGV 195 (293)
Q Consensus 160 N~ifaAqk~~I~Idv~~L~~~--e~~iL--qQa~~~T~G~ 195 (293)
-.+..|++.+|.+-++.|..+ ...|+ +|+...++|.
T Consensus 185 ~~~r~a~e~~i~l~~I~ld~~~~~~SI~d~~~~~~~~~~~ 224 (266)
T cd01460 185 VRLREAREQNVFVVFIIIDNPDNKQSILDIKVVSFKNDKS 224 (266)
T ss_pred HHHHHHHHcCCeEEEEEEcCCCCCCCcccccccccCCCCc
Confidence 248889999999999999643 22343 3455444444
No 53
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=94.72 E-value=3.2 Score=37.61 Aligned_cols=171 Identities=18% Similarity=0.150 Sum_probs=94.1
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCC-CCCCEEEEEEecCceEEEecCCCCCCC--------CCCC
Q 022678 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLN-QLNQVVVIATGYNSCDYVYDSSSTGNQ--------SVGN 83 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n-~~N~l~VIa~~~~~s~~lyp~~~~~~~--------~~~~ 83 (293)
|-..+.|||+|...-+. .-+..+.+++..-|.. +-.+ +.-+|++|.... ..-+|.......+ ..+.
T Consensus 3 pp~~~FvIDvs~~a~~~--g~~~~~~~si~~~L~~-lp~~~~~~~VgiITfd~--~v~~y~l~~~~~~~q~~vv~dl~d~ 77 (244)
T cd01479 3 PAVYVFLIDVSYNAIKS--GLLATACEALLSNLDN-LPGDDPRTRVGFITFDS--TLHFFNLKSSLEQPQMMVVSDLDDP 77 (244)
T ss_pred CCEEEEEEEccHHHHhh--ChHHHHHHHHHHHHHh-cCCCCCCeEEEEEEECC--eEEEEECCCCCCCCeEEEeeCcccc
Confidence 44678999998854332 2366667777776654 3333 557888888763 2345665432211 0000
Q ss_pred -----C----Cchh---HHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhh------cCCCC---
Q 022678 84 -----G----RMPS---LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR------SGLLH--- 142 (293)
Q Consensus 84 -----~----~~~~---~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~------~~~~~--- 142 (293)
. ...+ .+..+++.|.+...+. ......+..||..|...+..... .+.++
T Consensus 78 f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~----------~~~~~c~G~Al~~A~~lL~~~GGkIi~f~s~~pt~Gp 147 (244)
T cd01479 78 FLPLPDGLLVNLKESRQVIEDLLDQIPEMFQDT----------KETESALGPALQAAFLLLKETGGKIIVFQSSLPTLGA 147 (244)
T ss_pred cCCCCcceeecHHHHHHHHHHHHHHHHHHHhcC----------CCCcccHHHHHHHHHHHHHhcCCEEEEEeCCCCCcCC
Confidence 0 0001 0112233332222111 12356778888888877764311 01111
Q ss_pred --CCCC------CCCC------CchhHHHHHHHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeC
Q 022678 143 --PQPR------GSPD------GPEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQ 200 (293)
Q Consensus 143 --~~sR------~S~D------~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~ 200 (293)
...| .+.+ +..+| +-+....+.+++|.||++..+.. +..-+..+|..|||.-+...
T Consensus 148 G~l~~~~~~~~~~~~~e~~~~~p~~~f--Y~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~ 219 (244)
T cd01479 148 GKLKSREDPKLLSTDKEKQLLQPQTDF--YKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYP 219 (244)
T ss_pred cccccCccccccCchhhhhhcCcchHH--HHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEEC
Confidence 1122 1111 12222 33678889999999999988533 66789999999999877666
No 54
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=94.69 E-value=0.022 Score=45.45 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=25.4
Q ss_pred ceeEcCCCCeeecCC---CCCCCccccccccc
Q 022678 246 MGYICSVCLSIYCKH---LKKCSTCGSVFGQA 274 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~---p~~C~~C~~~f~~~ 274 (293)
+-.+||-|+++|=.+ |.+||.||+.|...
T Consensus 8 tKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 347899999999976 57899999999988
No 55
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=94.38 E-value=2.8 Score=35.51 Aligned_cols=147 Identities=12% Similarity=0.044 Sum_probs=82.5
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (293)
|+++||.|..+- +..|..+.+-+..++..+-.....-+++||.... .++..++...... . ..+.+
T Consensus 3 ivfllD~S~Si~---~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys~-~~~~~~~l~~~~~-------~----~~l~~ 67 (165)
T cd01481 3 IVFLIDGSDNVG---SGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFSD-TPRPEFYLNTHST-------K----ADVLG 67 (165)
T ss_pred EEEEEeCCCCcC---HHHHHHHHHHHHHHHhhccCCCCCcEEEEEEecC-CeeEEEeccccCC-------H----HHHHH
Confidence 689999987653 3468888877888887765556667999998763 4566666643321 0 23555
Q ss_pred HHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCC-CCCCC----CCCCCchhHHHHHHHHHHHHcCCe
Q 022678 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLL-HPQPR----GSPDGPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~-~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I 170 (293)
+|.++-- .+ ...+....||..+...+-....+... ..-+| .|...+.. ++......+++.+|
T Consensus 68 ~i~~i~~----~~-------g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~d--~~~~~a~~lr~~gv 134 (165)
T cd01481 68 AVRRLRL----RG-------GSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQD--DVERPAVALKRAGI 134 (165)
T ss_pred HHHhccc----CC-------CCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCcc--hHHHHHHHHHHCCc
Confidence 5544311 11 01234455554443332111000000 01123 23332221 34567888999999
Q ss_pred eEEEEEcCCcChHHHHHHHh
Q 022678 171 PIDSCYLGAQNSAFLQQASY 190 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~~ 190 (293)
.|-+++.+..+..-|+++|-
T Consensus 135 ~i~~vG~~~~~~~eL~~ias 154 (165)
T cd01481 135 VPFAIGARNADLAELQQIAF 154 (165)
T ss_pred EEEEEeCCcCCHHHHHHHhC
Confidence 99999996456666666653
No 56
>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=94.31 E-value=1.2 Score=39.20 Aligned_cols=151 Identities=18% Similarity=0.201 Sum_probs=77.6
Q ss_pred EEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCC--CCCCchhHH
Q 022678 16 VVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSV--GNGRMPSLC 90 (293)
Q Consensus 16 LviIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~--~~~~~~~~~ 90 (293)
++.+||+++.|-.. ....|..+++++..++..-...++...+|||..+.....-- +..+...+-. ..-...+
T Consensus 2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~-~~~~~~~~i~~l~~l~~~~-- 78 (224)
T PF03731_consen 2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNP-DEDSGYENIFVLQPLDPPS-- 78 (224)
T ss_dssp EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST--TTT-STTEEEEEECC--B--
T ss_pred EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCc-ccccCCCceEEeecCCccC--
Confidence 68999999999976 22279999999999999999999999999999885543211 0000000000 0000001
Q ss_pred HHHHHHHHHHHhh----hhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----C----CCC-CchhHHH
Q 022678 91 ATLLQNLEEFMNK----DEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----G----SPD-GPEQYVA 157 (293)
Q Consensus 91 ~~i~~~L~~l~~~----~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~----S~D-~~~qYi~ 157 (293)
-..++.|.++... ....+ ...+..+..||-.|.-.+.+.. .......| . ++. ..+++-.
T Consensus 79 ~~~l~~L~~~~~~~~~~~~~~~------~~~~~~l~~al~v~~~~~~~~~--~~~k~~~krI~l~Td~d~p~~~~~~~~~ 150 (224)
T PF03731_consen 79 AERLKELEELLKPGDKFENFFS------GSDEGDLSDALWVASDMFRERT--CKKKKNKKRIFLFTDNDGPHEDDDELER 150 (224)
T ss_dssp HHHHHHHHTTSHHHHHHHHHC-------SSS---HHHHHHHHHHHHHCHC--TTS-ECEEEEEEEES-SSTTT-CCCHHH
T ss_pred HHHHHHHHHhhcccccccccCC------CCCccCHHHHHHHHHHHHHHHh--hcccCCCcEEEEEeCCCCCCCCHHHHHH
Confidence 1123333333222 00001 1235678888877777665421 12233333 1 222 2333434
Q ss_pred HHHH--HHHHHcCCeeEEEEEc
Q 022678 158 IMNA--IFSAQRSMVPIDSCYL 177 (293)
Q Consensus 158 lmN~--ifaAqk~~I~Idv~~L 177 (293)
+..- +...+..+|.++++.|
T Consensus 151 ~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 151 IIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp HHHHHHHHHHHHHTEEEEEEEC
T ss_pred HHHhhccccchhcCcceeEeec
Confidence 4444 6668899999999999
No 57
>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=94.04 E-value=4.3 Score=36.42 Aligned_cols=181 Identities=16% Similarity=0.105 Sum_probs=97.6
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCC-----CCCCCc-
Q 022678 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQS-----VGNGRM- 86 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~-----~~~~~~- 86 (293)
|-..+.|||+|...-+. .-+..+.+++...+.. +..++.-++++|... ...-+|......... .+..+.
T Consensus 3 pp~~vFvID~s~~ai~~--~~l~~~~~sl~~~l~~-lp~~~~~~igiITf~--~~V~~~~~~~~~~~~~~~v~~dl~d~f 77 (239)
T cd01468 3 PPVFVFVIDVSYEAIKE--GLLQALKESLLASLDL-LPGDPRARVGLITYD--STVHFYNLSSDLAQPKMYVVSDLKDVF 77 (239)
T ss_pred CCEEEEEEEcchHhccc--cHHHHHHHHHHHHHHh-CCCCCCcEEEEEEeC--CeEEEEECCCCCCCCeEEEeCCCccCc
Confidence 45679999999865443 2366666666666653 222366779999884 344566655433100 000000
Q ss_pred ----hhH---HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhh--------cCCCC-----CCCC
Q 022678 87 ----PSL---CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR--------SGLLH-----PQPR 146 (293)
Q Consensus 87 ----~~~---~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~--------~~~~~-----~~sR 146 (293)
..+ ..+..+.|.+++++-.....+. ........+..||..|...+..... .+.++ ..+|
T Consensus 78 ~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~~~~~gGkI~~f~sg~pt~GpG~l~~~ 156 (239)
T cd01468 78 LPLPDRFLVPLSECKKVIHDLLEQLPPMFWPV-PTHRPERCLGPALQAAFLLLKGTFAGGRIIVFQGGLPTVGPGKLKSR 156 (239)
T ss_pred CCCcCceeeeHHHHHHHHHHHHHhhhhhcccc-CCCCCcccHHHHHHHHHHHHhhcCCCceEEEEECCCCCCCCCccccC
Confidence 011 1112222223322211110000 0012346778899999888876510 11122 1222
Q ss_pred ------CCC------CCchhHHHHHHHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCC
Q 022678 147 ------GSP------DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQ 201 (293)
Q Consensus 147 ------~S~------D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~ 201 (293)
.+. .+..+| +-+....+.+++|.||++..+.. +..-++.++..|||.-+...+
T Consensus 157 ~~~~~~~~~~e~~~~~~a~~f--Y~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~ 223 (239)
T cd01468 157 EDKEPIRSHDEAQLLKPATKF--YKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDS 223 (239)
T ss_pred cccccCCCccchhcccccHHH--HHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCC
Confidence 110 122222 23578888999999999988533 667899999999998877664
No 58
>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=93.69 E-value=0.058 Score=33.96 Aligned_cols=23 Identities=35% Similarity=0.781 Sum_probs=19.6
Q ss_pred eeEcCCCCeeecC--CCCCCCcccc
Q 022678 247 GYICSVCLSIYCK--HLKKCSTCGS 269 (293)
Q Consensus 247 GyvCp~Clsi~C~--~p~~C~~C~~ 269 (293)
-|+|++|+-++=. .|..||+||.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCC
Confidence 4999999999764 4679999997
No 59
>PRK12496 hypothetical protein; Provisional
Probab=93.59 E-value=0.047 Score=46.79 Aligned_cols=34 Identities=24% Similarity=0.528 Sum_probs=26.9
Q ss_pred CcccceeEcCCCCeeecCCC--CCCCcccccccccc
Q 022678 242 NTIDMGYICSVCLSIYCKHL--KKCSTCGSVFGQAQ 275 (293)
Q Consensus 242 ~~~~~GyvCp~Clsi~C~~p--~~C~~C~~~f~~~~ 275 (293)
+...+.|+|+-|+..|=+-+ ..||+||..+...+
T Consensus 122 ~~~~w~~~C~gC~~~~~~~~~~~~C~~CG~~~~r~~ 157 (164)
T PRK12496 122 KVIKWRKVCKGCKKKYPEDYPDDVCEICGSPVKRKM 157 (164)
T ss_pred hheeeeEECCCCCccccCCCCCCcCCCCCChhhhcc
Confidence 44567899999999997643 57999998887555
No 60
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=93.10 E-value=0.06 Score=46.21 Aligned_cols=24 Identities=25% Similarity=0.609 Sum_probs=19.6
Q ss_pred eeEcCCCCeeecCC-CCCCCccccc
Q 022678 247 GYICSVCLSIYCKH-LKKCSTCGSV 270 (293)
Q Consensus 247 GyvCp~Clsi~C~~-p~~C~~C~~~ 270 (293)
-|||++|+-+.=.- |..||+||..
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 59999999887754 5699999964
No 61
>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=92.57 E-value=6.4 Score=34.07 Aligned_cols=144 Identities=14% Similarity=0.130 Sum_probs=75.8
Q ss_pred eEEEEEeCCcccccc----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022678 15 LVVVLLDTNPFFWSS----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (293)
Q Consensus 15 ~LviIlD~s~~~w~~----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~ 90 (293)
-++++||.|.+|-.. .+.++..+-+.+..++. .+.....+.++++..... .....|..
T Consensus 4 dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~-~~~~~D~d~i~l~~f~~~-~~~~~~~~---------------- 65 (199)
T cd01457 4 DYTLLIDKSGSMAEADEAKERSRWEEAQESTRALAR-KCEEYDSDGITVYLFSGD-FRRYDNVN---------------- 65 (199)
T ss_pred CEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHH-HHHhcCCCCeEEEEecCC-ccccCCcC----------------
Confidence 578999999999654 44566666666555553 333344555766665432 22222211
Q ss_pred HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHH-HHHHhhhcCCCCCCC--C----CCCCCchhHHHHHHH-H
Q 022678 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALC-YIQRVFRSGLLHPQP--R----GSPDGPEQYVAIMNA-I 162 (293)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc-~inr~~~~~~~~~~s--R----~S~D~~~qYi~lmN~-i 162 (293)
.+.+.+++..-.+ .+.+.+..+|..|+- |..+...+ ...+ + .|.-..+.--.+-+. +
T Consensus 66 ---~~~v~~~~~~~~p---------~G~T~l~~~l~~a~~~~~~~~~~~---~~~p~~~~vIiiTDG~~~d~~~~~~~i~ 130 (199)
T cd01457 66 ---SSKVDQLFAENSP---------DGGTNLAAVLQDALNNYFQRKENG---ATCPEGETFLVITDGAPDDKDAVERVII 130 (199)
T ss_pred ---HHHHHHHHhcCCC---------CCcCcHHHHHHHHHHHHHHHHhhc---cCCCCceEEEEEcCCCCCcHHHHHHHHH
Confidence 1222233222111 135688999998874 44433111 1222 3 222111110022233 3
Q ss_pred HHHHc----CCeeEEEEEcCCc--ChHHHHHHHhh
Q 022678 163 FSAQR----SMVPIDSCYLGAQ--NSAFLQQASYI 191 (293)
Q Consensus 163 faAqk----~~I~Idv~~L~~~--e~~iLqQa~~~ 191 (293)
.++++ .+|.|.++.+|.. ...+|+++.+.
T Consensus 131 ~a~~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~ 165 (199)
T cd01457 131 KASDELDADNELAISFLQIGRDPAATAFLKALDDQ 165 (199)
T ss_pred HHHHhhccccCceEEEEEeCCcHHHHHHHHHHhHH
Confidence 44443 4799999999854 55689999987
No 62
>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=92.40 E-value=0.12 Score=32.15 Aligned_cols=23 Identities=39% Similarity=0.885 Sum_probs=19.6
Q ss_pred eEcCCCCeeecCC--CCCCCccccc
Q 022678 248 YICSVCLSIYCKH--LKKCSTCGSV 270 (293)
Q Consensus 248 yvCp~Clsi~C~~--p~~C~~C~~~ 270 (293)
|+|++|+-+|=.. +-.||+||..
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCCc
Confidence 8999999998764 6699999973
No 63
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=92.10 E-value=9.5 Score=39.18 Aligned_cols=151 Identities=11% Similarity=0.095 Sum_probs=89.9
Q ss_pred CCCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceE---------EEecCCCC
Q 022678 11 DDVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCD---------YVYDSSST 76 (293)
Q Consensus 11 ~~~s~LviIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~---------~lyp~~~~ 76 (293)
+..+-++++||+|+.|... ....|..+++++..++..-.-.++.-.+||+..+..+.+ .+.|+..-
T Consensus 8 ~~keailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p 87 (584)
T TIGR00578 8 SGRDSLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNP 87 (584)
T ss_pred cceeEEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCC
Confidence 4578899999999999974 246799999999999999999999999999998765442 11111111
Q ss_pred CCCCCCCCCchhHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCC-CC
Q 022678 77 GNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSP-DG 151 (293)
Q Consensus 77 ~~~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~-D~ 151 (293)
+ .+.+++|.++..+.....-...-+.....+|..+|-.|.-.+.+ ..++...| .|. |.
T Consensus 88 -----------~--a~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~----~~~k~~~kRI~lfTd~D~ 150 (584)
T TIGR00578 88 -----------G--AKRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSD----VQFRMSHKRIMLFTNEDN 150 (584)
T ss_pred -----------C--HHHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHh----cchhhcCcEEEEECCCCC
Confidence 0 13567777775432110000000001123667777555533332 22234444 222 11
Q ss_pred c-----hhHHHHHHHHHHHHcCCeeEEEEEcC
Q 022678 152 P-----EQYVAIMNAIFSAQRSMVPIDSCYLG 178 (293)
Q Consensus 152 ~-----~qYi~lmN~ifaAqk~~I~Idv~~L~ 178 (293)
+ ...-.....+.-++..+|.|+.+.|.
T Consensus 151 P~~~~~~~~~~a~~~a~dl~~~gi~ielf~l~ 182 (584)
T TIGR00578 151 PHGNDSAKASRARTKAGDLRDTGIFLDLMHLK 182 (584)
T ss_pred CCCCchhHHHHHHHHHHHHHhcCeEEEEEecC
Confidence 1 11111123467778999999999985
No 64
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=90.81 E-value=0.16 Score=41.47 Aligned_cols=30 Identities=17% Similarity=0.163 Sum_probs=25.7
Q ss_pred ceeEcCCCCeeecCC---CCCCCcccccccccc
Q 022678 246 MGYICSVCLSIYCKH---LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~---p~~C~~C~~~f~~~~ 275 (293)
.-.+||.|.++|=.+ |..||.||+.+...+
T Consensus 8 tKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNRRPAVSPYTGEQFPPEE 40 (129)
T ss_pred ccccCCCcCccccccCCCCccCCCcCCccCcch
Confidence 357999999999876 689999999997664
No 65
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=90.50 E-value=0.26 Score=31.42 Aligned_cols=26 Identities=35% Similarity=0.680 Sum_probs=21.5
Q ss_pred eEcCCCCeeecCC------CCCCCcccccccc
Q 022678 248 YICSVCLSIYCKH------LKKCSTCGSVFGQ 273 (293)
Q Consensus 248 yvCp~Clsi~C~~------p~~C~~C~~~f~~ 273 (293)
++|+.|+.+|-.. ..+|..||..|+.
T Consensus 2 r~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~~L~q 33 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPPKVEGVCDNCGGELVQ 33 (36)
T ss_dssp EEETTTTEEEETTTB--SSTTBCTTTTEBEBE
T ss_pred cCcCCCCCccccccCCCCCCCccCCCCCeeEe
Confidence 6899999999853 3799999998763
No 66
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=90.26 E-value=0.19 Score=42.74 Aligned_cols=30 Identities=20% Similarity=0.436 Sum_probs=24.4
Q ss_pred cceeEcCCCCeeecC-----CCCCCCccccccccc
Q 022678 245 DMGYICSVCLSIYCK-----HLKKCSTCGSVFGQA 274 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~-----~p~~C~~C~~~f~~~ 274 (293)
..+|+||.|...|-. ..-.||.||..|..-
T Consensus 107 ~~~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 107 NMFFICPNMCVRFTFNEAMELNFTCPRCGAMLDYL 141 (158)
T ss_pred CCeEECCCCCcEeeHHHHHHcCCcCCCCCCEeeec
Confidence 357999999999974 457899999998743
No 67
>PRK10997 yieM hypothetical protein; Provisional
Probab=90.04 E-value=13 Score=37.28 Aligned_cols=144 Identities=10% Similarity=-0.002 Sum_probs=86.0
Q ss_pred CCCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCch
Q 022678 8 LYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMP 87 (293)
Q Consensus 8 ~~~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~ 87 (293)
..+.++--++|+||+|.+|.+. + ......+...-.+.+......+++|+..++... |+.++..
T Consensus 318 ~~~~~kGpiII~VDtSGSM~G~-k----e~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~--~~l~~~~---------- 380 (487)
T PRK10997 318 QDEQPRGPFIVCVDTSGSMGGF-N----EQCAKAFCLALMRIALAENRRCYIMLFSTEVVT--YELTGPD---------- 380 (487)
T ss_pred ccCCCCCcEEEEEECCCCCCCC-H----HHHHHHHHHHHHHHHHhcCCCEEEEEecCCcee--eccCCcc----------
Confidence 3456778899999999999854 2 222234455667778888899999988765433 2333221
Q ss_pred hHHHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC-----CCCCC-chhHHHHHHH
Q 022678 88 SLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR-----GSPDG-PEQYVAIMNA 161 (293)
Q Consensus 88 ~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR-----~S~D~-~~qYi~lmN~ 161 (293)
-+..+.+++.... .+.+.+..+|..|+..+.+. ...| .|+-. +...-.+++.
T Consensus 381 -----gl~~ll~fL~~~f----------~GGTDl~~aL~~al~~l~~~-------~~r~adIVVISDF~~~~~~eel~~~ 438 (487)
T PRK10997 381 -----GLEQAIRFLSQSF----------RGGTDLAPCLRAIIEKMQGR-------EWFDADAVVISDFIAQRLPDELVAK 438 (487)
T ss_pred -----CHHHHHHHHHHhc----------CCCCcHHHHHHHHHHHHccc-------ccCCceEEEECCCCCCCChHHHHHH
Confidence 1122333333211 13567888888887766552 1223 34421 1112246688
Q ss_pred HHHHHc-CCeeEEEEEcCCcChHHHHHHHh
Q 022678 162 IFSAQR-SMVPIDSCYLGAQNSAFLQQASY 190 (293)
Q Consensus 162 ifaAqk-~~I~Idv~~L~~~e~~iLqQa~~ 190 (293)
+..+++ .+.++..+.+|.....-+..++|
T Consensus 439 L~~Lk~~~~~rf~~l~i~~~~~p~l~~ifD 468 (487)
T PRK10997 439 VKELQRQHQHRFHAVAMSAHGKPGIMRIFD 468 (487)
T ss_pred HHHHHHhcCcEEEEEEeCCCCCchHHHhcC
Confidence 888877 89999999997433333444444
No 68
>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=89.55 E-value=0.2 Score=29.67 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=21.2
Q ss_pred EcCCCCeeecCCCCCCCccccccc
Q 022678 249 ICSVCLSIYCKHLKKCSTCGSVFG 272 (293)
Q Consensus 249 vCp~Clsi~C~~p~~C~~C~~~f~ 272 (293)
.||.|...+-.--..|+.||-.|.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCCc
Confidence 499999999888889999998885
No 69
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=89.37 E-value=0.26 Score=42.80 Aligned_cols=30 Identities=20% Similarity=0.546 Sum_probs=24.5
Q ss_pred cceeEcCCCCeeecC-----CCCCCCccccccccc
Q 022678 245 DMGYICSVCLSIYCK-----HLKKCSTCGSVFGQA 274 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~-----~p~~C~~C~~~f~~~ 274 (293)
..+|+||.|...|-. .--.||.||..|..-
T Consensus 115 ~~~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 115 NMFFFCPNCHIRFTFDEAMEYGFRCPQCGEMLEEY 149 (178)
T ss_pred CCEEECCCCCcEEeHHHHhhcCCcCCCCCCCCeec
Confidence 357999999999974 456899999998753
No 70
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=88.20 E-value=18 Score=32.06 Aligned_cols=169 Identities=15% Similarity=0.126 Sum_probs=100.2
Q ss_pred EEEEEeCCcccccc-CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022678 16 VVVLLDTNPFFWSS-SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (293)
Q Consensus 16 LviIlD~s~~~w~~-~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (293)
+++|||.|-+|... +.-+.+.+++.++...- +|+- ...+=|+....+-.. +|.- .. ..+-
T Consensus 4 V~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~-~~Dd--DG~i~v~~Fs~~~~~--~~~v----------t~----~~~~ 64 (200)
T PF10138_consen 4 VYLVLDISGSMRPLYKDGTVQRVVERILALAA-QFDD--DGEIDVWFFSTEFDR--LPDV----------TL----DNYE 64 (200)
T ss_pred EEEEEeCCCCCchhhhCccHHHHHHHHHHHHh-hcCC--CCceEEEEeCCCCCc--CCCc----------CH----HHHH
Confidence 78999999999887 66789999999887665 5554 455555554422111 1100 00 1122
Q ss_pred HHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCCC----CCCCCchhHHHHHHHHHHHHcCCe
Q 022678 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPR----GSPDGPEQYVAIMNAIFSAQRSMV 170 (293)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~sR----~S~D~~~qYi~lmN~ifaAqk~~I 170 (293)
.-+.++...-...+. .+......+|..++.+.-.... ...+= .|.-....--.+++.|-.|.+.-|
T Consensus 65 ~~v~~~~~~~~~~~~------~G~t~y~~vm~~v~~~y~~~~~----~~~P~~VlFiTDG~~~~~~~~~~~i~~as~~pi 134 (200)
T PF10138_consen 65 GYVDELHAGLPDWGR------MGGTNYAPVMEDVLDHYFKREP----SDAPALVLFITDGGPDDRRAIEKLIREASDEPI 134 (200)
T ss_pred HHHHHHhccccccCC------CCCcchHHHHHHHHHHHhhcCC----CCCCeEEEEEecCCccchHHHHHHHHhccCCCe
Confidence 222222221100110 1235678888888777553211 11111 222212222368899999999999
Q ss_pred eEEEEEcCCcChHHHHHHHhhcC-----CeeeeeCC-----cchHHHHHHHhc
Q 022678 171 PIDSCYLGAQNSAFLQQASYITG-----GVHHKPQQ-----LDGLFQYLLTIF 213 (293)
Q Consensus 171 ~Idv~~L~~~e~~iLqQa~~~T~-----G~Y~~~~~-----~~~l~~~L~~~~ 213 (293)
-+..+++|..+-.||+++-++.| --|+.+.+ .+.|.+.||..|
T Consensus 135 fwqFVgiG~~~f~fL~kLD~l~gR~vDNa~Ff~~~d~~~lsD~eLy~~LL~Ef 187 (200)
T PF10138_consen 135 FWQFVGIGDSNFGFLEKLDDLAGRVVDNAGFFAIDDIDELSDEELYDRLLAEF 187 (200)
T ss_pred eEEEEEecCCcchHHHHhhccCCcccCCcCeEecCCcccCCHHHHHHHHHHHH
Confidence 99999999888899999999633 22344433 456888888776
No 71
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=86.73 E-value=0.73 Score=30.72 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=24.4
Q ss_pred eeEcCCCCeeecCC----CCCCCcccccccccccC
Q 022678 247 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQ 277 (293)
Q Consensus 247 GyvCp~Clsi~C~~----p~~C~~C~~~f~~~~~~ 277 (293)
-|.|+.|+..+=.. ...||.||..+....+.
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~~~~ 37 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRILFKERP 37 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEEEccCC
Confidence 49999999987532 46899999999866533
No 72
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.02 E-value=0.49 Score=27.80 Aligned_cols=24 Identities=25% Similarity=0.591 Sum_probs=18.2
Q ss_pred eEcCCCCeeecCCCCCCCcccccc
Q 022678 248 YICSVCLSIYCKHLKKCSTCGSVF 271 (293)
Q Consensus 248 yvCp~Clsi~C~~p~~C~~C~~~f 271 (293)
..||.|....=.--..|+.||..|
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCCcccccChhhCCCC
Confidence 368999986555567899999865
No 73
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=83.85 E-value=0.55 Score=26.89 Aligned_cols=22 Identities=27% Similarity=0.656 Sum_probs=16.6
Q ss_pred cCCCCeeecCCCCCCCcccccc
Q 022678 250 CSVCLSIYCKHLKKCSTCGSVF 271 (293)
Q Consensus 250 Cp~Clsi~C~~p~~C~~C~~~f 271 (293)
||.|....=+--..|+.||+.|
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 7788877766667788888764
No 74
>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=83.69 E-value=0.85 Score=31.30 Aligned_cols=23 Identities=35% Similarity=0.798 Sum_probs=18.8
Q ss_pred eEcCCCCeeecC-----------------CCC--CCCccccc
Q 022678 248 YICSVCLSIYCK-----------------HLK--KCSTCGSV 270 (293)
Q Consensus 248 yvCp~Clsi~C~-----------------~p~--~C~~C~~~ 270 (293)
|+|.+|+-+|=+ +|. .||+|+..
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAG 43 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCc
Confidence 899999999984 554 89999863
No 75
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=82.62 E-value=34 Score=30.22 Aligned_cols=158 Identities=14% Similarity=0.169 Sum_probs=86.0
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCC----CCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQL----NQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~----N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~ 91 (293)
.|++||+|-.|-+. ++..+=.-|+.+++ =|.|+|. -.++||+.. +.++.+.|...-.+
T Consensus 6 ~~lllDtSgSM~Ge---~IealN~Glq~m~~-~Lkqdp~Ale~v~lsIVTF~-~~a~~~~pf~~~~n------------- 67 (207)
T COG4245 6 CYLLLDTSGSMIGE---PIEALNAGLQMMID-TLKQDPYALERVELSIVTFG-GPARVIQPFTDAAN------------- 67 (207)
T ss_pred EEEEEecCcccccc---cHHHHHHHHHHHHH-HHHhChhhhheeEEEEEEec-CcceEEechhhHhh-------------
Confidence 68999999988877 34333333444444 4555554 467777766 47888888654321
Q ss_pred HHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhh-cCC-CCCCCC-----CCC-CCchhHHHHHHHHH
Q 022678 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR-SGL-LHPQPR-----GSP-DGPEQYVAIMNAIF 163 (293)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~-~~~-~~~~sR-----~S~-D~~~qYi~lmN~if 163 (293)
+ ....... .+.++|..||..|+-.|-+..+ ... ....=| .|+ .|.+.|-.=.+..+
T Consensus 68 --------F--~~p~L~a------~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD~w~~~~~~~~ 131 (207)
T COG4245 68 --------F--NPPILTA------QGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTDDWQAGAALVF 131 (207)
T ss_pred --------c--CCCceec------CCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcchHHHhHHHHhh
Confidence 1 0001111 2467899999999988866532 211 111123 222 23444432223333
Q ss_pred HHHcCCeeEEEEEcC-C-cChHHHHHHHhhcCCeeeeeCCcchHHHHH
Q 022678 164 SAQRSMVPIDSCYLG-A-QNSAFLQQASYITGGVHHKPQQLDGLFQYL 209 (293)
Q Consensus 164 aAqk~~I~Idv~~L~-~-~e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L 209 (293)
.-.+.+..|=.|++| . ++...|+|+++.-.-.|- .+...|.+++
T Consensus 132 ~~~~~~k~v~a~~~G~~~ad~~~L~qit~~V~~~~t--~d~~~f~~fF 177 (207)
T COG4245 132 QGERRAKSVAAFSVGVQGADNKTLNQITEKVRQFLT--LDGLQFREFF 177 (207)
T ss_pred hcccccceEEEEEecccccccHHHHHHHHhhccccc--cchHHHHHHH
Confidence 333344455566665 2 588999999876553332 3344444544
No 76
>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=81.58 E-value=1.3 Score=30.05 Aligned_cols=23 Identities=35% Similarity=0.831 Sum_probs=16.3
Q ss_pred eEcCCCCeeecC-----------------CCC--CCCccccc
Q 022678 248 YICSVCLSIYCK-----------------HLK--KCSTCGSV 270 (293)
Q Consensus 248 yvCp~Clsi~C~-----------------~p~--~C~~C~~~ 270 (293)
|+|++|..+|=+ +|. .||+|+..
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 899999998874 332 79999864
No 77
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.23 E-value=0.86 Score=38.14 Aligned_cols=31 Identities=29% Similarity=0.618 Sum_probs=24.5
Q ss_pred cceeEcCCCCeeecC-----CC-----CCCCcccccccccc
Q 022678 245 DMGYICSVCLSIYCK-----HL-----KKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~-----~p-----~~C~~C~~~f~~~~ 275 (293)
..+|+||.|...|-. +. -.||.||..+....
T Consensus 97 ~~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 97 NAYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEEDD 137 (147)
T ss_pred CcEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEcC
Confidence 347999999999884 33 57999999997554
No 78
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=80.32 E-value=1.2 Score=38.60 Aligned_cols=34 Identities=21% Similarity=0.454 Sum_probs=28.1
Q ss_pred CcccceeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 242 NTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 242 ~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
+...+.|+|--|..+|=+---.|+.||..+....
T Consensus 134 ~v~~w~~rC~GC~~~f~~~~~~Cp~CG~~~~~~~ 167 (177)
T COG1439 134 KVRKWRLRCHGCKRIFPEPKDFCPICGSPLKRKR 167 (177)
T ss_pred eEeeeeEEEecCceecCCCCCcCCCCCCceEEee
Confidence 3456789999999999966679999999976655
No 79
>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=79.36 E-value=1.2 Score=28.20 Aligned_cols=25 Identities=24% Similarity=0.630 Sum_probs=18.7
Q ss_pred eEcCCCCeeecCC---------CCCCCccccccc
Q 022678 248 YICSVCLSIYCKH---------LKKCSTCGSVFG 272 (293)
Q Consensus 248 yvCp~Clsi~C~~---------p~~C~~C~~~f~ 272 (293)
+.||.|.+.|--- ...|+.||..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 6799999977621 158999998875
No 80
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=77.68 E-value=1.4 Score=38.28 Aligned_cols=31 Identities=23% Similarity=0.556 Sum_probs=24.9
Q ss_pred cceeEcCCCCeeec-----CCCCCCCcccccccccc
Q 022678 245 DMGYICSVCLSIYC-----KHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~GyvCp~Clsi~C-----~~p~~C~~C~~~f~~~~ 275 (293)
..+|+||.|...|- +.--.||.||..+.-.-
T Consensus 111 ~~~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L~~~d 146 (176)
T COG1675 111 NNYYVCPNCHVKYSFDEAMELGFTCPKCGEDLEEYD 146 (176)
T ss_pred CCceeCCCCCCcccHHHHHHhCCCCCCCCchhhhcc
Confidence 45799999999987 35578999999887544
No 81
>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=77.05 E-value=2.4 Score=27.01 Aligned_cols=25 Identities=28% Similarity=0.699 Sum_probs=19.5
Q ss_pred eeEcCCCCeeec-------CCCCCCCcccccc
Q 022678 247 GYICSVCLSIYC-------KHLKKCSTCGSVF 271 (293)
Q Consensus 247 GyvCp~Clsi~C-------~~p~~C~~C~~~f 271 (293)
.|.|+.|...|= .....||.||...
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISDDPLATCPECGGDV 36 (41)
T ss_pred EEEcCCCCCEEEEEEecCCCCCCCCCCCCCcc
Confidence 589999999775 2346899999843
No 82
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=76.64 E-value=1.7 Score=29.71 Aligned_cols=35 Identities=23% Similarity=0.335 Sum_probs=27.3
Q ss_pred ccceeEcCCCCeeecCC----CCCCCcccccccccccCC
Q 022678 244 IDMGYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQS 278 (293)
Q Consensus 244 ~~~GyvCp~Clsi~C~~----p~~C~~C~~~f~~~~~~~ 278 (293)
....|+|..|+..+=.+ ...|+-||.+.-..++.|
T Consensus 3 ~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl~K~R~~ 41 (49)
T COG1996 3 AMMEYKCARCGREVELDQETRGIRCPYCGSRILVKERPK 41 (49)
T ss_pred ceEEEEhhhcCCeeehhhccCceeCCCCCcEEEEeccCC
Confidence 34679999999999422 368999999988777543
No 83
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=75.62 E-value=1.5 Score=30.59 Aligned_cols=30 Identities=17% Similarity=0.409 Sum_probs=21.9
Q ss_pred eeEcCCCCeeecCCC-------CCCCcccccccccccC
Q 022678 247 GYICSVCLSIYCKHL-------KKCSTCGSVFGQAQTQ 277 (293)
Q Consensus 247 GyvCp~Clsi~C~~p-------~~C~~C~~~f~~~~~~ 277 (293)
.|.||.|..-+ +++ ..|+.||+.|-...+.
T Consensus 2 ~~~CP~CG~~i-ev~~~~~GeiV~Cp~CGaeleVv~~~ 38 (54)
T TIGR01206 2 QFECPDCGAEI-ELENPELGELVICDECGAELEVVSLD 38 (54)
T ss_pred ccCCCCCCCEE-ecCCCccCCEEeCCCCCCEEEEEeCC
Confidence 47899999865 332 5899999998765433
No 84
>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=75.25 E-value=1 Score=29.55 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=18.7
Q ss_pred eEcCCCCeee--cCC---CCCCCcccccccccc
Q 022678 248 YICSVCLSIY--CKH---LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 248 yvCp~Clsi~--C~~---p~~C~~C~~~f~~~~ 275 (293)
|+||.|++.. -+. -.+|+.||+.+....
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~e~~ 33 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCGLVLEENI 33 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-BBEE-TT
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCCCEeeccc
Confidence 7899999964 221 148999999887655
No 85
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=72.71 E-value=2.3 Score=26.99 Aligned_cols=24 Identities=38% Similarity=0.813 Sum_probs=16.4
Q ss_pred eEcCCCCeeecC----CC-----CCCCcccccc
Q 022678 248 YICSVCLSIYCK----HL-----KKCSTCGSVF 271 (293)
Q Consensus 248 yvCp~Clsi~C~----~p-----~~C~~C~~~f 271 (293)
.+||.|.+.|=- +| ..|+.|+..|
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 468888888762 33 4688888766
No 86
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=72.30 E-value=49 Score=30.90 Aligned_cols=52 Identities=13% Similarity=0.249 Sum_probs=32.2
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHc----CCCCCCEEEEEEe
Q 022678 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILT----LNQLNQVVVIATG 63 (293)
Q Consensus 12 ~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~----~n~~N~l~VIa~~ 63 (293)
+..-+++.|-+|+.||+-.+..-.-+=+.+..|+.+.|. .+-...|.||...
T Consensus 69 ~Sar~~~~IQmS~EMW~fd~~Ge~~fek~vn~Fl~~lf~kWk~~~~~H~vTIVlfs 124 (281)
T PF12257_consen 69 ESARVYIFIQMSSEMWDFDEDGEIYFEKAVNGFLPELFKKWKEIGTHHLVTIVLFS 124 (281)
T ss_pred cceeeeehHhhhHHHhCcCccHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEEEE
Confidence 456789999999999998544322222333457777774 3444455555543
No 87
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=71.93 E-value=1.4 Score=36.31 Aligned_cols=27 Identities=19% Similarity=0.342 Sum_probs=21.2
Q ss_pred ceeEcCCCCeeecCCC--CCCCccccccc
Q 022678 246 MGYICSVCLSIYCKHL--KKCSTCGSVFG 272 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~p--~~C~~C~~~f~ 272 (293)
.++.||.|++-.=+.- ..||+||.+++
T Consensus 27 L~~hCp~Cg~PLF~KdG~v~CPvC~~~~~ 55 (131)
T COG1645 27 LAKHCPKCGTPLFRKDGEVFCPVCGYREV 55 (131)
T ss_pred HHhhCcccCCcceeeCCeEECCCCCceEE
Confidence 4688999999776643 68999996655
No 88
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=71.18 E-value=2.4 Score=33.36 Aligned_cols=31 Identities=16% Similarity=0.359 Sum_probs=22.8
Q ss_pred cceeEcCCCCeeecC-------CCCCCCcccccccccc
Q 022678 245 DMGYICSVCLSIYCK-------HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~-------~p~~C~~C~~~f~~~~ 275 (293)
..-|.||.|.+.... ....|++||..+....
T Consensus 19 pt~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y~~~~V 56 (99)
T PRK14892 19 PKIFECPRCGKVSISVKIKKNIAIITCGNCGLYTEFEV 56 (99)
T ss_pred CcEeECCCCCCeEeeeecCCCcceEECCCCCCccCEEC
Confidence 345999999964332 2478999999988654
No 89
>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=70.04 E-value=2.1 Score=28.48 Aligned_cols=23 Identities=26% Similarity=0.752 Sum_probs=14.9
Q ss_pred ceeEcCCCCee-ecCCCC----CCCccc
Q 022678 246 MGYICSVCLSI-YCKHLK----KCSTCG 268 (293)
Q Consensus 246 ~GyvCp~Clsi-~C~~p~----~C~~C~ 268 (293)
.|++||.|.+. +..+.. .|..|+
T Consensus 17 ~g~~CP~Cg~~~~~~~~~~~~~~C~~C~ 44 (46)
T PF12760_consen 17 DGFVCPHCGSTKHYRLKTRGRYRCKACR 44 (46)
T ss_pred CCCCCCCCCCeeeEEeCCCCeEECCCCC
Confidence 37899999984 333332 576665
No 90
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=68.45 E-value=3 Score=25.43 Aligned_cols=16 Identities=31% Similarity=0.752 Sum_probs=11.3
Q ss_pred cceeEcCCCCeeecCC
Q 022678 245 DMGYICSVCLSIYCKH 260 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~~ 260 (293)
..-|.||.|...||++
T Consensus 11 ~~kY~Cp~C~~~~CSl 26 (30)
T PF04438_consen 11 PAKYRCPRCGARYCSL 26 (30)
T ss_dssp EESEE-TTT--EESSH
T ss_pred CCEEECCCcCCceeCc
Confidence 6779999999999975
No 91
>PTZ00395 Sec24-related protein; Provisional
Probab=68.24 E-value=1.2e+02 Score=34.49 Aligned_cols=192 Identities=9% Similarity=0.080 Sum_probs=97.7
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCC----C-----CCCC
Q 022678 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTG----N-----QSVG 82 (293)
Q Consensus 12 ~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~----~-----~~~~ 82 (293)
-|-+.+.|||+|..+-... -+..+++.|+.-|.. + ..+.-+|+||+... .. -.|...... + +...
T Consensus 951 ~PP~YvFLIDVS~~AVkSG--Ll~tacesIK~sLDs-L-~dpRTRVGIITFDS-sL-HFYNLks~l~~~~~~~~~~~~l~ 1024 (1560)
T PTZ00395 951 LPPYFVFVVECSYNAIYNN--ITYTILEGIRYAVQN-V-KCPQTKIAIITFNS-SI-YFYHCKGGKGVSGEEGDGGGGSG 1024 (1560)
T ss_pred CCCEEEEEEECCHHHHhhC--hHHHHHHHHHHHHhc-C-CCCCcEEEEEEecC-cE-EEEecCcccccccccccccccCC
Confidence 4568899999999766552 244555555555544 2 24667999998764 33 346553320 0 0000
Q ss_pred CCCc---------------hhHH---HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc------
Q 022678 83 NGRM---------------PSLC---ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS------ 138 (293)
Q Consensus 83 ~~~~---------------~~~~---~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~------ 138 (293)
.-+| ++++ .+-.+.|..+++.-.....+. ...++-|..||..|+..|...-..
T Consensus 1025 qPQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t---~~~esCLGSALqAA~~aLk~~GGGGKIiVF 1101 (1560)
T PTZ00395 1025 NHQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTM---QSYGSCGNSALKIAMDMLKERNGLGSICMF 1101 (1560)
T ss_pred CceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhcc---CCCcccHHHHHHHHHHHHHhcCCCceEEEE
Confidence 0000 1110 111222222222211110000 123567788888887777655211
Q ss_pred --CCCC-----CCCC------CCCC-CchhHHHHHHHHHHHHcCCeeEEEEEcCCc--C--hHHHHHHHhhcCCeeeeeC
Q 022678 139 --GLLH-----PQPR------GSPD-GPEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--N--SAFLQQASYITGGVHHKPQ 200 (293)
Q Consensus 139 --~~~~-----~~sR------~S~D-~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~--e--~~iLqQa~~~T~G~Y~~~~ 200 (293)
..|+ ++.| .... +... -+-+....+-+.+|.||++..+.. + ..-|..++..|||.-+...
T Consensus 1102 ~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~--FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqlyyYP 1179 (1560)
T PTZ00395 1102 YTTTPNCGIGAIKELKKDLQENFLEVKQKI--FYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKILFVE 1179 (1560)
T ss_pred EcCCCCCCCCcccccccccccccccccchH--HHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEEEeC
Confidence 1121 2222 0111 1111 233578888999999999998532 2 3459999999999544333
Q ss_pred ------CcchHHHHHHHhcC
Q 022678 201 ------QLDGLFQYLLTIFG 214 (293)
Q Consensus 201 ------~~~~l~~~L~~~~l 214 (293)
|...|.+-|...+.
T Consensus 1180 nFna~rD~~KL~~DL~r~LT 1199 (1560)
T PTZ00395 1180 NFLWQKDYKEIYMNIMDTLT 1199 (1560)
T ss_pred CCcccccHHHHHHHHHHHhh
Confidence 23345555555554
No 92
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=67.81 E-value=2.3 Score=29.70 Aligned_cols=13 Identities=31% Similarity=0.580 Sum_probs=6.2
Q ss_pred cceeEcCCCCeee
Q 022678 245 DMGYICSVCLSIY 257 (293)
Q Consensus 245 ~~GyvCp~Clsi~ 257 (293)
+-.-|||.|.+.|
T Consensus 19 dDiVvCp~Cgapy 31 (54)
T PF14446_consen 19 DDIVVCPECGAPY 31 (54)
T ss_pred CCEEECCCCCCcc
Confidence 3344455555544
No 93
>PRK00420 hypothetical protein; Validated
Probab=66.55 E-value=2.9 Score=33.58 Aligned_cols=29 Identities=21% Similarity=0.297 Sum_probs=21.6
Q ss_pred eeEcCCCCeeecCC---CCCCCcccccccccc
Q 022678 247 GYICSVCLSIYCKH---LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 247 GyvCp~Clsi~C~~---p~~C~~C~~~f~~~~ 275 (293)
+-.||+|++.+=.+ ...||.||..+.-..
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v~~ 54 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVYIVKS 54 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCeeeecc
Confidence 46799999877653 368999999776443
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=66.09 E-value=2.7 Score=34.72 Aligned_cols=26 Identities=23% Similarity=0.851 Sum_probs=21.0
Q ss_pred cCCCCe---eecCCCCCCCcccccccccc
Q 022678 250 CSVCLS---IYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 250 Cp~Cls---i~C~~p~~C~~C~~~f~~~~ 275 (293)
|-.|-+ .+|..-|.||+|++.|+++-
T Consensus 107 Cn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 107 CNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred HHHHHHHHHHHcccCCCCCcccccccccc
Confidence 444433 68899999999999999876
No 95
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. 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, 0005634 nucleus
Probab=64.60 E-value=4.4 Score=28.58 Aligned_cols=42 Identities=24% Similarity=0.573 Sum_probs=31.8
Q ss_pred ceeeeeccCccc---ceeEcCCCCeeecCC--C-CCCCcccccccccc
Q 022678 234 RASCFCHKNTID---MGYICSVCLSIYCKH--L-KKCSTCGSVFGQAQ 275 (293)
Q Consensus 234 ~a~C~CH~~~~~---~GyvCp~Clsi~C~~--p-~~C~~C~~~f~~~~ 275 (293)
|-.|+|....=. ..=-|-.|+-|+|+. | ..|+.||+.+.+..
T Consensus 2 r~~C~C~a~~H~L~~~~~NCl~CGkIiC~~Eg~~~pC~fCg~~l~~~~ 49 (57)
T PF06221_consen 2 RRKCNCQARRHPLFPYAPNCLNCGKIICEQEGPLGPCPFCGTPLLSSE 49 (57)
T ss_pred CcccccccccCCCccccccccccChhhcccccCcCcCCCCCCcccCHH
Confidence 457889865543 377799999999975 3 68999998777654
No 96
>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=64.32 E-value=6.5 Score=25.66 Aligned_cols=23 Identities=30% Similarity=0.680 Sum_probs=18.9
Q ss_pred eeEcCCCCeeecC-------CCCCCCcccc
Q 022678 247 GYICSVCLSIYCK-------HLKKCSTCGS 269 (293)
Q Consensus 247 GyvCp~Clsi~C~-------~p~~C~~C~~ 269 (293)
-|.|+.|...|-. .+..||.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 4899999977763 4579999998
No 97
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=63.98 E-value=4.5 Score=27.88 Aligned_cols=24 Identities=29% Similarity=0.873 Sum_probs=12.1
Q ss_pred cceeEcCCCCeeecC--------CCCCCCccc
Q 022678 245 DMGYICSVCLSIYCK--------HLKKCSTCG 268 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~--------~p~~C~~C~ 268 (293)
...|.||+|...||- .--.||-|.
T Consensus 19 ~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 19 SSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp -EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 457999999999992 334688775
No 98
>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=63.85 E-value=5.5 Score=24.72 Aligned_cols=25 Identities=28% Similarity=0.588 Sum_probs=17.9
Q ss_pred eEcCCCCeeecC---CCCCCCccccccc
Q 022678 248 YICSVCLSIYCK---HLKKCSTCGSVFG 272 (293)
Q Consensus 248 yvCp~Clsi~C~---~p~~C~~C~~~f~ 272 (293)
|+|..|.+.+=- -+..|+-||-+.-
T Consensus 1 Y~C~~Cg~~~~~~~~~~irC~~CG~RIl 28 (32)
T PF03604_consen 1 YICGECGAEVELKPGDPIRCPECGHRIL 28 (32)
T ss_dssp EBESSSSSSE-BSTSSTSSBSSSS-SEE
T ss_pred CCCCcCCCeeEcCCCCcEECCcCCCeEE
Confidence 889999988763 2469999997653
No 99
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=62.67 E-value=3.4 Score=38.91 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.8
Q ss_pred eecc-CcccceeEcCCCCeeecCCCC--CCCc-cccccc
Q 022678 238 FCHK-NTIDMGYICSVCLSIYCKHLK--KCST-CGSVFG 272 (293)
Q Consensus 238 ~CH~-~~~~~GyvCp~Clsi~C~~p~--~C~~-C~~~f~ 272 (293)
+||- .+...-|.||+|...||.++- .=.+ |--.|-
T Consensus 9 ~C~ic~vq~~~YtCPRCn~~YCsl~CYr~h~~~CsE~Fy 47 (383)
T KOG4317|consen 9 ACGICGVQKREYTCPRCNLLYCSLKCYRNHKHSCSEKFY 47 (383)
T ss_pred eccccccccccccCCCCCccceeeeeecCCCccchHHHH
Confidence 4552 333445999999999999861 1122 766664
No 100
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=62.06 E-value=4.8 Score=25.61 Aligned_cols=10 Identities=20% Similarity=0.700 Sum_probs=5.3
Q ss_pred EcCCCCeeec
Q 022678 249 ICSVCLSIYC 258 (293)
Q Consensus 249 vCp~Clsi~C 258 (293)
.||.|.+.|=
T Consensus 4 ~CP~C~~~f~ 13 (37)
T PF13719_consen 4 TCPNCQTRFR 13 (37)
T ss_pred ECCCCCceEE
Confidence 4555555554
No 101
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=61.37 E-value=2.9 Score=40.96 Aligned_cols=30 Identities=27% Similarity=0.722 Sum_probs=24.2
Q ss_pred ceeEcCCCCeeecCC-----------CCCCCcccccccccc
Q 022678 246 MGYICSVCLSIYCKH-----------LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~-----------p~~C~~C~~~f~~~~ 275 (293)
-||+||.|++.|-.+ .=.|..|+..++---
T Consensus 127 ~~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelveDe 167 (436)
T KOG2593|consen 127 AGYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVEDE 167 (436)
T ss_pred ccccCCccccchhhhHHHHhhcccCceEEEecCCCchhccc
Confidence 489999999998853 237999999998544
No 102
>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=61.01 E-value=5 Score=27.12 Aligned_cols=23 Identities=30% Similarity=0.792 Sum_probs=18.3
Q ss_pred eeEcCCCCeeecCC-------CCCCCcccc
Q 022678 247 GYICSVCLSIYCKH-------LKKCSTCGS 269 (293)
Q Consensus 247 GyvCp~Clsi~C~~-------p~~C~~C~~ 269 (293)
-|.|+.|...|=.+ ...||.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 58999999966643 357999998
No 103
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=60.53 E-value=6.8 Score=32.59 Aligned_cols=27 Identities=30% Similarity=0.619 Sum_probs=23.8
Q ss_pred cceeEcCCCCeeecCCCCCCCcccccc
Q 022678 245 DMGYICSVCLSIYCKHLKKCSTCGSVF 271 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~~p~~C~~C~~~f 271 (293)
-.|=-|+.|+++|.-....|+.|+..-
T Consensus 27 l~g~kC~~CG~v~~PPr~~Cp~C~~~~ 53 (140)
T COG1545 27 LLGTKCKKCGRVYFPPRAYCPKCGSET 53 (140)
T ss_pred EEEEEcCCCCeEEcCCcccCCCCCCCC
Confidence 357789999999999999999999873
No 104
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=60.17 E-value=4.9 Score=37.79 Aligned_cols=30 Identities=17% Similarity=0.229 Sum_probs=24.5
Q ss_pred ceeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 246 MGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
-.|+|+.|+.+.=+....||.||+-=+..|
T Consensus 353 p~~~c~~cg~~~~~~~~~c~~c~~~~~~~~ 382 (389)
T PRK11788 353 PRYRCRNCGFTARTLYWHCPSCKAWETIKP 382 (389)
T ss_pred CCEECCCCCCCCccceeECcCCCCccCcCC
Confidence 469999999999999999999997544444
No 105
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=59.09 E-value=8.6 Score=27.03 Aligned_cols=26 Identities=19% Similarity=0.423 Sum_probs=21.2
Q ss_pred eEcCCCCeeecCCCCCCCcccccccccc
Q 022678 248 YICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 248 yvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
-.|+.|....= ...|+.||....++-
T Consensus 6 r~C~~CgvYTL--k~~CP~CG~~t~~~~ 31 (56)
T PRK13130 6 RKCPKCGVYTL--KEICPVCGGKTKNPH 31 (56)
T ss_pred eECCCCCCEEc--cccCcCCCCCCCCCC
Confidence 47999988765 788999999887664
No 106
>PHA02768 hypothetical protein; Provisional
Probab=58.95 E-value=5.9 Score=27.74 Aligned_cols=28 Identities=36% Similarity=0.617 Sum_probs=22.3
Q ss_pred cceeEcCCCCeeecC------------CCCCCCccccccc
Q 022678 245 DMGYICSVCLSIYCK------------HLKKCSTCGSVFG 272 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~------------~p~~C~~C~~~f~ 272 (293)
-.||.|+.|.-.|-. -|-.|..|+-.|.
T Consensus 3 ~~~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k~f~ 42 (55)
T PHA02768 3 LLGYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKRISL 42 (55)
T ss_pred ccccCcchhCCeeccHHHHHHHHHhcCCcccCCcccceec
Confidence 469999999998874 2558999988776
No 107
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=58.74 E-value=5.5 Score=28.29 Aligned_cols=27 Identities=19% Similarity=0.559 Sum_probs=21.8
Q ss_pred EcCCCCeeec-----CCCCCCCcccccccccc
Q 022678 249 ICSVCLSIYC-----KHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C-----~~p~~C~~C~~~f~~~~ 275 (293)
-||.|..+.- .....|..||+.|..+.
T Consensus 13 kCp~C~n~q~vFsha~t~V~C~~Cg~~L~~Pt 44 (59)
T PRK00415 13 KCPDCGNEQVVFSHASTVVRCLVCGKTLAEPT 44 (59)
T ss_pred ECCCCCCeEEEEecCCcEEECcccCCCcccCC
Confidence 4999998773 45689999999998766
No 108
>PRK05978 hypothetical protein; Provisional
Probab=55.25 E-value=7.8 Score=32.71 Aligned_cols=27 Identities=26% Similarity=0.754 Sum_probs=21.3
Q ss_pred EcCCCCe-----eecCCCCCCCcccccccccc
Q 022678 249 ICSVCLS-----IYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Cls-----i~C~~p~~C~~C~~~f~~~~ 275 (293)
-||+|.. -|=+....|+.||+.|...+
T Consensus 35 rCP~CG~G~LF~g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cCCCCCCCcccccccccCCCccccCCccccCC
Confidence 4888875 34467899999999998765
No 109
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=55.07 E-value=7.6 Score=24.40 Aligned_cols=25 Identities=28% Similarity=0.572 Sum_probs=16.2
Q ss_pred cceeEcCCCCeeecCCCCCCCcccc
Q 022678 245 DMGYICSVCLSIYCKHLKKCSTCGS 269 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~~p~~C~~C~~ 269 (293)
-++..|..|..++=.....|+.|+.
T Consensus 9 l~~~rC~~Cg~~~~pPr~~Cp~C~s 33 (37)
T PF12172_consen 9 LLGQRCRDCGRVQFPPRPVCPHCGS 33 (37)
T ss_dssp EEEEE-TTT--EEES--SEETTTT-
T ss_pred EEEEEcCCCCCEecCCCcCCCCcCc
Confidence 3578899999998877789999985
No 110
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=54.99 E-value=11 Score=25.12 Aligned_cols=31 Identities=23% Similarity=0.427 Sum_probs=24.2
Q ss_pred eeEcCCCCeeecCC---CCCCCcccccccccccC
Q 022678 247 GYICSVCLSIYCKH---LKKCSTCGSVFGQAQTQ 277 (293)
Q Consensus 247 GyvCp~Clsi~C~~---p~~C~~C~~~f~~~~~~ 277 (293)
-|+|..|+..+=.- +..|+-||.+..-..+.
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rIlyK~R~ 35 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRILYKKRT 35 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceEEEEeCC
Confidence 49999999977643 57999999988766543
No 111
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=54.82 E-value=7.5 Score=29.20 Aligned_cols=26 Identities=19% Similarity=0.313 Sum_probs=18.2
Q ss_pred eEcCCCCeeecCCC-C----CCCcccccccc
Q 022678 248 YICSVCLSIYCKHL-K----KCSTCGSVFGQ 273 (293)
Q Consensus 248 yvCp~Clsi~C~~p-~----~C~~C~~~f~~ 273 (293)
|.||.|....=+-. . +|++|+=.-..
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~WEdD~ 32 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCFWEDDG 32 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCCcccCC
Confidence 67999988776433 3 89999765543
No 112
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=53.74 E-value=11 Score=26.32 Aligned_cols=28 Identities=14% Similarity=0.297 Sum_probs=20.6
Q ss_pred eEcCCCCee----------ecCCCCCCCcccccccccc
Q 022678 248 YICSVCLSI----------YCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 248 yvCp~Clsi----------~C~~p~~C~~C~~~f~~~~ 275 (293)
..||+|+.+ .=.+|-.||.|+.......
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~EtlI~v 42 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCKQETLIDV 42 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCCceEEEEe
Confidence 469999953 3458999999987655444
No 113
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=52.48 E-value=7.2 Score=27.99 Aligned_cols=24 Identities=25% Similarity=0.668 Sum_probs=18.5
Q ss_pred EcCCCCeeecCCCCCCCccccc-cc
Q 022678 249 ICSVCLSIYCKHLKKCSTCGSV-FG 272 (293)
Q Consensus 249 vCp~Clsi~C~~p~~C~~C~~~-f~ 272 (293)
.|-.|+.+.=+-..+||+||.. |+
T Consensus 6 AC~~Ck~l~~~d~e~CP~Cgs~~~t 30 (64)
T COG2093 6 ACKNCKRLTPEDTEICPVCGSTDLT 30 (64)
T ss_pred HHhhccccCCCCCccCCCCCCcccc
Confidence 4777888777777789999987 44
No 114
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=51.87 E-value=6.4 Score=30.95 Aligned_cols=32 Identities=22% Similarity=0.542 Sum_probs=22.7
Q ss_pred ccceeEcCCCCeee---cCC-------CCCCCcccccccccc
Q 022678 244 IDMGYICSVCLSIY---CKH-------LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 244 ~~~GyvCp~Clsi~---C~~-------p~~C~~C~~~f~~~~ 275 (293)
.+.-|.||+|...- |.+ ...|.+||+.|---.
T Consensus 19 L~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev 60 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFECEV 60 (104)
T ss_pred CCceEecCccCCeeeeEEEEEecCceeEEEcccCcceEEEec
Confidence 34569999998743 322 368999999987543
No 115
>PRK11595 DNA utilization protein GntX; Provisional
Probab=51.10 E-value=5.8 Score=35.45 Aligned_cols=40 Identities=23% Similarity=0.428 Sum_probs=24.8
Q ss_pred CceeeeeccCcccc--eeEcCCCCeeecCCCCCCCccccccc
Q 022678 233 FRASCFCHKNTIDM--GYICSVCLSIYCKHLKKCSTCGSVFG 272 (293)
Q Consensus 233 ~~a~C~CH~~~~~~--GyvCp~Clsi~C~~p~~C~~C~~~f~ 272 (293)
|+..|...++.+.. .++|+.|...+=.+.+.|+.||..+.
T Consensus 4 ~P~~C~~C~~~~~~~~~~lC~~C~~~l~~~~~~C~~Cg~~~~ 45 (227)
T PRK11595 4 VPGLCWLCRMPLALSHWGICSVCSRALRTLKTCCPQCGLPAT 45 (227)
T ss_pred CCCcCccCCCccCCCCCcccHHHHhhCCcccCcCccCCCcCC
Confidence 44556655554422 25888887765444567888887653
No 116
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=49.92 E-value=11 Score=24.31 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=16.2
Q ss_pred eccCcccceeEcCCCCeeecCC
Q 022678 239 CHKNTIDMGYICSVCLSIYCKH 260 (293)
Q Consensus 239 CH~~~~~~GyvCp~Clsi~C~~ 260 (293)
|+++..-.+|.|..|.-+||..
T Consensus 4 C~~~~~l~~f~C~~C~~~FC~~ 25 (39)
T smart00154 4 CRKKVGLTGFKCRHCGNLFCGE 25 (39)
T ss_pred cCCcccccCeECCccCCccccc
Confidence 4444444499999999999963
No 117
>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=49.42 E-value=4.4 Score=30.60 Aligned_cols=32 Identities=25% Similarity=0.591 Sum_probs=16.6
Q ss_pred ccceeEcCCCC---eeecCC-------CCCCCcccccccccc
Q 022678 244 IDMGYICSVCL---SIYCKH-------LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 244 ~~~GyvCp~Cl---si~C~~-------p~~C~~C~~~f~~~~ 275 (293)
.+.-|.||.|. |+-|++ ...|.+||..|....
T Consensus 19 l~~~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~~~i 60 (81)
T PF05129_consen 19 LPKVFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQTKI 60 (81)
T ss_dssp -SS----TTT--SS-EEEEEETTTTEEEEEESSS--EEEEE-
T ss_pred CCceEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEEEcc
Confidence 34569999999 466654 258999999997654
No 118
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=48.18 E-value=12 Score=20.48 Aligned_cols=10 Identities=40% Similarity=1.202 Sum_probs=4.9
Q ss_pred CCcccccccc
Q 022678 264 CSTCGSVFGQ 273 (293)
Q Consensus 264 C~~C~~~f~~ 273 (293)
|+.|+..|..
T Consensus 3 C~~C~~~f~~ 12 (23)
T PF00096_consen 3 CPICGKSFSS 12 (23)
T ss_dssp ETTTTEEESS
T ss_pred CCCCCCccCC
Confidence 4455555543
No 119
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=47.15 E-value=9.8 Score=21.77 Aligned_cols=24 Identities=25% Similarity=0.677 Sum_probs=17.9
Q ss_pred eeEcCCCCeeecCCCCCCCccccc
Q 022678 247 GYICSVCLSIYCKHLKKCSTCGSV 270 (293)
Q Consensus 247 GyvCp~Clsi~C~~p~~C~~C~~~ 270 (293)
.+.|+.|...-=.-...|..|++.
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 367888876666666789998874
No 120
>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=47.10 E-value=12 Score=20.11 Aligned_cols=10 Identities=20% Similarity=0.956 Sum_probs=3.6
Q ss_pred eEcCCCCeee
Q 022678 248 YICSVCLSIY 257 (293)
Q Consensus 248 yvCp~Clsi~ 257 (293)
|.|+.|...|
T Consensus 1 ~~C~~C~~~~ 10 (24)
T PF13894_consen 1 FQCPICGKSF 10 (24)
T ss_dssp EE-SSTS-EE
T ss_pred CCCcCCCCcC
Confidence 4455544433
No 121
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=46.87 E-value=14 Score=25.92 Aligned_cols=23 Identities=30% Similarity=0.667 Sum_probs=15.8
Q ss_pred cCCCCeeecCCC-CCCCccccccc
Q 022678 250 CSVCLSIYCKHL-KKCSTCGSVFG 272 (293)
Q Consensus 250 Cp~Clsi~C~~p-~~C~~C~~~f~ 272 (293)
||+|....|... -.||-||...-
T Consensus 2 Cpv~~~~~~~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 2 CPVCKKDLPAHVNFECPDCGIPTH 25 (55)
T ss_pred CCCCccccccccCCcCCCCCCcCc
Confidence 777777776543 47888887654
No 122
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=46.64 E-value=82 Score=30.70 Aligned_cols=68 Identities=15% Similarity=0.164 Sum_probs=51.7
Q ss_pred CCCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCC
Q 022678 8 LYSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTG 77 (293)
Q Consensus 8 ~~~~~~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~ 77 (293)
.+++...-++|++|.++.|+.. ....++..+.....+ +|......+++++.....+.-.++.|..+..
T Consensus 219 fe~er~~~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~l--a~~~l~~gd~vg~~~~~~~~~~~~~p~~G~~ 288 (416)
T COG1721 219 FEEERGRTVVLVLDASRSMLFGSGVASKFEEAVRAAASL--AYAALKNGDRVGLLIFGGGGPKWIPPSRGRR 288 (416)
T ss_pred hhhhcCceEEEEEeCCccccCCCCCccHHHHHHHHHHHH--HHHHHhCCCeeEEEEECCCcceeeCCCcchH
Confidence 4556677899999999999965 445788888866555 4555566778999988877778888887754
No 123
>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=46.42 E-value=20 Score=21.35 Aligned_cols=25 Identities=24% Similarity=0.586 Sum_probs=18.3
Q ss_pred ceeEcCCCCeeecCCCCCCCccccc
Q 022678 246 MGYICSVCLSIYCKHLKKCSTCGSV 270 (293)
Q Consensus 246 ~GyvCp~Clsi~C~~p~~C~~C~~~ 270 (293)
.-+.|+.|.-.-=.-...|..|++.
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~~ 27 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGAP 27 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--B
T ss_pred cCccCCCCcCCchHHhhhhhCcCCC
Confidence 3588999998888888899999863
No 124
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=46.03 E-value=7.4 Score=31.33 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=13.8
Q ss_pred eccCcccceeEcCCCCeeecC
Q 022678 239 CHKNTIDMGYICSVCLSIYCK 259 (293)
Q Consensus 239 CH~~~~~~GyvCp~Clsi~C~ 259 (293)
|+++++-..+.|+.|.+.+--
T Consensus 4 Cg~~l~vt~l~C~~C~t~i~G 24 (113)
T PF09862_consen 4 CGGELVVTRLKCPSCGTEIEG 24 (113)
T ss_pred CCCceEEEEEEcCCCCCEEEe
Confidence 666666667777777666553
No 125
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=45.38 E-value=12 Score=25.53 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=16.2
Q ss_pred eeEcCCCCeeecC----------------CCCCCCccccccc
Q 022678 247 GYICSVCLSIYCK----------------HLKKCSTCGSVFG 272 (293)
Q Consensus 247 GyvCp~Clsi~C~----------------~p~~C~~C~~~f~ 272 (293)
.|.||.|.. .-+ -...||+|...+.
T Consensus 2 ~f~CP~C~~-~~~~~~L~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGK-GFSESSLVEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCC-ccCHHHHHHHHHhHCcCCCCCccCCCchhhhh
Confidence 377888887 331 2367888887544
No 126
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.73 E-value=4.4e+02 Score=28.49 Aligned_cols=176 Identities=24% Similarity=0.241 Sum_probs=95.8
Q ss_pred CCCCCCCCCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHc---CCCCCCEEEEEEecCceEEEecCCCCCC
Q 022678 2 ASAPSKLYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILT---LNQLNQVVVIATGYNSCDYVYDSSSTGN 78 (293)
Q Consensus 2 ~~~~~~~~~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~---~n~~N~l~VIa~~~~~s~~lyp~~~~~~ 78 (293)
|..+-++.+-.+-.-+.++|+|....+. + +|+.+..=|.+.|+ -.+..++++|+.. +..+ +|...+..+
T Consensus 283 AP~eYmlR~P~Pavy~FliDVS~~a~ks---G---~L~~~~~slL~~LD~lpgd~Rt~igfi~fD-s~ih-fy~~~~~~~ 354 (887)
T KOG1985|consen 283 APSEYMLRPPQPAVYVFLIDVSISAIKS---G---YLETVARSLLENLDALPGDPRTRIGFITFD-STIH-FYSVQGDLN 354 (887)
T ss_pred cCcccccCCCCCceEEEEEEeehHhhhh---h---HHHHHHHHHHHhhhcCCCCCcceEEEEEee-ceee-EEecCCCcC
Confidence 4456677777888899999998865544 1 33333333444444 4578899999876 3344 354443332
Q ss_pred CC-----CCCCC----ch-hH----------HHHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc
Q 022678 79 QS-----VGNGR----MP-SL----------CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS 138 (293)
Q Consensus 79 ~~-----~~~~~----~~-~~----------~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~ 138 (293)
++ ++..+ +. ++ ++..+++|.++...+. ...+.|..||..|-.+|+.....
T Consensus 355 qp~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~~----------~t~~alGpALkaaf~li~~~GGr 424 (887)
T KOG1985|consen 355 QPQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQDTR----------STGSALGPALKAAFNLIGSTGGR 424 (887)
T ss_pred CCceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhhcc----------CcccccCHHHHHHHHHHhhcCCe
Confidence 10 01000 00 11 1123444444443321 12456777887777777664310
Q ss_pred -----------CCCCCCCC-----CCCCCchhH----HHHH-HHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCe
Q 022678 139 -----------GLLHPQPR-----GSPDGPEQY----VAIM-NAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGV 195 (293)
Q Consensus 139 -----------~~~~~~sR-----~S~D~~~qY----i~lm-N~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~ 195 (293)
+....++| .+.|...|. .++- +..-.+-|..|.||.+.+.+. |..-|.-++.-|||.
T Consensus 425 i~vf~s~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~ 504 (887)
T KOG1985|consen 425 ISVFQSTLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQ 504 (887)
T ss_pred EEEEeccCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCce
Confidence 11223334 111111110 0111 345567899999999999533 788899999999995
No 127
>PHA00626 hypothetical protein
Probab=44.65 E-value=14 Score=25.96 Aligned_cols=27 Identities=30% Similarity=0.422 Sum_probs=18.7
Q ss_pred EcCCCCe--ee-cCC------CCCCCcccccccccc
Q 022678 249 ICSVCLS--IY-CKH------LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Cls--i~-C~~------p~~C~~C~~~f~~~~ 275 (293)
.||.|.+ |+ |.. .=.|+.||-.|+.-.
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCCCeechhh
Confidence 4899998 22 222 247999999998655
No 128
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=44.62 E-value=17 Score=30.06 Aligned_cols=14 Identities=14% Similarity=0.249 Sum_probs=10.5
Q ss_pred ceeEcCCCCeeecC
Q 022678 246 MGYICSVCLSIYCK 259 (293)
Q Consensus 246 ~GyvCp~Clsi~C~ 259 (293)
.-|.|+.|+..+-.
T Consensus 69 ~~~~C~~CG~~~~~ 82 (135)
T PRK03824 69 AVLKCRNCGNEWSL 82 (135)
T ss_pred eEEECCCCCCEEec
Confidence 45889999977753
No 129
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=43.99 E-value=13 Score=24.24 Aligned_cols=20 Identities=25% Similarity=0.846 Sum_probs=11.7
Q ss_pred eccCcccceeEcCCCCeeecC
Q 022678 239 CHKNTIDMGYICSVCLSIYCK 259 (293)
Q Consensus 239 CH~~~~~~GyvCp~Clsi~C~ 259 (293)
|..+.. ++|.|+.|.-.||.
T Consensus 6 C~~~~~-~~~~C~~C~~~FC~ 25 (43)
T PF01428_consen 6 CKKKDF-LPFKCKHCGKSFCL 25 (43)
T ss_dssp T--BCT-SHEE-TTTS-EE-T
T ss_pred CcCccC-CCeECCCCCcccCc
Confidence 444444 89999999999995
No 130
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=43.20 E-value=10 Score=27.53 Aligned_cols=27 Identities=19% Similarity=0.517 Sum_probs=21.8
Q ss_pred EcCCCCeeecCC-----CCCCCcccccccccc
Q 022678 249 ICSVCLSIYCKH-----LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C~~-----p~~C~~C~~~f~~~~ 275 (293)
-||-|.-..+-+ ...|.+||.++..+.
T Consensus 21 kCpdC~N~q~vFshast~V~C~~CG~~l~~PT 52 (67)
T COG2051 21 KCPDCGNEQVVFSHASTVVTCLICGTTLAEPT 52 (67)
T ss_pred ECCCCCCEEEEeccCceEEEecccccEEEecC
Confidence 399999877744 368999999999776
No 131
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=42.95 E-value=19 Score=25.57 Aligned_cols=24 Identities=25% Similarity=0.883 Sum_probs=16.2
Q ss_pred ceeEcCCCCee---ecC------CCCCCCcccc
Q 022678 246 MGYICSVCLSI---YCK------HLKKCSTCGS 269 (293)
Q Consensus 246 ~GyvCp~Clsi---~C~------~p~~C~~C~~ 269 (293)
+-|.||.|... -|+ .+-.||.||.
T Consensus 24 ~~F~CPnCG~~~I~RC~~CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGF 56 (59)
T ss_pred CEeeCCCCCCeeEeechhHHhcCCceECCCCCC
Confidence 45889999875 232 3457888874
No 132
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=42.43 E-value=9.6 Score=39.80 Aligned_cols=25 Identities=28% Similarity=0.954 Sum_probs=17.6
Q ss_pred CCCCeeecC---------CCCCCCcccccccccc
Q 022678 251 SVCLSIYCK---------HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 251 p~Clsi~C~---------~p~~C~~C~~~f~~~~ 275 (293)
+-|+=+||+ .-..||+|++.|...-
T Consensus 659 ~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 659 TKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 345557775 2368999999997543
No 133
>PF12773 DZR: Double zinc ribbon
Probab=41.73 E-value=15 Score=24.49 Aligned_cols=32 Identities=25% Similarity=0.523 Sum_probs=16.3
Q ss_pred eccCcccceeEcCCCCeeec--C-CCCCCCccccc
Q 022678 239 CHKNTIDMGYICSVCLSIYC--K-HLKKCSTCGSV 270 (293)
Q Consensus 239 CH~~~~~~GyvCp~Clsi~C--~-~p~~C~~C~~~ 270 (293)
|+..+-+..=+|+.|.+.+= . ....|+.||..
T Consensus 4 Cg~~~~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 4 CGTPNPDDAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred cCCcCCccccCChhhcCChhhccCCCCCCcCCcCC
Confidence 33344444445666666555 1 12456666665
No 134
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=41.49 E-value=12 Score=28.61 Aligned_cols=32 Identities=25% Similarity=0.591 Sum_probs=23.8
Q ss_pred eeEcCCCCeeecCCC----CCCCcccccccccccCC
Q 022678 247 GYICSVCLSIYCKHL----KKCSTCGSVFGQAQTQS 278 (293)
Q Consensus 247 GyvCp~Clsi~C~~p----~~C~~C~~~f~~~~~~~ 278 (293)
-|+||.|...-=+-- -.|..||..|.-..-+|
T Consensus 35 ~~~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGgay~P 70 (89)
T COG1997 35 KHVCPFCGRTTVKRIATGIWKCRKCGAKFAGGAYTP 70 (89)
T ss_pred CCcCCCCCCcceeeeccCeEEcCCCCCeeccccccc
Confidence 599999998733321 37999999998776555
No 135
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.81 E-value=12 Score=29.94 Aligned_cols=29 Identities=7% Similarity=-0.057 Sum_probs=24.4
Q ss_pred eeEcCCCCeeecCC---CCCCCcccccccccc
Q 022678 247 GYICSVCLSIYCKH---LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 247 GyvCp~Clsi~C~~---p~~C~~C~~~f~~~~ 275 (293)
--+||-|.++|=.+ |.+||-||..|..+-
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~P~s~ 40 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSYPRSY 40 (129)
T ss_pred cccCccccchhhccCCCccccCcccccchHHH
Confidence 45899999999976 689999999986554
No 136
>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=40.12 E-value=20 Score=20.83 Aligned_cols=10 Identities=20% Similarity=0.634 Sum_probs=7.7
Q ss_pred cceeEcCCCC
Q 022678 245 DMGYICSVCL 254 (293)
Q Consensus 245 ~~GyvCp~Cl 254 (293)
.+-|.||.|+
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 4568999886
No 137
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=39.60 E-value=14 Score=42.03 Aligned_cols=28 Identities=29% Similarity=0.845 Sum_probs=21.2
Q ss_pred ccceeEcCCCCeeecCC------------C-CCCCcccccccc
Q 022678 244 IDMGYICSVCLSIYCKH------------L-KKCSTCGSVFGQ 273 (293)
Q Consensus 244 ~~~GyvCp~Clsi~C~~------------p-~~C~~C~~~f~~ 273 (293)
..-.|+||.|. |.++ | ..||.||+.+..
T Consensus 905 L~phy~C~~C~--~~ef~~~~~~~sG~Dlpdk~Cp~Cg~~~~k 945 (1437)
T PRK00448 905 LPPHYVCPNCK--YSEFFTDGSVGSGFDLPDKDCPKCGTKLKK 945 (1437)
T ss_pred CCccccCcccc--cccccccccccccccCccccCccccccccc
Confidence 34589999995 6654 3 579999998873
No 138
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=39.23 E-value=13 Score=27.34 Aligned_cols=33 Identities=24% Similarity=0.600 Sum_probs=18.4
Q ss_pred eccCc--ccceeEcCCCCeeecCCCCCCCccccccc
Q 022678 239 CHKNT--IDMGYICSVCLSIYCKHLKKCSTCGSVFG 272 (293)
Q Consensus 239 CH~~~--~~~GyvCp~Clsi~C~~p~~C~~C~~~f~ 272 (293)
||..+ ....|.|..|..-|= .-+.||.|+..|-
T Consensus 7 C~~~L~~~~~~~~C~~C~~~~~-~~a~CPdC~~~Le 41 (70)
T PF07191_consen 7 CQQELEWQGGHYHCEACQKDYK-KEAFCPDCGQPLE 41 (70)
T ss_dssp S-SBEEEETTEEEETTT--EEE-EEEE-TTT-SB-E
T ss_pred CCCccEEeCCEEECccccccce-ecccCCCcccHHH
Confidence 55555 345799999999763 3456888887764
No 139
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=38.87 E-value=19 Score=39.86 Aligned_cols=28 Identities=25% Similarity=0.610 Sum_probs=20.0
Q ss_pred ceeEcCCCCeeec----------CCC-CCCCcccccccc
Q 022678 246 MGYICSVCLSIYC----------KHL-KKCSTCGSVFGQ 273 (293)
Q Consensus 246 ~GyvCp~Clsi~C----------~~p-~~C~~C~~~f~~ 273 (293)
-.|+||.|.---+ ++| ..||.||+.|..
T Consensus 913 PHY~Cp~Cky~Ef~~d~svgsGfDLpdK~CPkCg~pl~k 951 (1444)
T COG2176 913 PHYLCPECKYSEFIDDGSVGSGFDLPDKDCPKCGTPLKK 951 (1444)
T ss_pred ccccCCCCceeeeecCCCcCCCCCCCCCCCCcCCCcccc
Confidence 3799999863222 244 589999999763
No 140
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=38.64 E-value=74 Score=28.05 Aligned_cols=36 Identities=19% Similarity=0.492 Sum_probs=24.2
Q ss_pred eeeeeccCcccceeEcCCCCeeec----------CCCCCCCccccccc
Q 022678 235 ASCFCHKNTIDMGYICSVCLSIYC----------KHLKKCSTCGSVFG 272 (293)
Q Consensus 235 a~C~CH~~~~~~GyvCp~Clsi~C----------~~p~~C~~C~~~f~ 272 (293)
...-+|+.+-. ..|+.|...+- ...+.|+.||..+.
T Consensus 99 ~v~elHG~~~~--~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cg~~lr 144 (218)
T cd01407 99 KVIELHGSLFR--VRCTKCGKEYPRDELQADIDREEVPRCPKCGGLLR 144 (218)
T ss_pred CEEECcCCcCc--ceeCCCcCCCcHHHHhHhhccCCCCcCCCCCCccC
Confidence 45667877655 55888876653 23578999996543
No 141
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=38.58 E-value=22 Score=28.57 Aligned_cols=25 Identities=32% Similarity=0.967 Sum_probs=19.1
Q ss_pred cceeEcCCCCeeecC--------CCCCCCcccc
Q 022678 245 DMGYICSVCLSIYCK--------HLKKCSTCGS 269 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~--------~p~~C~~C~~ 269 (293)
..+|.|+.|...||. .--.||-|..
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 457999999999993 2346888863
No 142
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=37.64 E-value=15 Score=40.97 Aligned_cols=27 Identities=30% Similarity=0.832 Sum_probs=20.4
Q ss_pred cceeEcCCCCeeecCC------------C-CCCCcccccccc
Q 022678 245 DMGYICSVCLSIYCKH------------L-KKCSTCGSVFGQ 273 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~~------------p-~~C~~C~~~f~~ 273 (293)
.-.|+||.|. |.++ | ..||.||+.+..
T Consensus 681 ~phy~c~~c~--~~ef~~~~~~~sg~dlp~k~cp~c~~~~~~ 720 (1213)
T TIGR01405 681 PPHYLCPNCK--YSEFITDGSVGSGFDLPDKDCPKCGAPLKK 720 (1213)
T ss_pred cccccCcccc--cccccccccccccccCccccCccccccccc
Confidence 3489999995 5543 4 489999998774
No 143
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=37.41 E-value=18 Score=23.86 Aligned_cols=14 Identities=36% Similarity=0.752 Sum_probs=10.7
Q ss_pred CCC-CCCCccccccc
Q 022678 259 KHL-KKCSTCGSVFG 272 (293)
Q Consensus 259 ~~p-~~C~~C~~~f~ 272 (293)
.+| .+|++||..|.
T Consensus 5 ~lp~K~C~~C~rpf~ 19 (42)
T PF10013_consen 5 NLPSKICPVCGRPFT 19 (42)
T ss_pred cCCCCcCcccCCcch
Confidence 355 48999999886
No 144
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 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. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=36.25 E-value=4.5 Score=27.46 Aligned_cols=27 Identities=26% Similarity=0.795 Sum_probs=21.1
Q ss_pred eeEcCCCCeeecCCCCCCCcccccccc
Q 022678 247 GYICSVCLSIYCKHLKKCSTCGSVFGQ 273 (293)
Q Consensus 247 GyvCp~Clsi~C~~p~~C~~C~~~f~~ 273 (293)
.|.|=.|+++.=.....|++|+-.+..
T Consensus 21 HYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 21 HYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred hhHHHHHHHHHhccccCCCcccCcCcc
Confidence 499999999999999999999987753
No 145
>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=34.94 E-value=3.2e+02 Score=24.07 Aligned_cols=44 Identities=25% Similarity=0.184 Sum_probs=30.4
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEec
Q 022678 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGY 64 (293)
Q Consensus 11 ~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~ 64 (293)
..+.-++|++|+|-+|..- -..++.|+.+...+.+ ++.++....
T Consensus 55 ~~~~~lvvl~DvSGSM~~~--------s~~~l~~~~~l~~~~~--~~~~f~F~~ 98 (222)
T PF05762_consen 55 RKPRRLVVLCDVSGSMAGY--------SEFMLAFLYALQRQFR--RVRVFVFST 98 (222)
T ss_pred CCCccEEEEEeCCCChHHH--------HHHHHHHHHHHHHhCC--CEEEEEEee
Confidence 3445899999999988653 2335567777777766 666666553
No 146
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=34.55 E-value=5.3e+02 Score=27.02 Aligned_cols=29 Identities=17% Similarity=0.235 Sum_probs=22.6
Q ss_pred ChHHHHHHHhhcCCeeeeeCCcchHHHHH
Q 022678 181 NSAFLQQASYITGGVHHKPQQLDGLFQYL 209 (293)
Q Consensus 181 e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L 209 (293)
|....+..|+.|||.-+.+-.+..|-|.+
T Consensus 193 Dds~IermCevTGGRSysV~Spr~lnqci 221 (888)
T KOG3768|consen 193 DDSVIERMCEVTGGRSYSVVSPRQLNQCI 221 (888)
T ss_pred CchhhHHhhhhcCCceeeeeCHHHHHHHH
Confidence 66788999999999888887776555444
No 147
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=33.03 E-value=30 Score=33.51 Aligned_cols=31 Identities=35% Similarity=0.684 Sum_probs=22.8
Q ss_pred cce--eEcCCCCeeec---CCCCCCCcccccccccc
Q 022678 245 DMG--YICSVCLSIYC---KHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~G--yvCp~Clsi~C---~~p~~C~~C~~~f~~~~ 275 (293)
..| |.|+.|+-++= +....|+.||..+...-
T Consensus 236 ~~g~~~~c~~cg~~~~~~~~~~~~c~~Cg~~~~~~G 271 (380)
T COG1867 236 NLGYIYHCSRCGEIVGSFREVDEKCPHCGGKVHLAG 271 (380)
T ss_pred hcCcEEEcccccceecccccccccCCcccccceecc
Confidence 356 88999974444 34579999999887654
No 148
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=32.85 E-value=31 Score=34.52 Aligned_cols=27 Identities=30% Similarity=0.481 Sum_probs=21.3
Q ss_pred ccceeEcCCCCeeecCC-----------------C--CCCCccccc
Q 022678 244 IDMGYICSVCLSIYCKH-----------------L--KKCSTCGSV 270 (293)
Q Consensus 244 ~~~GyvCp~Clsi~C~~-----------------p--~~C~~C~~~ 270 (293)
....|+|.+|.-+|=+- | -.||+||..
T Consensus 422 ~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~ 467 (479)
T PRK05452 422 LGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLG 467 (479)
T ss_pred CCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCc
Confidence 34689999999999852 2 289999965
No 149
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=32.51 E-value=40 Score=35.25 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=16.3
Q ss_pred eeeeeccCcccceeEcCCCCee
Q 022678 235 ASCFCHKNTIDMGYICSVCLSI 256 (293)
Q Consensus 235 a~C~CH~~~~~~GyvCp~Clsi 256 (293)
..|.-|+.....++.||.|++-
T Consensus 627 ~~C~~CG~~~g~~~~CP~CG~~ 648 (656)
T PRK08270 627 SICPKHGYLSGEHEFCPKCGEE 648 (656)
T ss_pred cccCCCCCcCCCCCCCcCCcCc
Confidence 4677667666678899999864
No 150
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=32.41 E-value=15 Score=35.27 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=15.4
Q ss_pred ccceeEcCCCCeeecCCC
Q 022678 244 IDMGYICSVCLSIYCKHL 261 (293)
Q Consensus 244 ~~~GyvCp~Clsi~C~~p 261 (293)
...+|-||+|++.+|++-
T Consensus 26 nE~KYkCPRCl~rtCsLe 43 (390)
T KOG2858|consen 26 NEPKYKCPRCLARTCSLE 43 (390)
T ss_pred CcccccCcchhhhheecc
Confidence 467999999999999763
No 151
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=32.16 E-value=23 Score=25.56 Aligned_cols=23 Identities=22% Similarity=0.436 Sum_probs=15.6
Q ss_pred EcCCCCeeecCCCCCCCcccccccc
Q 022678 249 ICSVCLSIYCKHLKKCSTCGSVFGQ 273 (293)
Q Consensus 249 vCp~Clsi~C~~p~~C~~C~~~f~~ 273 (293)
.|-.|..+. -...||+||..-.+
T Consensus 7 AC~~C~~i~--~~~~Cp~Cgs~~~S 29 (64)
T PRK06393 7 ACKKCKRLT--PEKTCPVHGDEKTT 29 (64)
T ss_pred hHhhCCccc--CCCcCCCCCCCcCC
Confidence 466777776 34478899887543
No 152
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=31.90 E-value=26 Score=23.86 Aligned_cols=24 Identities=25% Similarity=0.559 Sum_probs=14.3
Q ss_pred eEcCCCCe-eecC--CCCCCCcccccc
Q 022678 248 YICSVCLS-IYCK--HLKKCSTCGSVF 271 (293)
Q Consensus 248 yvCp~Cls-i~C~--~p~~C~~C~~~f 271 (293)
=.||.|.+ +.=. -.-.|..||.++
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCCEE
Confidence 36888877 3222 234688887653
No 153
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=31.84 E-value=15 Score=35.06 Aligned_cols=42 Identities=14% Similarity=0.109 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHcCCeeEEEEEcC-CcChHHHHHHHhhcCCeeeeeCC
Q 022678 155 YVAIMNAIFSAQRSMVPIDSCYLG-AQNSAFLQQASYITGGVHHKPQQ 201 (293)
Q Consensus 155 Yi~lmN~ifaAqk~~I~Idv~~L~-~~e~~iLqQa~~~T~G~Y~~~~~ 201 (293)
|-+++.|.-.|. ||.+-|| ++|+-.--++.++-.=.|+.-.|
T Consensus 151 ~dSl~e~yg~a~-----iDfvELGLSADtdmAD~I~el~~~pFLtNSD 193 (403)
T COG1379 151 YDSLKECYGDAM-----IDFVELGLSADTDMADMIEELHRLPFLTNSD 193 (403)
T ss_pred hchHHHHhCccc-----hhHHHhccccCchHHHHHHHhccCCcccccc
Confidence 556666664443 8887766 67877777777776666664443
No 154
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=31.49 E-value=14 Score=25.54 Aligned_cols=16 Identities=31% Similarity=0.781 Sum_probs=7.1
Q ss_pred CCCCCCCccccccccc
Q 022678 259 KHLKKCSTCGSVFGQA 274 (293)
Q Consensus 259 ~~p~~C~~C~~~f~~~ 274 (293)
+.|..||+|+..+.++
T Consensus 22 ~~PatCP~C~a~~~~s 37 (54)
T PF09237_consen 22 EQPATCPICGAVIRQS 37 (54)
T ss_dssp S--EE-TTT--EESSH
T ss_pred CCCCCCCcchhhccch
Confidence 4566777777776644
No 155
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=31.48 E-value=6.9e+02 Score=26.90 Aligned_cols=181 Identities=16% Similarity=0.123 Sum_probs=94.2
Q ss_pred CCCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCC---CCCCC
Q 022678 8 LYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQ---SVGNG 84 (293)
Q Consensus 8 ~~~~~~s~LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~---~~~~~ 84 (293)
..++.|.+.|..||+|...... .-+..+.+.++.=+...-...+.-+++||... +..+++..+++.+++ .++..
T Consensus 271 ~~~p~P~~yvFlIDVS~~a~~~--g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD-~sl~ffk~s~d~~~~~~~vsdld 347 (861)
T COG5028 271 LRQPPPPVYVFLIDVSFEAIKN--GLVKAAIRAILENLDQIPNFDPRTKIAIICFD-SSLHFFKLSPDLDEQMLIVSDLD 347 (861)
T ss_pred eccCCCCEEEEEEEeehHhhhc--chHHHHHHHHHhhccCCCCCCCcceEEEEEEc-ceeeEEecCCCCccceeeecccc
Confidence 3445588899999998866554 23555556555544444466788999999876 567888888776320 00000
Q ss_pred ----Cc--hhHH---HHHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhh------c-----CCCCCC
Q 022678 85 ----RM--PSLC---ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR------S-----GLLHPQ 144 (293)
Q Consensus 85 ----~~--~~~~---~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~------~-----~~~~~~ 144 (293)
.+ ++++ +.....++.|++.-+..-... ...+..+..||..|-..+-.... + +..+.+
T Consensus 348 ~pFlPf~s~~fv~pl~~~k~~~etLl~~~~~If~d~---~~pk~~~G~aLk~a~~l~g~~GGkii~~~stlPn~G~Gkl~ 424 (861)
T COG5028 348 EPFLPFPSGLFVLPLKSCKQIIETLLDRVPRIFQDN---KSPKNALGPALKAAKSLIGGTGGKIIVFLSTLPNMGIGKLQ 424 (861)
T ss_pred cccccCCcchhcccHHHHHHHHHHHHHHhhhhhccc---CCCccccCHHHHHHHHHhhccCceEEEEeecCCCccccccc
Confidence 00 1111 111111112222211111100 01234556666554432222100 0 001122
Q ss_pred CC-------CCCCCchhHHHHHHHHHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeee
Q 022678 145 PR-------GSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHK 198 (293)
Q Consensus 145 sR-------~S~D~~~qYi~lmN~ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~ 198 (293)
-| .+++.+ =|- +.--..-|.+|.+|++.-.+. |+.-|-.++..|||.-..
T Consensus 425 ~r~d~e~~ll~c~d~-fYk---~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~ 483 (861)
T COG5028 425 LREDKESSLLSCKDS-FYK---EFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYF 483 (861)
T ss_pred ccccchhhhccccch-HHH---HHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEE
Confidence 22 233332 122 344566799999999988433 788899999999996444
No 156
>PRK04860 hypothetical protein; Provisional
Probab=30.95 E-value=57 Score=27.79 Aligned_cols=47 Identities=19% Similarity=0.220 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCCCCCCCCchhHHHHHHHHHHHHcCCeeEEEEEcC
Q 022678 122 SGSLSMALCYIQRVFRSGLLHPQPRGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 178 (293)
Q Consensus 122 ~~aLs~ALc~inr~~~~~~~~~~sR~S~D~~~qYi~lmN~ifaAqk~~I~Idv~~L~ 178 (293)
...|.+|..|.++-..-..-....|+.. .|. .-.+..+|+++-..|.
T Consensus 10 ~~~~~~a~~~f~~~f~~p~~~f~~R~rt-aG~---------~~l~~~~I~~Np~ll~ 56 (160)
T PRK04860 10 RECLAQANLYFKRTFPEPKVSYTQRGTS-AGT---------AWLQSNEIRLNPVLLL 56 (160)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEeecchh-hcc---------hhHhcCCeeeCHHHHh
Confidence 3456677788777432101112233222 221 2346788888877763
No 157
>PLN00209 ribosomal protein S27; Provisional
Probab=30.94 E-value=22 Score=27.14 Aligned_cols=27 Identities=26% Similarity=0.624 Sum_probs=21.1
Q ss_pred EcCCCCeeecC-----CCCCCCcccccccccc
Q 022678 249 ICSVCLSIYCK-----HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C~-----~p~~C~~C~~~f~~~~ 275 (293)
-||.|..+.-- ....|..||+.|..+.
T Consensus 38 kCp~C~n~q~VFShA~t~V~C~~Cg~~L~~PT 69 (86)
T PLN00209 38 KCQGCFNITTVFSHSQTVVVCGSCQTVLCQPT 69 (86)
T ss_pred ECCCCCCeeEEEecCceEEEccccCCEeeccC
Confidence 49999876553 3479999999998766
No 158
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=30.77 E-value=26 Score=32.23 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=15.5
Q ss_pred ceeEcCCCCe--------eecCCCCCCCc
Q 022678 246 MGYICSVCLS--------IYCKHLKKCST 266 (293)
Q Consensus 246 ~GyvCp~Cls--------i~C~~p~~C~~ 266 (293)
.-||||+|++ +||-+...|.+
T Consensus 267 R~YVCPiCGATgDnAHTiKyCPl~~~~~~ 295 (318)
T KOG4602|consen 267 RSYVCPICGATGDNAHTIKYCPLAFGDDT 295 (318)
T ss_pred hhhcCccccccCCcccceecccccCCCCc
Confidence 4789999987 78877665554
No 159
>PF06957 COPI_C: Coatomer (COPI) alpha subunit C-terminus; InterPro: IPR010714 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the C terminus (approximately 500 residues) of the eukaryotic coatomer alpha subunit [, ]. This domain is found along with the IPR006692 from INTERPRO domain. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0005515 protein binding, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030126 COPI vesicle coat; PDB: 3MKR_B 3MV2_E 3MKQ_B 3MV3_A.
Probab=30.73 E-value=27 Score=34.50 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=22.0
Q ss_pred eeeeecc--Ccccce---eEcCCCCeeecC-C-CCCCCccccccccc
Q 022678 235 ASCFCHK--NTIDMG---YICSVCLSIYCK-H-LKKCSTCGSVFGQA 274 (293)
Q Consensus 235 a~C~CH~--~~~~~G---yvCp~Clsi~C~-~-p~~C~~C~~~f~~~ 274 (293)
.+-.|.. ..+..| -.||.|++.|.. + -..|++|+..-+-.
T Consensus 363 pF~ICa~s~tPIY~G~~~v~CP~cgA~y~~~~kG~lC~vC~l~~IG~ 409 (422)
T PF06957_consen 363 PFDICAASYTPIYRGSPSVKCPYCGAKYHPEYKGQLCPVCELSEIGA 409 (422)
T ss_dssp -EEEBTTT--EEETTS-EEE-TTT--EEEGGGTTSB-TTTTTBBTT-
T ss_pred CceeeecccccccCCCCCeeCCCCCCccChhhCCCCCCCCcceeeCC
Confidence 4556655 334333 449999999995 3 47999999876533
No 160
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=30.23 E-value=38 Score=21.04 Aligned_cols=22 Identities=36% Similarity=0.682 Sum_probs=13.8
Q ss_pred eee-eccCcc----cceeEcCCCCeee
Q 022678 236 SCF-CHKNTI----DMGYICSVCLSIY 257 (293)
Q Consensus 236 ~C~-CH~~~~----~~GyvCp~Clsi~ 257 (293)
.|. |++..+ +..++|+.|.+++
T Consensus 5 ~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 5 KCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred EcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 344 665442 4577888887765
No 161
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=29.66 E-value=26 Score=24.55 Aligned_cols=27 Identities=33% Similarity=0.753 Sum_probs=16.9
Q ss_pred EcCCCCeeecC-----CCCCCCcccccccccc
Q 022678 249 ICSVCLSIYCK-----HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C~-----~p~~C~~C~~~f~~~~ 275 (293)
-||-|..+.-- ....|..|++.|..+.
T Consensus 9 kCp~C~~~q~vFSha~t~V~C~~Cg~~L~~Pt 40 (55)
T PF01667_consen 9 KCPGCYNIQTVFSHAQTVVKCVVCGTVLAQPT 40 (55)
T ss_dssp E-TTT-SEEEEETT-SS-EE-SSSTSEEEEE-
T ss_pred ECCCCCCeeEEEecCCeEEEcccCCCEecCCC
Confidence 48999876542 3579999999998766
No 162
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 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 consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=29.36 E-value=27 Score=25.03 Aligned_cols=43 Identities=26% Similarity=0.467 Sum_probs=28.6
Q ss_pred eeEcCCCCe---eecCC--------CCCCCcccccccccccCCCCCcc-cccccc
Q 022678 247 GYICSVCLS---IYCKH--------LKKCSTCGSVFGQAQTQSDEPSA-TNRKRK 289 (293)
Q Consensus 247 GyvCp~Cls---i~C~~--------p~~C~~C~~~f~~~~~~~~~~~~-~~~~~~ 289 (293)
...||+|.| +||.+ .-.|..|.-.++.....-.-|+. +++|.|
T Consensus 5 ~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG~lRnVPvggg~Rk~k 59 (63)
T PF02701_consen 5 PLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGGTLRNVPVGGGCRKNK 59 (63)
T ss_pred CCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcceecCCccCCCcccCC
Confidence 567999986 78854 25899999999877633223433 444444
No 163
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=29.25 E-value=25 Score=26.84 Aligned_cols=27 Identities=26% Similarity=0.496 Sum_probs=21.1
Q ss_pred EcCCCCeeecC-----CCCCCCcccccccccc
Q 022678 249 ICSVCLSIYCK-----HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C~-----~p~~C~~C~~~f~~~~ 275 (293)
-||.|..+.-- ....|..||+.|..+.
T Consensus 37 kCp~C~n~q~VFShA~t~V~C~~Cg~~L~~PT 68 (85)
T PTZ00083 37 KCPGCSQITTVFSHAQTVVLCGGCSSQLCQPT 68 (85)
T ss_pred ECCCCCCeeEEEecCceEEEccccCCEeeccC
Confidence 49999876653 3479999999998776
No 164
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=29.00 E-value=30 Score=24.73 Aligned_cols=21 Identities=33% Similarity=0.700 Sum_probs=13.0
Q ss_pred EcCCCCeeecCCCCCCCcccccc
Q 022678 249 ICSVCLSIYCKHLKKCSTCGSVF 271 (293)
Q Consensus 249 vCp~Clsi~C~~p~~C~~C~~~f 271 (293)
.|-.|..+. -...||.||..-
T Consensus 5 AC~~C~~i~--~~~~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYIT--TEDRCPVCGSRD 25 (61)
T ss_pred hhhhCCccc--CCCcCCCCcCCc
Confidence 466666666 233677787654
No 165
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=28.80 E-value=1.1e+02 Score=30.57 Aligned_cols=163 Identities=18% Similarity=0.091 Sum_probs=92.9
Q ss_pred CCeEEEEEeCCcccccc-CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022678 13 VSLVVVLLDTNPFFWSS-SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (293)
Q Consensus 13 ~s~LviIlD~s~~~w~~-~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp~~~~~~~~~~~~~~~~~~~ 91 (293)
..-.+|+||+|-.|... +=....++-=++--.+. .+=+.-.|.+|+.+... + +.
T Consensus 463 ~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~---TrfrGD~l~~i~Fgr~A-~-------~v-------------- 517 (652)
T COG4867 463 QAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVC---TRFRGDALQIIAFGRYA-R-------TV-------------- 517 (652)
T ss_pred ccceeeeeeccHHHHHhccCCchHHHHHHHHHHHH---hcCCCcceEEEeccchh-c-------cc--------------
Confidence 45678899999887544 21222222222222222 23466777887766321 1 11
Q ss_pred HHHHHHHHHHhhhhhcCCCCCCccccccchHHHHHHHHHHHHHhhhc---------CCCC-----CCCC--CCCCCchhH
Q 022678 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS---------GLLH-----PQPR--GSPDGPEQY 155 (293)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~---------~~~~-----~~sR--~S~D~~~qY 155 (293)
-+++|..+ . ... ...+.+.+||..|=-++.|..+. ++|+ ...| --+-+.+.|
T Consensus 518 -~v~eLt~l---~-~v~-------eqgTNlhhaL~LA~r~l~Rh~~~~~~il~vTDGePtAhle~~DG~~~~f~yp~DP~ 585 (652)
T COG4867 518 -TAAELTGL---A-GVY-------EQGTNLHHALALAGRHLRRHAGAQPVVLVVTDGEPTAHLEDGDGTSVFFDYPPDPR 585 (652)
T ss_pred -CHHHHhcC---C-Ccc-------ccccchHHHHHHHHHHHHhCcccCceEEEEeCCCccccccCCCCceEecCCCCChh
Confidence 12333222 1 112 13467899998888888775431 1111 0112 111123334
Q ss_pred HHHHHH---HHHHHcCCeeEEEEEcCCc--ChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcC
Q 022678 156 VAIMNA---IFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFG 214 (293)
Q Consensus 156 i~lmN~---ifaAqk~~I~Idv~~L~~~--e~~iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~l 214 (293)
. +-.+ +-...|.+|.|.++-|+.. =..|++|+++.|+|.-+. ++++++-++....|+
T Consensus 586 t-~~~Tvr~~d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~-pdldglGaaVvgdyl 647 (652)
T COG4867 586 T-IAHTVRGFDDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVV-PDLDGLGAAVVGDYL 647 (652)
T ss_pred H-HHHHHHHHHHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEe-cCcchhhHHHHHHHH
Confidence 2 2222 4567789999999999632 256999999999998764 568899888877664
No 166
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.70 E-value=52 Score=36.83 Aligned_cols=13 Identities=23% Similarity=0.585 Sum_probs=7.6
Q ss_pred CCCcccccccccc
Q 022678 263 KCSTCGSVFGQAQ 275 (293)
Q Consensus 263 ~C~~C~~~f~~~~ 275 (293)
.|+-||+.++...
T Consensus 711 ~CP~CGtplv~~~ 723 (1337)
T PRK14714 711 ECPRCDVELTPYQ 723 (1337)
T ss_pred cCCCCCCcccccc
Confidence 5666666665444
No 167
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=28.15 E-value=43 Score=28.11 Aligned_cols=37 Identities=19% Similarity=0.449 Sum_probs=24.5
Q ss_pred eeeccCcc-cceeEcCCCCeeecCC----CCCCCcccc-cccc
Q 022678 237 CFCHKNTI-DMGYICSVCLSIYCKH----LKKCSTCGS-VFGQ 273 (293)
Q Consensus 237 C~CH~~~~-~~GyvCp~Clsi~C~~----p~~C~~C~~-~f~~ 273 (293)
++.-+.++ .+-|+|-.|.-...-. -+.||.||- .|..
T Consensus 101 ~Y~sGE~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~~F~R 143 (146)
T PF07295_consen 101 VYHSGEVVGPGTLVCENCGHEVELTHPERLPPCPKCGHTEFTR 143 (146)
T ss_pred CeecCcEecCceEecccCCCEEEecCCCcCCCCCCCCCCeeee
Confidence 33444443 4569999999988832 267999985 3443
No 168
>PHA00733 hypothetical protein
Probab=27.98 E-value=37 Score=27.74 Aligned_cols=31 Identities=32% Similarity=0.831 Sum_probs=23.1
Q ss_pred cceeEcCCCCeeecC------------CCCCCCcccccccccc
Q 022678 245 DMGYICSVCLSIYCK------------HLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~GyvCp~Clsi~C~------------~p~~C~~C~~~f~~~~ 275 (293)
...|+|+.|...|-. .+-.|..|+..|....
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTD 113 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHH
Confidence 346899999877662 2458999999998654
No 169
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=27.72 E-value=28 Score=24.49 Aligned_cols=28 Identities=18% Similarity=0.494 Sum_probs=19.7
Q ss_pred eEcCCCCeeecCC-CCCCCcccccccccc
Q 022678 248 YICSVCLSIYCKH-LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 248 yvCp~Clsi~C~~-p~~C~~C~~~f~~~~ 275 (293)
|.|-.|..-.=.. ..+||.||=.|+..|
T Consensus 27 fECTFC~~C~e~~l~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 27 FECTFCADCAETMLNGVCPNCGGELVRRP 55 (57)
T ss_pred EeCcccHHHHHHHhcCcCcCCCCccccCC
Confidence 5565555443344 789999999998766
No 170
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=27.56 E-value=28 Score=29.26 Aligned_cols=27 Identities=30% Similarity=0.591 Sum_probs=21.1
Q ss_pred CceeeeeccCcccceeEcCCCCeeecCCC
Q 022678 233 FRASCFCHKNTIDMGYICSVCLSIYCKHL 261 (293)
Q Consensus 233 ~~a~C~CH~~~~~~GyvCp~Clsi~C~~p 261 (293)
.|.+|.-.+ .+.-|.|-.|++.||..+
T Consensus 117 ~r~fCaVCG--~~S~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 117 LRKFCAVCG--YDSKYSCVNCGTKYCSVR 143 (156)
T ss_pred cchhhhhcC--CCchhHHHhcCCceeech
Confidence 355676565 677899999999999765
No 171
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.49 E-value=27 Score=35.05 Aligned_cols=31 Identities=29% Similarity=0.710 Sum_probs=23.0
Q ss_pred eeEcCCCCe------------eec-------------CCCCCCCcccccccccccC
Q 022678 247 GYICSVCLS------------IYC-------------KHLKKCSTCGSVFGQAQTQ 277 (293)
Q Consensus 247 GyvCp~Cls------------i~C-------------~~p~~C~~C~~~f~~~~~~ 277 (293)
++.||+||. +|| .-+..||.|..++...-++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 788888876 777 2357899999988764433
No 172
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=27.01 E-value=48 Score=29.68 Aligned_cols=50 Identities=16% Similarity=0.374 Sum_probs=25.9
Q ss_pred eCCcchHHHHHHHhcCCCcc----ccccccCCCCCCCCCceeeeeccCcccc------eeEcCCCCeee
Q 022678 199 PQQLDGLFQYLLTIFGTDLH----SRNFLQLPKPVGVDFRASCFCHKNTIDM------GYICSVCLSIY 257 (293)
Q Consensus 199 ~~~~~~l~~~L~~~~lp~~~----~r~~l~~P~~~~vd~~a~C~CH~~~~~~------GyvCp~Clsi~ 257 (293)
..+++|.++-.+...+.... .+..+.- .-|+-|+.+... -|+||.|...-
T Consensus 165 ~~~~~~w~D~V~~vl~G~ne~~~~~~~alIC---------~~C~hhngl~~~~ek~~~efiC~~Cn~~n 224 (251)
T COG5415 165 KEDSDAWFDKVISVLAGGNELDLSPFKALIC---------PQCHHHNGLYRLAEKPIIEFICPHCNHKN 224 (251)
T ss_pred cccchHHHHHHHHHHhCCCccccCchhhhcc---------ccccccccccccccccchheecccchhhc
Confidence 44566777666666543321 1111111 347767655432 48887776543
No 173
>PF10221 DUF2151: Cell cycle and development regulator; InterPro: IPR019355 This entry represents the cell cycle regulator Mat89b, which plays an evolutionarily conserved role as a crucial regulator of both cell cycle and development []. Mat89Bb is a PNG kinase substrate that is essential for S-M cycles of early Drosophila embryogenesis, Xenopus embryonic cell cycles and morphogenesis, and cell division in cultured mammalian cells.
Probab=26.29 E-value=4.5e+02 Score=27.85 Aligned_cols=58 Identities=14% Similarity=0.227 Sum_probs=47.4
Q ss_pred eEEEEEeCCcccccc--------------------CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEec
Q 022678 15 LVVVLLDTNPFFWSS--------------------SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYD 72 (293)
Q Consensus 15 ~LviIlD~s~~~w~~--------------------~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~s~~lyp 72 (293)
--|+|||-+|.|-.. .+.--+++++++++|.+--.+.=|...+.-++..+..+++|-.
T Consensus 7 KTVfVLDh~p~f~~ss~~~i~~d~~~~~~~~~~~i~KSLWTc~vEa~~EYcRIV~DlFP~~k~IrfivsD~~a~~lnt 84 (695)
T PF10221_consen 7 KTVFVLDHSPYFAESSNQPIDFDIVKKSRQQKAPISKSLWTCAVEASIEYCRIVWDLFPDGKLIRFIVSDTAAHILNT 84 (695)
T ss_pred cEEEEEcCCchhhhhccCcEEEeeecCCCCCcCcccchHHHHHHHHHHHHHHHHhhccCCCceEEEEEEccccccccC
Confidence 468999999998654 1344789999999999999999999888777777777887765
No 174
>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=26.26 E-value=1.9e+02 Score=23.90 Aligned_cols=11 Identities=36% Similarity=0.730 Sum_probs=9.2
Q ss_pred eeEcCCCCeee
Q 022678 247 GYICSVCLSIY 257 (293)
Q Consensus 247 GyvCp~Clsi~ 257 (293)
-|.||.|+-+|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 58899998887
No 175
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=26.11 E-value=38 Score=31.41 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=7.2
Q ss_pred CCCcccccccccc
Q 022678 263 KCSTCGSVFGQAQ 275 (293)
Q Consensus 263 ~C~~C~~~f~~~~ 275 (293)
.|++|+..+++.+
T Consensus 163 ~C~~C~K~YvSmp 175 (279)
T KOG2462|consen 163 SCKYCGKVYVSMP 175 (279)
T ss_pred cCCCCCceeeehH
Confidence 5555555555544
No 176
>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=26.03 E-value=26 Score=27.94 Aligned_cols=26 Identities=27% Similarity=0.522 Sum_probs=19.2
Q ss_pred EcCCCCeeecCCC---CCCCccccccccc
Q 022678 249 ICSVCLSIYCKHL---KKCSTCGSVFGQA 274 (293)
Q Consensus 249 vCp~Clsi~C~~p---~~C~~C~~~f~~~ 274 (293)
-||.|.|-|-..- -+||-|+-.....
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccccc
Confidence 4899999888543 4899998777533
No 177
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=25.86 E-value=58 Score=25.95 Aligned_cols=24 Identities=21% Similarity=0.419 Sum_probs=12.1
Q ss_pred eeEcCCCCeeecC--CCCCCCccccc
Q 022678 247 GYICSVCLSIYCK--HLKKCSTCGSV 270 (293)
Q Consensus 247 GyvCp~Clsi~C~--~p~~C~~C~~~ 270 (293)
-+.|..|...|=. ..-.||.||..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 70 QAWCWDCSQVVEIHQHDAQCPHCHGE 95 (113)
T ss_pred EEEcccCCCEEecCCcCccCcCCCCC
Confidence 4556666654433 22336666643
No 178
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=25.44 E-value=57 Score=26.05 Aligned_cols=24 Identities=17% Similarity=0.488 Sum_probs=11.8
Q ss_pred eeEcCCCCeeecCC--C-CCCCccccc
Q 022678 247 GYICSVCLSIYCKH--L-KKCSTCGSV 270 (293)
Q Consensus 247 GyvCp~Clsi~C~~--p-~~C~~C~~~ 270 (293)
-+.|..|...|=.. . ..||.||..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~ 96 (114)
T PRK03681 70 ECWCETCQQYVTLLTQRVRRCPQCHGD 96 (114)
T ss_pred EEEcccCCCeeecCCccCCcCcCcCCC
Confidence 34555565544332 1 336666644
No 179
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=25.35 E-value=34 Score=22.71 Aligned_cols=27 Identities=22% Similarity=0.401 Sum_probs=15.7
Q ss_pred EcCCCCeeecC--C----CCCCCcccccccccc
Q 022678 249 ICSVCLSIYCK--H----LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 249 vCp~Clsi~C~--~----p~~C~~C~~~f~~~~ 275 (293)
.||.|+++.=. . .-.|+.||-.+...+
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~~~ 34 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEEPIEQ 34 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeEECCC
Confidence 36777665521 1 235778887666554
No 180
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 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 NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=24.83 E-value=32 Score=20.50 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=6.5
Q ss_pred CCCcccccccccc
Q 022678 263 KCSTCGSVFGQAQ 275 (293)
Q Consensus 263 ~C~~C~~~f~~~~ 275 (293)
.||+||+.+....
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4889998887543
No 181
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.73 E-value=40 Score=30.48 Aligned_cols=30 Identities=23% Similarity=0.735 Sum_probs=21.4
Q ss_pred ceeEcCCCCe------------eec-----------CCCCCCCcccccccccc
Q 022678 246 MGYICSVCLS------------IYC-----------KHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 246 ~GyvCp~Cls------------i~C-----------~~p~~C~~C~~~f~~~~ 275 (293)
.-|-|.+||. .|| .-...||+|+.......
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 3577888776 566 23468899999888665
No 182
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=24.66 E-value=39 Score=24.11 Aligned_cols=14 Identities=43% Similarity=0.895 Sum_probs=10.0
Q ss_pred CCCCCCcccccccc
Q 022678 260 HLKKCSTCGSVFGQ 273 (293)
Q Consensus 260 ~p~~C~~C~~~f~~ 273 (293)
+|..|.|||.....
T Consensus 3 iPVRCFTCGkvi~~ 16 (60)
T PF01194_consen 3 IPVRCFTCGKVIGN 16 (60)
T ss_dssp -SSS-STTTSBTCG
T ss_pred CceecCCCCCChhH
Confidence 58899999988753
No 183
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=24.50 E-value=46 Score=27.38 Aligned_cols=25 Identities=12% Similarity=0.103 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHcCCCCCCEEEEEE
Q 022678 38 LTHVLAFLNAILTLNQLNQVVVIAT 62 (293)
Q Consensus 38 l~~l~~Fln~~l~~n~~N~l~VIa~ 62 (293)
|+.+...+|+.+..+....+-|.-.
T Consensus 1 ~~~~f~~~n~~~F~~~L~~~~i~~~ 25 (157)
T PF10263_consen 1 LEELFDRFNEEYFGGKLPPIPITWS 25 (157)
T ss_pred CHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 3567788888888888888666655
No 184
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=24.36 E-value=44 Score=30.94 Aligned_cols=26 Identities=27% Similarity=0.507 Sum_probs=13.7
Q ss_pred eEcCCCCeeecCCCCCCCcccccccc
Q 022678 248 YICSVCLSIYCKHLKKCSTCGSVFGQ 273 (293)
Q Consensus 248 yvCp~Clsi~C~~p~~C~~C~~~f~~ 273 (293)
..|+.|.+-.=.....|+.||..=..
T Consensus 198 L~Cs~C~t~W~~~R~~Cp~Cg~~~~~ 223 (290)
T PF04216_consen 198 LHCSLCGTEWRFVRIKCPYCGNTDHE 223 (290)
T ss_dssp EEETTT--EEE--TTS-TTT---SS-
T ss_pred EEcCCCCCeeeecCCCCcCCCCCCCc
Confidence 56999999888788889999876443
No 185
>PRK10220 hypothetical protein; Provisional
Probab=24.34 E-value=38 Score=27.07 Aligned_cols=25 Identities=24% Similarity=0.534 Sum_probs=17.4
Q ss_pred EcCCCCeeecCCC---CCCCcccccccc
Q 022678 249 ICSVCLSIYCKHL---KKCSTCGSVFGQ 273 (293)
Q Consensus 249 vCp~Clsi~C~~p---~~C~~C~~~f~~ 273 (293)
-||+|.+-|-..- -+||-|+-.+..
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW~~ 32 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEWND 32 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcCCc
Confidence 3888888777532 478888876653
No 186
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=23.93 E-value=44 Score=31.02 Aligned_cols=27 Identities=22% Similarity=0.720 Sum_probs=15.3
Q ss_pred ceeEcCCCCeeec--------------CCCCCCCccccccc
Q 022678 246 MGYICSVCLSIYC--------------KHLKKCSTCGSVFG 272 (293)
Q Consensus 246 ~GyvCp~Clsi~C--------------~~p~~C~~C~~~f~ 272 (293)
.+.+|.+|+-.|- |-|=.|+.|+-.|.
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred CCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 4566666666665 34445666665554
No 187
>PF11405 Inhibitor_I67: Bromelain inhibitor VI; InterPro: IPR022713 Bromelain inhibitor VI is a double-chain inhibitor consisting of an 11-residue and a 41-residue chain. This protein is the 41-residue heavy chain which is joined to the 11-residue chain by disulphide bonds. The inhibitor acts to inhibit the cysteine proteinase bromelain. ; PDB: 2BI6_H 1BI6_H.
Probab=23.85 E-value=29 Score=21.87 Aligned_cols=18 Identities=33% Similarity=0.715 Sum_probs=10.5
Q ss_pred eecCCCCCCCcccccccc
Q 022678 256 IYCKHLKKCSTCGSVFGQ 273 (293)
Q Consensus 256 i~C~~p~~C~~C~~~f~~ 273 (293)
-|.+-|..|.+|+..|..
T Consensus 10 tysdcpgfcktckaefgk 27 (41)
T PF11405_consen 10 TYSDCPGFCKTCKAEFGK 27 (41)
T ss_dssp --SS--TT-SSEEEETTE
T ss_pred ccccCchHHHHHHHHhcc
Confidence 455678899999998864
No 188
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=23.78 E-value=70 Score=33.27 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=0.0
Q ss_pred HHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCCCCCCceeeeeccCc-ccceeEcCCCCe
Q 022678 184 FLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPVGVDFRASCFCHKNT-IDMGYICSVCLS 255 (293)
Q Consensus 184 iLqQa~~~T~G~Y~~~~~~~~l~~~L~~~~lp~~~~r~~l~~P~~~~vd~~a~C~CH~~~-~~~GyvCp~Cls 255 (293)
+++.+++ |+-.|+.+. |+- +.|.-|+.. ...++.||.|++
T Consensus 548 lv~~~~~-~~i~Yf~in--------------~~~-----------------~iC~~CG~~~~g~~~~CP~CGs 588 (623)
T PRK08271 548 LLNIAAK-TGCNYFAFN--------------VKI-----------------TICNDCHHIDKRTGKRCPICGS 588 (623)
T ss_pred HHHHHHH-cCCceEEeC--------------CCC-----------------ccCCCCCCcCCCCCcCCcCCCC
No 189
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=23.74 E-value=66 Score=31.24 Aligned_cols=31 Identities=35% Similarity=0.847 Sum_probs=23.3
Q ss_pred cceeE--cCCCCeeec---CCCCCCCcccccccccc
Q 022678 245 DMGYI--CSVCLSIYC---KHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 245 ~~Gyv--Cp~Clsi~C---~~p~~C~~C~~~f~~~~ 275 (293)
.+||+ |+.|+...= ..+..|+.||..++..-
T Consensus 240 ~~g~~~~C~~c~~~~~~~~~~~~~C~~c~~~~~~~G 275 (382)
T PRK04338 240 NLGYVYYCPKCLYREEVEGLPPEECPVCGGKFGTAG 275 (382)
T ss_pred hceeEEECCCCCcEEEecCCCCCCCCCCCCcceecc
Confidence 46877 999999642 34678999999876543
No 190
>PRK11827 hypothetical protein; Provisional
Probab=23.64 E-value=40 Score=23.99 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=18.5
Q ss_pred eEcCCCCeeec--CC--CCCCCccccccccc
Q 022678 248 YICSVCLSIYC--KH--LKKCSTCGSVFGQA 274 (293)
Q Consensus 248 yvCp~Clsi~C--~~--p~~C~~C~~~f~~~ 274 (293)
-+||+|+.-.= +- .-+|..|+..|...
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~~~~laYPI~ 39 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICKLDNLAFPLR 39 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECCccCeecccc
Confidence 47999987432 21 14799999988754
No 191
>PF01882 DUF58: Protein of unknown function DUF58; InterPro: IPR002881 This domain is found in a family of prokaryotic proteins that have no known function. Proteins belonging to this family include hypothetical proteins from eubacteria and archaebacteria. Some of these proteins also contain the Von Willebrand factor, type A domain (see IPR002035 from INTERPRO).
Probab=23.39 E-value=2.2e+02 Score=20.60 Aligned_cols=44 Identities=18% Similarity=0.262 Sum_probs=33.3
Q ss_pred CCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCC
Q 022678 9 YSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLN 52 (293)
Q Consensus 9 ~~~~~s~LviIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n 52 (293)
+.+...-++|++|+++.+-.. ....+...+..+...++..+.++
T Consensus 36 ~~~~~~~~~i~ld~~~~~~~~~~~~~~~e~~l~~a~~l~~~~~~~g 81 (86)
T PF01882_consen 36 EEERSQPVWIVLDLSPSMYFGSNGRSKFERALSAAASLANQALRQG 81 (86)
T ss_pred ecccCCcEEEEEECCCccccCcCCCCHHHHHHHHHHHHHHHHHhcC
Confidence 345567899999999987554 34778999998888888777654
No 192
>PRK11032 hypothetical protein; Provisional
Probab=23.37 E-value=75 Score=27.15 Aligned_cols=39 Identities=18% Similarity=0.439 Sum_probs=26.1
Q ss_pred ccCccc-ceeEcCCCCeeecCC----CCCCCcccc-cccccccCC
Q 022678 240 HKNTID-MGYICSVCLSIYCKH----LKKCSTCGS-VFGQAQTQS 278 (293)
Q Consensus 240 H~~~~~-~GyvCp~Clsi~C~~----p~~C~~C~~-~f~~~~~~~ 278 (293)
-+.++. +-+||-.|.-..+-. -+.||.||- .|...|+.|
T Consensus 116 sGEvvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~~F~R~~~~P 160 (160)
T PRK11032 116 SGEVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGHDQFQRRPFEP 160 (160)
T ss_pred cceeeecceEEecCCCCEEEecCCCcCCCCCCCCCCeeeeCCCCC
Confidence 344443 458999999988842 267999984 566655443
No 193
>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=23.25 E-value=47 Score=23.04 Aligned_cols=12 Identities=25% Similarity=0.872 Sum_probs=9.5
Q ss_pred cceeEcCCCCee
Q 022678 245 DMGYICSVCLSI 256 (293)
Q Consensus 245 ~~GyvCp~Clsi 256 (293)
.+-|+||.|...
T Consensus 42 ~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 42 EIQYRCPYCGAL 53 (54)
T ss_pred ceEEEcCCCCCc
Confidence 578999999763
No 194
>TIGR00280 L37a ribosomal protein L37a. This model finds eukaryotic ribosomal protein L37a and its archaeal orthologs. The nomeclature is tricky because eukaryotes have proteins called both L37 and L37a.
Probab=23.11 E-value=35 Score=26.40 Aligned_cols=32 Identities=25% Similarity=0.650 Sum_probs=21.7
Q ss_pred eeEcCCCCeeecCC----CCCCCcccccccccccCC
Q 022678 247 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQS 278 (293)
Q Consensus 247 GyvCp~Clsi~C~~----p~~C~~C~~~f~~~~~~~ 278 (293)
-|.||.|...-=.- .-.|.-|+.+|.-..-.|
T Consensus 35 ~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGAy~p 70 (91)
T TIGR00280 35 KYVCPFCGKKTVKRGSTGIWTCRKCGAKFAGGAYTP 70 (91)
T ss_pred CccCCCCCCCceEEEeeEEEEcCCCCCEEeCCcccc
Confidence 59999995432221 247999999998666444
No 195
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised 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. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=22.94 E-value=28 Score=37.22 Aligned_cols=32 Identities=19% Similarity=0.389 Sum_probs=0.0
Q ss_pred CcccceeEcCCCCeeecCCCCCCCcccccccccc
Q 022678 242 NTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 275 (293)
Q Consensus 242 ~~~~~GyvCp~Clsi~C~~p~~C~~C~~~f~~~~ 275 (293)
.....-|+||.|...+= +..|+.||.......
T Consensus 675 ~~T~~~~~Cp~C~~~~~--~~~C~~C~~~~~~~~ 706 (900)
T PF03833_consen 675 SHTEPVYVCPDCGIEVE--EDECPKCGRETTSYS 706 (900)
T ss_dssp ----------------------------------
T ss_pred CccccceeccccccccC--ccccccccccCcccc
Confidence 33445566666666443 238899988866554
No 196
>PF04641 Rtf2: Rtf2 RING-finger
Probab=22.90 E-value=64 Score=29.48 Aligned_cols=22 Identities=32% Similarity=0.833 Sum_probs=15.6
Q ss_pred CCeeecC-----CC--CCCCccccccccc
Q 022678 253 CLSIYCK-----HL--KKCSTCGSVFGQA 274 (293)
Q Consensus 253 Clsi~C~-----~p--~~C~~C~~~f~~~ 274 (293)
|+.+|++ +. ..|++||..|...
T Consensus 135 cG~V~s~~alke~k~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 135 CGCVFSEKALKELKKSKKCPVCGKPFTEE 163 (260)
T ss_pred CCCEeeHHHHHhhcccccccccCCccccC
Confidence 5556663 43 3799999999854
No 197
>PF09186 DUF1949: Domain of unknown function (DUF1949); InterPro: IPR015269 Members of this entry are a set of functionally uncharacterised hypothetical bacterial proteins. They adopt a ferredoxin-like fold, with a beta-alpha-beta-beta-alpha-beta arrangement []. This entry contains the protein Impact, which is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. ; PDB: 2CVE_A 1VI7_A.
Probab=22.65 E-value=1.4e+02 Score=19.67 Aligned_cols=15 Identities=27% Similarity=0.295 Sum_probs=12.3
Q ss_pred ChHHHHHHHhhcCCe
Q 022678 181 NSAFLQQASYITGGV 195 (293)
Q Consensus 181 e~~iLqQa~~~T~G~ 195 (293)
--.|.++++++|+|.
T Consensus 42 ~~~f~~~l~~~t~G~ 56 (56)
T PF09186_consen 42 VEEFKAQLTDLTSGR 56 (56)
T ss_dssp HHHHHHHHHHHTTT-
T ss_pred HHHHHHHHHHHcCCC
Confidence 356999999999994
No 198
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=22.55 E-value=1.6e+02 Score=23.64 Aligned_cols=40 Identities=28% Similarity=0.368 Sum_probs=29.3
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEe
Q 022678 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATG 63 (293)
Q Consensus 16 LviIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~ 63 (293)
|+|+||+|-+|-.. -|..++..+...+..+ ..++-||.+.
T Consensus 1 i~vaiDtSGSis~~---~l~~fl~ev~~i~~~~-----~~~v~vi~~D 40 (126)
T PF09967_consen 1 IVVAIDTSGSISDE---ELRRFLSEVAGILRRF-----PAEVHVIQFD 40 (126)
T ss_pred CEEEEECCCCCCHH---HHHHHHHHHHHHHHhC-----CCCEEEEEEC
Confidence 58999999988654 4777787777766665 4457777765
No 199
>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=22.52 E-value=31 Score=20.88 Aligned_cols=20 Identities=25% Similarity=0.748 Sum_probs=6.9
Q ss_pred cCCCCeeecC----CCCCCCcccc
Q 022678 250 CSVCLSIYCK----HLKKCSTCGS 269 (293)
Q Consensus 250 Cp~Clsi~C~----~p~~C~~C~~ 269 (293)
|++|.+..=. .-..|+.||.
T Consensus 6 C~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 6 CGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp -TTT--BEEE-SSSS-EEESSSS-
T ss_pred cCcCCccccCCCCcCEeECCCCcC
Confidence 5555554332 2235555554
No 200
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=22.36 E-value=76 Score=28.19 Aligned_cols=35 Identities=23% Similarity=0.481 Sum_probs=23.0
Q ss_pred eeeeccCcccceeEcCCCCeeec---------CCCCCCCccccccc
Q 022678 236 SCFCHKNTIDMGYICSVCLSIYC---------KHLKKCSTCGSVFG 272 (293)
Q Consensus 236 ~C~CH~~~~~~GyvCp~Clsi~C---------~~p~~C~~C~~~f~ 272 (293)
..-+|+.+-. +.|+.|...|= ...|.|+.||..+.
T Consensus 104 v~elHG~l~~--~~C~~C~~~~~~~~~~~~~~~~~p~C~~Cgg~lr 147 (222)
T cd01413 104 VIELHGTLQT--AYCVNCGSKYDLEEVKYAKKHEVPRCPKCGGIIR 147 (222)
T ss_pred EEEccCCcCc--ceECCCCCCcchhHHHHhccCCCCcCCCCCCccC
Confidence 4566776654 45888876542 34578999986543
No 201
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=21.32 E-value=36 Score=23.20 Aligned_cols=10 Identities=30% Similarity=0.866 Sum_probs=3.8
Q ss_pred CCCccccccc
Q 022678 263 KCSTCGSVFG 272 (293)
Q Consensus 263 ~C~~C~~~f~ 272 (293)
.||+|+..|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 4666666665
No 202
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=21.18 E-value=47 Score=19.08 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=10.1
Q ss_pred CCCCccccccccc
Q 022678 262 KKCSTCGSVFGQA 274 (293)
Q Consensus 262 ~~C~~C~~~f~~~ 274 (293)
..|++||-.|...
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 3699999999643
No 203
>PRK12495 hypothetical protein; Provisional
Probab=21.05 E-value=44 Score=30.03 Aligned_cols=27 Identities=22% Similarity=0.448 Sum_probs=19.1
Q ss_pred eeEcCCCCeeecCCC--CCCCcccccccc
Q 022678 247 GYICSVCLSIYCKHL--KKCSTCGSVFGQ 273 (293)
Q Consensus 247 GyvCp~Clsi~C~~p--~~C~~C~~~f~~ 273 (293)
.|.|+.|+.-.=.++ ..|++|+..+..
T Consensus 42 a~hC~~CG~PIpa~pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 42 NAHCDECGDPIFRHDGQEFCPTCQQPVTE 70 (226)
T ss_pred hhhcccccCcccCCCCeeECCCCCCcccc
Confidence 477888887444665 479999877664
No 204
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=21.01 E-value=62 Score=18.22 Aligned_cols=11 Identities=18% Similarity=0.736 Sum_probs=5.7
Q ss_pred eEcCCCCeeec
Q 022678 248 YICSVCLSIYC 258 (293)
Q Consensus 248 yvCp~Clsi~C 258 (293)
|.|..|...|-
T Consensus 2 ~~C~~C~~~F~ 12 (27)
T PF13912_consen 2 FECDECGKTFS 12 (27)
T ss_dssp EEETTTTEEES
T ss_pred CCCCccCCccC
Confidence 45555555543
No 205
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=20.78 E-value=61 Score=18.55 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=8.6
Q ss_pred ceeEcCCCCeee
Q 022678 246 MGYICSVCLSIY 257 (293)
Q Consensus 246 ~GyvCp~Clsi~ 257 (293)
.-|.|+.|.-.|
T Consensus 13 k~~~C~~C~k~F 24 (26)
T PF13465_consen 13 KPYKCPYCGKSF 24 (26)
T ss_dssp SSEEESSSSEEE
T ss_pred CCCCCCCCcCee
Confidence 358888887654
No 206
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=20.64 E-value=76 Score=23.50 Aligned_cols=28 Identities=21% Similarity=0.509 Sum_probs=14.2
Q ss_pred cccceeEcCCCCeeecCCC-CCCCccccc
Q 022678 243 TIDMGYICSVCLSIYCKHL-KKCSTCGSV 270 (293)
Q Consensus 243 ~~~~GyvCp~Clsi~C~~p-~~C~~C~~~ 270 (293)
+....+-|--|..+.-+.. ..||.||-.
T Consensus 5 ~k~~vlrC~aCf~~t~~~~k~FCp~CGn~ 33 (73)
T PF08772_consen 5 VKTWVLRCHACFKITKDMTKQFCPKCGNA 33 (73)
T ss_dssp ---EEEE-SSS--EES-SS--S-SSS--S
T ss_pred hheeeEEccccccCcCCCCceeCcccCCC
Confidence 3456788999999999765 689999965
No 207
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=20.43 E-value=51 Score=21.37 Aligned_cols=15 Identities=27% Similarity=0.842 Sum_probs=11.2
Q ss_pred CCCCCcccccccccc
Q 022678 261 LKKCSTCGSVFGQAQ 275 (293)
Q Consensus 261 p~~C~~C~~~f~~~~ 275 (293)
...|++||..+....
T Consensus 13 ~~~C~~CgM~Y~~~~ 27 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGS 27 (41)
T ss_pred CcCCCCCCCEECCCC
Confidence 368999998887544
No 208
>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=20.35 E-value=40 Score=21.36 Aligned_cols=24 Identities=33% Similarity=0.610 Sum_probs=13.1
Q ss_pred eeE--cCCCCeeecCCC---CCCCccccc
Q 022678 247 GYI--CSVCLSIYCKHL---KKCSTCGSV 270 (293)
Q Consensus 247 Gyv--Cp~Clsi~C~~p---~~C~~C~~~ 270 (293)
|+. |++|.++.=... -.|.-||..
T Consensus 6 ~~~~~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 6 GPNEPCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred cCCCcCCCCCCeEeEccCCEEEhhhCceE
Confidence 455 777777732221 356666653
Done!