Query 022374
Match_columns 298
No_of_seqs 114 out of 354
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 03:02:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022374.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022374hhsearch_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 5.1E-75 1.1E-79 534.5 25.8 256 13-273 1-276 (276)
2 TIGR00627 tfb4 transcription f 100.0 1.1E-73 2.3E-78 524.4 25.3 259 12-276 1-279 (279)
3 KOG2487 RNA polymerase II tran 100.0 2.1E-73 4.5E-78 506.5 20.4 282 4-296 14-313 (314)
4 COG5242 TFB4 RNA polymerase II 100.0 1.1E-63 2.3E-68 434.3 22.0 261 7-278 14-286 (296)
5 KOG2807 RNA polymerase II tran 100.0 4.5E-49 9.8E-54 358.1 18.0 235 15-280 62-304 (378)
6 COG5151 SSL1 RNA polymerase II 100.0 2.5E-37 5.4E-42 280.0 14.4 236 14-280 88-336 (421)
7 PF04056 Ssl1: Ssl1-like; Int 100.0 9.9E-36 2.1E-40 259.9 17.0 177 19-224 1-179 (193)
8 cd01453 vWA_transcription_fact 99.8 6.4E-20 1.4E-24 160.0 18.5 177 15-222 5-183 (183)
9 cd01452 VWA_26S_proteasome_sub 99.7 6.1E-16 1.3E-20 135.3 19.9 154 15-199 5-163 (187)
10 PRK13685 hypothetical protein; 99.1 5E-09 1.1E-13 99.2 19.1 176 10-215 85-284 (326)
11 PF13519 VWA_2: von Willebrand 99.1 6.6E-09 1.4E-13 87.0 17.6 164 16-215 2-170 (172)
12 cd01467 vWA_BatA_type VWA BatA 99.1 1.2E-08 2.6E-13 87.4 17.7 161 15-209 4-179 (180)
13 cd01461 vWA_interalpha_trypsin 99.0 1.4E-07 3.1E-12 79.7 19.1 168 13-215 2-170 (171)
14 cd01451 vWA_Magnesium_chelatas 98.9 3.6E-07 7.8E-12 78.8 19.0 162 15-208 2-168 (178)
15 cd01465 vWA_subgroup VWA subgr 98.9 4.4E-07 9.4E-12 76.7 19.1 164 15-212 2-168 (170)
16 cd01466 vWA_C3HC4_type VWA C3H 98.8 1.6E-07 3.6E-12 79.2 15.6 151 16-204 3-154 (155)
17 TIGR03436 acidobact_VWFA VWFA- 98.8 5E-07 1.1E-11 84.1 20.1 181 12-216 52-249 (296)
18 cd01456 vWA_ywmD_type VWA ywmD 98.8 4.8E-07 1E-11 79.8 17.2 174 7-206 14-202 (206)
19 smart00327 VWA von Willebrand 98.7 1.6E-06 3.4E-11 72.9 16.6 161 15-203 3-164 (177)
20 cd01472 vWA_collagen von Wille 98.7 1.2E-06 2.6E-11 74.2 15.6 159 16-205 3-161 (164)
21 PF13768 VWA_3: von Willebrand 98.6 2E-06 4.4E-11 72.0 15.9 150 16-202 3-154 (155)
22 cd01480 vWA_collagen_alpha_1-V 98.6 3.9E-06 8.5E-11 72.9 17.9 172 15-219 4-181 (186)
23 TIGR00868 hCaCC calcium-activa 98.6 3.1E-06 6.7E-11 88.9 19.9 160 15-209 306-465 (863)
24 cd01455 vWA_F11C1-5a_type Von 98.6 6.2E-06 1.4E-10 72.4 17.7 177 15-218 2-186 (191)
25 cd01463 vWA_VGCC_like VWA Volt 98.6 3.1E-06 6.7E-11 73.7 15.8 167 11-207 11-189 (190)
26 cd00198 vWFA Von Willebrand fa 98.5 9.6E-06 2.1E-10 66.1 17.0 157 15-201 2-160 (161)
27 cd01474 vWA_ATR ATR (Anthrax T 98.5 8.7E-06 1.9E-10 70.6 17.2 165 14-210 5-170 (185)
28 TIGR00622 ssl1 transcription f 98.5 3.3E-08 7.2E-13 79.0 1.8 29 252-280 1-29 (112)
29 cd01470 vWA_complement_factors 98.5 1.8E-05 3.8E-10 69.3 19.1 176 16-212 3-195 (198)
30 cd01482 vWA_collagen_alphaI-XI 98.4 2.7E-05 5.8E-10 66.1 16.8 157 16-203 3-159 (164)
31 PRK13406 bchD magnesium chelat 98.4 2.5E-05 5.4E-10 79.6 18.2 163 10-206 398-569 (584)
32 cd01450 vWFA_subfamily_ECM Von 98.4 3.6E-05 7.9E-10 63.7 16.1 156 16-201 3-159 (161)
33 KOG2884 26S proteasome regulat 98.4 4.5E-05 9.8E-10 67.5 17.0 156 15-200 5-164 (259)
34 cd01475 vWA_Matrilin VWA_Matri 98.3 0.0001 2.2E-09 65.9 19.0 167 15-211 4-173 (224)
35 cd01458 vWA_ku Ku70/Ku80 N-ter 98.2 0.00012 2.7E-09 65.2 17.8 155 14-185 2-173 (218)
36 TIGR03788 marine_srt_targ mari 98.2 0.00023 5E-09 72.8 21.5 168 11-213 269-437 (596)
37 cd01477 vWA_F09G8-8_type VWA F 98.2 0.00024 5.3E-09 62.5 17.8 164 11-202 17-190 (193)
38 TIGR02442 Cob-chelat-sub cobal 98.1 0.00016 3.5E-09 74.5 18.5 161 13-204 465-632 (633)
39 cd01469 vWA_integrins_alpha_su 98.1 0.00028 6E-09 60.8 17.1 165 16-209 3-173 (177)
40 cd01476 VWA_integrin_invertebr 98.0 0.0012 2.6E-08 55.5 17.7 151 16-198 3-158 (163)
41 cd01471 vWA_micronemal_protein 97.9 0.00063 1.4E-08 58.7 15.9 157 16-197 3-161 (186)
42 TIGR02031 BchD-ChlD magnesium 97.9 0.00066 1.4E-08 69.5 18.5 163 11-207 405-583 (589)
43 COG5148 RPN10 26S proteasome r 97.9 0.00094 2E-08 58.1 15.3 155 15-199 5-162 (243)
44 PTZ00441 sporozoite surface pr 97.8 0.0023 5E-08 64.6 20.0 174 13-211 42-220 (576)
45 PF00092 VWA: von Willebrand f 97.8 0.0012 2.6E-08 55.5 14.9 170 16-212 2-173 (178)
46 COG1240 ChlD Mg-chelatase subu 97.7 0.002 4.4E-08 58.8 16.0 167 10-209 75-249 (261)
47 cd01473 vWA_CTRP CTRP for CS 97.7 0.0027 5.9E-08 55.7 16.3 157 16-196 3-161 (192)
48 cd01464 vWA_subfamily VWA subf 97.5 0.0044 9.5E-08 53.1 14.3 145 16-195 6-159 (176)
49 PF04811 Sec23_trunk: Sec23/Se 97.5 0.013 2.9E-07 53.0 17.9 176 14-208 4-227 (243)
50 cd01462 VWA_YIEM_type VWA YIEM 97.4 0.016 3.4E-07 48.2 15.7 141 16-193 3-143 (152)
51 PF03731 Ku_N: Ku70/Ku80 N-ter 97.3 0.012 2.6E-07 52.3 14.9 157 16-182 2-172 (224)
52 cd01454 vWA_norD_type norD typ 97.2 0.062 1.4E-06 45.7 17.5 138 15-184 2-152 (174)
53 cd01460 vWA_midasin VWA_Midasi 97.0 0.047 1E-06 50.6 15.8 157 12-200 59-224 (266)
54 cd01481 vWA_collagen_alpha3-VI 96.9 0.12 2.6E-06 44.1 16.8 152 16-196 3-155 (165)
55 cd01468 trunk_domain trunk dom 96.6 0.55 1.2E-05 42.4 20.5 182 13-206 3-223 (239)
56 TIGR00578 ku70 ATP-dependent D 96.5 0.18 3.9E-06 51.7 17.9 157 11-183 8-182 (584)
57 cd01479 Sec24-like Sec24-like: 96.5 0.47 1E-05 43.2 18.9 170 13-205 3-219 (244)
58 PF10138 vWA-TerF-like: vWA fo 96.3 0.37 7.9E-06 42.8 16.2 173 16-218 4-187 (200)
59 cd01457 vWA_ORF176_type VWA OR 96.1 0.65 1.4E-05 40.5 16.8 150 15-196 4-165 (199)
60 PRK10997 yieM hypothetical pro 95.2 1.4 2.9E-05 44.3 17.1 150 8-195 318-468 (487)
61 COG4245 TerY Uncharacterized p 95.2 2 4.4E-05 37.8 16.1 161 16-214 6-177 (207)
62 PF09538 FYDLN_acid: Protein o 94.6 0.023 5E-07 45.5 2.3 29 251-279 8-39 (108)
63 cd00729 rubredoxin_SM Rubredox 93.8 0.056 1.2E-06 34.1 2.3 24 252-275 2-27 (34)
64 PRK12496 hypothetical protein; 93.6 0.046 1E-06 47.0 2.3 97 162-280 59-157 (164)
65 COG1592 Rubrerythrin [Energy p 93.5 0.048 1E-06 46.9 2.1 24 252-275 134-158 (166)
66 cd00350 rubredoxin_like Rubred 92.4 0.12 2.7E-06 32.2 2.4 23 253-275 2-26 (33)
67 PTZ00395 Sec24-related protein 91.7 6.1 0.00013 44.1 15.3 186 12-219 951-1199(1560)
68 TIGR02300 FYDLN_acid conserved 91.1 0.15 3.2E-06 41.8 2.1 30 251-280 8-40 (129)
69 TIGR00373 conserved hypothetic 90.7 0.17 3.6E-06 43.2 2.2 30 250-279 107-141 (158)
70 PF05191 ADK_lid: Adenylate ki 90.7 0.25 5.4E-06 31.6 2.4 26 253-278 2-33 (36)
71 PRK06266 transcription initiat 89.9 0.22 4.8E-06 43.3 2.3 30 250-279 115-149 (178)
72 COG4867 Uncharacterized protei 89.5 18 0.0004 35.8 15.1 163 13-219 463-647 (652)
73 PF10571 UPF0547: Uncharacteri 89.5 0.2 4.4E-06 29.7 1.2 24 254-277 2-25 (26)
74 PRK00398 rpoP DNA-directed RNA 87.5 0.61 1.3E-05 31.2 2.8 31 252-282 3-37 (46)
75 PF13248 zf-ribbon_3: zinc-rib 84.7 0.44 9.4E-06 28.1 0.8 24 253-276 3-26 (26)
76 PF13240 zinc_ribbon_2: zinc-r 84.0 0.54 1.2E-05 27.0 0.9 22 255-276 2-23 (23)
77 cd00730 rubredoxin Rubredoxin; 82.7 0.97 2.1E-05 31.1 2.0 23 253-275 2-43 (50)
78 COG1439 Predicted nucleic acid 82.2 0.92 2E-05 39.4 2.1 34 247-280 134-167 (177)
79 smart00531 TFIIE Transcription 81.8 0.8 1.7E-05 38.4 1.6 31 250-280 97-137 (147)
80 PF00301 Rubredoxin: Rubredoxi 81.2 1.2 2.7E-05 30.2 2.0 12 253-264 2-13 (47)
81 COG1996 RPC10 DNA-directed RNA 79.1 1.3 2.9E-05 30.3 1.6 34 249-282 3-40 (49)
82 smart00834 CxxC_CXXC_SSSS Puta 79.1 2 4.3E-05 27.5 2.5 25 252-276 5-36 (41)
83 PF12257 DUF3608: Protein of u 79.0 57 0.0012 30.6 13.7 168 13-185 70-271 (281)
84 COG1675 TFA1 Transcription ini 78.7 1.2 2.6E-05 38.7 1.7 31 250-280 111-146 (176)
85 KOG2326 DNA-binding subunit of 78.3 74 0.0016 32.9 14.1 165 16-204 7-203 (669)
86 TIGR02098 MJ0042_CXXC MJ0042 f 77.7 1.4 3.1E-05 27.9 1.4 25 253-277 3-36 (38)
87 PF08271 TF_Zn_Ribbon: TFIIB z 75.5 1 2.2E-05 29.7 0.2 28 253-280 1-33 (43)
88 TIGR01206 lysW lysine biosynth 74.8 1.6 3.5E-05 30.5 1.1 30 252-282 2-38 (54)
89 KOG1985 Vesicle coat complex C 73.6 1.4E+02 0.0029 32.2 15.0 176 2-203 283-507 (887)
90 PF13717 zinc_ribbon_4: zinc-r 72.8 2 4.4E-05 27.3 1.2 24 253-276 3-35 (36)
91 KOG3768 DEAD box RNA helicase 72.5 68 0.0015 33.3 12.2 30 186-215 193-222 (888)
92 PF12760 Zn_Tnp_IS1595: Transp 71.7 1.8 4E-05 28.9 0.8 24 251-274 17-45 (46)
93 PRK14892 putative transcriptio 70.0 3.2 7E-05 32.7 2.0 31 250-280 19-56 (99)
94 COG1645 Uncharacterized Zn-fin 69.9 1.7 3.6E-05 36.0 0.3 27 251-277 27-55 (131)
95 COG5028 Vesicle coat complex C 68.6 1.7E+02 0.0037 31.3 16.3 183 9-205 272-485 (861)
96 PF04438 zf-HIT: HIT zinc fing 68.5 3 6.5E-05 25.5 1.2 16 250-265 11-26 (30)
97 PF14446 Prok-RING_1: Prokaryo 67.9 2.2 4.9E-05 29.8 0.6 14 250-263 19-32 (54)
98 PF07975 C1_4: TFIIH C1-like d 67.8 3.4 7.3E-05 28.6 1.5 24 250-273 19-50 (51)
99 PRK00420 hypothetical protein; 67.0 2.8 6.1E-05 33.8 1.1 28 252-279 23-53 (112)
100 PF11265 Med25_VWA: Mediator c 66.5 1E+02 0.0022 27.9 13.8 170 11-203 11-204 (226)
101 PF09723 Zn-ribbon_8: Zinc rib 64.8 6.2 0.00014 25.8 2.3 23 252-274 5-34 (42)
102 PF06221 zf-C2HC5: Putative zi 64.6 4.4 9.4E-05 28.7 1.5 42 239-280 2-49 (57)
103 COG2425 Uncharacterized protei 64.4 1.6E+02 0.0034 29.4 14.1 148 14-202 273-422 (437)
104 KOG2593 Transcription initiati 64.2 2 4.3E-05 42.1 -0.3 30 251-280 127-167 (436)
105 PF03604 DNA_RNApol_7kD: DNA d 63.6 5.4 0.00012 24.8 1.7 25 253-277 1-28 (32)
106 COG1545 Predicted nucleic-acid 63.4 5.6 0.00012 33.2 2.3 27 250-276 27-53 (140)
107 PRK13130 H/ACA RNA-protein com 63.2 6 0.00013 27.9 2.0 26 253-280 6-31 (56)
108 TIGR02605 CxxC_CxxC_SSSS putat 63.0 4.3 9.3E-05 27.5 1.3 23 252-274 5-34 (52)
109 PF05290 Baculo_IE-1: Baculovi 62.5 3.5 7.5E-05 34.2 0.8 22 259-280 114-135 (140)
110 PRK11788 tetratricopeptide rep 62.2 4.2 9.2E-05 38.3 1.5 30 251-280 353-382 (389)
111 PF10221 DUF2151: Cell cycle a 62.1 2E+02 0.0043 30.5 13.6 152 15-182 7-201 (695)
112 KOG4317 Predicted Zn-finger pr 60.6 3.9 8.4E-05 38.6 0.9 35 243-277 9-47 (383)
113 PF13719 zinc_ribbon_5: zinc-r 60.5 5.3 0.00011 25.5 1.2 23 254-276 4-35 (37)
114 PRK07418 acetolactate synthase 60.4 95 0.0021 32.0 11.1 129 144-276 452-616 (616)
115 PF12172 DUF35_N: Rubredoxin-l 58.4 6.2 0.00013 24.9 1.3 24 251-274 10-33 (37)
116 PRK00415 rps27e 30S ribosomal 56.8 6.2 0.00014 28.1 1.2 27 254-280 13-44 (59)
117 cd02006 TPP_Gcl Thiamine pyrop 56.0 87 0.0019 27.2 8.7 45 144-192 75-119 (202)
118 smart00659 RPOLCX RNA polymera 55.9 9.9 0.00022 25.3 2.0 30 252-281 2-34 (44)
119 cd02010 TPP_ALS Thiamine pyrop 55.5 94 0.002 26.4 8.7 71 144-218 66-157 (177)
120 COG2176 PolC DNA polymerase II 54.8 5.8 0.00012 43.8 1.1 27 251-279 913-952 (1444)
121 PRK11595 DNA utilization prote 53.1 5.1 0.00011 35.9 0.4 40 238-277 4-45 (227)
122 PF00096 zf-C2H2: Zinc finger, 52.5 9.1 0.0002 21.0 1.2 10 253-262 1-10 (23)
123 PF06707 DUF1194: Protein of u 52.2 1.7E+02 0.0038 26.0 12.7 146 15-185 5-157 (205)
124 PF05129 Elf1: Transcription e 51.1 4 8.6E-05 30.9 -0.6 32 249-280 19-60 (81)
125 PF13894 zf-C2H2_4: C2H2-type 50.4 9.8 0.00021 20.5 1.2 10 253-262 1-10 (24)
126 COG1721 Uncharacterized conser 49.6 69 0.0015 31.3 7.7 69 7-77 218-288 (416)
127 PF14205 Cys_rich_KTR: Cystein 49.4 14 0.0003 25.9 2.0 28 253-280 5-42 (55)
128 cd05017 SIS_PGI_PMI_1 The memb 49.2 81 0.0017 24.8 6.8 53 147-207 47-99 (119)
129 PF14206 Cys_rich_CPCC: Cystei 49.1 10 0.00023 28.5 1.4 25 253-277 2-31 (78)
130 PF13824 zf-Mss51: Zinc-finger 48.9 12 0.00026 26.3 1.6 23 255-277 2-25 (55)
131 COG4888 Uncharacterized Zn rib 48.7 7.7 0.00017 30.6 0.7 31 250-280 20-60 (104)
132 smart00154 ZnF_AN1 AN1-like Zi 48.5 12 0.00026 24.2 1.4 22 244-265 4-25 (39)
133 PRK03824 hypA hydrogenase nick 48.2 14 0.00029 30.7 2.1 14 251-264 69-82 (135)
134 COG2093 DNA-directed RNA polym 47.7 9.5 0.00021 27.5 1.0 24 254-277 6-30 (64)
135 cd01478 Sec23-like Sec23-like: 47.7 2.3E+02 0.0049 26.1 21.8 86 117-206 139-255 (267)
136 PLN00162 transport protein sec 47.7 3.8E+02 0.0083 28.7 22.1 98 118-219 261-391 (761)
137 PF09862 DUF2089: Protein of u 47.3 6.9 0.00015 31.6 0.2 28 244-271 4-31 (113)
138 PRK08611 pyruvate oxidase; Pro 47.3 1.1E+02 0.0024 31.2 9.1 72 143-218 425-517 (576)
139 PRK08617 acetolactate synthase 45.9 85 0.0018 31.7 7.9 71 144-218 432-523 (552)
140 PF05762 VWA_CoxE: VWA domain 45.8 2.1E+02 0.0047 25.3 13.1 44 11-64 55-98 (222)
141 PRK05978 hypothetical protein; 45.7 13 0.00028 31.4 1.7 27 254-280 35-66 (148)
142 COG1997 RPL43A Ribosomal prote 45.5 9.9 0.00021 29.2 0.8 32 252-283 35-70 (89)
143 cd02008 TPP_IOR_alpha Thiamine 45.4 1.1E+02 0.0024 25.9 7.5 64 144-211 69-154 (178)
144 PF00641 zf-RanBP: Zn-finger i 44.9 22 0.00047 21.2 2.2 25 251-275 3-27 (30)
145 PF01428 zf-AN1: AN1-like Zinc 44.6 13 0.00028 24.4 1.2 20 244-264 6-25 (43)
146 PF05605 zf-Di19: Drought indu 44.2 13 0.00028 25.5 1.2 25 252-277 2-42 (54)
147 PF12773 DZR: Double zinc ribb 43.7 13 0.00028 24.8 1.2 32 244-275 4-38 (50)
148 PF07754 DUF1610: Domain of un 43.6 16 0.00035 21.2 1.3 10 250-259 14-23 (24)
149 COG2051 RPS27A Ribosomal prote 43.5 10 0.00022 27.6 0.6 27 254-280 21-52 (67)
150 cd02015 TPP_AHAS Thiamine pyro 43.3 2E+02 0.0042 24.5 8.8 45 144-192 68-112 (186)
151 PRK00448 polC DNA polymerase I 43.1 11 0.00024 42.8 1.1 28 250-279 906-946 (1437)
152 PRK14890 putative Zn-ribbon RN 42.8 19 0.00041 25.6 1.8 24 251-274 24-56 (59)
153 smart00547 ZnF_RBZ Zinc finger 42.6 12 0.00027 21.4 0.8 24 252-275 2-25 (26)
154 cd02003 TPP_IolD Thiamine pyro 42.2 1.9E+02 0.0041 25.2 8.7 46 144-193 66-111 (205)
155 TIGR00622 ssl1 transcription f 42.1 18 0.00039 29.2 1.9 25 250-274 79-111 (112)
156 PHA00626 hypothetical protein 41.9 16 0.00036 25.7 1.4 27 254-280 2-37 (59)
157 TIGR01405 polC_Gram_pos DNA po 41.1 12 0.00027 41.7 1.1 28 250-279 681-721 (1213)
158 cd01407 SIR2-fam SIR2 family o 40.2 68 0.0015 28.4 5.5 36 240-277 99-144 (218)
159 PLN02470 acetolactate synthase 40.0 1.5E+02 0.0033 30.2 8.8 71 144-218 444-544 (585)
160 PF03854 zf-P11: P-11 zinc fin 39.5 3.7 8.1E-05 27.9 -2.0 28 252-279 21-48 (50)
161 PF03358 FMN_red: NADPH-depend 39.3 88 0.0019 25.4 5.8 38 146-183 2-40 (152)
162 PRK00432 30S ribosomal protein 39.2 16 0.00035 25.0 1.1 24 253-276 21-47 (50)
163 PF07191 zinc-ribbons_6: zinc- 39.1 13 0.00028 27.4 0.6 33 244-277 7-41 (70)
164 cd02013 TPP_Xsc_like Thiamine 39.0 2.3E+02 0.005 24.4 8.7 36 144-183 71-106 (196)
165 COG4530 Uncharacterized protei 38.5 14 0.0003 29.7 0.7 29 252-280 9-40 (129)
166 PRK06457 pyruvate dehydrogenas 38.3 1.6E+02 0.0035 29.8 8.6 71 144-218 415-506 (549)
167 PHA02768 hypothetical protein; 37.6 13 0.00028 26.1 0.4 28 250-277 3-42 (55)
168 PRK08978 acetolactate synthase 37.6 1.9E+02 0.0041 29.2 8.9 71 144-218 419-512 (548)
169 PRK08270 anaerobic ribonucleos 35.5 33 0.00071 36.0 3.1 22 240-261 627-648 (656)
170 PF08792 A2L_zn_ribbon: A2L zi 35.4 28 0.0006 21.7 1.6 22 241-262 5-31 (33)
171 PRK07586 hypothetical protein; 35.3 2.1E+02 0.0046 28.5 8.8 45 144-192 403-447 (514)
172 PRK08322 acetolactate synthase 35.0 1.9E+02 0.0041 29.1 8.5 71 144-218 424-515 (547)
173 PF07295 DUF1451: Protein of u 34.4 29 0.00063 29.2 2.1 34 242-275 101-139 (146)
174 PRK07064 hypothetical protein; 33.4 1.8E+02 0.004 29.2 8.1 71 144-218 423-515 (544)
175 cd02014 TPP_POX Thiamine pyrop 32.8 3E+02 0.0065 23.2 8.5 36 144-183 69-104 (178)
176 PRK09124 pyruvate dehydrogenas 32.8 2.1E+02 0.0046 29.1 8.4 71 144-218 426-517 (574)
177 cd02004 TPP_BZL_OCoD_HPCL Thia 32.6 2.7E+02 0.0059 23.2 7.9 36 144-183 66-101 (172)
178 PRK05452 anaerobic nitric oxid 32.1 32 0.0007 34.5 2.3 39 143-183 250-291 (479)
179 PRK07710 acetolactate synthase 32.0 2.5E+02 0.0054 28.5 8.8 71 144-218 442-535 (571)
180 COG1867 TRM1 N2,N2-dimethylgua 32.0 30 0.00066 33.6 2.0 30 251-280 237-271 (380)
181 TIGR00686 phnA alkylphosphonat 31.7 19 0.00042 28.7 0.6 26 254-279 4-32 (109)
182 PRK04860 hypothetical protein; 31.4 56 0.0012 27.9 3.4 15 169-183 42-56 (160)
183 PF01380 SIS: SIS domain SIS d 31.2 74 0.0016 24.8 3.9 43 146-194 56-98 (131)
184 PRK03681 hypA hydrogenase nick 30.9 35 0.00076 27.4 1.9 24 252-275 70-96 (114)
185 PRK06882 acetolactate synthase 30.9 2.6E+02 0.0056 28.4 8.7 71 144-218 439-532 (574)
186 PLN00209 ribosomal protein S27 30.8 22 0.00049 27.2 0.7 27 254-280 38-69 (86)
187 PF02701 zf-Dof: Dof domain, z 30.6 23 0.0005 25.5 0.7 44 251-294 4-59 (63)
188 PRK14714 DNA polymerase II lar 30.3 46 0.001 37.3 3.2 32 40-75 356-387 (1337)
189 PF06957 COPI_C: Coatomer (COP 29.8 28 0.00061 34.4 1.4 38 240-277 363-407 (422)
190 PF01936 NYN: NYN domain; Int 29.6 1.7E+02 0.0037 23.2 5.9 45 145-196 97-141 (146)
191 PHA00733 hypothetical protein 29.3 33 0.00072 28.1 1.6 30 251-280 72-113 (128)
192 COG1379 PHP family phosphoeste 29.2 17 0.00038 34.7 -0.1 42 160-206 151-193 (403)
193 KOG2462 C2H2-type Zn-finger pr 29.1 31 0.00068 32.1 1.5 13 268-280 163-175 (279)
194 PF10013 DUF2256: Uncharacteri 29.1 30 0.00065 22.9 1.0 13 265-277 6-19 (42)
195 PRK12380 hydrogenase nickel in 28.8 47 0.001 26.5 2.4 24 252-275 70-95 (113)
196 PRK06393 rpoE DNA-directed RNA 28.8 29 0.00062 25.2 1.0 22 254-277 7-28 (64)
197 PTZ00083 40S ribosomal protein 28.6 26 0.00055 26.8 0.7 27 254-280 37-68 (85)
198 KOG2858 Uncharacterized conser 28.4 19 0.00041 34.6 -0.0 18 249-266 26-43 (390)
199 TIGR01504 glyox_carbo_lig glyo 28.3 2.6E+02 0.0057 28.6 8.3 71 144-218 436-538 (588)
200 PRK11032 hypothetical protein; 27.9 55 0.0012 28.1 2.7 38 245-282 116-159 (160)
201 PRK07789 acetolactate synthase 27.9 2.6E+02 0.0057 28.7 8.2 71 144-218 465-562 (612)
202 PRK08351 DNA-directed RNA poly 27.7 33 0.00071 24.6 1.1 21 254-276 5-25 (61)
203 PRK08271 anaerobic ribonucleos 27.2 55 0.0012 34.1 3.0 24 240-263 567-591 (623)
204 PF09237 GAGA: GAGA factor; I 26.9 19 0.00041 25.0 -0.2 16 264-279 22-37 (54)
205 PRK10220 hypothetical protein; 26.8 32 0.00069 27.6 1.0 24 254-277 5-31 (111)
206 PF10263 SprT-like: SprT-like 26.6 40 0.00086 27.9 1.6 27 251-277 122-154 (157)
207 TIGR00280 L37a ribosomal prote 25.9 28 0.00061 27.0 0.5 35 252-286 35-73 (91)
208 PF03119 DNA_ligase_ZBD: NAD-d 25.4 30 0.00066 20.6 0.5 13 268-280 1-13 (28)
209 PRK07525 sulfoacetaldehyde ace 25.4 3.6E+02 0.0078 27.6 8.6 70 144-218 453-546 (588)
210 PRK06546 pyruvate dehydrogenas 25.4 3.4E+02 0.0074 27.7 8.5 43 144-190 426-468 (578)
211 KOG4602 Nanos and related prot 25.1 37 0.00081 31.3 1.2 21 251-271 267-295 (318)
212 PF03833 PolC_DP2: DNA polymer 25.1 24 0.00052 37.8 0.0 40 239-280 667-706 (900)
213 PRK04338 N(2),N(2)-dimethylgua 25.0 60 0.0013 31.6 2.7 31 250-280 240-275 (382)
214 COG3357 Predicted transcriptio 24.9 41 0.0009 26.1 1.3 27 254-280 60-90 (97)
215 PF10058 DUF2296: Predicted in 24.8 42 0.0009 23.4 1.2 12 250-261 42-53 (54)
216 PF01927 Mut7-C: Mut7-C RNAse 24.7 2.1E+02 0.0046 23.7 5.7 11 252-262 124-134 (147)
217 PF01667 Ribosomal_S27e: Ribos 24.7 26 0.00057 24.6 0.1 27 254-280 9-40 (55)
218 PRK06456 acetolactate synthase 24.5 4E+02 0.0087 27.0 8.8 46 144-193 439-484 (572)
219 TIGR02720 pyruv_oxi_spxB pyruv 24.2 4.4E+02 0.0095 26.9 9.0 71 144-218 426-517 (575)
220 cd02009 TPP_SHCHC_synthase Thi 24.2 2.5E+02 0.0055 23.6 6.3 36 144-183 68-103 (175)
221 PRK05858 hypothetical protein; 23.9 4.2E+02 0.0092 26.7 8.8 71 144-218 425-517 (542)
222 PF13465 zf-H2C2_2: Zinc-finge 23.9 49 0.0011 19.0 1.2 12 251-262 13-24 (26)
223 KOG2462 C2H2-type Zn-finger pr 23.5 45 0.00098 31.0 1.5 13 251-263 186-198 (279)
224 PRK08527 acetolactate synthase 23.4 4.3E+02 0.0092 26.8 8.7 70 144-217 432-524 (563)
225 PF11781 RRN7: RNA polymerase 23.2 32 0.00068 21.9 0.3 24 252-275 6-34 (36)
226 PRK09107 acetolactate synthase 23.1 4.8E+02 0.01 26.8 9.0 46 143-192 447-492 (595)
227 PF13912 zf-C2H2_6: C2H2-type 23.0 53 0.0012 18.6 1.2 11 253-263 2-12 (27)
228 TIGR02418 acolac_catab acetola 22.9 4.3E+02 0.0094 26.5 8.6 71 144-218 426-517 (539)
229 COG5415 Predicted integral mem 22.9 63 0.0014 29.0 2.2 22 241-262 197-224 (251)
230 KOG3362 Predicted BBOX Zn-fing 22.9 38 0.00082 28.5 0.8 27 238-266 117-143 (156)
231 PRK11827 hypothetical protein; 22.4 58 0.0013 23.3 1.5 27 253-279 9-39 (60)
232 PF09967 DUF2201: VWA-like dom 22.3 1.6E+02 0.0035 23.7 4.4 40 16-63 1-40 (126)
233 cd05008 SIS_GlmS_GlmD_1 SIS (S 22.2 1.3E+02 0.0028 23.4 3.8 33 162-196 61-93 (126)
234 PRK06965 acetolactate synthase 22.2 4.3E+02 0.0093 27.0 8.5 44 144-191 455-498 (587)
235 PF04216 FdhE: Protein involve 22.2 51 0.0011 30.6 1.6 26 253-278 198-223 (290)
236 KOG2164 Predicted E3 ubiquitin 22.1 39 0.00084 34.1 0.8 17 266-282 225-241 (513)
237 cd02005 TPP_PDC_IPDC Thiamine 22.0 3.9E+02 0.0085 22.7 7.0 71 144-218 68-160 (183)
238 PF04641 Rtf2: Rtf2 RING-finge 21.9 68 0.0015 29.4 2.3 22 258-279 135-163 (260)
239 PTZ00255 60S ribosomal protein 21.9 39 0.00084 26.2 0.6 32 252-283 36-71 (90)
240 PF09186 DUF1949: Domain of un 21.8 1.5E+02 0.0032 19.6 3.6 15 186-200 42-56 (56)
241 cd02002 TPP_BFDC Thiamine pyro 21.8 4.7E+02 0.01 21.7 9.0 48 144-195 67-114 (178)
242 cd01413 SIR2_Af2 SIR2_Af2: Arc 21.7 80 0.0017 28.1 2.7 35 241-277 104-147 (222)
243 KOG1984 Vesicle coat complex C 21.7 1.1E+03 0.024 25.9 16.8 226 12-264 416-688 (1007)
244 cd05014 SIS_Kpsf KpsF-like pro 21.5 1.1E+02 0.0025 23.8 3.4 44 146-195 50-93 (128)
245 PRK12474 hypothetical protein; 21.5 5E+02 0.011 26.0 8.7 46 143-192 406-451 (518)
246 PF01882 DUF58: Protein of unk 21.5 2.6E+02 0.0055 20.3 5.1 44 9-52 36-81 (86)
247 PF03660 PHF5: PHF5-like prote 21.4 34 0.00073 27.2 0.2 17 243-259 10-27 (106)
248 PF13913 zf-C2HC_2: zinc-finge 21.3 44 0.00095 19.3 0.6 13 267-279 3-15 (25)
249 PF02525 Flavodoxin_2: Flavodo 21.1 1.9E+02 0.0041 24.7 4.9 38 146-183 2-42 (199)
250 PF09297 zf-NADH-PPase: NADH p 21.1 35 0.00075 20.7 0.2 20 255-274 6-29 (32)
251 PF06906 DUF1272: Protein of u 21.0 40 0.00088 23.8 0.5 28 253-280 27-55 (57)
252 PF01155 HypA: Hydrogenase exp 21.0 39 0.00084 27.0 0.5 26 251-276 69-96 (113)
253 PF11405 Inhibitor_I67: Bromel 21.0 37 0.0008 21.5 0.3 21 260-280 9-29 (41)
254 PRK11269 glyoxylate carboligas 21.0 4.3E+02 0.0094 27.0 8.2 71 144-218 437-539 (591)
255 PF02775 TPP_enzyme_C: Thiamin 20.9 2E+02 0.0043 23.4 4.8 36 144-183 46-81 (153)
256 TIGR00100 hypA hydrogenase nic 20.8 75 0.0016 25.4 2.1 25 252-276 70-96 (115)
257 PRK03976 rpl37ae 50S ribosomal 20.8 40 0.00088 26.1 0.5 35 252-286 36-74 (90)
258 PF12874 zf-met: Zinc-finger o 20.6 65 0.0014 17.8 1.2 11 269-279 3-13 (25)
259 PF14803 Nudix_N_2: Nudix N-te 20.3 64 0.0014 20.3 1.2 11 252-262 22-32 (34)
260 COG3677 Transposase and inacti 20.2 61 0.0013 26.6 1.5 27 254-280 32-67 (129)
261 PF04423 Rad50_zn_hook: Rad50 20.1 39 0.00085 23.1 0.3 10 268-277 22-31 (54)
262 TIGR02827 RNR_anaer_Bdell anae 20.1 59 0.0013 33.6 1.7 20 241-260 534-554 (586)
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=5.1e-75 Score=534.47 Aligned_cols=256 Identities=50% Similarity=0.853 Sum_probs=225.2
Q ss_pred CCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC----CCCC----
Q 022374 13 VSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN----QSVG---- 82 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~----~~~~---- 82 (298)
||+|+||||+||..|.. .+..|.++++++++|+|+||++|+.|+|+|||++.++++||||.+.... +...
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 79999999999999998 5689999999999999999999999999999999999999999988211 0000
Q ss_pred CCCchhHH----HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCC---CCCCcEEEE-EEcCC
Q 022374 83 NGRMPSLC----ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGL---LHPQPRILC-LQGSP 154 (298)
Q Consensus 83 ~~~~~~~~----~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~---~~~~~rILi-i~~S~ 154 (298)
...+...+ +.|.+++++++++....... ...+.|+|||++|||||||+.+..+ .+.++|||| +++|+
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 00111222 24788888888875433221 2238999999999999999987654 589999999 89999
Q ss_pred CCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCC
Q 022374 155 DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPV 234 (298)
Q Consensus 155 d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~~l~~P~~~ 234 (298)
|.+.|||++||+||+|||++|+||||.|+..++.|||||||+|||+|+.+.++++|+||||++|+|+|..|+++.+|.+.
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 022374 235 GVDFRASCFCHKNTIDMGYICSVCLSIYCKHLK--KCSTCG 273 (298)
Q Consensus 235 ~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~~~--~C~~C~ 273 (298)
.|||||.||||++.+++|||||+||||||++|. +|+|||
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=1.1e-73 Score=524.39 Aligned_cols=259 Identities=36% Similarity=0.629 Sum_probs=226.5
Q ss_pred CCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCC----
Q 022374 12 DVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVG---- 82 (298)
Q Consensus 12 ~~s~L~iIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~---- 82 (298)
++|+|+||||+||..|+. ++..|.++++++++|+|+||++|+.|||+|||++.++++||||++..+.+...
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 479999999999999944 47799999999999999999999999999999999999999998754321111
Q ss_pred ----CCCchhH--H-HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcC--CCCCCcEEEEEEcC
Q 022374 83 ----NGRMPSL--C-ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSG--LLHPQPRILCLQGS 153 (298)
Q Consensus 83 ----~~~~~~~--~-~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~--~~~~~~rILii~~S 153 (298)
.+.+..+ + +.+.++|++++.+....... ..++.|+|||++|||||||+.++. ..+.++|||||++|
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 1112111 1 24888888888765332211 247889999999999999986543 35889999999999
Q ss_pred CCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCC--hHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCC
Q 022374 154 PDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQN--SAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLP 231 (298)
Q Consensus 154 ~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e--~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~~l~~P 231 (298)
+|.+.|||++||+||+|||+||+||||+|+ +| +.|||||||+|||+|+++.+++||+||||++|+|||..|+.|..|
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 022374 232 KPVGVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVF 276 (298)
Q Consensus 232 ~~~~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f 276 (298)
.+..+||||+||||++++++|||||+|+++||++|++|++||++|
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=2.1e-73 Score=506.51 Aligned_cols=282 Identities=37% Similarity=0.589 Sum_probs=244.3
Q ss_pred CCCCCCCCCCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC
Q 022374 4 APSKLYSDDVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN 78 (298)
Q Consensus 4 ~~~~~~~~~~s~L~iIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~ 78 (298)
+++..+++.+|+|+||||+||..|+. +...+..+++++.+|+|+||.+|+.|+|+|||++.+..+++||++...+
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 35556677899999999999998886 5568999999999999999999999999999999999999999755433
Q ss_pred CCC-----CCCC---chhHH----HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcC-CCCCCc
Q 022374 79 QSV-----GNGR---MPSLC----ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSG-LLHPQP 145 (298)
Q Consensus 79 ~~~-----~~~~---~~~~~----~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~-~~~~~~ 145 (298)
+.. .... +.+.+ +.|+++|..+|......+. ...+.|+|||+.||+|+||+.+++ .+..++
T Consensus 94 ~~n~~~~~~t~~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~------~~rt~lagals~~L~yi~~~~ke~~~~~lkS 167 (314)
T KOG2487|consen 94 DRNASELDPTRLVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDV------GDRTVLAGALSDALGYINRLHKEEASEKLKS 167 (314)
T ss_pred ccCccccCchhhhcchhhhhcccchHHHHHHHHHHhCcccccc------ccceeeccchhhccchHhhhhhhhhhhhhhc
Confidence 111 1111 11112 3489999999887643332 227899999999999999997654 467899
Q ss_pred EEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCcccc
Q 022374 146 RILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSR 225 (298)
Q Consensus 146 rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r 225 (298)
||||++.+.|...||+++|||||+|||+||+||||+|| +++.||||+||+|||.|+++.++++|+||||+.++|+|..|
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 99999999999999999999999999999999999995 78999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCCCceeeeeccCcccceeEcCCCCeeecCCCCCCccccccccccccCCCCCccccccccCC
Q 022374 226 NFLQLPKPVGVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQTQSDEPSATNRKRKTT 296 (298)
Q Consensus 226 ~~l~~P~~~~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~~~~~~~~~~~~~~~~~ 296 (298)
+.+..|.+..|||||.||||++++.+|||||+|||+||.++|+|++|++.|+.+. .|+++.+|||.+
T Consensus 247 ~~l~kpnh~~VDfRAtC~CH~~lv~iG~VCSVCLSVfC~~~PiC~~C~s~F~~t~----~Pv~p~~kkklk 313 (314)
T KOG2487|consen 247 AVLSKPNHNSVDFRATCYCHNRLVLIGFVCSVCLSVFCRFVPICKTCKSKFSFTK----YPVKPNRKKKLK 313 (314)
T ss_pred hhccCCCCCCcCcceeeeeecceeeeeeehHHHHHHhhCCCCccchhhhhccccc----Cccchhhhhhcc
Confidence 9999999999999999999999999999999999999999999999999998544 367777766653
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=1.1e-63 Score=434.31 Aligned_cols=261 Identities=31% Similarity=0.502 Sum_probs=231.5
Q ss_pred CCCCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC---CCC
Q 022374 7 KLYSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN---QSV 81 (298)
Q Consensus 7 ~~~~~~~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~---~~~ 81 (298)
.-.||.||+|+||||++|..|+. +..+.+.+|+.+.+|+|+|++.|+.|+|+|||.++.+.++|||++.+.. +.+
T Consensus 14 ~vteespslL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e 93 (296)
T COG5242 14 QVTEESPSLLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESE 93 (296)
T ss_pred cccccCCceEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhccc
Confidence 34577799999999999999998 6778999999999999999999999999999999999999999988754 111
Q ss_pred CCC--CchhHHH----HHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCC-
Q 022374 82 GNG--RMPSLCA----TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSP- 154 (298)
Q Consensus 82 ~~~--~~~~~~~----~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~- 154 (298)
+.. +|..-|+ ..++++..++..+... .....++|||+.+|.|+|++..+ ...++||||++.|.
T Consensus 94 ~tr~sd~yrrfr~vde~~i~eiyrl~e~~~k~--------sqr~~v~gams~glay~n~~~~e--~slkSriliftlsG~ 163 (296)
T COG5242 94 NTRNSDMYRRFRNVDETDITEIYRLIEHPHKN--------SQRYDVGGAMSLGLAYCNHRDEE--TSLKSRILIFTLSGR 163 (296)
T ss_pred CccchhhhhhhcccchHHHHHHHHHHhCcccc--------cceeehhhhhhhhHHHHhhhccc--ccccceEEEEEecCc
Confidence 111 1211122 3788888888776432 24678999999999999998544 57999999999875
Q ss_pred CCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCC
Q 022374 155 DGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPV 234 (298)
Q Consensus 155 d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~~l~~P~~~ 234 (298)
|...|||++|||||+|||.||+||||.++ +.+.||+|+||.|||+|+.+.+++||+|||++.++|++..|+.+.-|.+.
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 DRKDQYIPYMNCIFAAQKFGIPISVFSIF-GNSKFLLQCCDATGGDYLTVEDTEGLLQYLLSLLFTDGELRPLGVKPNHG 242 (296)
T ss_pred hhhhhhchhhhheeehhhcCCceEEEEec-CccHHHHHHhhccCCeeEeecCchhHHHHHHHHhcCCCCccccccCCCcc
Confidence 88999999999999999999999999994 77999999999999999999999999999999999999999999999999
Q ss_pred CCCCceeeeeccCcccceeEcCCCCeeecCCCCCCccccccccc
Q 022374 235 GVDFRASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQ 278 (298)
Q Consensus 235 ~vd~~a~C~CH~~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~ 278 (298)
.||||+.|+||++++++|||||+|||+||++.+.|++|.+.|..
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=4.5e-49 Score=358.14 Aligned_cols=235 Identities=15% Similarity=0.209 Sum_probs=217.6
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
||+||||.|.+|-++ +|+|+..+++.+..|+.+||+|||++|+++|..+++.|+.+...+||+ +.
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 899999999999999999999999999999999999999999999998 34
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
++++|+.+. + . .|.+||+|||++|...++.+ |.|.+||||||.+|. .+.|+.+|+.+|.+.++
T Consensus 129 hI~aL~~~~-~-----~------~g~fSLqNaLe~a~~~Lk~~----p~H~sREVLii~ssl-sT~DPgdi~~tI~~lk~ 191 (378)
T KOG2807|consen 129 HIHALKGLT-E-----C------SGDFSLQNALELAREVLKHM----PGHVSREVLIIFSSL-STCDPGDIYETIDKLKA 191 (378)
T ss_pred HHHHHhccc-c-----c------CCChHHHHHHHHHHHHhcCC----CcccceEEEEEEeee-cccCcccHHHHHHHHHh
Confidence 677776554 1 1 46899999999999999987 789999999999885 56777799999999999
Q ss_pred CCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccc------cccCCCCCCCCCceeeeecc
Q 022374 173 SMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRN------FLQLPKPVGVDFRASCFCHK 246 (298)
Q Consensus 173 ~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~------~l~~P~~~~vd~~a~C~CH~ 246 (298)
.||||+|++| ++|+.+++.+|..|||.|.++.|+.||..+|+.+..|||.... .||||++...+.++.|+||.
T Consensus 192 ~kIRvsvIgL-saEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~~~Pp~~~~~~~~sLvkmGFP~~~~e~~ps~C~CH~ 270 (378)
T KOG2807|consen 192 YKIRVSVIGL-SAEVFICKELCKATGGRYSVALDEGHLKELLLEHTHPPPANKSKECSLVKMGFPSRSPEDTPSFCACHS 270 (378)
T ss_pred hCeEEEEEee-chhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhcCCCCCcccccCCceEEecCCCcccccCcchheecc
Confidence 9999999999 6999999999999999999999999999999999998887543 68999999999999999999
Q ss_pred CcccceeEcCCCCeeecCCCCCCccccccccccc
Q 022374 247 NTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 247 ~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
.++..||.||+|.+++|++|..||+|+++|+++|
T Consensus 271 ~~~~~Gy~CP~CkakvCsLP~eCpiC~ltLVss~ 304 (378)
T KOG2807|consen 271 ELSGGGYFCPQCKAKVCSLPIECPICSLTLVSSP 304 (378)
T ss_pred ccccCceeCCcccCeeecCCccCCccceeEecch
Confidence 9999999999999999999999999999999998
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=2.5e-37 Score=279.95 Aligned_cols=236 Identities=16% Similarity=0.214 Sum_probs=208.2
Q ss_pred CeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022374 14 SLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (298)
Q Consensus 14 s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~ 91 (298)
-+|++|||+|.+|-+. .|.|...+++....|+-+||.|||++|++||..+++-++++....+|+ .
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 2
Q ss_pred HHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHH
Q 022374 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQ 171 (298)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAq 171 (298)
.++++|+.+.+ + .|..+|+|||+||.-.+-+. +.|..+|||||.||. .+.++..+..+|.++.
T Consensus 155 ~hi~~lkS~rd------~------~gnfSLqNaLEmar~~l~~~----~~H~trEvLiifgS~-st~DPgdi~~tid~Lv 217 (421)
T COG5151 155 AHIGQLKSKRD------C------SGNFSLQNALEMARIELMKN----TMHGTREVLIIFGST-STRDPGDIAETIDKLV 217 (421)
T ss_pred HHHHHhhcccc------c------CCChhHHhHHHHhhhhhccc----ccccceEEEEEEeec-ccCCCccHHHHHHHHH
Confidence 35666655531 1 35789999999995555443 579999999999985 4556668889999999
Q ss_pred cCCeeEEEEEcCCCChHHHHHHHhhc----CCeeeeeCCcchHHHHHHHhcCCCccccc-------cccCCCCCCCCCce
Q 022374 172 RSMVPIDSCYLGAQNSAFLQQASYIT----GGVHHKPQQLDGLFQYLLTIFGTDLHSRN-------FLQLPKPVGVDFRA 240 (298)
Q Consensus 172 k~~I~Idv~~L~~~e~~~LqQa~~~T----~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~-------~l~~P~~~~vd~~a 240 (298)
..+|||.+++| .+|+.|++.+|..| .|.|.++.++.||.+++.....|++.-.. .||||.+.--+.|+
T Consensus 218 ~~~IrV~~igL-~aevaicKeickaTn~~~e~~y~v~vde~Hl~el~~E~~~P~~~n~~k~~~sLVkmGFPs~~~E~~Ps 296 (421)
T COG5151 218 AYNIRVHFIGL-CAEVAICKEICKATNSSTEGRYYVPVDEGHLSELMRELSHPTDFNGTKTDLSLVKMGFPSPMMEQLPS 296 (421)
T ss_pred hhceEEEEEee-hhHHHHHHHHHhhcCcCcCceeEeeecHHHHHHHHHhcCCCCCCCccccCceEEEecCCchhhhcCcc
Confidence 99999999999 69999999999999 69999999999999999888877775321 68999988778999
Q ss_pred eeeeccCcccceeEcCCCCeeecCCCCCCccccccccccc
Q 022374 241 SCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 241 ~C~CH~~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
.|.||.+++..||.||+|.+++|.+|..||+|.+.|+++.
T Consensus 297 ~CaCHs~~~~gGy~CP~CktkVCsLPi~CP~Csl~Lilst 336 (421)
T COG5151 297 VCACHSEVKGGGYECPVCKTKVCSLPISCPICSLQLILST 336 (421)
T ss_pred ceeeeeeeccCceeCCcccceeecCCccCcchhHHHHHHH
Confidence 9999999999999999999999999999999999999765
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=9.9e-36 Score=259.90 Aligned_cols=177 Identities=16% Similarity=0.154 Sum_probs=160.8
Q ss_pred EEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHHH
Q 022374 19 LLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQN 96 (298)
Q Consensus 19 IlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~~ 96 (298)
|||+|..|-+. +|+|+..+++.+..|+.+||+|||++|+|||+++++.++.+.+.++|+ +.++++
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 69999999887 999999999999999999999999999999999999999999999998 457888
Q ss_pred HHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCee
Q 022374 97 LEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVP 176 (298)
Q Consensus 97 L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~ 176 (298)
|.++.+..+ .|+++|+|||++|...+..+ |.|.+||||||.+|. .+++..++..+|..+++.+||
T Consensus 68 L~~~~~~~~----------~G~~SLqN~Le~A~~~L~~~----p~~~srEIlvi~gSl-~t~Dp~di~~ti~~l~~~~Ir 132 (193)
T PF04056_consen 68 LKKLRKLEP----------SGEPSLQNGLEMARSSLKHM----PSHGSREILVIFGSL-TTCDPGDIHETIESLKKENIR 132 (193)
T ss_pred HHHhccCCC----------CCChhHHHHHHHHHHHHhhC----ccccceEEEEEEeec-ccCCchhHHHHHHHHHHcCCE
Confidence 877754321 47899999999999999876 679999999999885 466777999999999999999
Q ss_pred EEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccc
Q 022374 177 IDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHS 224 (298)
Q Consensus 177 Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~ 224 (298)
||||+| ++|+++||++|+.|||.|.++.|++||.+.|+.+..|||+.
T Consensus 133 vsvI~l-aaEv~I~k~i~~~T~G~y~V~lde~H~~~lL~~~~~PP~~~ 179 (193)
T PF04056_consen 133 VSVISL-AAEVYICKKICKETGGTYGVILDEDHFKELLMEHVPPPPTS 179 (193)
T ss_pred EEEEEE-hHHHHHHHHHHHhhCCEEEEecCHHHHHHHHHhhCCCCccc
Confidence 999999 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=99.85 E-value=6.4e-20 Score=159.97 Aligned_cols=177 Identities=14% Similarity=0.126 Sum_probs=141.5
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
.++|+||+|..|-.. .|+||..+-..+..|++.++..||..++++|+...+.++.+.|.+.+. +.
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 589999999999877 899999999999999999999999999999999889999999998765 22
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
++..|..++. . .+.+.|..||.+|+.++.+. +....++|+||..+.. ..+...+-+.+..+++
T Consensus 72 ~~~~L~~~~~------~------~G~t~l~~aL~~A~~~l~~~----~~~~~~~iiil~sd~~-~~~~~~~~~~~~~l~~ 134 (183)
T cd01453 72 HIQALKTARE------C------SGEPSLQNGLEMALESLKHM----PSHGSREVLIIFSSLS-TCDPGNIYETIDKLKK 134 (183)
T ss_pred HHHHhhcccC------C------CCchhHHHHHHHHHHHHhcC----CccCceEEEEEEcCCC-cCChhhHHHHHHHHHH
Confidence 4444543311 0 24589999999999988743 2344677888865422 1211234467888999
Q ss_pred CCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCc
Q 022374 173 SMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDL 222 (298)
Q Consensus 173 ~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~ 222 (298)
.+|+|+++++| .+..+||++|+.|||.|+.+.+.++|.+.+..+..|||
T Consensus 135 ~~I~v~~IgiG-~~~~~L~~ia~~tgG~~~~~~~~~~l~~~~~~~~~p~~ 183 (183)
T cd01453 135 ENIRVSVIGLS-AEMHICKEICKATNGTYKVILDETHLKELLLEHVTPPP 183 (183)
T ss_pred cCcEEEEEEec-hHHHHHHHHHHHhCCeeEeeCCHHHHHHHHHhcCCCCC
Confidence 99999999996 78899999999999999999999999998877655553
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=99.73 E-value=6.1e-16 Score=135.26 Aligned_cols=154 Identities=16% Similarity=0.177 Sum_probs=125.5
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
-.+|+||+|..|... +|+||....+.+..|+++|+.+||.+++|||+..++.+..+.|.+++. ..
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 478999999999877 899999999999999999999999999999999998999999998875 23
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCc-EEEEEEcCCCCChhhhHHHHHHHHHH
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQP-RILCLQGSPDGPEQYVAIMNAIFSAQ 171 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~-rILii~~S~d~~~qyi~lmN~ifaAq 171 (298)
++..|.++ . . .+.++|++||.+|+-.+.+. +.+.++ ||+|+.+|+ ...+...+.+++..++
T Consensus 72 ~~~~L~~i----~---~------~g~~~l~~AL~~A~~~L~~~----~~~~~~~rivi~v~S~-~~~d~~~i~~~~~~lk 133 (187)
T cd01452 72 ILSKLHDV----Q---P------KGKANFITGIQIAQLALKHR----QNKNQKQRIVAFVGSP-IEEDEKDLVKLAKRLK 133 (187)
T ss_pred HHHHHHhC----C---C------CCcchHHHHHHHHHHHHhcC----CCcCCcceEEEEEecC-CcCCHHHHHHHHHHHH
Confidence 44444322 1 1 25688999999999888764 455564 999999886 2234456789999999
Q ss_pred cCCeeEEEEEcCCC--ChHHHHHHHhhcCC
Q 022374 172 RSMVPIDSCYLGAQ--NSAFLQQASYITGG 199 (298)
Q Consensus 172 k~~I~Idv~~L~~~--e~~~LqQa~~~T~G 199 (298)
|+||+||++++|+. ....|+...+..++
T Consensus 134 k~~I~v~vI~~G~~~~~~~~l~~~~~~~~~ 163 (187)
T cd01452 134 KNNVSVDIINFGEIDDNTEKLTAFIDAVNG 163 (187)
T ss_pred HcCCeEEEEEeCCCCCCHHHHHHHHHHhcC
Confidence 99999999999843 46688888888864
No 10
>PRK13685 hypothetical protein; Provisional
Probab=99.13 E-value=5e-09 Score=99.22 Aligned_cols=176 Identities=14% Similarity=0.200 Sum_probs=120.1
Q ss_pred CCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCch
Q 022374 10 SDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMP 87 (298)
Q Consensus 10 ~~~~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~ 87 (298)
...+..++++||+|..|... .|+|+..+-+.+..|++.. .+..++++|+.. +.+..+.|.+.+.
T Consensus 85 ~~~~~~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l---~~~d~vglv~Fa-~~a~~~~p~t~d~---------- 150 (326)
T PRK13685 85 PRNRAVVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADEL---TPGINLGLIAFA-GTATVLVSPTTNR---------- 150 (326)
T ss_pred CCCCceEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhC---CCCCeEEEEEEc-CceeecCCCCCCH----------
Confidence 34456799999999999876 7899999999999998763 567899999987 4577777765432
Q ss_pred hHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhh---hcCCCCCCcEEEEEEcCCCC-Ch---hh
Q 022374 88 SLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVF---RSGLLHPQPRILCLQGSPDG-PE---QY 160 (298)
Q Consensus 88 ~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~---~~~~~~~~~rILii~~S~d~-~~---qy 160 (298)
+.+...|..+ .. .+.+.+..+|..|+..+.+.. .+......++|++++=..+. +. ..
T Consensus 151 ---~~l~~~l~~l----~~---------~~~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~ 214 (326)
T PRK13685 151 ---EATKNAIDKL----QL---------ADRTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNP 214 (326)
T ss_pred ---HHHHHHHHhC----CC---------CCCcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCc
Confidence 1233333322 11 124566778888887765421 11112335678777722221 11 11
Q ss_pred hHHHHHHHHHHcCCeeEEEEEcCCC---------------ChHHHHHHHhhcCCeeeeeCCcchHHHHHH
Q 022374 161 VAIMNAIFSAQRSMVPIDSCYLGAQ---------------NSAFLQQASYITGGVHHKPQQLDGLFQYLL 215 (298)
Q Consensus 161 i~lmN~ifaAqk~~I~Idv~~L~~~---------------e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll 215 (298)
...+.+...|++.+|+|.++.+|.. +...||++|+.|||.|+.+.+.+.|-+..-
T Consensus 215 ~~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~~L~~if~ 284 (326)
T PRK13685 215 RGAYTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDESLKKIAQLSGGEFYTAASLEELRAVYA 284 (326)
T ss_pred ccHHHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHHHHHHHHhcCCEEEEcCCHHHHHHHHH
Confidence 2345678888999999999999852 457999999999999999988776655443
No 11
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.12 E-value=6.6e-09 Score=87.02 Aligned_cols=164 Identities=15% Similarity=0.135 Sum_probs=109.5
Q ss_pred EEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHH
Q 022374 16 VVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATL 93 (298)
Q Consensus 16 L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i 93 (298)
+++++|.|..|... .+.++..+.+.+..+++.+ |.++++|+....+ +...+|.+.+. +.+
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 68999999999877 5678888888888888873 6779999998864 56677765332 234
Q ss_pred HHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcC
Q 022374 94 LQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRS 173 (298)
Q Consensus 94 ~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~ 173 (298)
.+.+.++...... .+.+.+..||..|..++... ...++++|+........++. +.+..+++.
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 5555444322111 24577888898888887753 12344444442222223333 477788999
Q ss_pred CeeEEEEEcCCCCh--HHHHHHHhhcCCeeeee-CCcchHHHHHH
Q 022374 174 MVPIDSCYLGAQNS--AFLQQASYITGGVHHKP-QQLDGLFQYLL 215 (298)
Q Consensus 174 ~I~Idv~~L~~~e~--~~LqQa~~~T~G~Y~~~-~~~~~L~q~Ll 215 (298)
+|+|.++.++..+. ..|++++..|||.|+.+ .+.+.|.+.|-
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 67777776553
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=99.08 E-value=1.2e-08 Score=87.42 Aligned_cols=161 Identities=11% Similarity=0.043 Sum_probs=102.0
Q ss_pred eEEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022374 15 LVVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~ 91 (298)
.++++||.|..|... .+.++..+-. .+..|+...+..+++||.... ..+.+.|..... .
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~----~~~~~~~~~~~~~v~lv~f~~-~~~~~~~~~~~~----------~--- 65 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKE----VLSDFIDRRENDRIGLVVFAG-AAFTQAPLTLDR----------E--- 65 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHH----HHHHHHHhCCCCeEEEEEEcC-CeeeccCCCccH----------H---
Confidence 589999999999655 2445654444 445566667888999999764 456666654322 1
Q ss_pred HHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHH
Q 022374 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQ 171 (298)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAq 171 (298)
.+.+.+..+.... . .+.+.+..+|..|+..+.+. ....+.|++++=..+ ...+.........++
T Consensus 66 ~~~~~l~~l~~~~-~---------~g~T~l~~al~~a~~~l~~~-----~~~~~~iiliTDG~~-~~g~~~~~~~~~~~~ 129 (180)
T cd01467 66 SLKELLEDIKIGL-A---------GQGTAIGDAIGLAIKRLKNS-----EAKERVIVLLTDGEN-NAGEIDPATAAELAK 129 (180)
T ss_pred HHHHHHHHhhhcc-c---------CCCCcHHHHHHHHHHHHHhc-----CCCCCEEEEEeCCCC-CCCCCCHHHHHHHHH
Confidence 1222232221110 0 13567888888888877543 122345555552211 122233334566778
Q ss_pred cCCeeEEEEEcCC------------CChHHHHHHHhhcCCeeeeeCCcch
Q 022374 172 RSMVPIDSCYLGA------------QNSAFLQQASYITGGVHHKPQQLDG 209 (298)
Q Consensus 172 k~~I~Idv~~L~~------------~e~~~LqQa~~~T~G~Y~~~~~~~~ 209 (298)
+.+|+|.++.+|. .+...|+++|+.|||.|+.+.+++.
T Consensus 130 ~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~ 179 (180)
T cd01467 130 NKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRALDGFE 179 (180)
T ss_pred HCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEecCccc
Confidence 8999999999985 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=98.95 E-value=1.4e-07 Score=79.66 Aligned_cols=168 Identities=18% Similarity=0.191 Sum_probs=108.5
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
|.-++++||.|..|... ++..+.+.+..|+.. ..+..+++||+..+. .+.++|...... ..
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 345668999887644 454554321110 00
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
-++.+.+++..-.. .+.+.+..+|..|+..+.+. ....+.|++|+-...... -.+.+.+..+.+
T Consensus 63 ~~~~~~~~l~~~~~---------~g~T~l~~al~~a~~~l~~~-----~~~~~~iillTDG~~~~~--~~~~~~~~~~~~ 126 (171)
T cd01461 63 NVAAAIEYVNRLQA---------LGGTNMNDALEAALELLNSS-----PGSVPQIILLTDGEVTNE--SQILKNVREALS 126 (171)
T ss_pred HHHHHHHHHHhcCC---------CCCcCHHHHHHHHHHhhccC-----CCCccEEEEEeCCCCCCH--HHHHHHHHHhcC
Confidence 12223333332111 14577888888887766531 234456666663222111 134566666777
Q ss_pred CCeeEEEEEcCC-CChHHHHHHHhhcCCeeeeeCCcchHHHHHH
Q 022374 173 SMVPIDSCYLGA-QNSAFLQQASYITGGVHHKPQQLDGLFQYLL 215 (298)
Q Consensus 173 ~~I~Idv~~L~~-~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll 215 (298)
.+|+|.++.+|. .+..+|+++|+.|||.|..+.+.+.+.+.|+
T Consensus 127 ~~i~i~~i~~g~~~~~~~l~~ia~~~gG~~~~~~~~~~~~~~~~ 170 (171)
T cd01461 127 GRIRLFTFGIGSDVNTYLLERLAREGRGIARRIYETDDIESQLL 170 (171)
T ss_pred CCceEEEEEeCCccCHHHHHHHHHcCCCeEEEecChHHHHHHhc
Confidence 799999999974 4789999999999999999999999888764
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=98.88 E-value=3.6e-07 Score=78.84 Aligned_cols=162 Identities=12% Similarity=0.090 Sum_probs=105.8
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
.++++||.|..|... .++..+...+..|+..-+ .+..+++||+..++.++++.|...+. ..+.
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 578999999999764 467776666666665433 46789999998766677777765432 1122
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhhh-HH-HHHHHHHH
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQYV-AI-MNAIFSAQ 171 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qyi-~l-mN~ifaAq 171 (298)
+.|..+ .. .+.+.|..+|..|+..+++.. . .....+.|++|+ |-++.+.+.. .. ......++
T Consensus 65 ~~l~~l----~~---------~G~T~l~~aL~~a~~~l~~~~-~-~~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~ 129 (178)
T cd01451 65 RRLARL----PT---------GGGTPLAAGLLAAYELAAEQA-R-DPGQRPLIVVITDGRANVGPDPTADRALAAARKLR 129 (178)
T ss_pred HHHHhC----CC---------CCCCcHHHHHHHHHHHHHHHh-c-CCCCceEEEEECCCCCCCCCCchhHHHHHHHHHHH
Confidence 333222 11 246789999999998883211 1 112235566665 2222111211 12 55677889
Q ss_pred cCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeCCcc
Q 022374 172 RSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQLD 208 (298)
Q Consensus 172 k~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~~~~ 208 (298)
+.+|.|.++..+.. +..+|+++|+.|||.|+.+.+.+
T Consensus 130 ~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~ 168 (178)
T cd01451 130 ARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLS 168 (178)
T ss_pred hcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCC
Confidence 99999999998632 35799999999999999988754
No 15
>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=98.87 E-value=4.4e-07 Score=76.70 Aligned_cols=164 Identities=9% Similarity=0.085 Sum_probs=107.4
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
.++++||.|..|-.. ++..+.+.+..++. ..++..+++||+..+ ..+.++|...... .
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 478999999999643 35555555554554 336678999998764 5677777543221 1
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CCCC-hhhhHHHHHHHHHHc
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PDGP-EQYVAIMNAIFSAQR 172 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d~~-~qyi~lmN~ifaAqk 172 (298)
+.+.+.+..-.. .+.+.+..+|..|+..+.+.. .....++|++++-. ++.+ ..+-.+...+..+++
T Consensus 60 ~~l~~~l~~~~~---------~g~T~~~~al~~a~~~~~~~~---~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~ 127 (170)
T cd01465 60 AAILAAIDRLTA---------GGSTAGGAGIQLGYQEAQKHF---VPGGVNRILLATDGDFNVGETDPDELARLVAQKRE 127 (170)
T ss_pred HHHHHHHHcCCC---------CCCCCHHHHHHHHHHHHHhhc---CCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhc
Confidence 223333222111 245788999999998887542 11223567777633 2222 122345566667788
Q ss_pred CCeeEEEEEcCCC-ChHHHHHHHhhcCCeeeeeCCcchHHH
Q 022374 173 SMVPIDSCYLGAQ-NSAFLQQASYITGGVHHKPQQLDGLFQ 212 (298)
Q Consensus 173 ~~I~Idv~~L~~~-e~~~LqQa~~~T~G~Y~~~~~~~~L~q 212 (298)
.+|+|.++.+|.. +...|+++|..++|.|+.+.+.+.+-+
T Consensus 128 ~~v~i~~i~~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~~~ 168 (170)
T cd01465 128 SGITLSTLGFGDNYNEDLMEAIADAGNGNTAYIDNLAEARK 168 (170)
T ss_pred CCeEEEEEEeCCCcCHHHHHHHHhcCCceEEEeCCHHHHHh
Confidence 9999999999733 678999999999999999988776544
No 16
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=98.85 E-value=1.6e-07 Score=79.24 Aligned_cols=151 Identities=16% Similarity=0.180 Sum_probs=97.1
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
+++|||.|..|... ++..+-+.+..+ ...| .+.++++||+..+ .+++++|...-.+ .-.+
T Consensus 3 v~~vlD~S~SM~~~---rl~~ak~a~~~l-~~~l--~~~~~~~li~F~~-~~~~~~~~~~~~~-------------~~~~ 62 (155)
T cd01466 3 LVAVLDVSGSMAGD---KLQLVKHALRFV-ISSL--GDADRLSIVTFST-SAKRLSPLRRMTA-------------KGKR 62 (155)
T ss_pred EEEEEECCCCCCcH---HHHHHHHHHHHH-HHhC--CCcceEEEEEecC-CccccCCCcccCH-------------HHHH
Confidence 68999999999764 566665555433 3333 3457899999764 5777887643221 0122
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.+.+.+..-.. .+.+.+..||..|...+.+. .......+|++|+-..+.. . .....+++.+|
T Consensus 63 ~~~~~i~~~~~---------~g~T~~~~al~~a~~~~~~~---~~~~~~~~iillTDG~~~~-~-----~~~~~~~~~~v 124 (155)
T cd01466 63 SAKRVVDGLQA---------GGGTNVVGGLKKALKVLGDR---RQKNPVASIMLLSDGQDNH-G-----AVVLRADNAPI 124 (155)
T ss_pred HHHHHHHhccC---------CCCccHHHHHHHHHHHHhhc---ccCCCceEEEEEcCCCCCc-c-----hhhhcccCCCc
Confidence 33333332111 24678999999998877542 1123345777777221111 1 23445677899
Q ss_pred eEEEEEcC-CCChHHHHHHHhhcCCeeeee
Q 022374 176 PIDSCYLG-AQNSAFLQQASYITGGVHHKP 204 (298)
Q Consensus 176 ~Idv~~L~-~~e~~~LqQa~~~T~G~Y~~~ 204 (298)
+|.++.+| ..+...|+++|+.|||.|+.+
T Consensus 125 ~v~~igig~~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 125 PIHTFGLGASHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred eEEEEecCCCCCHHHHHHHHhccCceEEEe
Confidence 99999997 357889999999999999876
No 17
>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=98.84 E-value=5e-07 Score=84.08 Aligned_cols=181 Identities=15% Similarity=0.089 Sum_probs=112.6
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022374 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (298)
Q Consensus 12 ~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~ 91 (298)
.|-.++++||+|..|-. .+..+.+++..|++..+ .+..+++||... +.++++.|...+. +
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 36789999999999964 37777888888887754 578999999877 4677777766543 2
Q ss_pred HHHHHHHHHHhhhhccCC--CCCCccccccchHHHHHHHHH-HHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHH
Q 022374 92 TLLQNLEEFMNKDEQLGK--QEPEGRIACSLLSGSLSMALC-YIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIF 168 (298)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~--~~~~~~~~~s~L~~aLs~ALc-~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~if 168 (298)
.+.+.|..+-........ .......+.+.|..||.+|.- .+.+.....| .++.|++|+-..+... ..++-.++.
T Consensus 112 ~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p--~rk~iIllTDG~~~~~-~~~~~~~~~ 188 (296)
T TIGR03436 112 LLEAALNRLKPPLRTDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIP--GRKALIVISDGGDNRS-RDTLERAID 188 (296)
T ss_pred HHHHHHHhccCCCccccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCC--CCeEEEEEecCCCcch-HHHHHHHHH
Confidence 345555544110000000 000001246678888766643 3333211111 3445555553333322 234566888
Q ss_pred HHHcCCeeEEEEEcCC--------------CChHHHHHHHhhcCCeeeeeCCcchHHHHHHH
Q 022374 169 SAQRSMVPIDSCYLGA--------------QNSAFLQQASYITGGVHHKPQQLDGLFQYLLT 216 (298)
Q Consensus 169 aAqk~~I~Idv~~L~~--------------~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~ 216 (298)
.|++.+|+|.+|.++. .....|+++|+.|||.|+.+ +.+.|.+.+..
T Consensus 189 ~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~-~~~~l~~~f~~ 249 (296)
T TIGR03436 189 AAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEALERLAEETGGRAFYV-NSNDLDGAFAQ 249 (296)
T ss_pred HHHHcCCEEEEeccCccccCCcccccccCCCcHHHHHHHHHHhCCeEecc-cCccHHHHHHH
Confidence 8999999999999952 13569999999999999887 66655544433
No 18
>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=98.79 E-value=4.8e-07 Score=79.79 Aligned_cols=174 Identities=13% Similarity=0.084 Sum_probs=105.3
Q ss_pred CCCCCCCCeEEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecC-----ceEEEecCCCCCC
Q 022374 7 KLYSDDVSLVVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYN-----SCDYVYDSSSTGN 78 (298)
Q Consensus 7 ~~~~~~~s~L~iIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~-----~a~~lyp~~~~~~ 78 (298)
......+..+++|||.|..|... .+.++..+-+.+..|++. +.+.++++||..... ..+.+.|......
T Consensus 14 ~~~~~~~~~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~ 90 (206)
T cd01456 14 ETEPQLPPNVAIVLDNSGSMREVDGGGETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTA 90 (206)
T ss_pred ccccCCCCcEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCCcccccccccccccc
Confidence 34555678999999999999842 467899988888888875 356789999997652 1233333111100
Q ss_pred CCCCCCCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CCCC
Q 022374 79 QSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PDGP 157 (298)
Q Consensus 79 ~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d~~ 157 (298)
... +......+.+.+.|..+. . . .+.+.|..+|..|+.++. + ...++|++|+-. .+..
T Consensus 91 ~~~--~~~~~~~~~l~~~i~~i~--~-~---------~G~T~l~~aL~~a~~~l~------~-~~~~~iillTDG~~~~~ 149 (206)
T cd01456 91 PVN--GFPSAQRSALDAALNSLQ--T-P---------TGWTPLAAALAEAAAYVD------P-GRVNVVVLITDGEDTCG 149 (206)
T ss_pred ccC--CCCcccHHHHHHHHHhhc--C-C---------CCcChHHHHHHHHHHHhC------C-CCcceEEEEcCCCccCC
Confidence 000 000001112333333331 0 1 256889999999988764 1 112678888733 2222
Q ss_pred hhhhHHHHHHHHHHc----CCeeEEEEEcCCC-ChHHHHHHHhhcCCee-eeeCC
Q 022374 158 EQYVAIMNAIFSAQR----SMVPIDSCYLGAQ-NSAFLQQASYITGGVH-HKPQQ 206 (298)
Q Consensus 158 ~qyi~lmN~ifaAqk----~~I~Idv~~L~~~-e~~~LqQa~~~T~G~Y-~~~~~ 206 (298)
.+.... +-..++. .+|+|.++.+|.. +..+|+++|+.|||.| +...+
T Consensus 150 ~~~~~~--~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~iA~~tgG~~~~~~~~ 202 (206)
T cd01456 150 PDPCEV--ARELAKRRTPAPPIKVNVIDFGGDADRAELEAIAEATGGTYAYNQSD 202 (206)
T ss_pred CCHHHH--HHHHHHhcCCCCCceEEEEEecCcccHHHHHHHHHhcCCeEeccccc
Confidence 222222 2222333 5999999999743 5789999999999999 65544
No 19
>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=98.69 E-value=1.6e-06 Score=72.86 Aligned_cols=161 Identities=16% Similarity=0.116 Sum_probs=109.3
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
-+++++|.|..|- ..++..+.+.+..|+..+...++..+++|+...++. ....|...... .+.+.
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 4789999999995 346888888899999999988899999999988643 44455431110 12344
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCC
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
+.+..+.-. . .+.+.+..||..|+..+............+.|++|+-..+. ++-.+...+..+++.+
T Consensus 68 ~~i~~~~~~-----~------~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~--~~~~~~~~~~~~~~~~ 134 (177)
T smart00327 68 EALASLSYK-----L------GGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESN--DGGDLLKAAKELKRSG 134 (177)
T ss_pred HHHHhcCCC-----C------CCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCC--CCccHHHHHHHHHHCC
Confidence 444433210 0 24578899998888776522111111123455555522211 1135567899999999
Q ss_pred eeEEEEEcCCC-ChHHHHHHHhhcCCeeee
Q 022374 175 VPIDSCYLGAQ-NSAFLQQASYITGGVHHK 203 (298)
Q Consensus 175 I~Idv~~L~~~-e~~~LqQa~~~T~G~Y~~ 203 (298)
|.|.++.++.. ....+++++..++|.|..
T Consensus 135 i~i~~i~~~~~~~~~~l~~~~~~~~~~~~~ 164 (177)
T smart00327 135 VKVFVVGVGNDVDEEELKKLASAPGGVYVF 164 (177)
T ss_pred CEEEEEEccCccCHHHHHHHhCCCcceEEe
Confidence 99999999755 799999999999999975
No 20
>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=98.68 E-value=1.2e-06 Score=74.19 Aligned_cols=159 Identities=10% Similarity=0.033 Sum_probs=102.8
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
++++||.|..|+.. ++..+.+.+..+++.+...+...+++||... +.++.+.|.....+ . +.+.+
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 4666666677777766545556799999866 56777777653211 0 22344
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.|..+-. . .+.+.+..||..|...+.... .......++++|+..-..... ........+++.+|
T Consensus 68 ~l~~l~~----~--------~g~T~~~~al~~a~~~l~~~~-~~~~~~~~~~iiliTDG~~~~---~~~~~~~~l~~~gv 131 (164)
T cd01472 68 AVKNLRY----I--------GGGTNTGKALKYVRENLFTEA-SGSREGVPKVLVVITDGKSQD---DVEEPAVELKQAGI 131 (164)
T ss_pred HHHhCcC----C--------CCCchHHHHHHHHHHHhCCcc-cCCCCCCCEEEEEEcCCCCCc---hHHHHHHHHHHCCC
Confidence 4443311 0 134678889988888776431 011223345544442212222 22345566778999
Q ss_pred eEEEEEcCCCChHHHHHHHhhcCCeeeeeC
Q 022374 176 PIDSCYLGAQNSAFLQQASYITGGVHHKPQ 205 (298)
Q Consensus 176 ~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~ 205 (298)
+|-++++|..+...|+++|..++|.|.-..
T Consensus 132 ~i~~ig~g~~~~~~L~~ia~~~~~~~~~~~ 161 (164)
T cd01472 132 EVFAVGVKNADEEELKQIASDPKELYVFNV 161 (164)
T ss_pred EEEEEECCcCCHHHHHHHHCCCchheEEec
Confidence 999999986799999999999999997654
No 21
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.64 E-value=2e-06 Score=72.03 Aligned_cols=150 Identities=23% Similarity=0.271 Sum_probs=96.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
+++|||+|..|-... ..+-+.+..+++. +.+.-++.||+..+ ..+.++|.....+ ..-++
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 799999999997763 4455555666655 66777899998875 6677777532211 11223
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhhhHHHHHHHHHHcCC
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
.+.+.++.-.. +.|.+.+..||..|+.... +....+.|++++ |.++...+ .+.+.+..+. .+
T Consensus 63 ~a~~~I~~~~~--------~~G~t~l~~aL~~a~~~~~------~~~~~~~IilltDG~~~~~~~--~i~~~v~~~~-~~ 125 (155)
T PF13768_consen 63 EALQWIKSLEA--------NSGGTDLLAALRAALALLQ------RPGCVRAIILLTDGQPVSGEE--EILDLVRRAR-GH 125 (155)
T ss_pred HHHHHHHHhcc--------cCCCccHHHHHHHHHHhcc------cCCCccEEEEEEeccCCCCHH--HHHHHHHhcC-CC
Confidence 33333333211 0256788888988876441 234566777777 44333332 4445554433 67
Q ss_pred eeEEEEEcCC-CChHHHHHHHhhcCCeee
Q 022374 175 VPIDSCYLGA-QNSAFLQQASYITGGVHH 202 (298)
Q Consensus 175 I~Idv~~L~~-~e~~~LqQa~~~T~G~Y~ 202 (298)
++|.++++|. .+..+|+++|..|+|.|.
T Consensus 126 ~~i~~~~~g~~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 126 IRIFTFGIGSDADADFLRELARATGGSFH 154 (155)
T ss_pred ceEEEEEECChhHHHHHHHHHHcCCCEEE
Confidence 9999999985 367799999999999995
No 22
>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=98.63 E-value=3.9e-06 Score=72.94 Aligned_cols=172 Identities=12% Similarity=0.039 Sum_probs=110.6
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC------CCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL------NQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~------n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~ 88 (298)
-++++||.|..|-.. ++....+.+..|++.++.. +...+++||... ..++..+|...... +
T Consensus 4 dvv~vlD~S~Sm~~~---~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs-~~~~~~~~l~~~~~---------~ 70 (186)
T cd01480 4 DITFVLDSSESVGLQ---NFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYS-DQQEVEAGFLRDIR---------N 70 (186)
T ss_pred eEEEEEeCCCccchh---hHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEec-CCceeeEecccccC---------C
Confidence 478999999988643 5776777777788887653 445799999877 45677777753110 0
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHH
Q 022374 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIF 168 (298)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~if 168 (298)
. ..+.+.|..+- .. .+.+.+..||..|...+.+- ......+.|++++-..........+.+++.
T Consensus 71 ~-~~l~~~i~~l~----~~--------gg~T~~~~AL~~a~~~l~~~---~~~~~~~~iillTDG~~~~~~~~~~~~~~~ 134 (186)
T cd01480 71 Y-TSLKEAVDNLE----YI--------GGGTFTDCALKYATEQLLEG---SHQKENKFLLVITDGHSDGSPDGGIEKAVN 134 (186)
T ss_pred H-HHHHHHHHhCc----cC--------CCCccHHHHHHHHHHHHhcc---CCCCCceEEEEEeCCCcCCCcchhHHHHHH
Confidence 0 12344443321 00 13577888898888777641 122344555555522111111234567788
Q ss_pred HHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcC
Q 022374 169 SAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFG 219 (298)
Q Consensus 169 aAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~ 219 (298)
.+++.+|.|-++.+|..+...|+++|...+|.|+.. .+.+++..+|+
T Consensus 135 ~~~~~gi~i~~vgig~~~~~~L~~IA~~~~~~~~~~----~~~~l~~~~~~ 181 (186)
T cd01480 135 EADHLGIKIFFVAVGSQNEEPLSRIACDGKSALYRE----NFAELLWSFFI 181 (186)
T ss_pred HHHHCCCEEEEEecCccchHHHHHHHcCCcchhhhc----chhhhcccccc
Confidence 899999999999998778889999999999987643 34444444444
No 23
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=98.62 E-value=3.1e-06 Score=88.93 Aligned_cols=160 Identities=14% Similarity=0.145 Sum_probs=110.1
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
.++||||.|..|-.. .|+..+-+++..|+...+ .+..+++||+..+ .+.++.|+..-.. ....
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 588999999999654 367776677777877664 5678999998774 5677777654221 0113
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCC
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
++|...+...+ .+.+.|..||.+|+..+++... ....+.|++|+=..+.. .-.++..+++.+
T Consensus 369 ~aL~~~L~~~A----------~GGT~I~~GL~~Alq~L~~~~~---~~~~~~IILLTDGedn~-----~~~~l~~lk~~g 430 (863)
T TIGR00868 369 DALTANLPTAA----------SGGTSICSGLKAAFQVIKKSYQ---STDGSEIVLLTDGEDNT-----ISSCFEEVKQSG 430 (863)
T ss_pred HHHHHhhcccc----------CCCCcHHHHHHHHHHHHHhccc---ccCCCEEEEEeCCCCCC-----HHHHHHHHHHcC
Confidence 33333332111 2568999999999998886421 12345677776222221 235677888999
Q ss_pred eeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcch
Q 022374 175 VPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDG 209 (298)
Q Consensus 175 I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~ 209 (298)
|+|.++.+|......|+++|+.|||.|+.+.+.+.
T Consensus 431 VtI~TIg~G~dad~~L~~IA~~TGG~~f~asd~~d 465 (863)
T TIGR00868 431 AIIHTIALGPSAAKELEELSDMTGGLRFYASDQAD 465 (863)
T ss_pred CEEEEEEeCCChHHHHHHHHHhcCCEEEEeCCHHH
Confidence 99999999866666799999999999999887553
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=98.58 E-value=6.2e-06 Score=72.37 Aligned_cols=177 Identities=11% Similarity=0.030 Sum_probs=104.3
Q ss_pred eEEEEEeCCcccc-----ccC-CccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh
Q 022374 15 LVVVLLDTNPFFW-----SSS-SLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS 88 (298)
Q Consensus 15 ~L~iIlD~s~~~w-----~~~-~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~ 88 (298)
.|.++||+|.+|. ..+ ..||..+......| ..|....+.-.+++ .+.+.++-|..-..+ + ..+...
T Consensus 2 ~l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f-~~f~~~r~~DriG~----~g~~~~~~~lt~d~p-~--t~d~~~ 73 (191)
T cd01455 2 RLKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAF-DGFEDKIQYDIIGH----SGDGPCVPFVKTNHP-P--KNNKER 73 (191)
T ss_pred ceEEEEECcHhHHHHhccCCccccHHHHHHHHHHHH-HHHHHhCccceeee----cCcccccCccccccC-c--ccchhH
Confidence 4889999999993 333 45676666665556 44566677766673 444444333222110 0 000111
Q ss_pred HHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CCCChhhhHHHH-H
Q 022374 89 LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PDGPEQYVAIMN-A 166 (298)
Q Consensus 89 ~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d~~~qyi~lmN-~ 166 (298)
++.+..++.+.. .+- .++... .||.+|+..+.+. ...++|++|+-.- .+...+ ++=.. .
T Consensus 74 -----~~~l~~~l~~~q-~g~------ag~~Ta-dAi~~av~rl~~~-----~~a~~kvvILLTDG~n~~~~-i~P~~aA 134 (191)
T cd01455 74 -----LETLKMMHAHSQ-FCW------SGDHTV-EATEFAIKELAAK-----EDFDEAIVIVLSDANLERYG-IQPKKLA 134 (191)
T ss_pred -----HHHHHHHHHhcc-cCc------cCccHH-HHHHHHHHHHHhc-----CcCCCcEEEEEeCCCcCCCC-CChHHHH
Confidence 233344443321 111 122222 7888887766421 1234566666522 222222 22233 3
Q ss_pred HHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhc
Q 022374 167 IFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 167 ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~ 218 (298)
...|++.+|+|-+|.+|..+-..|++++++|||.|+++.+.+.|-+.+-..|
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 5668899999999999865777899999999999999999888777665544
No 25
>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=98.58 E-value=3.1e-06 Score=73.68 Aligned_cols=167 Identities=16% Similarity=0.161 Sum_probs=99.5
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022374 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~ 90 (298)
..|..++++||.|..|... ++..+-+.+..++.. +.+..+++||+.. +.++.++|........ . .....
T Consensus 11 ~~p~~vv~llD~SgSM~~~---~l~~ak~~~~~ll~~---l~~~d~v~lv~F~-~~~~~~~~~~~~~~~~---~-~~~~~ 79 (190)
T cd01463 11 TSPKDIVILLDVSGSMTGQ---RLHLAKQTVSSILDT---LSDNDFFNIITFS-NEVNPVVPCFNDTLVQ---A-TTSNK 79 (190)
T ss_pred cCCceEEEEEECCCCCCcH---HHHHHHHHHHHHHHh---CCCCCEEEEEEeC-CCeeEEeeecccceEe---c-CHHHH
Confidence 4688999999999999753 566555555555543 3566699999876 4577777754321000 0 00011
Q ss_pred HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhh----cCCCCCCcEEEEEE-cCCCCChhhhHHHH
Q 022374 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR----SGLLHPQPRILCLQ-GSPDGPEQYVAIMN 165 (298)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~----~~~~~~~~rILii~-~S~d~~~qyi~lmN 165 (298)
+.+.+.|..+ .. .|.+.+..||..|+..+.+... .......+.|++|+ |.++. .. +
T Consensus 80 ~~~~~~l~~l----~~---------~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~---~~---~ 140 (190)
T cd01463 80 KVLKEALDML----EA---------KGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPEN---YK---E 140 (190)
T ss_pred HHHHHHHhhC----CC---------CCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCc---Hh---H
Confidence 1233333221 10 2456788899999888775210 01123344566676 32222 11 2
Q ss_pred HHHHHH--c---CCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeCCc
Q 022374 166 AIFSAQ--R---SMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQL 207 (298)
Q Consensus 166 ~ifaAq--k---~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~~~ 207 (298)
.+.... + .+|+|.++++|.. +..+||++|..+||.|..+.+.
T Consensus 141 ~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 141 IFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred HHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhcCCeEEEcccC
Confidence 222222 2 2599999999843 5789999999999999998764
No 26
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=98.54 E-value=9.6e-06 Score=66.06 Aligned_cols=157 Identities=15% Similarity=0.171 Sum_probs=103.2
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
.++++||.|..| .+.++..+.+.+..++..+...+...+++|++..+ ....+.+...... . +.+.
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 478999999999 23468888888888888888888899999999875 3455555443110 0 1233
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCC
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
+.+..+.. .. .+.+.+..||..|+..+.+.. .....+.|++|+-.. .......+-..+..+++.+
T Consensus 67 ~~~~~~~~-----~~------~~~t~~~~al~~~~~~~~~~~---~~~~~~~lvvitDg~-~~~~~~~~~~~~~~~~~~~ 131 (161)
T cd00198 67 EAIDALKK-----GL------GGGTNIGAALRLALELLKSAK---RPNARRVIILLTDGE-PNDGPELLAEAARELRKLG 131 (161)
T ss_pred HHHHhccc-----CC------CCCccHHHHHHHHHHHhcccC---CCCCceEEEEEeCCC-CCCCcchhHHHHHHHHHcC
Confidence 34433211 00 245678888888887776531 122344455555222 2211124556788899999
Q ss_pred eeEEEEEcCC-CChHHHHHHHhhc-CCee
Q 022374 175 VPIDSCYLGA-QNSAFLQQASYIT-GGVH 201 (298)
Q Consensus 175 I~Idv~~L~~-~e~~~LqQa~~~T-~G~Y 201 (298)
|.|.++.++. .....|+.++..| +|.|
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 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=98.53 E-value=8.7e-06 Score=70.55 Aligned_cols=165 Identities=10% Similarity=-0.013 Sum_probs=103.2
Q ss_pred CeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHH
Q 022374 14 SLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATL 93 (298)
Q Consensus 14 s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i 93 (298)
--++++||.|..|-.. +...++.+..++..|. ++..+++||... +.++.++|.+... +.+
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 3589999999998643 2233344555666553 467999999876 5678888876533 123
Q ss_pred HHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhhhHHHHHHHHHHc
Q 022374 94 LQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 94 ~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qyi~lmN~ifaAqk 172 (298)
.+.+..+-.-.+ .+.+.+..||..|...+.+........ .+.|++|+ |.+ ..............+++
T Consensus 65 ~~~l~~l~~~~~----------~g~T~~~~aL~~a~~~l~~~~~~~r~~-~~~villTDG~~-~~~~~~~~~~~a~~l~~ 132 (185)
T cd01474 65 IKGLEVLKKVTP----------SGQTYIHEGLENANEQIFNRNGGGRET-VSVIIALTDGQL-LLNGHKYPEHEAKLSRK 132 (185)
T ss_pred HHHHHHHhccCC----------CCCCcHHHHHHHHHHHHHhhccCCCCC-CeEEEEEcCCCc-CCCCCcchHHHHHHHHH
Confidence 333332211110 246788999999988775432111112 23445554 222 11112223456778899
Q ss_pred CCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchH
Q 022374 173 SMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGL 210 (298)
Q Consensus 173 ~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L 210 (298)
.+|+|-+++++..+...|+++|..+++.|....+.+.|
T Consensus 133 ~gv~i~~vgv~~~~~~~L~~iA~~~~~~f~~~~~~~~l 170 (185)
T cd01474 133 LGAIVYCVGVTDFLKSQLINIADSKEYVFPVTSGFQAL 170 (185)
T ss_pred cCCEEEEEeechhhHHHHHHHhCCCCeeEecCccHHHH
Confidence 99999999997667889999999998888666554444
No 28
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.53 E-value=3.3e-08 Score=78.99 Aligned_cols=29 Identities=28% Similarity=0.750 Sum_probs=28.4
Q ss_pred eeEcCCCCeeecCCCCCCccccccccccc
Q 022374 252 GYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 252 GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
||+||+|.+++|++|..|++||++|++++
T Consensus 1 GY~CPrC~skvC~LP~~CpiCgLtLVss~ 29 (112)
T TIGR00622 1 GYFCPQCRAKVCELPVECPICGLTLILST 29 (112)
T ss_pred CccCCCCCCCccCCCCcCCcCCCEEeccc
Confidence 89999999999999999999999999988
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=98.52 E-value=1.8e-05 Score=69.31 Aligned_cols=176 Identities=11% Similarity=0.120 Sum_probs=103.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
++++||.|..|-. .+|..+-+.+..|++..-.....-+++||... +.++.++|....... +. ..+++
T Consensus 3 i~~vlD~SgSM~~---~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs-~~~~~~~~~~~~~~~--------~~-~~~~~ 69 (198)
T cd01470 3 IYIALDASDSIGE---EDFDEAKNAIKTLIEKISSYEVSPRYEIISYA-SDPKEIVSIRDFNSN--------DA-DDVIK 69 (198)
T ss_pred EEEEEECCCCccH---HHHHHHHHHHHHHHHHccccCCCceEEEEEec-CCceEEEecccCCCC--------CH-HHHHH
Confidence 7899999998853 36777666666677665444456789998865 456778876532210 00 12444
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhc---CCCCCCcEEEEEE-cCCCCChhhhHHHHHHHHH-
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS---GLLHPQPRILCLQ-GSPDGPEQYVAIMNAIFSA- 170 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~---~~~~~~~rILii~-~S~d~~~qyi~lmN~ifaA- 170 (298)
.|..+--... + ..+.+.+..||..|...+.+.... .....++.|++|+ |-++...+.......+..+
T Consensus 70 ~l~~~~~~~~--~------~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~~~~ 141 (198)
T cd01470 70 RLEDFNYDDH--G------DKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIKNLV 141 (198)
T ss_pred HHHhCCcccc--c------CccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHHHHH
Confidence 4433311000 0 013467888888887766432111 0123455566676 3232222333333333332
Q ss_pred ---------HcCCeeEEEEEcCC-CChHHHHHHHhhcCC--eeeeeCCcchHHH
Q 022374 171 ---------QRSMVPIDSCYLGA-QNSAFLQQASYITGG--VHHKPQQLDGLFQ 212 (298)
Q Consensus 171 ---------qk~~I~Idv~~L~~-~e~~~LqQa~~~T~G--~Y~~~~~~~~L~q 212 (298)
++.+|+|.++++|. .+...|+++|..|+| .|+.+.+.+.|-+
T Consensus 142 ~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L~~iA~~~~g~~~~f~~~~~~~l~~ 195 (198)
T cd01470 142 YKNNKSDNPREDYLDVYVFGVGDDVNKEELNDLASKKDNERHFFKLKDYEDLQE 195 (198)
T ss_pred hcccccccchhcceeEEEEecCcccCHHHHHHHhcCCCCCceEEEeCCHHHHHH
Confidence 55689999999974 478899999999999 4677777666554
No 30
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.41 E-value=2.7e-05 Score=66.12 Aligned_cols=157 Identities=10% Similarity=-0.017 Sum_probs=101.2
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
++++||.|..|-.. ++..+.+.+..+++.+-...+..+++||.... .++..+|...... . +.+.+
T Consensus 3 v~~vlD~S~Sm~~~---~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs~-~~~~~~~l~~~~~----------~-~~l~~ 67 (164)
T cd01482 3 IVFLVDGSWSIGRS---NFNLVRSFLSSVVEAFEIGPDGVQVGLVQYSD-DPRTEFDLNAYTS----------K-EDVLA 67 (164)
T ss_pred EEEEEeCCCCcChh---hHHHHHHHHHHHHhheeeCCCceEEEEEEECC-CeeEEEecCCCCC----------H-HHHHH
Confidence 78999999988543 57777777777888764456788999999774 4677777653221 0 22344
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.|.++.- . .+.+.+..||..|...+.+...+.... .++++||..-.. +.+ .+......+++.+|
T Consensus 68 ~l~~~~~----~--------~g~T~~~~aL~~a~~~~~~~~~~~r~~-~~k~iillTDG~-~~~--~~~~~a~~lk~~gi 131 (164)
T cd01482 68 AIKNLPY----K--------GGNTRTGKALTHVREKNFTPDAGARPG-VPKVVILITDGK-SQD--DVELPARVLRNLGV 131 (164)
T ss_pred HHHhCcC----C--------CCCChHHHHHHHHHHHhcccccCCCCC-CCEEEEEEcCCC-CCc--hHHHHHHHHHHCCC
Confidence 4433210 0 135678888887776553321111222 345444442211 111 45677889999999
Q ss_pred eEEEEEcCCCChHHHHHHHhhcCCeeee
Q 022374 176 PIDSCYLGAQNSAFLQQASYITGGVHHK 203 (298)
Q Consensus 176 ~Idv~~L~~~e~~~LqQa~~~T~G~Y~~ 203 (298)
.|-+++++.++...|++++..+++.++-
T Consensus 132 ~i~~ig~g~~~~~~L~~ia~~~~~~~~~ 159 (164)
T cd01482 132 NVFAVGVKDADESELKMIASKPSETHVF 159 (164)
T ss_pred EEEEEecCcCCHHHHHHHhCCCchheEE
Confidence 9999999877788999999998765543
No 31
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=98.36 E-value=2.5e-05 Score=79.55 Aligned_cols=163 Identities=11% Similarity=0.054 Sum_probs=114.4
Q ss_pred CCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhH
Q 022374 10 SDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSL 89 (298)
Q Consensus 10 ~~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~ 89 (298)
...+..++++||+|-+|... ++..+-..+..|+.. ...+..+|+||+.....++++.|.+.+.
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 44568999999999999543 788888888888765 2346779999999888899999976643
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCC--------hhh
Q 022374 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGP--------EQY 160 (298)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~--------~qy 160 (298)
..+.+.|..+ . . .+.+.|..||..|...+.+... ....+.|++|+ |-...+ ...
T Consensus 461 -~~~~~~L~~l----~---~------gGgTpL~~gL~~A~~~l~~~~~---~~~~~~iVLlTDG~~n~~~~~~~~~~~~~ 523 (584)
T PRK13406 461 -VRAKRSLAGL----P---G------GGGTPLAAGLDAAAALALQVRR---KGMTPTVVLLTDGRANIARDGTAGRAQAE 523 (584)
T ss_pred -HHHHHHHhcC----C---C------CCCChHHHHHHHHHHHHHHhcc---CCCceEEEEEeCCCCCCCccccccccchh
Confidence 1233333322 1 0 2568899999999998876532 12356677776 222111 111
Q ss_pred hHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCC
Q 022374 161 VAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQ 206 (298)
Q Consensus 161 i~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~ 206 (298)
.........+.+.+|++-+|-.+.....+++++|+.|||.|+.+.+
T Consensus 524 ~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~y~~l~~ 569 (584)
T PRK13406 524 EDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGARYLPLPR 569 (584)
T ss_pred hHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCeEEECCC
Confidence 2345567778889999999998655556899999999999998875
No 32
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=98.35 E-value=3.6e-05 Score=63.68 Aligned_cols=156 Identities=10% Similarity=0.064 Sum_probs=102.4
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
+++|||.|..|-.. .+..+.+.+..|+..+....+.-+++++...+ ......+.....+ .+.+.+
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 57899999988643 56777777777777777777788999998775 4566666655431 022344
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CCCChhhhHHHHHHHHHHcCC
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d~~~qyi~lmN~ifaAqk~~ 174 (298)
.+..+.... .+.+.+..||..|...+.+... .....++++|+... .+.... ..-+.+..+++.+
T Consensus 68 ~i~~~~~~~-----------~~~t~~~~al~~a~~~~~~~~~--~~~~~~~~iiliTDG~~~~~~--~~~~~~~~~~~~~ 132 (161)
T cd01450 68 AVKNLKYLG-----------GGGTNTGKALQYALEQLFSESN--ARENVPKVIIVLTDGRSDDGG--DPKEAAAKLKDEG 132 (161)
T ss_pred HHHhcccCC-----------CCCccHHHHHHHHHHHhccccc--ccCCCCeEEEEECCCCCCCCc--chHHHHHHHHHCC
Confidence 444331111 0257788888888887765421 01233444444422 222211 4567888889999
Q ss_pred eeEEEEEcCCCChHHHHHHHhhcCCee
Q 022374 175 VPIDSCYLGAQNSAFLQQASYITGGVH 201 (298)
Q Consensus 175 I~Idv~~L~~~e~~~LqQa~~~T~G~Y 201 (298)
|+|.++.+|..+...|.++++.||+.|
T Consensus 133 v~v~~i~~g~~~~~~l~~la~~~~~~~ 159 (161)
T cd01450 133 IKVFVVGVGPADEEELREIASCPSERH 159 (161)
T ss_pred CEEEEEeccccCHHHHHHHhCCCCCCc
Confidence 999999997658899999999995544
No 33
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=4.5e-05 Score=67.52 Aligned_cols=156 Identities=16% Similarity=0.163 Sum_probs=116.8
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
-.+|.||=|..|... .|.||..=-+++....++-+..||.|.+++|..-+..++.|...+... ..
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 357888987755444 799999999999999999999999999999999887777776554432 12
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
|+..|..+ . . .+...+..+|..|.--+++.. .+.-+-||+++-+||-..+. ..+...+...+|
T Consensus 72 ils~lh~i----~---~------~g~~~~~~~i~iA~lalkhRq---nk~~~~riVvFvGSpi~e~e-keLv~~akrlkk 134 (259)
T KOG2884|consen 72 ILSKLHGI----Q---P------HGKANFMTGIQIAQLALKHRQ---NKNQKQRIVVFVGSPIEESE-KELVKLAKRLKK 134 (259)
T ss_pred HHHHhcCC----C---c------CCcccHHHHHHHHHHHHHhhc---CCCcceEEEEEecCcchhhH-HHHHHHHHHHHh
Confidence 44444322 1 1 356788889999988888753 23445699999999743333 378888999999
Q ss_pred CCeeEEEEEcCCCC--hHHHHHHHhhcCCe
Q 022374 173 SMVPIDSCYLGAQN--SAFLQQASYITGGV 200 (298)
Q Consensus 173 ~~I~Idv~~L~~~e--~~~LqQa~~~T~G~ 200 (298)
++|-||++.+|+.+ .-.|..--+.+||.
T Consensus 135 ~~Vaidii~FGE~~~~~e~l~~fida~N~~ 164 (259)
T KOG2884|consen 135 NKVAIDIINFGEAENNTEKLFEFIDALNGK 164 (259)
T ss_pred cCeeEEEEEeccccccHHHHHHHHHHhcCC
Confidence 99999999998653 25777788888875
No 34
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=98.31 E-value=0.0001 Score=65.93 Aligned_cols=167 Identities=8% Similarity=0.036 Sum_probs=100.0
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
=|+++||.|..|... +|..+.+.+..+++.+-......+++||... ..++..+|.....+ . ..+.
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 5777766666677665444456799999866 45788888764321 0 1234
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcC-CCC-CCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSG-LLH-PQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~-~~~-~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
+.|..+. ..+ +.+....||..|+...-....+. +.. --++++||..-..... ++...+..+++
T Consensus 69 ~~i~~i~----~~~--------~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~~---~~~~~a~~lk~ 133 (224)
T cd01475 69 RAVRRME----YLE--------TGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQD---DVSEVAAKARA 133 (224)
T ss_pred HHHHhCc----CCC--------CCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCcc---cHHHHHHHHHH
Confidence 4443221 111 12334445555554322111111 111 1156666653222222 34567788999
Q ss_pred CCeeEEEEEcCCCChHHHHHHHhhcCC-eeeeeCCcchHH
Q 022374 173 SMVPIDSCYLGAQNSAFLQQASYITGG-VHHKPQQLDGLF 211 (298)
Q Consensus 173 ~~I~Idv~~L~~~e~~~LqQa~~~T~G-~Y~~~~~~~~L~ 211 (298)
.+|.|-++++|..+...|+++|..+++ .|+.+.+.+.|-
T Consensus 134 ~gv~i~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~l~ 173 (224)
T cd01475 134 LGIEMFAVGVGRADEEELREIASEPLADHVFYVEDFSTIE 173 (224)
T ss_pred CCcEEEEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHHHH
Confidence 999999999987788899999988765 556666655433
No 35
>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=98.24 E-value=0.00012 Score=65.15 Aligned_cols=155 Identities=16% Similarity=0.170 Sum_probs=100.1
Q ss_pred CeEEEEEeCCcccccc----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceE---------EEecCCCCCCCC
Q 022374 14 SLVVVLLDTNPFFWSS----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCD---------YVYDSSSTGNQS 80 (298)
Q Consensus 14 s~L~iIlD~s~~~w~~----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~---------~lyp~~~~~~~~ 80 (298)
..++++||+|+.|-.. .|.+|..+++.+..|+..=+..++..++|+|+....... .++|.....
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 378999999999999888888899999999998765322 233322211
Q ss_pred CCCCCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCC---
Q 022374 81 VGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGP--- 157 (298)
Q Consensus 81 ~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~--- 157 (298)
...++.|.+++......... -.+....+.|..||..|+-.+.+. .....++||++|+-..++.
T Consensus 79 ----------~~~l~~l~~~~~~~~~~~~~-~~~~~~~~~l~~aL~~a~~~~~~~---~~~~~~k~IvL~TDg~~p~~~~ 144 (218)
T cd01458 79 ----------AERVEDLKELIEPGGLSFAG-QVGDSGQVSLSDALWVCLDLFSKG---KKKKSHKRIFLFTNNDDPHGGD 144 (218)
T ss_pred ----------HHHHHHHHHHhhcchhhhcc-cCCCCCCccHHHHHHHHHHHHHhc---cccccccEEEEECCCCCCCCCC
Confidence 12345554443322000000 000124678999999999888762 1235678888888433221
Q ss_pred -hhhhHHHHHHHHHHcCCeeEEEEEcCCC
Q 022374 158 -EQYVAIMNAIFSAQRSMVPIDSCYLGAQ 185 (298)
Q Consensus 158 -~qyi~lmN~ifaAqk~~I~Idv~~L~~~ 185 (298)
.....+-..+..+++.+|.|.++.++..
T Consensus 145 ~~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 145 SIKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred HHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 2233444567777888999999999744
No 36
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=98.21 E-value=0.00023 Score=72.83 Aligned_cols=168 Identities=17% Similarity=0.134 Sum_probs=105.9
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022374 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~ 90 (298)
..+.-+++|||.|..|.+. ++..+-+.+..+++ .+.+.-+++||+.. +.++.++|......
T Consensus 269 ~~p~~vvfvlD~SgSM~g~---~i~~ak~al~~~l~---~L~~~d~~~ii~F~-~~~~~~~~~~~~~~------------ 329 (596)
T TIGR03788 269 VLPRELVFVIDTSGSMAGE---SIEQAKSALLLALD---QLRPGDRFNIIQFD-SDVTLLFPVPVPAT------------ 329 (596)
T ss_pred CCCceEEEEEECCCCCCCc---cHHHHHHHHHHHHH---hCCCCCEEEEEEEC-CcceEeccccccCC------------
Confidence 4466799999999999865 36666555555554 34677799999875 55677887644221
Q ss_pred HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHH
Q 022374 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSA 170 (298)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaA 170 (298)
..-++++.+++..-.. .|.+.|..||..|+..... ......++|++|+-.... +-..++..+..
T Consensus 330 ~~~~~~a~~~i~~l~a---------~GgT~l~~aL~~a~~~~~~----~~~~~~~~iillTDG~~~--~~~~~~~~~~~- 393 (596)
T TIGR03788 330 AHNLARARQFVAGLQA---------DGGTEMAGALSAALRDDGP----ESSGALRQVVFLTDGAVG--NEDALFQLIRT- 393 (596)
T ss_pred HHHHHHHHHHHhhCCC---------CCCccHHHHHHHHHHhhcc----cCCCceeEEEEEeCCCCC--CHHHHHHHHHH-
Confidence 0112333333332111 1457788899888864211 112334567777732211 11244454533
Q ss_pred HcCCeeEEEEEcCCC-ChHHHHHHHhhcCCeeeeeCCcchHHHH
Q 022374 171 QRSMVPIDSCYLGAQ-NSAFLQQASYITGGVHHKPQQLDGLFQY 213 (298)
Q Consensus 171 qk~~I~Idv~~L~~~-e~~~LqQa~~~T~G~Y~~~~~~~~L~q~ 213 (298)
+..+++|.++++|.. +..+|+++|+.+||.|..+.+++.+-+-
T Consensus 394 ~~~~~ri~tvGiG~~~n~~lL~~lA~~g~G~~~~i~~~~~~~~~ 437 (596)
T TIGR03788 394 KLGDSRLFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQRK 437 (596)
T ss_pred hcCCceEEEEEeCCCcCHHHHHHHHHcCCCEEEECCCHHHHHHH
Confidence 345799999999854 7899999999999999999887655433
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=98.16 E-value=0.00024 Score=62.49 Aligned_cols=164 Identities=11% Similarity=0.073 Sum_probs=98.0
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC--C----CCCCEEEEEEecCceEEEecCCCCCCCCCCCC
Q 022374 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL--N----QLNQVVVIATGYNSCDYVYDSSSTGNQSVGNG 84 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~--n----~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~ 84 (298)
+-+-=++++||.|..|-. .+|..+.+-+..+++.+-.. + ...+++||... ..+++.+|+..-..
T Consensus 17 ~~~~DivfvlD~S~Sm~~---~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs-~~a~~~~~L~d~~~------ 86 (193)
T cd01477 17 NLWLDIVFVVDNSKGMTQ---GGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYN-SNATVVADLNDLQS------ 86 (193)
T ss_pred cceeeEEEEEeCCCCcch---hhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEcc-CceEEEEecccccC------
Confidence 334568999999998843 35655444343343333221 1 13699998866 67899999853221
Q ss_pred CchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC--CCCC-hhhh
Q 022374 85 RMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS--PDGP-EQYV 161 (298)
Q Consensus 85 ~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S--~d~~-~qyi 161 (298)
. ..+.+.|...+..... .+.+.+..||.+|+..+..-.+. .....+|++||... .+.. .+..
T Consensus 87 ----~-~~~~~ai~~~~~~~~~---------~ggT~ig~aL~~A~~~l~~~~~~-~R~~v~kvvIllTDg~~~~~~~~~~ 151 (193)
T cd01477 87 ----F-DDLYSQIQGSLTDVSS---------TNASYLDTGLQAAEQMLAAGKRT-SRENYKKVVIVFASDYNDEGSNDPR 151 (193)
T ss_pred ----H-HHHHHHHHHHhhcccc---------CCcchHHHHHHHHHHHHHhhhcc-ccCCCCeEEEEEecCccCCCCCCHH
Confidence 1 2344455432211100 13467889999998877642111 11234676665432 1112 2322
Q ss_pred HHHHHHHHHHcCCeeEEEEEcCCC-ChHHHHHHHhhcCCeee
Q 022374 162 AIMNAIFSAQRSMVPIDSCYLGAQ-NSAFLQQASYITGGVHH 202 (298)
Q Consensus 162 ~lmN~ifaAqk~~I~Idv~~L~~~-e~~~LqQa~~~T~G~Y~ 202 (298)
.....+++.+|.|-++++|.. +...++|++++..+-|.
T Consensus 152 ---~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~~ias~~~~ 190 (193)
T cd01477 152 ---PIAARLKSTGIAIITVAFTQDESSNLLDKLGKIASPGMN 190 (193)
T ss_pred ---HHHHHHHHCCCEEEEEEeCCCCCHHHHHHHHHhcCCCCC
Confidence 456678999999999999843 55789999999987664
No 38
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=98.14 E-value=0.00016 Score=74.54 Aligned_cols=161 Identities=12% Similarity=0.076 Sum_probs=102.9
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
...++++||+|..|... .++..+-..+..|+..-+ ....+++||+.....++++.|.+.+. ..
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 467766666666765433 45689999999877789898876443 11
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCC---Chhh-hHHHHHH
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDG---PEQY-VAIMNAI 167 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~---~~qy-i~lmN~i 167 (298)
+...|..+ .. .+.+.|..||..|...+.+..+.. ....+.|++|+ |-.+. +.+. -......
T Consensus 528 ~~~~L~~l----~~---------gG~Tpl~~aL~~A~~~l~~~~~~~-~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a 593 (633)
T TIGR02442 528 AARRLEEL----PT---------GGRTPLAAGLLKAAEVLSNELLRD-DDGRPLLVVITDGRANVADGGEPPTDDARTIA 593 (633)
T ss_pred HHHHHHhC----CC---------CCCCCHHHHHHHHHHHHHHhhccC-CCCceEEEEECCCCCCCCCCCCChHHHHHHHH
Confidence 22233222 11 246789999999999887532221 13344556665 21211 1111 1123344
Q ss_pred HHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeee
Q 022374 168 FSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKP 204 (298)
Q Consensus 168 faAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~ 204 (298)
..+++.+|.+.||..... ...+++++|+.+||.|+.+
T Consensus 594 ~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 594 AKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred HHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 455668888888877422 3579999999999999864
No 39
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=98.12 E-value=0.00028 Score=60.85 Aligned_cols=165 Identities=9% Similarity=0.073 Sum_probs=100.0
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
|++|||.|..|- +.++..+.+.+..|++.+-...+..+++||...+ .++..+|...... . .++.+
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 789999998764 3467777777777777666556678999999874 4677788764321 0 12344
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.+..+.. . .+.+.+..||..|+..+.....+ .....++++|+........+... ...+..|++.+|
T Consensus 68 ~i~~~~~----~--------~g~T~~~~AL~~a~~~l~~~~~g-~R~~~~kv~illTDG~~~~~~~~-~~~~~~~k~~gv 133 (177)
T cd01469 68 LVKHISQ----L--------LGLTNTATAIQYVVTELFSESNG-ARKDATKVLVVITDGESHDDPLL-KDVIPQAEREGI 133 (177)
T ss_pred HHHhCcc----C--------CCCccHHHHHHHHHHHhcCcccC-CCCCCCeEEEEEeCCCCCCcccc-HHHHHHHHHCCc
Confidence 4433211 1 13466777887777665321111 12234556665522111111111 346778999999
Q ss_pred eEEEEEcCCC-----ChHHHHHHHhhcCCeee-eeCCcch
Q 022374 176 PIDSCYLGAQ-----NSAFLQQASYITGGVHH-KPQQLDG 209 (298)
Q Consensus 176 ~Idv~~L~~~-----e~~~LqQa~~~T~G~Y~-~~~~~~~ 209 (298)
.|-++++|.. ....|..+|..+++.|+ .+.+.+.
T Consensus 134 ~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~~~ 173 (177)
T cd01469 134 IRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDFAA 173 (177)
T ss_pred EEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCHHH
Confidence 9999999732 14788888888886544 4455433
No 40
>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=97.97 E-value=0.0012 Score=55.49 Aligned_cols=151 Identities=8% Similarity=0.056 Sum_probs=89.3
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecC-ceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYN-SCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~-~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
++++||.|..|-. .+....+.+..++..+.......+++||..... .+.+.+|...... . +.+.
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 366667777778877766666899999997653 6677777654321 0 1234
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc-C
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR-S 173 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk-~ 173 (298)
+.+..+. .. .+.+.+..||..|...+.+.. ...+...+.|++++ ......+ .......+++ .
T Consensus 68 ~~i~~l~----~~--------gg~T~l~~aL~~a~~~l~~~~-~~r~~~~~~villT-DG~~~~~---~~~~~~~l~~~~ 130 (163)
T cd01476 68 EKVDNLR----FI--------GGTTATGAAIEVALQQLDPSE-GRREGIPKVVVVLT-DGRSHDD---PEKQARILRAVP 130 (163)
T ss_pred HHHHhCc----cC--------CCCccHHHHHHHHHHHhcccc-CCCCCCCeEEEEEC-CCCCCCc---hHHHHHHHhhcC
Confidence 4443321 10 135788999998888876321 11122333444444 2212222 2234556677 8
Q ss_pred CeeEEEEEcCCC---ChHHHHHHHhhcC
Q 022374 174 MVPIDSCYLGAQ---NSAFLQQASYITG 198 (298)
Q Consensus 174 ~I~Idv~~L~~~---e~~~LqQa~~~T~ 198 (298)
+|.|-+|.+|.. +...|++++.--+
T Consensus 131 ~v~v~~vg~g~~~~~~~~~L~~ia~~~~ 158 (163)
T cd01476 131 NIETFAVGTGDPGTVDTEELHSITGNED 158 (163)
T ss_pred CCEEEEEECCCccccCHHHHHHHhCCCc
Confidence 999999999743 3444444444333
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=97.94 E-value=0.00063 Score=58.67 Aligned_cols=157 Identities=10% Similarity=0.059 Sum_probs=94.3
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
++++||.|..|-.. .++..+.+.+..|+..+-..+..-+++||... +.++.++|........ . ..+.+
T Consensus 3 v~~vlD~SgSm~~~--~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs-~~~~~~~~l~~~~~~~------~---~~~~~ 70 (186)
T cd01471 3 LYLLVDGSGSIGYS--NWVTHVVPFLHTFVQNLNISPDEINLYLVTFS-TNAKELIRLSSPNSTN------K---DLALN 70 (186)
T ss_pred EEEEEeCCCCccch--hhHHHHHHHHHHHHHhcccCCCceEEEEEEec-CCceEEEECCCccccc------h---HHHHH
Confidence 78999999988654 23666555555566554334445589999876 5677777766532100 0 11122
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhhhHHHHHHHHHHcCC
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
.++.+...... .+.+.+..||..|...+.+. +...+...+.|++++ |.++.. .........+++.+
T Consensus 71 ~i~~l~~~~~~---------~G~T~l~~aL~~a~~~l~~~-~~~r~~~~~~villTDG~~~~~---~~~~~~a~~l~~~g 137 (186)
T cd01471 71 AIRALLSLYYP---------NGSTNTTSALLVVEKHLFDT-RGNRENAPQLVIIMTDGIPDSK---FRTLKEARKLRERG 137 (186)
T ss_pred HHHHHHhCcCC---------CCCccHHHHHHHHHHHhhcc-CCCcccCceEEEEEccCCCCCC---cchhHHHHHHHHCC
Confidence 22222211100 24678899999998877653 112233445566665 222222 22345677888899
Q ss_pred eeEEEEEcCC-CChHHHHHHHhhc
Q 022374 175 VPIDSCYLGA-QNSAFLQQASYIT 197 (298)
Q Consensus 175 I~Idv~~L~~-~e~~~LqQa~~~T 197 (298)
|.|-++++|. .+..+|+.++..=
T Consensus 138 v~v~~igiG~~~d~~~l~~ia~~~ 161 (186)
T cd01471 138 VIIAVLGVGQGVNHEENRSLVGCD 161 (186)
T ss_pred CEEEEEEeehhhCHHHHHHhcCCC
Confidence 9999999974 4778888887753
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=97.94 E-value=0.00066 Score=69.47 Aligned_cols=163 Identities=14% Similarity=0.091 Sum_probs=105.2
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022374 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~ 90 (298)
....+++++||.|-.|-. .++..+-..+..|++..+. +..+++||+..+..++++.|...+.
T Consensus 405 ~~~~~v~fvvD~SGSM~~---~rl~~aK~av~~Ll~~~~~--~~D~v~Li~F~~~~a~~~lp~t~~~------------- 466 (589)
T TIGR02031 405 KSGRLLIFVVDASGSAAV---ARMSEAKGAVELLLGEAYV--HRDQVSLIAFRGTAAEVLLPPSRSV------------- 466 (589)
T ss_pred ccCceEEEEEECCCCCCh---HHHHHHHHHHHHHHHhhcc--CCCEEEEEEECCCCceEECCCCCCH-------------
Confidence 345578899999999843 3577766666666654332 4568999999877778888865432
Q ss_pred HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCC-h----------
Q 022374 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGP-E---------- 158 (298)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~-~---------- 158 (298)
..+.+.|..+ .. .|.+.|..||.+|+..+.+..+ ....++|++|+ |-...+ .
T Consensus 467 ~~~~~~L~~l----~~---------gGgTpL~~gL~~A~~~~~~~~~---~~~~~~ivllTDG~~nv~~~~~~~~~~~~~ 530 (589)
T TIGR02031 467 EQAKRRLDVL----PG---------GGGTPLAAGLAAAFQTALQARS---SGGTPTIVLITDGRGNIPLDGDPESIKADR 530 (589)
T ss_pred HHHHHHHhcC----CC---------CCCCcHHHHHHHHHHHHHHhcc---cCCceEEEEECCCCCCCCCCcccccccccc
Confidence 1122223221 11 2568899999999988876421 13345677766 222111 0
Q ss_pred -hh-hHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeCCc
Q 022374 159 -QY-VAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQL 207 (298)
Q Consensus 159 -qy-i~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~~~ 207 (298)
+. -.+.-.....++.+|.+-|+..+.. +..+++++|+..||.|+.+.+.
T Consensus 531 ~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y~~l~~~ 583 (589)
T TIGR02031 531 EQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHYIYLPNA 583 (589)
T ss_pred hhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcEEeCCCC
Confidence 00 1123345666788999988888532 3568999999999999988764
No 43
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=0.00094 Score=58.10 Aligned_cols=155 Identities=17% Similarity=0.118 Sum_probs=109.7
Q ss_pred eEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 15 LVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
-.+|+||-+..+... -|.||..-.+++....+.-+-.||.|.+|+|..-......|...+... ..
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 467888877643333 689999999999999999999999999999986654444433222111 12
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
++..|.++.- .+...+..+|..|.-.+++.. .+--.-||+.+-+|+-..+. -.+.-.+...+|
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 245677888999988877652 22334688888899643322 577788899999
Q ss_pred CCeeEEEEEcCCC-ChHHHHHHHhhcCC
Q 022374 173 SMVPIDSCYLGAQ-NSAFLQQASYITGG 199 (298)
Q Consensus 173 ~~I~Idv~~L~~~-e~~~LqQa~~~T~G 199 (298)
+||.||++.+|+. ++.-|+.--|.||-
T Consensus 135 nnVAidii~fGE~~n~~~l~efIda~N~ 162 (243)
T COG5148 135 NNVAIDIIFFGEAANMAGLFEFIDATNF 162 (243)
T ss_pred cCeeEEEEehhhhhhhhHHHHHHHhhcc
Confidence 9999999999844 66788888888886
No 44
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=97.84 E-value=0.0023 Score=64.62 Aligned_cols=174 Identities=6% Similarity=-0.044 Sum_probs=99.7
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
.--|++|||.|..|-.. ..+..+...+..|++.+....-.-+|+++ ..+..+.++++....... +. +.
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--NWITHVIPMLMGLIQQLNLSDDAINLYMS-LFSNNTTELIRLGSGASK--------DK-EQ 109 (576)
T ss_pred CceEEEEEeCCCccCCc--cHHHHHHHHHHHHHHHhccCCCceEEEEE-EeCCCceEEEecCCCccc--------cH-HH
Confidence 44799999999988432 22344444455555544433333344444 445677888876543310 00 13
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHc
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQR 172 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk 172 (298)
++..|..+...... .+.+.+..||..|..++.+.. .... ..+++||..-.....+ ...+..+..+++
T Consensus 110 aL~~I~sL~~~~~p---------gGgTnig~AL~~Aae~L~sr~--~R~n-vpKVVILLTDG~sns~-~dvleaAq~LR~ 176 (576)
T PTZ00441 110 ALIIVKSLRKTYLP---------YGKTNMTDALLEVRKHLNDRV--NREN-AIQLVILMTDGIPNSK-YRALEESRKLKD 176 (576)
T ss_pred HHHHHHHHHhhccC---------CCCccHHHHHHHHHHHHhhcc--cccC-CceEEEEEecCCCCCc-ccHHHHHHHHHH
Confidence 45555554332111 245778889988887776431 1112 2355555422111111 234566778899
Q ss_pred CCeeEEEEEcCC-CChHHHHHHH----hhcCCeeeeeCCcchHH
Q 022374 173 SMVPIDSCYLGA-QNSAFLQQAS----YITGGVHHKPQQLDGLF 211 (298)
Q Consensus 173 ~~I~Idv~~L~~-~e~~~LqQa~----~~T~G~Y~~~~~~~~L~ 211 (298)
.+|.|-++++|. .+..+|++++ ..++|.|+...+-+.|.
T Consensus 177 ~GVeI~vIGVG~g~n~e~LrlIAgC~p~~g~c~~Y~vadf~eL~ 220 (576)
T PTZ00441 177 RNVKLAVIGIGQGINHQFNRLLAGCRPREGKCKFYSDADWEEAK 220 (576)
T ss_pred CCCEEEEEEeCCCcCHHHHHHHhccCCCCCCCceEEeCCHHHHH
Confidence 999999999974 3567889888 44667888877654433
No 45
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=97.79 E-value=0.0012 Score=55.46 Aligned_cols=170 Identities=12% Similarity=0.101 Sum_probs=101.5
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
+++|||.|..|-.. .+..+.+.+..|++.+-..++..+++|+... ...+.+++...... . ..+.+
T Consensus 2 ivflvD~S~sm~~~---~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~-~~~~~~~~~~~~~~----------~-~~~~~ 66 (178)
T PF00092_consen 2 IVFLVDTSGSMSGD---NFEKAKQFVKSIISRLSISNNGTRVGIVTFS-DSARVLFSLTDYQS----------K-NDLLN 66 (178)
T ss_dssp EEEEEE-STTSCHH---HHHHHHHHHHHHHHHSTBSTTSEEEEEEEES-SSEEEEEETTSHSS----------H-HHHHH
T ss_pred EEEEEeCCCCCchH---HHHHHHHHHHHHHHhhhccccccccceeeee-cccccccccccccc----------c-ccccc
Confidence 68999999988764 4778888888888877789999999999877 45567777665321 0 12233
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.+ ...... ..+.+.+..||..|...+...... .....++++|+.............-......++.+|
T Consensus 67 ~i---~~~~~~--------~~g~t~~~~aL~~a~~~l~~~~~~-~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~i 134 (178)
T PF00092_consen 67 AI---NDSIPS--------SGGGTNLGAALKFAREQLFSSNNG-GRPNSPKVIILITDGNSNDSDSPSEEAANLKKSNGI 134 (178)
T ss_dssp HH---HTTGGC--------CBSSB-HHHHHHHHHHHTTSGGGT-TGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHHCTE
T ss_pred cc---cccccc--------cchhhhHHHHHhhhhhcccccccc-cccccccceEEEEeecccCCcchHHHHHHHHHhcCc
Confidence 22 122111 135677888998888887654111 123455655554332111111111122222233578
Q ss_pred eEEEEEcCCCChHHHHHHHhhc-C-CeeeeeCCcchHHH
Q 022374 176 PIDSCYLGAQNSAFLQQASYIT-G-GVHHKPQQLDGLFQ 212 (298)
Q Consensus 176 ~Idv~~L~~~e~~~LqQa~~~T-~-G~Y~~~~~~~~L~q 212 (298)
.+=+++.+..+...|+.++..+ + |.++.+.+...+.+
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 8877777447899999999775 3 56666666655544
No 46
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=97.73 E-value=0.002 Score=58.76 Aligned_cols=167 Identities=15% Similarity=0.164 Sum_probs=111.3
Q ss_pred CCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhH
Q 022374 10 SDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSL 89 (298)
Q Consensus 10 ~~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~ 89 (298)
.-...++++|||.|-.|-.. .++..+=..++.|++. +...-++|+||+.+..+++++.|.+.+.
T Consensus 75 ~r~g~lvvfvVDASgSM~~~--~Rm~aaKG~~~~lL~d--AYq~RdkvavI~F~G~~A~lll~pT~sv------------ 138 (261)
T COG1240 75 GRAGNLIVFVVDASGSMAAR--RRMAAAKGAALSLLRD--AYQRRDKVAVIAFRGEKAELLLPPTSSV------------ 138 (261)
T ss_pred cCcCCcEEEEEeCcccchhH--HHHHHHHHHHHHHHHH--HHHccceEEEEEecCCcceEEeCCcccH------------
Confidence 44567899999999998776 3566666666777764 3456789999999999999999988765
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCC--ChhhhHHHHH
Q 022374 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDG--PEQYVAIMNA 166 (298)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~--~~qyi~lmN~ 166 (298)
+.+.++|..+ .. .|.+.|+.||.+|...+-|..+..| .....+++|+ |-+.. ... +.-.+
T Consensus 139 -~~~~~~L~~l----~~---------GG~TPL~~aL~~a~ev~~r~~r~~p-~~~~~~vviTDGr~n~~~~~~--~~~e~ 201 (261)
T COG1240 139 -ELAERALERL----PT---------GGKTPLADALRQAYEVLAREKRRGP-DRRPVMVVITDGRANVPIPLG--PKAET 201 (261)
T ss_pred -HHHHHHHHhC----CC---------CCCCchHHHHHHHHHHHHHhhccCC-CcceEEEEEeCCccCCCCCCc--hHHHH
Confidence 2234444433 11 2578899999999999988755433 3455566665 22111 111 22233
Q ss_pred HHHH---HcCCeeEEEEEcCCCC--hHHHHHHHhhcCCeeeeeCCcch
Q 022374 167 IFSA---QRSMVPIDSCYLGAQN--SAFLQQASYITGGVHHKPQQLDG 209 (298)
Q Consensus 167 ifaA---qk~~I~Idv~~L~~~e--~~~LqQa~~~T~G~Y~~~~~~~~ 209 (298)
..+| ...++.+-|+..-..+ ..+.+++|..-||.|+.+.+..+
T Consensus 202 ~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 202 LEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred HHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 3333 3355655566552222 45899999999999999887543
No 47
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=97.72 E-value=0.0027 Score=55.67 Aligned_cols=157 Identities=12% Similarity=0.096 Sum_probs=94.6
Q ss_pred EEEEEeCCccccccCCccHH-HHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFS-QFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~-~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
|+++||.|..+-.. .+. .+.+-+..+++.+--.....+++||... +.++..+|....... + -..++
T Consensus 3 i~fllD~S~Si~~~---~f~~~~~~f~~~lv~~l~i~~~~~rvgvv~fs-~~~~~~~~~~~~~~~--------~-~~~l~ 69 (192)
T cd01473 3 LTLILDESASIGYS---NWRKDVIPFTEKIINNLNISKDKVHVGILLFA-EKNRDVVPFSDEERY--------D-KNELL 69 (192)
T ss_pred EEEEEeCCCcccHH---HHHHHHHHHHHHHHHhCccCCCccEEEEEEec-CCceeEEecCccccc--------C-HHHHH
Confidence 78999999877433 344 2445566667776666778899999877 456777887653210 0 02355
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CCCChhhhHHHHHHHHHHcC
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PDGPEQYVAIMNAIFSAQRS 173 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d~~~qyi~lmN~ifaAqk~ 173 (298)
+++.++...... .+.+.+..||.+|+..+.+. .......++|+||-.- .+....--.+......+++.
T Consensus 70 ~~i~~l~~~~~~---------~g~T~~~~AL~~a~~~~~~~--~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~ 138 (192)
T cd01473 70 KKINDLKNSYRS---------GGETYIVEALKYGLKNYTKH--GNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEE 138 (192)
T ss_pred HHHHHHHhccCC---------CCcCcHHHHHHHHHHHhccC--CCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHC
Confidence 555555322110 13456777888777665432 1111123566666522 11111112344567788999
Q ss_pred CeeEEEEEcCCCChHHHHHHHhh
Q 022374 174 MVPIDSCYLGAQNSAFLQQASYI 196 (298)
Q Consensus 174 ~I~Idv~~L~~~e~~~LqQa~~~ 196 (298)
+|.|-++++|..+..-|+.+|.-
T Consensus 139 gV~i~~vGiG~~~~~el~~ia~~ 161 (192)
T cd01473 139 NVKLLVVGVGAASENKLKLLAGC 161 (192)
T ss_pred CCEEEEEEeccccHHHHHHhcCC
Confidence 99999999997777788888863
No 48
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=97.50 E-value=0.0044 Score=53.06 Aligned_cols=145 Identities=17% Similarity=0.184 Sum_probs=89.5
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC---CCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL---NQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~---n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
++++||.|..|-.. ++..+-+.+..|+...... .+.-+++||...+ .++.+.|.....+
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 68999999999554 4555555566666554332 2456899998775 6788888654210
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhc----CCCCCCcEEEEEE-cCCCCChhhhHHHHHH
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS----GLLHPQPRILCLQ-GSPDGPEQYVAIMNAI 167 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~----~~~~~~~rILii~-~S~d~~~qyi~lmN~i 167 (298)
..+..+ .. .+.+.+..||..|+..+.+.... ......+.|++++ |-+ ..+.......+
T Consensus 68 --~~~~~l-------~~------~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~--~~~~~~~~~~~ 130 (176)
T cd01464 68 --FQPPRL-------TA------SGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEP--TDDLTAAIERI 130 (176)
T ss_pred --cCCCcc-------cC------CCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCC--CchHHHHHHHH
Confidence 000000 00 24678899999999888654211 1122344666666 322 22232333566
Q ss_pred HHHHcCCeeEEEEEcCC-CChHHHHHHHh
Q 022374 168 FSAQRSMVPIDSCYLGA-QNSAFLQQASY 195 (298)
Q Consensus 168 faAqk~~I~Idv~~L~~-~e~~~LqQa~~ 195 (298)
..+++.+++|-++++|. .+..+|+++|+
T Consensus 131 ~~~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 131 KEARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred HhhcccCCcEEEEEeccccCHHHHHHHHC
Confidence 67777789999999983 57778888885
No 49
>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=97.48 E-value=0.013 Score=52.95 Aligned_cols=176 Identities=17% Similarity=0.167 Sum_probs=102.6
Q ss_pred CeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCC--------------
Q 022374 14 SLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQ-------------- 79 (298)
Q Consensus 14 s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~-------------- 79 (298)
=..+.+||+|...-+. .-+..++++|+..+ ..+...+..++++|... ..-.+|....+...
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 34677777777777 33335678899999885 33556766553310
Q ss_pred CCCC------CCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC
Q 022374 80 SVGN------GRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS 153 (298)
Q Consensus 80 ~~~~------~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S 153 (298)
+... .+..+....+++.|........ +......+..||..|...+... +...||+++.++
T Consensus 79 p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~--------~~~~~~c~G~Al~~A~~ll~~~------~~gGkI~~F~s~ 144 (243)
T PF04811_consen 79 PLPDGLLVPLSECRDAIEELLESLPSIFPETA--------GKRPERCLGSALSAALSLLSSR------NTGGKILVFTSG 144 (243)
T ss_dssp STSSSSSEETTTCHHHHHHHHHHHHHHSTT-T--------TB-----HHHHHHHHHHHHHHH------TS-EEEEEEESS
T ss_pred CCcccEEEEhHHhHHHHHHHHHHhhhhccccc--------ccCccccHHHHHHHHHHHHhcc------ccCCEEEEEecc
Confidence 0000 0111222334444444322210 0124567788899998888865 245699999876
Q ss_pred C-CCCh--------------------hh-----hHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeC
Q 022374 154 P-DGPE--------------------QY-----VAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQ 205 (298)
Q Consensus 154 ~-d~~~--------------------qy-----i~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~ 205 (298)
+ ..+. .| .-+-+....+.+++|.||++..+.. +..-+..+|..|||.-+...
T Consensus 145 ~pt~G~Gg~l~~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~ 224 (243)
T PF04811_consen 145 PPTYGPGGSLKKREDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYP 224 (243)
T ss_dssp ---SSSTTSS-SBTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEET
T ss_pred CCCCCCCceecccccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeC
Confidence 2 1111 00 1234678889999999999999632 57789999999999988877
Q ss_pred Ccc
Q 022374 206 QLD 208 (298)
Q Consensus 206 ~~~ 208 (298)
+-.
T Consensus 225 ~f~ 227 (243)
T PF04811_consen 225 NFN 227 (243)
T ss_dssp TTT
T ss_pred CCC
Confidence 643
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=97.37 E-value=0.016 Score=48.16 Aligned_cols=141 Identities=14% Similarity=0.102 Sum_probs=78.0
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
++++||+|..|-.. ++...-..+..++..... +..+++||...+.. ...+.+... ...++++
T Consensus 3 v~illD~SgSM~~~---k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~--~~~~~~~~~-----------~~~~~~~ 64 (152)
T cd01462 3 VILLVDQSGSMYGA---PEEVAKAVALALLRIALA--ENRDTYLILFDSEF--QTKIVDKTD-----------DLEEPVE 64 (152)
T ss_pred EEEEEECCCCCCCC---HHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCc--eEEecCCcc-----------cHHHHHH
Confidence 68999999999643 344444444445544443 46689999887662 233322211 0112233
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCe
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMV 175 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I 175 (298)
.|..+ . . .+.+.+..+|..++..+.+. ......|++|+=-.+.. ....++...+.+++.++
T Consensus 65 ~l~~~---~--~--------~ggT~l~~al~~a~~~l~~~-----~~~~~~ivliTDG~~~~-~~~~~~~~~~~~~~~~~ 125 (152)
T cd01462 65 FLSGV---Q--L--------GGGTDINKALRYALELIERR-----DPRKADIVLITDGYEGG-VSDELLREVELKRSRVA 125 (152)
T ss_pred HHhcC---C--C--------CCCcCHHHHHHHHHHHHHhc-----CCCCceEEEECCCCCCC-CCHHHHHHHHHHHhcCc
Confidence 33211 1 0 24578889998888877653 12234666666221111 11233355667778899
Q ss_pred eEEEEEcCCCChHHHHHH
Q 022374 176 PIDSCYLGAQNSAFLQQA 193 (298)
Q Consensus 176 ~Idv~~L~~~e~~~LqQa 193 (298)
+|.++++|...-..|-+.
T Consensus 126 ~v~~~~~g~~~~~~~~~~ 143 (152)
T cd01462 126 RFVALALGDHGNPGYDRI 143 (152)
T ss_pred EEEEEEecCCCCchHHHH
Confidence 999999985433334333
No 51
>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=97.28 E-value=0.012 Score=52.34 Aligned_cols=157 Identities=18% Similarity=0.219 Sum_probs=86.7
Q ss_pred EEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCC--CCCCchhHH
Q 022374 16 VVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSV--GNGRMPSLC 90 (298)
Q Consensus 16 L~iIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~--~~~~~~~~~ 90 (298)
++++||+++.|... ....|..+++++..++..-...++...+|||..+.....-- +..+.-.+-. ..-...+.
T Consensus 2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~-~~~~~~~~i~~l~~l~~~~~- 79 (224)
T PF03731_consen 2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNP-DEDSGYENIFVLQPLDPPSA- 79 (224)
T ss_dssp EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST--TTT-STTEEEEEECC--BH-
T ss_pred EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCc-ccccCCCceEEeecCCccCH-
Confidence 68999999999976 22279999999999999999999999999999876543211 1000000000 00000010
Q ss_pred HHHHHHHHHHHhh----hhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC--CC-CChhhhHH
Q 022374 91 ATLLQNLEEFMNK----DEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS--PD-GPEQYVAI 163 (298)
Q Consensus 91 ~~i~~~L~~l~~~----~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S--~d-~~~qyi~l 163 (298)
..++.|.++... ....+ ...+..+..||-.|.-.+.+.. ......++||++|+-. |. ...+.-.+
T Consensus 80 -~~l~~L~~~~~~~~~~~~~~~------~~~~~~l~~al~v~~~~~~~~~-~~~k~~~krI~l~Td~d~p~~~~~~~~~~ 151 (224)
T PF03731_consen 80 -ERLKELEELLKPGDKFENFFS------GSDEGDLSDALWVASDMFRERT-CKKKKNKKRIFLFTDNDGPHEDDDELERI 151 (224)
T ss_dssp -HHHHHHHTTSHHHHHHHHHC-------SSS---HHHHHHHHHHHHHCHC-TTS-ECEEEEEEEES-SSTTT-CCCHHHH
T ss_pred -HHHHHHHHhhcccccccccCC------CCCccCHHHHHHHHHHHHHHHh-hcccCCCcEEEEEeCCCCCCCCHHHHHHH
Confidence 123333332222 00001 1345778888888887776521 2345678899999843 22 23444444
Q ss_pred HHH--HHHHHcCCeeEEEEEc
Q 022374 164 MNA--IFSAQRSMVPIDSCYL 182 (298)
Q Consensus 164 mN~--ifaAqk~~I~Idv~~L 182 (298)
..- +...+..+|.++++.|
T Consensus 152 ~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 152 IQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp HHHHHHHHHHHHTEEEEEEEC
T ss_pred HHhhccccchhcCcceeEeec
Confidence 444 6668999999999999
No 52
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=97.15 E-value=0.062 Score=45.72 Aligned_cols=138 Identities=12% Similarity=0.098 Sum_probs=79.9
Q ss_pred eEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecC---c--eEEEecCCCCCCCCCCCCCchhH
Q 022374 15 LVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYN---S--CDYVYDSSSTGNQSVGNGRMPSL 89 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~---~--a~~lyp~~~~~~~~~~~~~~~~~ 89 (298)
.++++||+|..|... .++..+-+.+..|+..... +..+++|++..+. . ..++.+.+.... .
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 6788999987654 1 234433222110 0
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhh---h-HHH
Q 022374 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQY---V-AIM 164 (298)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qy---i-~lm 164 (298)
...+.++|..+. . .+.+.+..||..|...+.+. ....+-|++|+ |-++....| + .+-
T Consensus 68 ~~~~~~~l~~~~----~---------~g~T~~~~al~~a~~~l~~~-----~~~~~~iiliTDG~~~~~~~~~~~~~~~~ 129 (174)
T cd01454 68 HERARKRLAALS----P---------GGNTRDGAAIRHAAERLLAR-----PEKRKILLVISDGEPNDLDYYEGNVFATE 129 (174)
T ss_pred chhHHHHHHccC----C---------CCCCcHHHHHHHHHHHHhcC-----CCcCcEEEEEeCCCcCcccccCcchhHHH
Confidence 011223332221 0 13577888998888887653 12233344444 333222211 1 233
Q ss_pred HH---HHHHHcCCeeEEEEEcCC
Q 022374 165 NA---IFSAQRSMVPIDSCYLGA 184 (298)
Q Consensus 165 N~---ifaAqk~~I~Idv~~L~~ 184 (298)
.+ +..|++.+|++.++.+|.
T Consensus 130 ~~~~~~~~~~~~gi~v~~igig~ 152 (174)
T cd01454 130 DALRAVIEARKLGIEVFGITIDR 152 (174)
T ss_pred HHHHHHHHHHhCCcEEEEEEecC
Confidence 34 788899999999999973
No 53
>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=96.96 E-value=0.047 Score=50.57 Aligned_cols=157 Identities=11% Similarity=0.066 Sum_probs=96.6
Q ss_pred CCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhH
Q 022374 12 DVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSL 89 (298)
Q Consensus 12 ~~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~ 89 (298)
..-.++|+||.|..|... .|.++. -+..+..++.+.+..+++|++.. +.+..+-|.+....
T Consensus 59 r~~qIvlaID~S~SM~~~~~~~~ale-----ak~lIs~al~~Le~g~vgVv~Fg-~~~~~v~Plt~d~~----------- 121 (266)
T cd01460 59 RDYQILIAIDDSKSMSENNSKKLALE-----SLCLVSKALTLLEVGQLGVCSFG-EDVQILHPFDEQFS----------- 121 (266)
T ss_pred cCceEEEEEecchhcccccccccHHH-----HHHHHHHHHHhCcCCcEEEEEeC-CCceEeCCCCCCch-----------
Confidence 345789999999999987 677765 24478888889999999999987 46788888876542
Q ss_pred HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCC-CCCCcEEEEEEcCC--CCChhhhHHHHH
Q 022374 90 CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGL-LHPQPRILCLQGSP--DGPEQYVAIMNA 166 (298)
Q Consensus 90 ~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~-~~~~~rILii~~S~--d~~~qyi~lmN~ 166 (298)
. ...+ +.++.. ..+ ...+.+..+|..|+.+......... ....+-||||+=.. +... ..--.
T Consensus 122 --~-~a~~-~~l~~~-~f~-------~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~---~~~~~ 186 (266)
T cd01460 122 --S-QSGP-RILNQF-TFQ-------QDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEG---AQKVR 186 (266)
T ss_pred --h-hHHH-HHhCcc-cCC-------CCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCcc---HHHHH
Confidence 0 1111 111110 111 2356799999999999876521111 01124455555221 1111 11123
Q ss_pred HHHHHcCCeeEEEEEcCCC--ChHHH--HHHHhhcCCe
Q 022374 167 IFSAQRSMVPIDSCYLGAQ--NSAFL--QQASYITGGV 200 (298)
Q Consensus 167 ifaAqk~~I~Idv~~L~~~--e~~~L--qQa~~~T~G~ 200 (298)
+..|++.+|.+-++.|..+ ...|+ +|+...++|.
T Consensus 187 ~r~a~e~~i~l~~I~ld~~~~~~SI~d~~~~~~~~~~~ 224 (266)
T cd01460 187 LREAREQNVFVVFIIIDNPDNKQSILDIKVVSFKNDKS 224 (266)
T ss_pred HHHHHHcCCeEEEEEEcCCCCCCCcccccccccCCCCc
Confidence 7889999999999999643 22333 3455444444
No 54
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=96.90 E-value=0.12 Score=44.07 Aligned_cols=152 Identities=13% Similarity=0.063 Sum_probs=87.1
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLLQ 95 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~~ 95 (298)
|+++||.|..+- +..|..+.+-+..++..|-.....-+++||... ..++..++...... . +.+++
T Consensus 3 ivfllD~S~Si~---~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys-~~~~~~~~l~~~~~----------~-~~l~~ 67 (165)
T cd01481 3 IVFLIDGSDNVG---SGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFS-DTPRPEFYLNTHST----------K-ADVLG 67 (165)
T ss_pred EEEEEeCCCCcC---HHHHHHHHHHHHHHHhhccCCCCCcEEEEEEec-CCeeEEEeccccCC----------H-HHHHH
Confidence 689999988663 346877777777777776555666799999876 44566676654321 0 23455
Q ss_pred HHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcC-CCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCC
Q 022374 96 NLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSG-LLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 96 ~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~-~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
++.++-- .+ ...+....||..+...+-....+. +...-++++|+.... .+.+ ++......+++.+
T Consensus 68 ~i~~i~~----~~-------g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG-~s~d--~~~~~a~~lr~~g 133 (165)
T cd01481 68 AVRRLRL----RG-------GSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGG-KSQD--DVERPAVALKRAG 133 (165)
T ss_pred HHHhccc----CC-------CCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCC-CCcc--hHHHHHHHHHHCC
Confidence 5543311 10 012344555555544332211000 011234566554322 1222 3556788999999
Q ss_pred eeEEEEEcCCCChHHHHHHHhh
Q 022374 175 VPIDSCYLGAQNSAFLQQASYI 196 (298)
Q Consensus 175 I~Idv~~L~~~e~~~LqQa~~~ 196 (298)
|.|-+++.+..+..-|+++|--
T Consensus 134 v~i~~vG~~~~~~~eL~~ias~ 155 (165)
T cd01481 134 IVPFAIGARNADLAELQQIAFD 155 (165)
T ss_pred cEEEEEeCCcCCHHHHHHHhCC
Confidence 9999999964566666666543
No 55
>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=96.56 E-value=0.55 Score=42.38 Aligned_cols=182 Identities=15% Similarity=0.066 Sum_probs=102.7
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCC-----CCCCC--
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQS-----VGNGR-- 85 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~-----~~~~~-- 85 (298)
|-..+.|||+|...-+. .-+..+.+++...+.. +..++.-++++|... ..--+|......... .+..+
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 2366666666666654 222467789999884 334566654432100 00000
Q ss_pred ---chhH---HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCC-CC--
Q 022374 86 ---MPSL---CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSP-DG-- 156 (298)
Q Consensus 86 ---~~~~---~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~-d~-- 156 (298)
...+ ..+..+.|.+++++-.....+. ........+..||..|...+... ....||+++.+++ ..
T Consensus 78 ~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~-~~~~~~~~~G~Al~~A~~ll~~~------~~gGkI~~f~sg~pt~Gp 150 (239)
T cd01468 78 LPLPDRFLVPLSECKKVIHDLLEQLPPMFWPV-PTHRPERCLGPALQAAFLLLKGT------FAGGRIIVFQGGLPTVGP 150 (239)
T ss_pred CCCcCceeeeHHHHHHHHHHHHHhhhhhcccc-CCCCCcccHHHHHHHHHHHHhhc------CCCceEEEEECCCCCCCC
Confidence 0011 0112222222222211110000 00123567788899888888754 1356888887652 10
Q ss_pred --------C-------------hhhhHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeCC
Q 022374 157 --------P-------------EQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQ 206 (298)
Q Consensus 157 --------~-------------~qyi~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~~ 206 (298)
. .+..-+-+....+.+++|.||++..+.. +..-++.++..|||.-+...+
T Consensus 151 G~l~~~~~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~ 223 (239)
T cd01468 151 GKLKSREDKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDS 223 (239)
T ss_pred CccccCcccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCC
Confidence 0 0011123477888999999999988533 667899999999999887765
No 56
>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=96.53 E-value=0.18 Score=51.73 Aligned_cols=157 Identities=11% Similarity=0.107 Sum_probs=98.9
Q ss_pred CCCCeEEEEEeCCcccccc-----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceE---------EEecCCCC
Q 022374 11 DDVSLVVVLLDTNPFFWSS-----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCD---------YVYDSSST 76 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~-----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~---------~lyp~~~~ 76 (298)
+..+-++++||+|+.|... ....|..+++++..++..-.-.+|.-.+||+..+..+.+ .+.|+..-
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 4467899999999999974 246799999999999999999999999999998765432 11111111
Q ss_pred CCCCCCCCCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCC
Q 022374 77 GNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDG 156 (298)
Q Consensus 77 ~~~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~ 156 (298)
+ .+.+++|+++..+.....-...-+.....+|..+|-.|.-.+.+. .+...++||++|+--.++
T Consensus 88 -----------~--a~~i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~---~~k~~~kRI~lfTd~D~P 151 (584)
T TIGR00578 88 -----------G--AKRILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDV---QFRMSHKRIMLFTNEDNP 151 (584)
T ss_pred -----------C--HHHHHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhc---chhhcCcEEEEECCCCCC
Confidence 1 135677777754421100000000011347788886666544432 235678999999943221
Q ss_pred Ch----hhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 157 PE----QYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 157 ~~----qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
-. ..-.....+.-++..+|.|+.+.|+
T Consensus 152 ~~~~~~~~~~a~~~a~dl~~~gi~ielf~l~ 182 (584)
T TIGR00578 152 HGNDSAKASRARTKAGDLRDTGIFLDLMHLK 182 (584)
T ss_pred CCCchhHHHHHHHHHHHHHhcCeEEEEEecC
Confidence 11 1111122467788999999999985
No 57
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=96.53 E-value=0.47 Score=43.17 Aligned_cols=170 Identities=18% Similarity=0.132 Sum_probs=99.3
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCC-CCCCEEEEEEecCceEEEecCCCCCCC--------CCCC
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLN-QLNQVVVIATGYNSCDYVYDSSSTGNQ--------SVGN 83 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n-~~N~l~VIa~~~~~a~~lyp~~~~~~~--------~~~~ 83 (298)
|-..+.|||+|...-+. .-+..+.+++..-|.. +-.+ +.-+||+|.... .--+|.......+ ..+.
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 2366677777777764 3333 567899988763 2345655432211 0000
Q ss_pred -----C----CchhH---HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 022374 84 -----G----RMPSL---CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ 151 (298)
Q Consensus 84 -----~----~~~~~---~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~ 151 (298)
+ ...+- ..++++.|.+...+. ......+..||..|...+... -.||+++.
T Consensus 78 f~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~----------~~~~~c~G~Al~~A~~lL~~~--------GGkIi~f~ 139 (244)
T cd01479 78 FLPLPDGLLVNLKESRQVIEDLLDQIPEMFQDT----------KETESALGPALQAAFLLLKET--------GGKIIVFQ 139 (244)
T ss_pred cCCCCcceeecHHHHHHHHHHHHHHHHHHHhcC----------CCCcccHHHHHHHHHHHHHhc--------CCEEEEEe
Confidence 0 00110 112333332222111 123567788888888877732 35888887
Q ss_pred cCC-CC---------C--------------hhhhHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeC
Q 022374 152 GSP-DG---------P--------------EQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQ 205 (298)
Q Consensus 152 ~S~-d~---------~--------------~qyi~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~ 205 (298)
+++ .. . .+..-+-+....+.+++|.||++..+.. +..-+..+|..|||.-....
T Consensus 140 s~~pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~ 219 (244)
T cd01479 140 SSLPTLGAGKLKSREDPKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYP 219 (244)
T ss_pred CCCCCcCCcccccCccccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEEC
Confidence 662 00 0 0111223578889999999999988533 66789999999999988776
No 58
>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=96.32 E-value=0.37 Score=42.77 Aligned_cols=173 Identities=17% Similarity=0.150 Sum_probs=104.9
Q ss_pred EEEEEeCCcccccc-CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHHHHH
Q 022374 16 VVVLLDTNPFFWSS-SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCATLL 94 (298)
Q Consensus 16 L~iIlD~s~~~w~~-~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~~i~ 94 (298)
+++|||.|-+|... +..+.+.+++.++-..- +|+- ...+=|+....+- +.+=+.+ ..+ +-
T Consensus 4 V~LVLD~SGSM~~~yk~G~vQ~~~Er~lalA~-~~Dd--DG~i~v~~Fs~~~-~~~~~vt-----------~~~----~~ 64 (200)
T PF10138_consen 4 VYLVLDISGSMRPLYKDGTVQRVVERILALAA-QFDD--DGEIDVWFFSTEF-DRLPDVT-----------LDN----YE 64 (200)
T ss_pred EEEEEeCCCCCchhhhCccHHHHHHHHHHHHh-hcCC--CCceEEEEeCCCC-CcCCCcC-----------HHH----HH
Confidence 68999999999988 66789999999877654 5554 4455555544221 1111111 011 12
Q ss_pred HHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHHHHHHcCC
Q 022374 95 QNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAIFSAQRSM 174 (298)
Q Consensus 95 ~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~ 174 (298)
.-++++...-...+. .|.+....+|..++.+..... + ...+ .+||..+.....+--.+++.|-.|.+..
T Consensus 65 ~~v~~~~~~~~~~~~------~G~t~y~~vm~~v~~~y~~~~---~-~~~P-~~VlFiTDG~~~~~~~~~~~i~~as~~p 133 (200)
T PF10138_consen 65 GYVDELHAGLPDWGR------MGGTNYAPVMEDVLDHYFKRE---P-SDAP-ALVLFITDGGPDDRRAIEKLIREASDEP 133 (200)
T ss_pred HHHHHHhccccccCC------CCCcchHHHHHHHHHHHhhcC---C-CCCC-eEEEEEecCCccchHHHHHHHHhccCCC
Confidence 222222221101111 234677888888888766431 1 1112 3444444333344457899999999999
Q ss_pred eeEEEEEcCCCChHHHHHHHhhcCC-----eeeeeCC-----cchHHHHHHHhc
Q 022374 175 VPIDSCYLGAQNSAFLQQASYITGG-----VHHKPQQ-----LDGLFQYLLTIF 218 (298)
Q Consensus 175 I~Idv~~L~~~e~~~LqQa~~~T~G-----~Y~~~~~-----~~~L~q~Ll~~~ 218 (298)
|-...+++|..+-.||+++-++.|- -|+.+.+ ++.|.+.|+..|
T Consensus 134 ifwqFVgiG~~~f~fL~kLD~l~gR~vDNa~Ff~~~d~~~lsD~eLy~~LL~Ef 187 (200)
T PF10138_consen 134 IFWQFVGIGDSNFGFLEKLDDLAGRVVDNAGFFAIDDIDELSDEELYDRLLAEF 187 (200)
T ss_pred eeEEEEEecCCcchHHHHhhccCCcccCCcCeEecCCcccCCHHHHHHHHHHHH
Confidence 9999999998888899999996331 1233332 457888888776
No 59
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=96.10 E-value=0.65 Score=40.47 Aligned_cols=150 Identities=14% Similarity=0.140 Sum_probs=79.1
Q ss_pred eEEEEEeCCcccccc----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHH
Q 022374 15 LVVVLLDTNPFFWSS----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLC 90 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~ 90 (298)
-++++||.|.+|-.. .+.++..+-+.+..++. .+.....+.++++...+. .....|..
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 478999999999754 44567776666665553 333344555766665432 22222221
Q ss_pred HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHH-HHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHH-HH
Q 022374 91 ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALC-YIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNA-IF 168 (298)
Q Consensus 91 ~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc-~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~-if 168 (298)
.+.+.+++..-.. .+.+.+..+|..|+. +..+.. ........+++||..-.. ..+--.+-+. +.
T Consensus 66 ---~~~v~~~~~~~~p---------~G~T~l~~~l~~a~~~~~~~~~-~~~~~p~~~~vIiiTDG~-~~d~~~~~~~i~~ 131 (199)
T cd01457 66 ---SSKVDQLFAENSP---------DGGTNLAAVLQDALNNYFQRKE-NGATCPEGETFLVITDGA-PDDKDAVERVIIK 131 (199)
T ss_pred ---HHHHHHHHhcCCC---------CCcCcHHHHHHHHHHHHHHHHh-hccCCCCceEEEEEcCCC-CCcHHHHHHHHHH
Confidence 1222222221111 245788999998874 444331 111111235444432211 1111122333 23
Q ss_pred HHHc----CCeeEEEEEcCCC--ChHHHHHHHhh
Q 022374 169 SAQR----SMVPIDSCYLGAQ--NSAFLQQASYI 196 (298)
Q Consensus 169 aAqk----~~I~Idv~~L~~~--e~~~LqQa~~~ 196 (298)
++++ .+|.|.++.+|.. ...+|+++.+.
T Consensus 132 a~~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~ 165 (199)
T cd01457 132 ASDELDADNELAISFLQIGRDPAATAFLKALDDQ 165 (199)
T ss_pred HHHhhccccCceEEEEEeCCcHHHHHHHHHHhHH
Confidence 4443 4799999999854 45689999987
No 60
>PRK10997 yieM hypothetical protein; Provisional
Probab=95.23 E-value=1.4 Score=44.34 Aligned_cols=150 Identities=9% Similarity=0.014 Sum_probs=91.5
Q ss_pred CCCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCch
Q 022374 8 LYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMP 87 (298)
Q Consensus 8 ~~~~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~ 87 (298)
..+.+..-++|+||+|.+|.+. +. ....-....-.+.+......+++|+..++...+ +.++..
T Consensus 318 ~~~~~kGpiII~VDtSGSM~G~-ke----~~AkalAaAL~~iAl~q~dr~~li~Fs~~i~~~--~l~~~~---------- 380 (487)
T PRK10997 318 QDEQPRGPFIVCVDTSGSMGGF-NE----QCAKAFCLALMRIALAENRRCYIMLFSTEVVTY--ELTGPD---------- 380 (487)
T ss_pred ccCCCCCcEEEEEECCCCCCCC-HH----HHHHHHHHHHHHHHHhcCCCEEEEEecCCceee--ccCCcc----------
Confidence 3456778899999999999854 21 222234455667788888999999887654332 333221
Q ss_pred hHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHH
Q 022374 88 SLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAI 167 (298)
Q Consensus 88 ~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~i 167 (298)
. +..+.+++.... .|.+.+..+|..|+..+.+. .+-.+-|+||+==- .....-.+++.+
T Consensus 381 -g----l~~ll~fL~~~f----------~GGTDl~~aL~~al~~l~~~-----~~r~adIVVISDF~-~~~~~eel~~~L 439 (487)
T PRK10997 381 -G----LEQAIRFLSQSF----------RGGTDLAPCLRAIIEKMQGR-----EWFDADAVVISDFI-AQRLPDELVAKV 439 (487)
T ss_pred -C----HHHHHHHHHHhc----------CCCCcHHHHHHHHHHHHccc-----ccCCceEEEECCCC-CCCChHHHHHHH
Confidence 0 233333433211 24678899998888877653 23344566665111 111233567888
Q ss_pred HHHHc-CCeeEEEEEcCCCChHHHHHHHh
Q 022374 168 FSAQR-SMVPIDSCYLGAQNSAFLQQASY 195 (298)
Q Consensus 168 faAqk-~~I~Idv~~L~~~e~~~LqQa~~ 195 (298)
..+++ .+.++..+.+|.....-+..++|
T Consensus 440 ~~Lk~~~~~rf~~l~i~~~~~p~l~~ifD 468 (487)
T PRK10997 440 KELQRQHQHRFHAVAMSAHGKPGIMRIFD 468 (487)
T ss_pred HHHHHhcCcEEEEEEeCCCCCchHHHhcC
Confidence 88877 89999999997433333444444
No 61
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=95.20 E-value=2 Score=37.78 Aligned_cols=161 Identities=15% Similarity=0.233 Sum_probs=94.7
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCC----CCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQL----NQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~----N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~ 91 (298)
.|++||+|-.|-+. ++..+=..|+.++++ |.|+|. -.++||+.. +.++.+.|...-.
T Consensus 6 ~~lllDtSgSM~Ge---~IealN~Glq~m~~~-Lkqdp~Ale~v~lsIVTF~-~~a~~~~pf~~~~-------------- 66 (207)
T COG4245 6 CYLLLDTSGSMIGE---PIEALNAGLQMMIDT-LKQDPYALERVELSIVTFG-GPARVIQPFTDAA-------------- 66 (207)
T ss_pred EEEEEecCcccccc---cHHHHHHHHHHHHHH-HHhChhhhheeEEEEEEec-CcceEEechhhHh--------------
Confidence 68999999988776 344443445555544 556654 567888766 4888888876532
Q ss_pred HHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhc----CCCCCCcEEEEEE-cCCCCChhhhHHHHH
Q 022374 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS----GLLHPQPRILCLQ-GSPDGPEQYVAIMNA 166 (298)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~----~~~~~~~rILii~-~S~d~~~qyi~lmN~ 166 (298)
++ ..+... ..|.++|-.||..|+..|-+.-+. ...+.++=+++++ |.| ..+|-.=.+.
T Consensus 67 -------nF--~~p~L~------a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~P--tD~w~~~~~~ 129 (207)
T COG4245 67 -------NF--NPPILT------AQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEP--TDDWQAGAAL 129 (207)
T ss_pred -------hc--CCCcee------cCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCc--chHHHhHHHH
Confidence 11 000111 136788999999999998765322 2345666677776 444 4444333333
Q ss_pred HHHHHcCCeeEEEEEcC-C-CChHHHHHHHhhcCCeeeeeCCcchHHHHH
Q 022374 167 IFSAQRSMVPIDSCYLG-A-QNSAFLQQASYITGGVHHKPQQLDGLFQYL 214 (298)
Q Consensus 167 ifaAqk~~I~Idv~~L~-~-~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~L 214 (298)
.+.-.+-+.+|=.|++| . ++...|+|+++.-+=.|- .+...|.+++
T Consensus 130 ~~~~~~~~k~v~a~~~G~~~ad~~~L~qit~~V~~~~t--~d~~~f~~fF 177 (207)
T COG4245 130 VFQGERRAKSVAAFSVGVQGADNKTLNQITEKVRQFLT--LDGLQFREFF 177 (207)
T ss_pred hhhcccccceEEEEEecccccccHHHHHHHHhhccccc--cchHHHHHHH
Confidence 33333444455556665 2 578899999876553332 3344444444
No 62
>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=94.65 E-value=0.023 Score=45.50 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=25.4
Q ss_pred ceeEcCCCCeeecCC---CCCCcccccccccc
Q 022374 251 MGYICSVCLSIYCKH---LKKCSTCGSVFGQA 279 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~---~~~C~~C~~~f~~~ 279 (298)
.-.+||-|+++|=.+ |.+||.||+.|...
T Consensus 8 tKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 347999999999987 56799999999988
No 63
>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=93.76 E-value=0.056 Score=34.12 Aligned_cols=24 Identities=33% Similarity=0.724 Sum_probs=19.9
Q ss_pred eeEcCCCCeeecC--CCCCCcccccc
Q 022374 252 GYICSVCLSIYCK--HLKKCSTCGSV 275 (298)
Q Consensus 252 GyvCp~Clsi~C~--~~~~C~~C~~~ 275 (298)
-|+|++|+-++=. .|..||+||..
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCc
Confidence 4999999999764 46799999973
No 64
>PRK12496 hypothetical protein; Provisional
Probab=93.59 E-value=0.046 Score=46.96 Aligned_cols=97 Identities=18% Similarity=0.185 Sum_probs=53.0
Q ss_pred HHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcCCCccccccccCCCCCCCCCcee
Q 022374 162 AIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQLDGLFQYLLTIFGTDLHSRNFLQLPKPVGVDFRAS 241 (298)
Q Consensus 162 ~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~p~~~~r~~l~~P~~~~vd~~a~ 241 (298)
.+-.+...|++.+ |.-.|+..|..++..|- ..+|. .+.|+..+.+..... +++...- ..+.
T Consensus 59 ~i~~v~~~a~~tg---d~~~Ls~~D~~~iaLA~-el~~~--lvtDD~~~~~vA~~l-----------gi~v~~~-~~~~- 119 (164)
T PRK12496 59 SIEKVEEAAIKTG---DLMRLSNTDIEVLALAL-ELNGT--LYTDDYGIQNVAKKL-----------NIKFENI-KTKG- 119 (164)
T ss_pred HHHHHHHHHHhcC---CccccchhhHHHHHHHH-HhCCc--EECcHHHHHHHHHHc-----------CCeEecc-cccc-
Confidence 3445666677665 54446555666666444 44552 234433333322222 2221110 0000
Q ss_pred eeeccCcccceeEcCCCCeeecCCC--CCCccccccccccc
Q 022374 242 CFCHKNTIDMGYICSVCLSIYCKHL--KKCSTCGSVFGQAQ 280 (298)
Q Consensus 242 C~CH~~~~~~GyvCp~Clsi~C~~~--~~C~~C~~~f~~~~ 280 (298)
-.+...+.|+|+-|+..|=+-+ ..|++||..+...+
T Consensus 120 ---i~~~~~w~~~C~gC~~~~~~~~~~~~C~~CG~~~~r~~ 157 (164)
T PRK12496 120 ---IKKVIKWRKVCKGCKKKYPEDYPDDVCEICGSPVKRKM 157 (164)
T ss_pred ---chhheeeeEECCCCCccccCCCCCCcCCCCCChhhhcc
Confidence 1244567899999999997643 56999998886554
No 65
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=93.47 E-value=0.048 Score=46.93 Aligned_cols=24 Identities=25% Similarity=0.609 Sum_probs=19.8
Q ss_pred eeEcCCCCeeecCC-CCCCcccccc
Q 022374 252 GYICSVCLSIYCKH-LKKCSTCGSV 275 (298)
Q Consensus 252 GyvCp~Clsi~C~~-~~~C~~C~~~ 275 (298)
-|||++|+-+.=.- |..||+||..
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 59999999887754 5599999964
No 66
>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=92.38 E-value=0.12 Score=32.22 Aligned_cols=23 Identities=39% Similarity=0.885 Sum_probs=19.6
Q ss_pred eEcCCCCeeecCC--CCCCcccccc
Q 022374 253 YICSVCLSIYCKH--LKKCSTCGSV 275 (298)
Q Consensus 253 yvCp~Clsi~C~~--~~~C~~C~~~ 275 (298)
|+|++|+-+|=.. +-.||+||..
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~~ 26 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGAP 26 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCCc
Confidence 8999999998765 5699999973
No 67
>PTZ00395 Sec24-related protein; Provisional
Probab=91.65 E-value=6.1 Score=44.13 Aligned_cols=186 Identities=11% Similarity=0.088 Sum_probs=105.6
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCC---------------
Q 022374 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSST--------------- 76 (298)
Q Consensus 12 ~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~--------------- 76 (298)
-|-+.+.+||+|...-.. .-+..+++.|+.-|.. + ..+.-+|+||+... . --.|.....
T Consensus 951 ~PP~YvFLIDVS~~AVkS--GLl~tacesIK~sLDs-L-~dpRTRVGIITFDS-s-LHFYNLks~l~~~~~~~~~~~~l~ 1024 (1560)
T PTZ00395 951 LPPYFVFVVECSYNAIYN--NITYTILEGIRYAVQN-V-KCPQTKIAIITFNS-S-IYFYHCKGGKGVSGEEGDGGGGSG 1024 (1560)
T ss_pred CCCEEEEEEECCHHHHhh--ChHHHHHHHHHHHHhc-C-CCCCcEEEEEEecC-c-EEEEecCcccccccccccccccCC
Confidence 356889999999976655 2345555665555544 2 24667999998764 2 345555322
Q ss_pred -CC-----CCCC---CCCchhH----------HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhh
Q 022374 77 -GN-----QSVG---NGRMPSL----------CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFR 137 (298)
Q Consensus 77 -~~-----~~~~---~~~~~~~----------~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~ 137 (298)
++ +.++ .....++ ++.+++.|.++.... ...++-|..||..|+..|...
T Consensus 1025 qPQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t----------~~~esCLGSALqAA~~aLk~~-- 1092 (1560)
T PTZ00395 1025 NHQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTM----------QSYGSCGNSALKIAMDMLKER-- 1092 (1560)
T ss_pred CceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhcc----------CCCcccHHHHHHHHHHHHHhc--
Confidence 00 0000 0000111 112333333322211 123577888898888888754
Q ss_pred cCCCCCCcEEEEEEcC-CCCC------------------hhhhHHHHHHHHHHcCCeeEEEEEcCCC--C--hHHHHHHH
Q 022374 138 SGLLHPQPRILCLQGS-PDGP------------------EQYVAIMNAIFSAQRSMVPIDSCYLGAQ--N--SAFLQQAS 194 (298)
Q Consensus 138 ~~~~~~~~rILii~~S-~d~~------------------~qyi~lmN~ifaAqk~~I~Idv~~L~~~--e--~~~LqQa~ 194 (298)
....+|+++.++ |..+ .+-.-+-+....+-+.+|.||++..+.. + +.-|..++
T Consensus 1093 ----GGGGKIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Ls 1168 (1560)
T PTZ00395 1093 ----NGLGSICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVA 1168 (1560)
T ss_pred ----CCCceEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchh
Confidence 234688888766 2110 1212233577788899999999998532 2 34599999
Q ss_pred hhcCCeeeeeCC------cchHHHHHHHhcC
Q 022374 195 YITGGVHHKPQQ------LDGLFQYLLTIFG 219 (298)
Q Consensus 195 ~~T~G~Y~~~~~------~~~L~q~Ll~~~~ 219 (298)
..|||.-+.... ...|.+-|...+.
T Consensus 1169 r~TGGqlyyYPnFna~rD~~KL~~DL~r~LT 1199 (1560)
T PTZ00395 1169 QNTGGKILFVENFLWQKDYKEIYMNIMDTLT 1199 (1560)
T ss_pred cccceeEEEeCCCcccccHHHHHHHHHHHhh
Confidence 999996544432 3345555555554
No 68
>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=91.09 E-value=0.15 Score=41.83 Aligned_cols=30 Identities=17% Similarity=0.163 Sum_probs=25.7
Q ss_pred ceeEcCCCCeeecCC---CCCCccccccccccc
Q 022374 251 MGYICSVCLSIYCKH---LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~---~~~C~~C~~~f~~~~ 280 (298)
.-.+||.|+++|=.+ |..||.||+.+...+
T Consensus 8 tKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNRRPAVSPYTGEQFPPEE 40 (129)
T ss_pred ccccCCCcCccccccCCCCccCCCcCCccCcch
Confidence 357999999999976 689999999987664
No 69
>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=90.68 E-value=0.17 Score=43.23 Aligned_cols=30 Identities=20% Similarity=0.436 Sum_probs=24.5
Q ss_pred cceeEcCCCCeeecC-----CCCCCcccccccccc
Q 022374 250 DMGYICSVCLSIYCK-----HLKKCSTCGSVFGQA 279 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~-----~~~~C~~C~~~f~~~ 279 (298)
..+|+||.|...|-. ..-.||.||..|..-
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 357999999999984 457899999998744
No 70
>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=90.67 E-value=0.25 Score=31.64 Aligned_cols=26 Identities=35% Similarity=0.680 Sum_probs=21.7
Q ss_pred eEcCCCCeeecCC------CCCCccccccccc
Q 022374 253 YICSVCLSIYCKH------LKKCSTCGSVFGQ 278 (298)
Q Consensus 253 yvCp~Clsi~C~~------~~~C~~C~~~f~~ 278 (298)
++|+.|+.+|-.. ..+|..||..|+.
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 6899999999953 3699999998764
No 71
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=89.87 E-value=0.22 Score=43.32 Aligned_cols=30 Identities=20% Similarity=0.546 Sum_probs=24.6
Q ss_pred cceeEcCCCCeeecC-----CCCCCcccccccccc
Q 022374 250 DMGYICSVCLSIYCK-----HLKKCSTCGSVFGQA 279 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~-----~~~~C~~C~~~f~~~ 279 (298)
..+|+||.|...|-. ..-.||.||..|..-
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 357999999999984 456899999998854
No 72
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=89.48 E-value=18 Score=35.78 Aligned_cols=163 Identities=20% Similarity=0.179 Sum_probs=101.2
Q ss_pred CCeEEEEEeCCcccccc-CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchhHHH
Q 022374 13 VSLVVVLLDTNPFFWSS-SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPSLCA 91 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~-~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~~~~ 91 (298)
..-.+|+||+|-.|... +=....++-=+|--.+. .+=+.-.|.+|+.+... .+.
T Consensus 463 ~aAvallvDtS~SM~~eGRw~PmKQtALALhHLv~---TrfrGD~l~~i~Fgr~A--------~~v-------------- 517 (652)
T COG4867 463 QAAVALLVDTSFSMVMEGRWLPMKQTALALHHLVC---TRFRGDALQIIAFGRYA--------RTV-------------- 517 (652)
T ss_pred ccceeeeeeccHHHHHhccCCchHHHHHHHHHHHH---hcCCCcceEEEeccchh--------ccc--------------
Confidence 34678999999998554 22223333223322332 23467778888876321 111
Q ss_pred HHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-C-------C-------C
Q 022374 92 TLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-P-------D-------G 156 (298)
Q Consensus 92 ~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~-------d-------~ 156 (298)
-+.+|..+ +.... ..+.+.+||.+|=-++.|. +...+-||||+-. | | .
T Consensus 518 -~v~eLt~l----~~v~e-------qgTNlhhaL~LA~r~l~Rh-----~~~~~~il~vTDGePtAhle~~DG~~~~f~y 580 (652)
T COG4867 518 -TAAELTGL----AGVYE-------QGTNLHHALALAGRHLRRH-----AGAQPVVLVVTDGEPTAHLEDGDGTSVFFDY 580 (652)
T ss_pred -CHHHHhcC----CCccc-------cccchHHHHHHHHHHHHhC-----cccCceEEEEeCCCccccccCCCCceEecCC
Confidence 13333222 11121 3467899999998888886 4677788888733 1 1 1
Q ss_pred ChhhhHHHHH---HHHHHcCCeeEEEEEcCCCC---hHHHHHHHhhcCCeeeeeCCcchHHHHHHHhcC
Q 022374 157 PEQYVAIMNA---IFSAQRSMVPIDSCYLGAQN---SAFLQQASYITGGVHHKPQQLDGLFQYLLTIFG 219 (298)
Q Consensus 157 ~~qyi~lmN~---ifaAqk~~I~Idv~~L~~~e---~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll~~~~ 219 (298)
+.++--+..+ +.-..|.+|.|.++-|+ .+ ..|++|+++.|+|.-+. .+++++-+|...-|+
T Consensus 581 p~DP~t~~~Tvr~~d~~~r~G~q~t~FrLg-~DpgL~~Fv~qva~rv~G~vv~-pdldglGaaVvgdyl 647 (652)
T COG4867 581 PPDPRTIAHTVRGFDDMARLGAQVTIFRLG-SDPGLARFIDQVARRVQGRVVV-PDLDGLGAAVVGDYL 647 (652)
T ss_pred CCChhHHHHHHHHHHHHHhccceeeEEeec-CCHhHHHHHHHHHHHhCCeEEe-cCcchhhHHHHHHHH
Confidence 1222222222 44567899999999996 43 56999999999999775 568898888877664
No 73
>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=89.45 E-value=0.2 Score=29.70 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=21.2
Q ss_pred EcCCCCeeecCCCCCCcccccccc
Q 022374 254 ICSVCLSIYCKHLKKCSTCGSVFG 277 (298)
Q Consensus 254 vCp~Clsi~C~~~~~C~~C~~~f~ 277 (298)
.||.|...+-.--..|+.||-.|.
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCCc
Confidence 499999999888899999998885
No 74
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=87.53 E-value=0.61 Score=31.17 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=24.4
Q ss_pred eeEcCCCCeeecCC----CCCCccccccccccccC
Q 022374 252 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQ 282 (298)
Q Consensus 252 GyvCp~Clsi~C~~----~~~C~~C~~~f~~~~~~ 282 (298)
-|.|+.|+..+=.. ...||.||..+....+.
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~~~~ 37 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRILFKERP 37 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEEEccCC
Confidence 49999999988532 46899999999866533
No 75
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.72 E-value=0.44 Score=28.07 Aligned_cols=24 Identities=25% Similarity=0.591 Sum_probs=18.3
Q ss_pred eEcCCCCeeecCCCCCCccccccc
Q 022374 253 YICSVCLSIYCKHLKKCSTCGSVF 276 (298)
Q Consensus 253 yvCp~Clsi~C~~~~~C~~C~~~f 276 (298)
-.||.|+...=.--..|+.||..|
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCCcccccChhhCCCC
Confidence 369999996555567899999865
No 76
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=84.00 E-value=0.54 Score=26.99 Aligned_cols=22 Identities=27% Similarity=0.656 Sum_probs=16.4
Q ss_pred cCCCCeeecCCCCCCccccccc
Q 022374 255 CSVCLSIYCKHLKKCSTCGSVF 276 (298)
Q Consensus 255 Cp~Clsi~C~~~~~C~~C~~~f 276 (298)
||.|+...=+--..|+.||+.|
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 7778777766667788888764
No 77
>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=82.70 E-value=0.97 Score=31.10 Aligned_cols=23 Identities=35% Similarity=0.798 Sum_probs=18.7
Q ss_pred eEcCCCCeeecC-----------------CCC--CCcccccc
Q 022374 253 YICSVCLSIYCK-----------------HLK--KCSTCGSV 275 (298)
Q Consensus 253 yvCp~Clsi~C~-----------------~~~--~C~~C~~~ 275 (298)
|+|.+|+-+|=+ +|. .||+|+..
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 453 89999863
No 78
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=82.24 E-value=0.92 Score=39.38 Aligned_cols=34 Identities=21% Similarity=0.454 Sum_probs=28.0
Q ss_pred CcccceeEcCCCCeeecCCCCCCccccccccccc
Q 022374 247 NTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 247 ~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
+...+.|+|--|..+|=...-.|+.||..+....
T Consensus 134 ~v~~w~~rC~GC~~~f~~~~~~Cp~CG~~~~~~~ 167 (177)
T COG1439 134 KVRKWRLRCHGCKRIFPEPKDFCPICGSPLKRKR 167 (177)
T ss_pred eEeeeeEEEecCceecCCCCCcCCCCCCceEEee
Confidence 3456789999999999966689999999966555
No 79
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=81.75 E-value=0.8 Score=38.44 Aligned_cols=31 Identities=29% Similarity=0.618 Sum_probs=24.6
Q ss_pred cceeEcCCCCeeecC-----CC-----CCCccccccccccc
Q 022374 250 DMGYICSVCLSIYCK-----HL-----KKCSTCGSVFGQAQ 280 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~-----~~-----~~C~~C~~~f~~~~ 280 (298)
..+|+||.|...|-. +. -.||.||..+....
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 347999999999984 23 57999999997654
No 80
>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=81.24 E-value=1.2 Score=30.17 Aligned_cols=12 Identities=42% Similarity=0.930 Sum_probs=10.4
Q ss_pred eEcCCCCeeecC
Q 022374 253 YICSVCLSIYCK 264 (298)
Q Consensus 253 yvCp~Clsi~C~ 264 (298)
|+|++|+.+|=+
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 899999999874
No 81
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=79.14 E-value=1.3 Score=30.31 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=26.7
Q ss_pred ccceeEcCCCCeeecCC----CCCCccccccccccccC
Q 022374 249 IDMGYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQ 282 (298)
Q Consensus 249 ~~~GyvCp~Clsi~C~~----~~~C~~C~~~f~~~~~~ 282 (298)
....|+|..|+..+-.. ...|+-||.+.-..++.
T Consensus 3 ~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl~K~R~ 40 (49)
T COG1996 3 AMMEYKCARCGREVELDQETRGIRCPYCGSRILVKERP 40 (49)
T ss_pred ceEEEEhhhcCCeeehhhccCceeCCCCCcEEEEeccC
Confidence 34579999999999422 36999999998877744
No 82
>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=79.13 E-value=2 Score=27.45 Aligned_cols=25 Identities=28% Similarity=0.670 Sum_probs=19.6
Q ss_pred eeEcCCCCeeecC-------CCCCCccccccc
Q 022374 252 GYICSVCLSIYCK-------HLKKCSTCGSVF 276 (298)
Q Consensus 252 GyvCp~Clsi~C~-------~~~~C~~C~~~f 276 (298)
.|.|+.|...|=. ....||.||...
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISDDPLATCPECGGDV 36 (41)
T ss_pred EEEcCCCCCEEEEEEecCCCCCCCCCCCCCcc
Confidence 5999999997752 346899999844
No 83
>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=79.05 E-value=57 Score=30.56 Aligned_cols=168 Identities=14% Similarity=0.172 Sum_probs=79.8
Q ss_pred CCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC----CCCCCEEEEEEecCceEEEecCCCCCC--CCCCCCCc
Q 022374 13 VSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL----NQLNQVVVIATGYNSCDYVYDSSSTGN--QSVGNGRM 86 (298)
Q Consensus 13 ~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~----n~~N~l~VIa~~~~~a~~lyp~~~~~~--~~~~~~~~ 86 (298)
+.-+++.|-+|+.||+-.+..-.-+=+.+..|+.+.|.. +-...|.||... .+-|+.....+ .......+
T Consensus 70 Sar~~~~IQmS~EMW~fd~~Ge~~fek~vn~Fl~~lf~kWk~~~~~H~vTIVlfs----Rv~~~~~~~~~l~~~~~~~~y 145 (281)
T PF12257_consen 70 SARVYIFIQMSSEMWDFDEDGEIYFEKAVNGFLPELFKKWKEIGTHHLVTIVLFS----RVDYDDISFRDLPPGERGKNY 145 (281)
T ss_pred ceeeeehHhhhHHHhCcCccHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEEEE----EEccccchhhcCCccccCCCC
Confidence 457899999999999984443222223344577777743 444455555543 22333221111 11111223
Q ss_pred hhHH------------HHHHHHHHHHHhhhhc----------cCCCCCCc---cccccchHHHHHHHHHHHHHhhhc-CC
Q 022374 87 PSLC------------ATLLQNLEEFMNKDEQ----------LGKQEPEG---RIACSLLSGSLSMALCYIQRVFRS-GL 140 (298)
Q Consensus 87 ~~~~------------~~i~~~L~~l~~~~~~----------~~~~~~~~---~~~~s~L~~aLs~ALc~inr~~~~-~~ 140 (298)
.++| ..++..|+..+..-.. .+.....+ ...++.+-.|+-+|+-...+.-.. .-
T Consensus 146 ~DfYrVVv~~~~~~~W~~il~~Lk~eF~~f~rdi~~~~~~~~~~~~~i~g~~s~A~~gNiLEaINlaln~~~~~~idRdl 225 (281)
T PF12257_consen 146 KDFYRVVVDEENSQDWTSILVTLKKEFNQFQRDILLYHQSDEDGTTRIKGRFSPAIKGNILEAINLALNQFDKHYIDRDL 225 (281)
T ss_pred CcceEEEEeccccccHHHHHHHHHHHHHHHHHHhhcccccccCCCccccceEeecccccHHHHHHHHhhhcccccccCcc
Confidence 3332 2355555432222100 00000000 022344455666665543321100 01
Q ss_pred CCCCcEEEEEEcCCC-CChhhhHHHH-HHHHHHcCCeeEEEEEcCCC
Q 022374 141 LHPQPRILCLQGSPD-GPEQYVAIMN-AIFSAQRSMVPIDSCYLGAQ 185 (298)
Q Consensus 141 ~~~~~rILii~~S~d-~~~qyi~lmN-~ifaAqk~~I~Idv~~L~~~ 185 (298)
.+..--|+||+.... -.-+|- ++. +=.....++|-+|++.|+.+
T Consensus 226 ~rTG~~iivITpG~Gvf~Vd~~-ll~~T~~rl~~~gi~~DlIcL~~~ 271 (281)
T PF12257_consen 226 RRTGQSIIVITPGTGVFEVDYD-LLRLTTQRLLDNGIGIDLICLSKP 271 (281)
T ss_pred cccCceEEEEcCCCceEEECHH-HHHHHHHHHHhcCccEEEEEcCCC
Confidence 233445778874421 123333 334 56677889999999999744
No 84
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=78.70 E-value=1.2 Score=38.72 Aligned_cols=31 Identities=23% Similarity=0.556 Sum_probs=24.9
Q ss_pred cceeEcCCCCeeec-----CCCCCCccccccccccc
Q 022374 250 DMGYICSVCLSIYC-----KHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 250 ~~GyvCp~Clsi~C-----~~~~~C~~C~~~f~~~~ 280 (298)
..+|+||.|...|. +.--.||.||..+.-.-
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 45799999999997 35578999999987543
No 85
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=78.29 E-value=74 Score=32.88 Aligned_cols=165 Identities=11% Similarity=0.058 Sum_probs=96.9
Q ss_pred EEEEEeCCcccccc---CCccHHHHHHHHHHHHHHHHcCC-CCCCEEEEEEecCceEEEecCCCCCCCCCCCCCchh---
Q 022374 16 VVVLLDTNPFFWSS---SSLSFSQFLTHVLAFLNAILTLN-QLNQVVVIATGYNSCDYVYDSSSTGNQSVGNGRMPS--- 88 (298)
Q Consensus 16 L~iIlD~s~~~w~~---~~~~l~~~l~~l~~Fln~~l~~n-~~N~l~VIa~~~~~a~~lyp~~~~~~~~~~~~~~~~--- 88 (298)
.++|+|+.+.|... ....|..+++.+..|+---+..+ ----+++++.+.. -+.|+. +++..+..
T Consensus 7 ttfilDvG~~Ms~~~~~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD-------~ten~l--egg~~fqnisv 77 (669)
T KOG2326|consen 7 TTFILDVGPSMSKNNETGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCD-------VTENSL--EGGNVFQNISV 77 (669)
T ss_pred eEEEEecCccccccCCCccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCC-------CccCcc--ccccccceeEE
Confidence 45566999999876 56679999999888876555444 5556677766542 222221 11111111
Q ss_pred -------HHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE-cCCCCChhh
Q 022374 89 -------LCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQ-GSPDGPEQY 160 (298)
Q Consensus 89 -------~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~-~S~d~~~qy 160 (298)
.+..+.+.+....+. ++..+.+-+||++..+.+-+...- +.....|++++. +-...-+||
T Consensus 78 l~p~~tpaf~~l~k~~~~~~qq-----------ns~q~Df~gal~vs~dL~~qhe~~-~k~~~kr~Il~~~~l~~dfsd~ 145 (669)
T KOG2326|consen 78 LAPVTTPAFIGLIKRLKQYCQQ-----------NSHQSDFEGALSVSQDLLVQHEDI-KKQFQKRKILKQIVLFTDFSDD 145 (669)
T ss_pred eecccchhhHHHHHHHHHhcCC-----------CccccchhhhHHHHHHHHHHHHhc-cchhhceEEEEeecccccchhh
Confidence 112234444333222 134567899999999976665332 334445555544 333344565
Q ss_pred hHHHHHHHHHHcCCeeEEEEEcCC----------------CCh-HHHHHHHhhcCCeeeee
Q 022374 161 VAIMNAIFSAQRSMVPIDSCYLGA----------------QNS-AFLQQASYITGGVHHKP 204 (298)
Q Consensus 161 i~lmN~ifaAqk~~I~Idv~~L~~----------------~e~-~~LqQa~~~T~G~Y~~~ 204 (298)
+- .+.+..+.+|-.=+.+|.. ++- .++|++-.+-+|.|...
T Consensus 146 ~~---ive~l~~~didL~~~gldf~~e~id~s~dl~e~~kk~n~~~~q~~e~l~~~q~~~~ 203 (669)
T KOG2326|consen 146 LF---IVEDLTDEDIDLLTEGLDFRIELIDCSKDLQEERKKSNYTWLQLVEALPNSQIYNM 203 (669)
T ss_pred HH---HHHHHhhcCcceeEeeccCCccccccCccccccccccchHHHHHHHhcchhhHHhH
Confidence 53 7888899999988887751 112 35666666677777644
No 86
>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=77.74 E-value=1.4 Score=27.92 Aligned_cols=25 Identities=24% Similarity=0.630 Sum_probs=18.8
Q ss_pred eEcCCCCeeecCC---------CCCCcccccccc
Q 022374 253 YICSVCLSIYCKH---------LKKCSTCGSVFG 277 (298)
Q Consensus 253 yvCp~Clsi~C~~---------~~~C~~C~~~f~ 277 (298)
+.||.|.+.|--- ...|+.||..|.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 6799999977632 158999998875
No 87
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=75.50 E-value=1 Score=29.69 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=18.9
Q ss_pred eEcCCCCeee--cCC---CCCCccccccccccc
Q 022374 253 YICSVCLSIY--CKH---LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 253 yvCp~Clsi~--C~~---~~~C~~C~~~f~~~~ 280 (298)
|+||.|++.. -+. -.+|+.||+.+....
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 7899999965 221 148999999887655
No 88
>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=74.80 E-value=1.6 Score=30.51 Aligned_cols=30 Identities=17% Similarity=0.362 Sum_probs=22.2
Q ss_pred eeEcCCCCeeecCCC-------CCCccccccccccccC
Q 022374 252 GYICSVCLSIYCKHL-------KKCSTCGSVFGQAQTQ 282 (298)
Q Consensus 252 GyvCp~Clsi~C~~~-------~~C~~C~~~f~~~~~~ 282 (298)
.|.||.|..-+= ++ ..|+.||+.|-...+.
T Consensus 2 ~~~CP~CG~~ie-v~~~~~GeiV~Cp~CGaeleVv~~~ 38 (54)
T TIGR01206 2 QFECPDCGAEIE-LENPELGELVICDECGAELEVVSLD 38 (54)
T ss_pred ccCCCCCCCEEe-cCCCccCCEEeCCCCCCEEEEEeCC
Confidence 478999998763 32 5899999998765433
No 89
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.59 E-value=1.4e+02 Score=32.19 Aligned_cols=176 Identities=23% Similarity=0.238 Sum_probs=99.1
Q ss_pred CCCCCCCCCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcC---CCCCCEEEEEEecCceEEEecCCCCCC
Q 022374 2 ASAPSKLYSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTL---NQLNQVVVIATGYNSCDYVYDSSSTGN 78 (298)
Q Consensus 2 ~~~~~~~~~~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~---n~~N~l~VIa~~~~~a~~lyp~~~~~~ 78 (298)
|...-+..+-.|-.-+.++|+|....+. + .|+.+..=|.+.|+. .+..++++|+.. +..+ +|...+...
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 3334456666778889999998855443 1 333333344445544 568899999876 3333 444443332
Q ss_pred CC-----CCCC----Cch-hH----------HHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhc
Q 022374 79 QS-----VGNG----RMP-SL----------CATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRS 138 (298)
Q Consensus 79 ~~-----~~~~----~~~-~~----------~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~ 138 (298)
+. ++.. -+. ++ .+..++.|.+++..+. ...+.|..||..|-.+|+..
T Consensus 355 qp~mm~vsdl~d~flp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~~----------~t~~alGpALkaaf~li~~~--- 421 (887)
T KOG1985|consen 355 QPQMMIVSDLDDPFLPMPDSLLVPLKECKDLIETLLKTLPEMFQDTR----------STGSALGPALKAAFNLIGST--- 421 (887)
T ss_pred CCceeeeccccccccCCchhheeeHHHHHHHHHHHHHHHHHHHhhcc----------CcccccCHHHHHHHHHHhhc---
Confidence 10 0000 011 11 1123444444444331 12456677777777777643
Q ss_pred CCCCCCcEEEEEEcC-C-------CCChhh--------h-------HHH-HHHHHHHcCCeeEEEEEcCCC--ChHHHHH
Q 022374 139 GLLHPQPRILCLQGS-P-------DGPEQY--------V-------AIM-NAIFSAQRSMVPIDSCYLGAQ--NSAFLQQ 192 (298)
Q Consensus 139 ~~~~~~~rILii~~S-~-------d~~~qy--------i-------~lm-N~ifaAqk~~I~Idv~~L~~~--e~~~LqQ 192 (298)
-.||.|+.++ + +..+|| . ++. +..-.+-|..|.||.+.+.+. |..-|.-
T Consensus 422 -----GGri~vf~s~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~ 496 (887)
T KOG1985|consen 422 -----GGRISVFQSTLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSC 496 (887)
T ss_pred -----CCeEEEEeccCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhc
Confidence 3399998876 1 111111 1 111 234467899999999999632 7888999
Q ss_pred HHhhcCCeeee
Q 022374 193 ASYITGGVHHK 203 (298)
Q Consensus 193 a~~~T~G~Y~~ 203 (298)
++.-|||.-+.
T Consensus 497 LskySgG~~y~ 507 (887)
T KOG1985|consen 497 LSKYSGGQVYY 507 (887)
T ss_pred cccccCceeEE
Confidence 99999996443
No 90
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=72.83 E-value=2 Score=27.29 Aligned_cols=24 Identities=38% Similarity=0.813 Sum_probs=17.0
Q ss_pred eEcCCCCeeecC----CC-----CCCccccccc
Q 022374 253 YICSVCLSIYCK----HL-----KKCSTCGSVF 276 (298)
Q Consensus 253 yvCp~Clsi~C~----~~-----~~C~~C~~~f 276 (298)
.+||.|.+.|=- +| ..|+.||..|
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 468888888862 33 4788888776
No 91
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=72.50 E-value=68 Score=33.26 Aligned_cols=30 Identities=17% Similarity=0.196 Sum_probs=23.6
Q ss_pred ChHHHHHHHhhcCCeeeeeCCcchHHHHHH
Q 022374 186 NSAFLQQASYITGGVHHKPQQLDGLFQYLL 215 (298)
Q Consensus 186 e~~~LqQa~~~T~G~Y~~~~~~~~L~q~Ll 215 (298)
|.......|+.|||.-+.+-.+.-|-|.+-
T Consensus 193 Dds~IermCevTGGRSysV~Spr~lnqcie 222 (888)
T KOG3768|consen 193 DDSVIERMCEVTGGRSYSVVSPRQLNQCIE 222 (888)
T ss_pred CchhhHHhhhhcCCceeeeeCHHHHHHHHH
Confidence 667889999999999988887766555443
No 92
>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=71.74 E-value=1.8 Score=28.88 Aligned_cols=24 Identities=25% Similarity=0.722 Sum_probs=15.4
Q ss_pred ceeEcCCCCee-ecCCCC----CCccccc
Q 022374 251 MGYICSVCLSI-YCKHLK----KCSTCGS 274 (298)
Q Consensus 251 ~GyvCp~Clsi-~C~~~~----~C~~C~~ 274 (298)
.|++||.|.+. +..+.. .|..|+.
T Consensus 17 ~g~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 17 DGFVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 37999999984 333332 6777753
No 93
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=69.98 E-value=3.2 Score=32.68 Aligned_cols=31 Identities=16% Similarity=0.359 Sum_probs=23.0
Q ss_pred cceeEcCCCCeeecC-------CCCCCccccccccccc
Q 022374 250 DMGYICSVCLSIYCK-------HLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~-------~~~~C~~C~~~f~~~~ 280 (298)
..-|.||.|.+..-. ....|+.||..+....
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 2478999999988765
No 94
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=69.93 E-value=1.7 Score=36.00 Aligned_cols=27 Identities=19% Similarity=0.342 Sum_probs=21.4
Q ss_pred ceeEcCCCCeeecCCC--CCCcccccccc
Q 022374 251 MGYICSVCLSIYCKHL--KKCSTCGSVFG 277 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~~--~~C~~C~~~f~ 277 (298)
.++.||.|++-.=+.- ..||+||.+++
T Consensus 27 L~~hCp~Cg~PLF~KdG~v~CPvC~~~~~ 55 (131)
T COG1645 27 LAKHCPKCGTPLFRKDGEVFCPVCGYREV 55 (131)
T ss_pred HHhhCcccCCcceeeCCeEECCCCCceEE
Confidence 3688999999877653 68999996665
No 95
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=68.55 E-value=1.7e+02 Score=31.28 Aligned_cols=183 Identities=13% Similarity=0.106 Sum_probs=101.1
Q ss_pred CCCCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCCC---CCCCC-
Q 022374 9 YSDDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGNQ---SVGNG- 84 (298)
Q Consensus 9 ~~~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~~---~~~~~- 84 (298)
.++.|.+.|.+||+|...... .-+..+.+.++.=+...-...+.-+++||... +..+++..+++.+++ .++..
T Consensus 272 ~~p~P~~yvFlIDVS~~a~~~--g~~~a~~r~Il~~l~~~~~~dpr~kIaii~fD-~sl~ffk~s~d~~~~~~~vsdld~ 348 (861)
T COG5028 272 RQPPPPVYVFLIDVSFEAIKN--GLVKAAIRAILENLDQIPNFDPRTKIAIICFD-SSLHFFKLSPDLDEQMLIVSDLDE 348 (861)
T ss_pred ccCCCCEEEEEEEeehHhhhc--chHHHHHHHHHhhccCCCCCCCcceEEEEEEc-ceeeEEecCCCCccceeeeccccc
Confidence 445588999999999866554 23555556655555444466788999999876 567888888777320 00000
Q ss_pred ---Cc--hhHH---HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcC-CC
Q 022374 85 ---RM--PSLC---ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGS-PD 155 (298)
Q Consensus 85 ---~~--~~~~---~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S-~d 155 (298)
.. ++++ +.....++.|++.-+..-... ...+..+..||..|-..+ +.....|+++.++ |.
T Consensus 349 pFlPf~s~~fv~pl~~~k~~~etLl~~~~~If~d~---~~pk~~~G~aLk~a~~l~--------g~~GGkii~~~stlPn 417 (861)
T COG5028 349 PFLPFPSGLFVLPLKSCKQIIETLLDRVPRIFQDN---KSPKNALGPALKAAKSLI--------GGTGGKIIVFLSTLPN 417 (861)
T ss_pred ccccCCcchhcccHHHHHHHHHHHHHHhhhhhccc---CCCccccCHHHHHHHHHh--------hccCceEEEEeecCCC
Confidence 01 1111 111111112222221111100 012345566665554422 2345567777655 11
Q ss_pred C----------------ChhhhHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeC
Q 022374 156 G----------------PEQYVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQ 205 (298)
Q Consensus 156 ~----------------~~qyi~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~ 205 (298)
- .++..-+=+.--..-|.+|.+|+..-.+. |+.-+-.++..|+|.-..-.
T Consensus 418 ~G~Gkl~~r~d~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~~Yp 485 (861)
T COG5028 418 MGIGKLQLREDKESSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTYFYP 485 (861)
T ss_pred cccccccccccchhhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceEEcC
Confidence 1 11111112334466789999999988433 78889999999999765543
No 96
>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=68.46 E-value=3 Score=25.50 Aligned_cols=16 Identities=31% Similarity=0.752 Sum_probs=11.2
Q ss_pred cceeEcCCCCeeecCC
Q 022374 250 DMGYICSVCLSIYCKH 265 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~~ 265 (298)
..-|.||.|...||++
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 97
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=67.89 E-value=2.2 Score=29.80 Aligned_cols=14 Identities=29% Similarity=0.508 Sum_probs=6.9
Q ss_pred cceeEcCCCCeeec
Q 022374 250 DMGYICSVCLSIYC 263 (298)
Q Consensus 250 ~~GyvCp~Clsi~C 263 (298)
+-.-|||.|.+.|-
T Consensus 19 dDiVvCp~CgapyH 32 (54)
T PF14446_consen 19 DDIVVCPECGAPYH 32 (54)
T ss_pred CCEEECCCCCCccc
Confidence 34445555555543
No 98
>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=67.79 E-value=3.4 Score=28.57 Aligned_cols=24 Identities=29% Similarity=0.873 Sum_probs=12.1
Q ss_pred cceeEcCCCCeeecC--------CCCCCcccc
Q 022374 250 DMGYICSVCLSIYCK--------HLKKCSTCG 273 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~--------~~~~C~~C~ 273 (298)
...|.||+|...||- .--.||-|.
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 357999999999992 235688775
No 99
>PRK00420 hypothetical protein; Validated
Probab=67.04 E-value=2.8 Score=33.77 Aligned_cols=28 Identities=21% Similarity=0.305 Sum_probs=21.4
Q ss_pred eeEcCCCCeeecCC---CCCCcccccccccc
Q 022374 252 GYICSVCLSIYCKH---LKKCSTCGSVFGQA 279 (298)
Q Consensus 252 GyvCp~Clsi~C~~---~~~C~~C~~~f~~~ 279 (298)
+-.||+|++.+=.+ ...||.||..+.-.
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v~ 53 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVYIVK 53 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCeeeec
Confidence 46799999877764 36899999977643
No 100
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=66.45 E-value=1e+02 Score=27.94 Aligned_cols=170 Identities=14% Similarity=0.153 Sum_probs=91.3
Q ss_pred CCCCeEEEEEeCCccc---cccCCccHHHHHHHHHHHHHH-------HHcCCCCCCEEEEEEecCce--EEEecCCCCCC
Q 022374 11 DDVSLVVVLLDTNPFF---WSSSSLSFSQFLTHVLAFLNA-------ILTLNQLNQVVVIATGYNSC--DYVYDSSSTGN 78 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~---w~~~~~~l~~~l~~l~~Fln~-------~l~~n~~N~l~VIa~~~~~a--~~lyp~~~~~~ 78 (298)
....-+|+|||.+..+ |.. -....|.-++.++|. +...+..++.++|..+...+ +.+....+-..
T Consensus 11 ~~~~~vVfvvEgTAalgpy~~~---Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~ 87 (226)
T PF11265_consen 11 PPQAQVVFVVEGTAALGPYWNT---LKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRSGPTS 87 (226)
T ss_pred CccceEEEEEecchhhhhhHHH---HHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceeccCCcC
Confidence 4456899999998875 655 122333333333342 23346778889988775432 33322222111
Q ss_pred CCCCCCCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHH---hhhcCC-CCCCcEEEEEEcCC
Q 022374 79 QSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQR---VFRSGL-LHPQPRILCLQGSP 154 (298)
Q Consensus 79 ~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr---~~~~~~-~~~~~rILii~~S~ 154 (298)
+. ..+++.|.++-=.++. ...-+.++.+|+.||-..-. .++..+ ...++..++|..|+
T Consensus 88 ---------~~-~~fl~~L~~I~f~GGG--------~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSp 149 (226)
T PF11265_consen 88 ---------SP-QKFLQWLDAIQFSGGG--------FESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSP 149 (226)
T ss_pred ---------CH-HHHHHHHHccCcCCCC--------cccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCC
Confidence 11 2234444332111100 01234478889888875543 222222 23577788888884
Q ss_pred CCC------hhhh--HHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeee
Q 022374 155 DGP------EQYV--AIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHK 203 (298)
Q Consensus 155 d~~------~qyi--~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~ 203 (298)
... .+|- ..........+.+|..+++.- .....|+++-+..+|.=..
T Consensus 150 P~~~p~~~~~~~~~~~~d~la~~~~~~~I~LSiisP--rklP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 150 PYRLPVNECPQYSGKTCDQLAVLISERNISLSIISP--RKLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred CccccccCCCcccCCCHHHHHHHHHhcCceEEEEcC--ccCHHHHHHHHhcCCCccc
Confidence 221 1221 123344444588999998886 5677888888887765443
No 101
>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=64.82 E-value=6.2 Score=25.83 Aligned_cols=23 Identities=30% Similarity=0.680 Sum_probs=19.1
Q ss_pred eeEcCCCCeeecC-------CCCCCccccc
Q 022374 252 GYICSVCLSIYCK-------HLKKCSTCGS 274 (298)
Q Consensus 252 GyvCp~Clsi~C~-------~~~~C~~C~~ 274 (298)
-|.|+.|+..|-. .+..||.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 5999999987774 3579999998
No 102
>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=28.69 Aligned_cols=42 Identities=24% Similarity=0.597 Sum_probs=32.0
Q ss_pred ceeeeeccCcccc---eeEcCCCCeeecCC--C-CCCccccccccccc
Q 022374 239 RASCFCHKNTIDM---GYICSVCLSIYCKH--L-KKCSTCGSVFGQAQ 280 (298)
Q Consensus 239 ~a~C~CH~~~~~~---GyvCp~Clsi~C~~--~-~~C~~C~~~f~~~~ 280 (298)
|-.|+|..+.=.. .=-|-.|+-|+|+. | ..|+.||+.+.+..
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 4568888655443 77799999999965 2 68999998877654
No 103
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=64.45 E-value=1.6e+02 Score=29.41 Aligned_cols=148 Identities=16% Similarity=0.158 Sum_probs=84.9
Q ss_pred CeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCce-EEEecCCCCCCCCCCCCCchhHHHH
Q 022374 14 SLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSC-DYVYDSSSTGNQSVGNGRMPSLCAT 92 (298)
Q Consensus 14 s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a-~~lyp~~~~~~~~~~~~~~~~~~~~ 92 (298)
.=.+|.||.|-.|-+.+.. ... ........-=++.|. .+.|++-.+... .-+|+-..+
T Consensus 273 GpvilllD~SGSM~G~~e~-~AK--AvalAl~~~alaenR--~~~~~lF~s~~~~~el~~k~~~---------------- 331 (437)
T COG2425 273 GPVILLLDKSGSMSGFKEQ-WAK--AVALALMRIALAENR--DCYVILFDSEVIEYELYEKKID---------------- 331 (437)
T ss_pred CCEEEEEeCCCCcCCcHHH-HHH--HHHHHHHHHHHHhcc--ceEEEEecccceeeeecCCccC----------------
Confidence 4589999999999887221 111 112223333444444 356666554211 112222211
Q ss_pred HHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCC-CChhhhHHHHHHHHHH
Q 022374 93 LLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPD-GPEQYVAIMNAIFSAQ 171 (298)
Q Consensus 93 i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d-~~~qyi~lmN~ifaAq 171 (298)
.+++.+++...- .|.+.+..+|..|+..+... ...+..|++|+=..+ ...+.++ ..-..++
T Consensus 332 -~~e~i~fL~~~f----------~GGTD~~~~l~~al~~~k~~-----~~~~adiv~ITDg~~~~~~~~~~--~v~e~~k 393 (437)
T COG2425 332 -IEELIEFLSYVF----------GGGTDITKALRSALEDLKSR-----ELFKADIVVITDGEDERLDDFLR--KVKELKK 393 (437)
T ss_pred -HHHHHHHHhhhc----------CCCCChHHHHHHHHHHhhcc-----cccCCCEEEEeccHhhhhhHHHH--HHHHHHH
Confidence 233334433321 13378889999999888754 355589999983211 1112222 2445667
Q ss_pred cCCeeEEEEEcCCCChHHHHHHHhhcCCeee
Q 022374 172 RSMVPIDSCYLGAQNSAFLQQASYITGGVHH 202 (298)
Q Consensus 172 k~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~ 202 (298)
+.+.++..+.++...-.=|.+++|.+ +|-
T Consensus 394 ~~~~rl~aV~I~~~~~~~l~~Isd~~--i~~ 422 (437)
T COG2425 394 RRNARLHAVLIGGYGKPGLMRISDHI--IYR 422 (437)
T ss_pred HhhceEEEEEecCCCCcccceeeeee--EEe
Confidence 89999999999754557888888887 554
No 104
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=64.20 E-value=2 Score=42.12 Aligned_cols=30 Identities=27% Similarity=0.722 Sum_probs=24.4
Q ss_pred ceeEcCCCCeeecCC-----------CCCCccccccccccc
Q 022374 251 MGYICSVCLSIYCKH-----------LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~-----------~~~C~~C~~~f~~~~ 280 (298)
-||+||.|++.|-.+ .=.|..|+..++---
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 489999999999863 237999999998544
No 105
>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=63.60 E-value=5.4 Score=24.79 Aligned_cols=25 Identities=28% Similarity=0.591 Sum_probs=17.9
Q ss_pred eEcCCCCeeecCC---CCCCcccccccc
Q 022374 253 YICSVCLSIYCKH---LKKCSTCGSVFG 277 (298)
Q Consensus 253 yvCp~Clsi~C~~---~~~C~~C~~~f~ 277 (298)
|+|..|.+.+=-- +..|+-||-+.-
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 8899999988733 469999997643
No 106
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=63.38 E-value=5.6 Score=33.19 Aligned_cols=27 Identities=30% Similarity=0.619 Sum_probs=24.0
Q ss_pred cceeEcCCCCeeecCCCCCCccccccc
Q 022374 250 DMGYICSVCLSIYCKHLKKCSTCGSVF 276 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~~~~~C~~C~~~f 276 (298)
-.|=-|+.|+++|.-....|+.|+..-
T Consensus 27 l~g~kC~~CG~v~~PPr~~Cp~C~~~~ 53 (140)
T COG1545 27 LLGTKCKKCGRVYFPPRAYCPKCGSET 53 (140)
T ss_pred EEEEEcCCCCeEEcCCcccCCCCCCCC
Confidence 357889999999999999999999873
No 107
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=63.21 E-value=6 Score=27.90 Aligned_cols=26 Identities=19% Similarity=0.423 Sum_probs=21.6
Q ss_pred eEcCCCCeeecCCCCCCccccccccccc
Q 022374 253 YICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 253 yvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
-.|+.|....= ...|+.||....++-
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 47999998876 788999999988765
No 108
>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=63.05 E-value=4.3 Score=27.51 Aligned_cols=23 Identities=30% Similarity=0.792 Sum_probs=18.6
Q ss_pred eeEcCCCCeeecCC-------CCCCccccc
Q 022374 252 GYICSVCLSIYCKH-------LKKCSTCGS 274 (298)
Q Consensus 252 GyvCp~Clsi~C~~-------~~~C~~C~~ 274 (298)
-|.|+.|...|=.+ ...||.||.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGG 34 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCC
Confidence 58999999977643 347999998
No 109
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=62.54 E-value=3.5 Score=34.20 Aligned_cols=22 Identities=23% Similarity=0.637 Sum_probs=18.9
Q ss_pred CeeecCCCCCCccccccccccc
Q 022374 259 LSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 259 lsi~C~~~~~C~~C~~~f~~~~ 280 (298)
|=.+|..-|.||+|+|.|+++-
T Consensus 114 LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 114 LWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred HHHHcccCCCCCcccccccccc
Confidence 3467889999999999999876
No 110
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=62.17 E-value=4.2 Score=38.31 Aligned_cols=30 Identities=17% Similarity=0.229 Sum_probs=24.1
Q ss_pred ceeEcCCCCeeecCCCCCCccccccccccc
Q 022374 251 MGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
-.|+|+.|+.+.=+....||.||+-=+..+
T Consensus 353 p~~~c~~cg~~~~~~~~~c~~c~~~~~~~~ 382 (389)
T PRK11788 353 PRYRCRNCGFTARTLYWHCPSCKAWETIKP 382 (389)
T ss_pred CCEECCCCCCCCccceeECcCCCCccCcCC
Confidence 469999999999999999999997544333
No 111
>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=62.09 E-value=2e+02 Score=30.47 Aligned_cols=152 Identities=18% Similarity=0.281 Sum_probs=87.9
Q ss_pred eEEEEEeCCcccccc--------------------CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCC
Q 022374 15 LVVVLLDTNPFFWSS--------------------SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSS 74 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~--------------------~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~ 74 (298)
--|+|||-+|.|... .+.--+++++++.+|-.--.+.=|...+.-++..+..+++|-.-.
T Consensus 7 KTVfVLDh~p~f~~ss~~~i~~d~~~~~~~~~~~i~KSLWTc~vEa~~EYcRIV~DlFP~~k~IrfivsD~~a~~lntW~ 86 (695)
T PF10221_consen 7 KTVFVLDHSPYFAESSNQPIDFDIVKKSRQQKAPISKSLWTCAVEASIEYCRIVWDLFPDGKLIRFIVSDTAAHILNTWS 86 (695)
T ss_pred cEEEEEcCCchhhhhccCcEEEeeecCCCCCcCcccchHHHHHHHHHHHHHHHHhhccCCCceEEEEEEccccccccCcC
Confidence 468999999998764 134478999999999999999999988877777777777776622
Q ss_pred CCCCCCCCCCCchhHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhh---hc---C-------CC
Q 022374 75 STGNQSVGNGRMPSLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVF---RS---G-------LL 141 (298)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~---~~---~-------~~ 141 (298)
...+ ++ ..+++.|. .-+..... .....+.+.-.+|.+|+.-+.... ++ . .-
T Consensus 87 ~~~Q---------sl-~~L~~~la----~vG~P~~~--~~~~~d~svi~GL~~AIEaL~e~td~Q~e~~~~~~~~~~~~~ 150 (695)
T PF10221_consen 87 TSQQ---------SL-SHLMNALA----TVGPPPRS--DPENSDYSVIHGLRMAIEALAEPTDSQKEQRASRVNEELKKV 150 (695)
T ss_pred hhhc---------cH-HHHHHHHH----hcCCCCCC--CcccccchhHHHHHHHHHHHhcCCHHHHHHhhcccchhhhhc
Confidence 2211 00 12333332 21111100 001234456688999988654422 00 0 12
Q ss_pred CCCcEEEEEEcCCCCC-----h----hhhHHHHHHHHH-HcCCeeEEEEEc
Q 022374 142 HPQPRILCLQGSPDGP-----E----QYVAIMNAIFSA-QRSMVPIDSCYL 182 (298)
Q Consensus 142 ~~~~rILii~~S~d~~-----~----qyi~lmN~ifaA-qk~~I~Idv~~L 182 (298)
.-+.||++|+..-+.. . +-+.=-|.|-++ .+..++||-|-|
T Consensus 151 ~N~GrIIciT~~k~d~~m~~Le~~~~~~i~~~Nkia~~~~~~~~~I~~c~L 201 (695)
T PF10221_consen 151 ENRGRIICITSAKSDESMRSLEDEFQELITQQNKIAASPSDKLFPIDHCEL 201 (695)
T ss_pred cCCccEEEEEeecCcHHHHHHHHHHHHHHHHHHHHhhccccCccccceEEE
Confidence 3577999998553222 1 111113666445 355556665554
No 112
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=60.65 E-value=3.9 Score=38.63 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=22.2
Q ss_pred eecc-CcccceeEcCCCCeeecCCCC--CCcc-cccccc
Q 022374 243 FCHK-NTIDMGYICSVCLSIYCKHLK--KCST-CGSVFG 277 (298)
Q Consensus 243 ~CH~-~~~~~GyvCp~Clsi~C~~~~--~C~~-C~~~f~ 277 (298)
+||- .+-..-|.||+|...||.++. .=.+ |--.|-
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 223344999999999999861 1122 776765
No 113
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=60.46 E-value=5.3 Score=25.47 Aligned_cols=23 Identities=30% Similarity=0.820 Sum_probs=12.3
Q ss_pred EcCCCCeeecC----C-----CCCCccccccc
Q 022374 254 ICSVCLSIYCK----H-----LKKCSTCGSVF 276 (298)
Q Consensus 254 vCp~Clsi~C~----~-----~~~C~~C~~~f 276 (298)
.||.|.+.|=- + ...|+.|+..|
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 46666666641 1 13566666555
No 114
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=60.36 E-value=95 Score=31.98 Aligned_cols=129 Identities=11% Similarity=0.107 Sum_probs=73.2
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH------------------------HHHhhcCC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ------------------------QASYITGG 199 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq------------------------Qa~~~T~G 199 (298)
.++++.|.| |.+.+|. ++-+.+|.+.+++|=++++....-.+++ ++++.-|+
T Consensus 452 ~r~Vv~i~G--DG~f~m~--~~eL~Ta~r~~lpvi~vV~NN~~~g~i~~~q~~~~~~~~~~~~~~~~~~d~~~~A~a~G~ 527 (616)
T PRK07418 452 DEEVICIAG--DASFLMN--IQELGTLAQYGINVKTVIINNGWQGMVRQWQESFYGERYSASNMEPGMPDFVKLAEAFGV 527 (616)
T ss_pred CCcEEEEEc--chHhhhh--HHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCCceeecCCCCCCCHHHHHHHCCC
Confidence 567777776 6666654 4668899999999999999543333433 34555567
Q ss_pred eeeeeCCcchHHHHHHHhcCC-Ccccccccc------CCCCCCC-CCceeeee--c--cCcccceeEcCCCCeeecCCCC
Q 022374 200 VHHKPQQLDGLFQYLLTIFGT-DLHSRNFLQ------LPKPVGV-DFRASCFC--H--KNTIDMGYICSVCLSIYCKHLK 267 (298)
Q Consensus 200 ~Y~~~~~~~~L~q~Ll~~~~p-~~~~r~~l~------~P~~~~v-d~~a~C~C--H--~~~~~~GyvCp~Clsi~C~~~~ 267 (298)
.+..+.+++.|.+-|-..+-. .|..-.... .|..... .......= + ...+.--..|+.|....-.+..
T Consensus 528 ~g~~V~~~~el~~al~~a~~~~~p~lIeV~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 607 (616)
T PRK07418 528 KGMVISERDQLKDAIAEALAHDGPVLIDVHVRRDENCYPMVPPGKSNAQMVGLPEHPELALAAELIYCSNCGAKNPSTHR 607 (616)
T ss_pred eEEEeCCHHHHHHHHHHHHhCCCCEEEEEEecCccccCCccCCCCcHHHHhcCccccccccCcCcccCCCCCCcCccccc
Confidence 777888888888777665421 121100000 0100000 00000000 0 1233445779999987555567
Q ss_pred CCccccccc
Q 022374 268 KCSTCGSVF 276 (298)
Q Consensus 268 ~C~~C~~~f 276 (298)
.|+-||..+
T Consensus 608 f~~~~g~~~ 616 (616)
T PRK07418 608 FCPECGTKL 616 (616)
T ss_pred cchhhCCCC
Confidence 788888654
No 115
>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=58.37 E-value=6.2 Score=24.90 Aligned_cols=24 Identities=29% Similarity=0.652 Sum_probs=16.0
Q ss_pred ceeEcCCCCeeecCCCCCCccccc
Q 022374 251 MGYICSVCLSIYCKHLKKCSTCGS 274 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~~~~C~~C~~ 274 (298)
.+..|..|..++=...+.|+.|+.
T Consensus 10 ~~~rC~~Cg~~~~pPr~~Cp~C~s 33 (37)
T PF12172_consen 10 LGQRCRDCGRVQFPPRPVCPHCGS 33 (37)
T ss_dssp EEEE-TTT--EEES--SEETTTT-
T ss_pred EEEEcCCCCCEecCCCcCCCCcCc
Confidence 578899999998888889999985
No 116
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=56.78 E-value=6.2 Score=28.10 Aligned_cols=27 Identities=19% Similarity=0.559 Sum_probs=21.7
Q ss_pred EcCCCCeeec-----CCCCCCccccccccccc
Q 022374 254 ICSVCLSIYC-----KHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C-----~~~~~C~~C~~~f~~~~ 280 (298)
-||.|..+.- .....|..||+.|..+.
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 4999988774 44579999999998765
No 117
>cd02006 TPP_Gcl Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the condensation of two molecules of glyoxylate to give tartronic semialdehyde and carbon dioxide. This enzyme requires TPP, magnesium ion and FAD as cofactors.
Probab=56.02 E-value=87 Score=27.17 Aligned_cols=45 Identities=13% Similarity=0.296 Sum_probs=31.7
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ 192 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ 192 (298)
.++++.|.| |.+.++. ++.+.+|.++++++=++++....-.+++|
T Consensus 75 ~~~vv~i~G--DG~f~m~--~~eL~Ta~~~~lpviivV~NN~~yg~~~~ 119 (202)
T cd02006 75 DRQVVALSG--DYDFQFM--IEELAVGAQHRIPYIHVLVNNAYLGLIRQ 119 (202)
T ss_pred CCeEEEEEe--ChHhhcc--HHHHHHHHHhCCCeEEEEEeCchHHHHHH
Confidence 568888886 5565544 35688899999999999995333335554
No 118
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=55.94 E-value=9.9 Score=25.32 Aligned_cols=30 Identities=23% Similarity=0.441 Sum_probs=23.9
Q ss_pred eeEcCCCCeeecCC---CCCCcccccccccccc
Q 022374 252 GYICSVCLSIYCKH---LKKCSTCGSVFGQAQT 281 (298)
Q Consensus 252 GyvCp~Clsi~C~~---~~~C~~C~~~f~~~~~ 281 (298)
-|+|..|+..+=.. +..|+-||.+..-..+
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rIlyK~R 34 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRILYKKR 34 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceEEEEeC
Confidence 49999999987643 4799999998876553
No 119
>cd02010 TPP_ALS Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2 molecules of pyruvate to acetolactate and carbon dioxide. ALS does not contain FAD, and requires TPP and a divalent metal cation for activity.
Probab=55.50 E-value=94 Score=26.44 Aligned_cols=71 Identities=14% Similarity=0.178 Sum_probs=45.1
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH---------------------HHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ---------------------ASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ---------------------a~~~T~G~Y~ 202 (298)
.++++.|.| |.+.++. ++.+.+|.+.++++=++.+....-.+.++ +++.-|+.+.
T Consensus 66 ~~~vv~i~G--DG~f~m~--~~eL~ta~~~~l~vi~vV~NN~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~~ 141 (177)
T cd02010 66 DRKVVAVSG--DGGFMMN--SQELETAVRLKIPLVVLIWNDNGYGLIKWKQEKEYGRDSGVDFGNPDFVKYAESFGAKGY 141 (177)
T ss_pred CCcEEEEEc--chHHHhH--HHHHHHHHHHCCCeEEEEEECCcchHHHHHHHHhcCCcccCcCCCCCHHHHHHHCCCEEE
Confidence 567888876 5555433 25688899999999999995333333332 4455556666
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+.+.|.+.|-..+
T Consensus 142 ~v~~~~el~~al~~a~ 157 (177)
T cd02010 142 RIESADDLLPVLERAL 157 (177)
T ss_pred EECCHHHHHHHHHHHH
Confidence 6666666666665554
No 120
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=54.80 E-value=5.8 Score=43.77 Aligned_cols=27 Identities=30% Similarity=0.823 Sum_probs=20.2
Q ss_pred ceeEcCCCCeeecC------------CC-CCCcccccccccc
Q 022374 251 MGYICSVCLSIYCK------------HL-KKCSTCGSVFGQA 279 (298)
Q Consensus 251 ~GyvCp~Clsi~C~------------~~-~~C~~C~~~f~~~ 279 (298)
-.|+||.|. ||+ +| ..||.||+.|..-
T Consensus 913 PHY~Cp~Ck--y~Ef~~d~svgsGfDLpdK~CPkCg~pl~kD 952 (1444)
T COG2176 913 PHYLCPECK--YSEFIDDGSVGSGFDLPDKDCPKCGTPLKKD 952 (1444)
T ss_pred ccccCCCCc--eeeeecCCCcCCCCCCCCCCCCcCCCccccC
Confidence 389999886 443 33 5899999998743
No 121
>PRK11595 DNA utilization protein GntX; Provisional
Probab=53.12 E-value=5.1 Score=35.93 Aligned_cols=40 Identities=23% Similarity=0.428 Sum_probs=25.3
Q ss_pred CceeeeeccCcccc--eeEcCCCCeeecCCCCCCcccccccc
Q 022374 238 FRASCFCHKNTIDM--GYICSVCLSIYCKHLKKCSTCGSVFG 277 (298)
Q Consensus 238 ~~a~C~CH~~~~~~--GyvCp~Clsi~C~~~~~C~~C~~~f~ 277 (298)
||..|...++.+.. .++|+.|...+=.+.+.|+.||..+.
T Consensus 4 ~P~~C~~C~~~~~~~~~~lC~~C~~~l~~~~~~C~~Cg~~~~ 45 (227)
T PRK11595 4 VPGLCWLCRMPLALSHWGICSVCSRALRTLKTCCPQCGLPAT 45 (227)
T ss_pred CCCcCccCCCccCCCCCcccHHHHhhCCcccCcCccCCCcCC
Confidence 44567666655432 25888887766444567888887643
No 122
>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=52.45 E-value=9.1 Score=21.00 Aligned_cols=10 Identities=30% Similarity=1.039 Sum_probs=4.8
Q ss_pred eEcCCCCeee
Q 022374 253 YICSVCLSIY 262 (298)
Q Consensus 253 yvCp~Clsi~ 262 (298)
|.|+.|...|
T Consensus 1 y~C~~C~~~f 10 (23)
T PF00096_consen 1 YKCPICGKSF 10 (23)
T ss_dssp EEETTTTEEE
T ss_pred CCCCCCCCcc
Confidence 4555554443
No 123
>PF06707 DUF1194: Protein of unknown function (DUF1194); InterPro: IPR010607 This family consists of several hypothetical Rhizobiales specific proteins of around 270 residues in length. The function of this family is unknown.
Probab=52.18 E-value=1.7e+02 Score=26.04 Aligned_cols=146 Identities=12% Similarity=0.100 Sum_probs=79.6
Q ss_pred eEEEEEeCCcccccc----CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEE---ecCceEEEecCCCCCCCCCCCCCch
Q 022374 15 LVVVLLDTNPFFWSS----SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIAT---GYNSCDYVYDSSSTGNQSVGNGRMP 87 (298)
Q Consensus 15 ~L~iIlD~s~~~w~~----~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~---~~~~a~~lyp~~~~~~~~~~~~~~~ 87 (298)
-|++.+|.|..+-.. .-..+...|.+ -.++.+.+. .+..+++|-.. ..+.-..+.|=..-.. ..
T Consensus 5 aLvLavDvS~SVD~~E~~lQ~~G~A~Al~d-p~V~~Ai~~-g~~g~Iav~~~eWsg~~~q~~~v~Wt~i~~-------~~ 75 (205)
T PF06707_consen 5 ALVLAVDVSGSVDADEYRLQREGYAAALRD-PEVIAAILS-GPIGRIAVAVVEWSGPGRQRVVVPWTRIDS-------PA 75 (205)
T ss_pred eeeeeeeccCCCCHHHHHHHHHHHHHHHCC-HHHHHHHhc-CCCCeEEEEEEEecCCCCceEEeCCEEeCC-------HH
Confidence 489999999887543 22334444444 234444444 56666666432 1223344444322211 00
Q ss_pred hHHHHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCCChhhhHHHHHH
Q 022374 88 SLCATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDGPEQYVAIMNAI 167 (298)
Q Consensus 88 ~~~~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~~~qyi~lmN~i 167 (298)
+. +.+.++|. ..+... .+.+++.+||..|..++.+. +....+|++=|++-.......-+.-..-
T Consensus 76 da-~a~A~~l~----~~~r~~-------~~~Taig~Al~~a~~ll~~~----~~~~~RrVIDvSGDG~~N~G~~p~~~ar 139 (205)
T PF06707_consen 76 DA-EAFAARLR----AAPRRF-------GGRTAIGSALDFAAALLAQN----PFECWRRVIDVSGDGPNNQGPRPVTSAR 139 (205)
T ss_pred HH-HHHHHHHH----hCCCCC-------CCCchHHHHHHHHHHHHHhC----CCCCceEEEEECCCCCCCCCCCccHHHH
Confidence 10 12333332 222111 23478888888888888764 4458889888886521111212333456
Q ss_pred HHHHcCCeeEEEEEcCCC
Q 022374 168 FSAQRSMVPIDSCYLGAQ 185 (298)
Q Consensus 168 faAqk~~I~Idv~~L~~~ 185 (298)
.++...+|.|+.+.+...
T Consensus 140 d~~~~~GitINgL~I~~~ 157 (205)
T PF06707_consen 140 DAAVAAGITINGLAILDD 157 (205)
T ss_pred HHHHHCCeEEeeeEecCC
Confidence 677888999999999633
No 124
>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=51.07 E-value=4 Score=30.91 Aligned_cols=32 Identities=25% Similarity=0.521 Sum_probs=16.7
Q ss_pred ccceeEcCCCC---eeecCCC-------CCCccccccccccc
Q 022374 249 IDMGYICSVCL---SIYCKHL-------KKCSTCGSVFGQAQ 280 (298)
Q Consensus 249 ~~~GyvCp~Cl---si~C~~~-------~~C~~C~~~f~~~~ 280 (298)
.+.-|-||.|. |+-|++- ..|.+||..|....
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 4666542 58999999998665
No 125
>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=50.40 E-value=9.8 Score=20.53 Aligned_cols=10 Identities=20% Similarity=0.956 Sum_probs=4.1
Q ss_pred eEcCCCCeee
Q 022374 253 YICSVCLSIY 262 (298)
Q Consensus 253 yvCp~Clsi~ 262 (298)
|.|+.|...|
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 4555555444
No 126
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=49.55 E-value=69 Score=31.32 Aligned_cols=69 Identities=13% Similarity=0.150 Sum_probs=52.5
Q ss_pred CCCCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCC
Q 022374 7 KLYSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTG 77 (298)
Q Consensus 7 ~~~~~~~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~ 77 (298)
..+++...-++|++|.++.|+.. ....++..+.....+. |......+++++.....+.-.++.|..+..
T Consensus 218 efe~er~~~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la--~~~l~~gd~vg~~~~~~~~~~~~~p~~G~~ 288 (416)
T COG1721 218 EFEEERGRTVVLVLDASRSMLFGSGVASKFEEAVRAAASLA--YAALKNGDRVGLLIFGGGGPKWIPPSRGRR 288 (416)
T ss_pred hhhhhcCceEEEEEeCCccccCCCCCccHHHHHHHHHHHHH--HHHHhCCCeeEEEEECCCcceeeCCCcchH
Confidence 34556677899999999999965 4457888888766554 555566778999988877778898888754
No 127
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=49.39 E-value=14 Score=25.86 Aligned_cols=28 Identities=14% Similarity=0.274 Sum_probs=20.7
Q ss_pred eEcCCCCeee----------cCCCCCCccccccccccc
Q 022374 253 YICSVCLSIY----------CKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 253 yvCp~Clsi~----------C~~~~~C~~C~~~f~~~~ 280 (298)
..||+|+.+. =.+|-.||.|+.......
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 5699999443 458899999987665544
No 128
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=49.17 E-value=81 Score=24.80 Aligned_cols=53 Identities=11% Similarity=0.027 Sum_probs=34.6
Q ss_pred EEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhhcCCeeeeeCCc
Q 022374 147 ILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYITGGVHHKPQQL 207 (298)
Q Consensus 147 ILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~T~G~Y~~~~~~ 207 (298)
+++++-|.... .+.+.+..|++.+++| +.+. .+.. |.++|+..||.-+.+.+.
T Consensus 47 ~I~iS~SG~t~----e~i~~~~~a~~~g~~i--I~IT-~~~~-l~~~~~~~~~~~~~~p~~ 99 (119)
T cd05017 47 VIAVSYSGNTE----ETLSAVEQAKERGAKI--VAIT-SGGK-LLEMAREHGVPVIIIPKG 99 (119)
T ss_pred EEEEECCCCCH----HHHHHHHHHHHCCCEE--EEEe-CCch-HHHHHHHcCCcEEECCCC
Confidence 44455444322 5667888899999765 4552 3333 888999888777776553
No 129
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=49.14 E-value=10 Score=28.52 Aligned_cols=25 Identities=20% Similarity=0.338 Sum_probs=17.7
Q ss_pred eEcCCCCeeecCCC-C----CCcccccccc
Q 022374 253 YICSVCLSIYCKHL-K----KCSTCGSVFG 277 (298)
Q Consensus 253 yvCp~Clsi~C~~~-~----~C~~C~~~f~ 277 (298)
|.||.|....=+-. . +|++|+=.-.
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~WEdD 31 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCFWEDD 31 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCCcccC
Confidence 67999988776432 3 7999975554
No 130
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=48.94 E-value=12 Score=26.27 Aligned_cols=23 Identities=30% Similarity=0.667 Sum_probs=16.3
Q ss_pred cCCCCeeecCCC-CCCcccccccc
Q 022374 255 CSVCLSIYCKHL-KKCSTCGSVFG 277 (298)
Q Consensus 255 Cp~Clsi~C~~~-~~C~~C~~~f~ 277 (298)
||+|....|... -.|+-||...-
T Consensus 2 Cpv~~~~~~~~v~~~Cp~cGipth 25 (55)
T PF13824_consen 2 CPVCKKDLPAHVNFECPDCGIPTH 25 (55)
T ss_pred CCCCccccccccCCcCCCCCCcCc
Confidence 788888777554 47888887654
No 131
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=48.75 E-value=7.7 Score=30.60 Aligned_cols=31 Identities=19% Similarity=0.407 Sum_probs=22.7
Q ss_pred cceeEcCCCCeeecC---C-------CCCCccccccccccc
Q 022374 250 DMGYICSVCLSIYCK---H-------LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~---~-------~~~C~~C~~~f~~~~ 280 (298)
+.-|.||+|...--. + ...|..||+.|---.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev 60 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFECEV 60 (104)
T ss_pred CceEecCccCCeeeeEEEEEecCceeEEEcccCcceEEEec
Confidence 456999999865433 2 258999999987554
No 132
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=48.54 E-value=12 Score=24.22 Aligned_cols=22 Identities=27% Similarity=0.797 Sum_probs=16.1
Q ss_pred eccCcccceeEcCCCCeeecCC
Q 022374 244 CHKNTIDMGYICSVCLSIYCKH 265 (298)
Q Consensus 244 CH~~~~~~GyvCp~Clsi~C~~ 265 (298)
|+++..-.+|.|..|.-+||..
T Consensus 4 C~~~~~l~~f~C~~C~~~FC~~ 25 (39)
T smart00154 4 CRKKVGLTGFKCRHCGNLFCGE 25 (39)
T ss_pred cCCcccccCeECCccCCccccc
Confidence 4444333399999999999963
No 133
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=48.24 E-value=14 Score=30.68 Aligned_cols=14 Identities=14% Similarity=0.249 Sum_probs=10.9
Q ss_pred ceeEcCCCCeeecC
Q 022374 251 MGYICSVCLSIYCK 264 (298)
Q Consensus 251 ~GyvCp~Clsi~C~ 264 (298)
.-|.|+.|+..|-.
T Consensus 69 ~~~~C~~CG~~~~~ 82 (135)
T PRK03824 69 AVLKCRNCGNEWSL 82 (135)
T ss_pred eEEECCCCCCEEec
Confidence 45899999988764
No 134
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=47.71 E-value=9.5 Score=27.47 Aligned_cols=24 Identities=25% Similarity=0.668 Sum_probs=18.0
Q ss_pred EcCCCCeeecCCCCCCcccccc-cc
Q 022374 254 ICSVCLSIYCKHLKKCSTCGSV-FG 277 (298)
Q Consensus 254 vCp~Clsi~C~~~~~C~~C~~~-f~ 277 (298)
.|-.|+.+.=+-...||.||.. |+
T Consensus 6 AC~~Ck~l~~~d~e~CP~Cgs~~~t 30 (64)
T COG2093 6 ACKNCKRLTPEDTEICPVCGSTDLT 30 (64)
T ss_pred HHhhccccCCCCCccCCCCCCcccc
Confidence 4667777777777789999987 44
No 135
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=47.69 E-value=2.3e+02 Score=26.09 Aligned_cols=86 Identities=13% Similarity=0.043 Sum_probs=57.1
Q ss_pred cccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCC-CC----------h---hhh--------------HHHH-HH
Q 022374 117 ACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPD-GP----------E---QYV--------------AIMN-AI 167 (298)
Q Consensus 117 ~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d-~~----------~---qyi--------------~lmN-~i 167 (298)
....+..||..|...+... ..+.-.||+++.+++- .+ . ++. .+.+ ..
T Consensus 139 ~~r~~G~Al~~A~~ll~~~----~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la 214 (267)
T cd01478 139 PLRCTGVALSIAVGLLEAC----FPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLA 214 (267)
T ss_pred CCCchHHHHHHHHHHHHhh----cCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHH
Confidence 3566788898888888753 1245578888886621 00 0 100 1222 33
Q ss_pred HHHHcCCeeEEEEEcCC--CChHHHHHHHhhcCCeeeeeCC
Q 022374 168 FSAQRSMVPIDSCYLGA--QNSAFLQQASYITGGVHHKPQQ 206 (298)
Q Consensus 168 faAqk~~I~Idv~~L~~--~e~~~LqQa~~~T~G~Y~~~~~ 206 (298)
..+-+++|.||++.-+. -+..-++.+++.|||.-+...+
T Consensus 215 ~~~~~~~vsvDlF~~s~d~vglaem~~l~~~TGG~v~~~~~ 255 (267)
T cd01478 215 KRLAANGHAVDIFAGCLDQVGLLEMKVLVNSTGGHVVLSDS 255 (267)
T ss_pred HHHHhCCeEEEEEeccccccCHHHHHHHHHhcCcEEEEeCC
Confidence 44577999999999753 2678999999999998876654
No 136
>PLN00162 transport protein sec23; Provisional
Probab=47.66 E-value=3.8e+02 Score=28.66 Aligned_cols=98 Identities=18% Similarity=0.158 Sum_probs=65.7
Q ss_pred ccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCC-CC----------h------h-------h----hHHH-HHHH
Q 022374 118 CSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPD-GP----------E------Q-------Y----VAIM-NAIF 168 (298)
Q Consensus 118 ~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d-~~----------~------q-------y----i~lm-N~if 168 (298)
...+..||+.|...+... ....-.||+++.+++- .+ . + | ..+. ....
T Consensus 261 ~r~tG~AL~vA~~lL~~~----~~~~gGrI~~F~sgppT~GpG~v~~r~~~~~~rsh~di~k~~~~~~~~a~~fY~~la~ 336 (761)
T PLN00162 261 ARCTGAALSVAAGLLGAC----VPGTGARIMAFVGGPCTEGPGAIVSKDLSEPIRSHKDLDKDAAPYYKKAVKFYEGLAK 336 (761)
T ss_pred CccHHHHHHHHHHHHhhc----cCCCceEEEEEeCCCCCCCCceeecccccccccCccccccchhhhcchHHHHHHHHHH
Confidence 456778888888888654 2345679999887630 00 0 0 0 0122 3556
Q ss_pred HHHcCCeeEEEEEcCC--CChHHHHHHHhhcCCeeeeeCCc--chHHHHHHHhcC
Q 022374 169 SAQRSMVPIDSCYLGA--QNSAFLQQASYITGGVHHKPQQL--DGLFQYLLTIFG 219 (298)
Q Consensus 169 aAqk~~I~Idv~~L~~--~e~~~LqQa~~~T~G~Y~~~~~~--~~L~q~Ll~~~~ 219 (298)
.+.+++|.||++.-+. .+..-++.+++.|||.-+.-.+- +.|.+-|...|-
T Consensus 337 ~~~~~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~r~~~ 391 (761)
T PLN00162 337 QLVAQGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLRRVFE 391 (761)
T ss_pred HHHHcCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHHHHhc
Confidence 6788999999998742 27889999999999998876653 346666666664
No 137
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=47.29 E-value=6.9 Score=31.60 Aligned_cols=28 Identities=11% Similarity=0.121 Sum_probs=16.6
Q ss_pred eccCcccceeEcCCCCeeecCCCCCCcc
Q 022374 244 CHKNTIDMGYICSVCLSIYCKHLKKCST 271 (298)
Q Consensus 244 CH~~~~~~GyvCp~Clsi~C~~~~~C~~ 271 (298)
|+++++-..+.|+.|.+..---...|..
T Consensus 4 Cg~~l~vt~l~C~~C~t~i~G~F~l~~~ 31 (113)
T PF09862_consen 4 CGGELVVTRLKCPSCGTEIEGEFELPWF 31 (113)
T ss_pred CCCceEEEEEEcCCCCCEEEeeeccchh
Confidence 6666666677777777666543333333
No 138
>PRK08611 pyruvate oxidase; Provisional
Probab=47.26 E-value=1.1e+02 Score=31.20 Aligned_cols=72 Identities=22% Similarity=0.322 Sum_probs=51.6
Q ss_pred CCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH---------------------HHHhhcCCee
Q 022374 143 PQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ---------------------QASYITGGVH 201 (298)
Q Consensus 143 ~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq---------------------Qa~~~T~G~Y 201 (298)
..++++.|.| |.+.+|. ++-+.+|.++++++=++++....-.+++ .+++..|+.|
T Consensus 425 p~~~Vv~i~G--DGsf~m~--~~eL~Ta~r~~l~~iivV~NN~~~g~i~~~q~~~~~~~~~~~~~~~d~~~lA~a~G~~~ 500 (576)
T PRK08611 425 PDRQAIAICG--DGGFSMV--MQDFVTAVKYKLPIVVVVLNNQQLAFIKYEQQAAGELEYAIDLSDMDYAKFAEACGGKG 500 (576)
T ss_pred CCCcEEEEEc--ccHHhhh--HHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCcccccCCCCCHHHHHHHCCCeE
Confidence 3568888886 6676665 4678899999999999999533333322 2555567788
Q ss_pred eeeCCcchHHHHHHHhc
Q 022374 202 HKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 202 ~~~~~~~~L~q~Ll~~~ 218 (298)
..+.+.+.|.+.|-..+
T Consensus 501 ~~v~~~~eL~~al~~a~ 517 (576)
T PRK08611 501 YRVEKAEELDPAFEEAL 517 (576)
T ss_pred EEeCCHHHHHHHHHHHH
Confidence 88888888888886655
No 139
>PRK08617 acetolactate synthase; Reviewed
Probab=45.91 E-value=85 Score=31.75 Aligned_cols=71 Identities=14% Similarity=0.121 Sum_probs=50.7
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH---------------------HHHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ---------------------QASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq---------------------Qa~~~T~G~Y~ 202 (298)
.+++++|.| |.+.+|. ++-+.+|.++|++|=++.+....-.+++ .+++..|+.|.
T Consensus 432 ~~~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpv~~vV~NN~~~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~ 507 (552)
T PRK08617 432 GKKVVSVSG--DGGFLFS--AMELETAVRLKLNIVHIIWNDGHYNMVEFQEEMKYGRSSGVDFGPVDFVKYAESFGAKGL 507 (552)
T ss_pred CCcEEEEEe--chHHhhh--HHHHHHHHHhCCCeEEEEEECCccchHHHHHHhhcCCcccCCCCCCCHHHHHHHCCCeEE
Confidence 568888876 6666655 4678899999999998888533322332 35666678888
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+++.|...|-..+
T Consensus 508 ~v~~~~eL~~al~~a~ 523 (552)
T PRK08617 508 RVTSPDELEPVLREAL 523 (552)
T ss_pred EECCHHHHHHHHHHHH
Confidence 8888888888776665
No 140
>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=45.82 E-value=2.1e+02 Score=25.25 Aligned_cols=44 Identities=27% Similarity=0.216 Sum_probs=30.6
Q ss_pred CCCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEec
Q 022374 11 DDVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGY 64 (298)
Q Consensus 11 ~~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~ 64 (298)
..+.-++|++|+|-+|..- . ..+..|+.+...+.+ ++.++....
T Consensus 55 ~~~~~lvvl~DvSGSM~~~-----s---~~~l~~~~~l~~~~~--~~~~f~F~~ 98 (222)
T PF05762_consen 55 RKPRRLVVLCDVSGSMAGY-----S---EFMLAFLYALQRQFR--RVRVFVFST 98 (222)
T ss_pred CCCccEEEEEeCCCChHHH-----H---HHHHHHHHHHHHhCC--CEEEEEEee
Confidence 4455899999999988653 2 235557887777776 677776654
No 141
>PRK05978 hypothetical protein; Provisional
Probab=45.70 E-value=13 Score=31.42 Aligned_cols=27 Identities=26% Similarity=0.754 Sum_probs=20.7
Q ss_pred EcCCCCe-----eecCCCCCCccccccccccc
Q 022374 254 ICSVCLS-----IYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Cls-----i~C~~~~~C~~C~~~f~~~~ 280 (298)
-||+|.. -|=+....|+.||..|...+
T Consensus 35 rCP~CG~G~LF~g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cCCCCCCCcccccccccCCCccccCCccccCC
Confidence 4888864 34467899999999998664
No 142
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=45.47 E-value=9.9 Score=29.22 Aligned_cols=32 Identities=25% Similarity=0.591 Sum_probs=24.4
Q ss_pred eeEcCCCCeeecCCC----CCCccccccccccccCC
Q 022374 252 GYICSVCLSIYCKHL----KKCSTCGSVFGQAQTQS 283 (298)
Q Consensus 252 GyvCp~Clsi~C~~~----~~C~~C~~~f~~~~~~~ 283 (298)
-|+||.|...-=+.- =.|..||..|.=..-+|
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 599999998844322 37999999998776665
No 143
>cd02008 TPP_IOR_alpha Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the transamination of aromatic amino acids, to the corresponding aryl acetyl-CoA.
Probab=45.36 E-value=1.1e+02 Score=25.91 Aligned_cols=64 Identities=11% Similarity=0.050 Sum_probs=41.9
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChH----------------------HHHHHHhhcCCee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSA----------------------FLQQASYITGGVH 201 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~----------------------~LqQa~~~T~G~Y 201 (298)
.++++.|.| |.+.++.. ++.+.+|.+.++++-++++. ...+ =+.++++.-|..|
T Consensus 69 ~~~Vv~i~G--DG~f~~~g-~~eL~ta~~~~l~i~vvV~n-N~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~ 144 (178)
T cd02008 69 DKKVVAVIG--DSTFFHSG-ILGLINAVYNKANITVVILD-NRTTAMTGGQPHPGTGKTLTEPTTVIDIEALVRAIGVKR 144 (178)
T ss_pred CCCEEEEec--ChHHhhcc-HHHHHHHHHcCCCEEEEEEC-CcceeccCCCCCCCCcccccCCCCccCHHHHHHHCCCCE
Confidence 568888876 44544332 56788899999999999995 3211 1445566666677
Q ss_pred eeeCCcchHH
Q 022374 202 HKPQQLDGLF 211 (298)
Q Consensus 202 ~~~~~~~~L~ 211 (298)
..+.+.+.|.
T Consensus 145 ~~v~~~~~l~ 154 (178)
T cd02008 145 VVVVDPYDLK 154 (178)
T ss_pred EEecCccCHH
Confidence 7776666665
No 144
>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=44.87 E-value=22 Score=21.25 Aligned_cols=25 Identities=24% Similarity=0.586 Sum_probs=18.3
Q ss_pred ceeEcCCCCeeecCCCCCCcccccc
Q 022374 251 MGYICSVCLSIYCKHLKKCSTCGSV 275 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~~~~C~~C~~~ 275 (298)
.-+.|+.|.-.-=.....|..|++.
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 3588999998888888899999873
No 145
>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=44.55 E-value=13 Score=24.38 Aligned_cols=20 Identities=25% Similarity=0.846 Sum_probs=11.8
Q ss_pred eccCcccceeEcCCCCeeecC
Q 022374 244 CHKNTIDMGYICSVCLSIYCK 264 (298)
Q Consensus 244 CH~~~~~~GyvCp~Clsi~C~ 264 (298)
|..+.. ++|.|+.|.-.||.
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 89999999999996
No 146
>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=44.20 E-value=13 Score=25.48 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=15.9
Q ss_pred eeEcCCCCeeecC----------------CCCCCcccccccc
Q 022374 252 GYICSVCLSIYCK----------------HLKKCSTCGSVFG 277 (298)
Q Consensus 252 GyvCp~Clsi~C~----------------~~~~C~~C~~~f~ 277 (298)
.|.||.|.. .-+ -...||+|...+.
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 332 1357888876544
No 147
>PF12773 DZR: Double zinc ribbon
Probab=43.72 E-value=13 Score=24.80 Aligned_cols=32 Identities=25% Similarity=0.537 Sum_probs=16.7
Q ss_pred eccCcccceeEcCCCCeeec--CC-CCCCcccccc
Q 022374 244 CHKNTIDMGYICSVCLSIYC--KH-LKKCSTCGSV 275 (298)
Q Consensus 244 CH~~~~~~GyvCp~Clsi~C--~~-~~~C~~C~~~ 275 (298)
|+..+-+..=+|+.|.+.+= .. ...|+.||..
T Consensus 4 Cg~~~~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 4 CGTPNPDDAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred cCCcCCccccCChhhcCChhhccCCCCCCcCCcCC
Confidence 34444444455666666555 21 2456666665
No 148
>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=43.55 E-value=16 Score=21.25 Aligned_cols=10 Identities=20% Similarity=0.634 Sum_probs=7.7
Q ss_pred cceeEcCCCC
Q 022374 250 DMGYICSVCL 259 (298)
Q Consensus 250 ~~GyvCp~Cl 259 (298)
.+-|.||.|+
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 4569999886
No 149
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=43.51 E-value=10 Score=27.64 Aligned_cols=27 Identities=19% Similarity=0.517 Sum_probs=21.9
Q ss_pred EcCCCCeeecCC-----CCCCccccccccccc
Q 022374 254 ICSVCLSIYCKH-----LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C~~-----~~~C~~C~~~f~~~~ 280 (298)
-||-|.-..+-+ ...|.+||..+..+.
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 150
>cd02015 TPP_AHAS Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the acetohydroxyacid, 2-acetolactate. 2-Acetolactate is the precursor of the branched chain amino acids, valine and leucine. AHAS also catalyzes the condensation of pyruvate and 2-ketobutyrate to form 2-aceto-2-hydroxybutyrate in isoleucine biosynthesis. In addition to requiring TPP and a divalent metal ion as cofactors, AHAS requires FAD.
Probab=43.26 E-value=2e+02 Score=24.49 Aligned_cols=45 Identities=20% Similarity=0.454 Sum_probs=30.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ 192 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ 192 (298)
.++++.+.| |.+.+|. ++.+.+|.+.++++-++.+....-.+.++
T Consensus 68 ~~~vv~i~G--DG~f~~~--~~eL~ta~~~~lpi~ivV~nN~~~~~~~~ 112 (186)
T cd02015 68 DKTVICIDG--DGSFQMN--IQELATAAQYNLPVKIVILNNGSLGMVRQ 112 (186)
T ss_pred CCeEEEEEc--ccHHhcc--HHHHHHHHHhCCCeEEEEEECCccHHHHH
Confidence 467777775 5565543 46788899999999999995333334443
No 151
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=43.10 E-value=11 Score=42.83 Aligned_cols=28 Identities=29% Similarity=0.808 Sum_probs=21.4
Q ss_pred cceeEcCCCCeeecCC------------C-CCCcccccccccc
Q 022374 250 DMGYICSVCLSIYCKH------------L-KKCSTCGSVFGQA 279 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~~------------~-~~C~~C~~~f~~~ 279 (298)
.-.|+||.|. |.++ | ..||.||+.+..-
T Consensus 906 ~phy~C~~C~--~~ef~~~~~~~sG~Dlpdk~Cp~Cg~~~~kd 946 (1437)
T PRK00448 906 PPHYVCPNCK--YSEFFTDGSVGSGFDLPDKDCPKCGTKLKKD 946 (1437)
T ss_pred CccccCcccc--cccccccccccccccCccccCcccccccccc
Confidence 4589999994 6655 3 5799999998743
No 152
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=42.75 E-value=19 Score=25.65 Aligned_cols=24 Identities=25% Similarity=0.883 Sum_probs=16.1
Q ss_pred ceeEcCCCCee---ecC------CCCCCccccc
Q 022374 251 MGYICSVCLSI---YCK------HLKKCSTCGS 274 (298)
Q Consensus 251 ~GyvCp~Clsi---~C~------~~~~C~~C~~ 274 (298)
.-|.||.|+.. -|+ .+-.||.||.
T Consensus 24 ~~F~CPnCG~~~I~RC~~CRk~~~~Y~CP~CGF 56 (59)
T PRK14890 24 VKFLCPNCGEVIIYRCEKCRKQSNPYTCPKCGF 56 (59)
T ss_pred CEeeCCCCCCeeEeechhHHhcCCceECCCCCC
Confidence 45899999876 232 2347888874
No 153
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=42.60 E-value=12 Score=21.40 Aligned_cols=24 Identities=25% Similarity=0.677 Sum_probs=17.8
Q ss_pred eeEcCCCCeeecCCCCCCcccccc
Q 022374 252 GYICSVCLSIYCKHLKKCSTCGSV 275 (298)
Q Consensus 252 GyvCp~Clsi~C~~~~~C~~C~~~ 275 (298)
.+.|+.|...--.....|..|++.
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 367888876666666789999874
No 154
>cd02003 TPP_IolD Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism.
Probab=42.17 E-value=1.9e+02 Score=25.17 Aligned_cols=46 Identities=15% Similarity=0.211 Sum_probs=31.8
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQA 193 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa 193 (298)
.++++.|.| |.+.++. ++.+.+|.+.++++-++.+....-.+.++.
T Consensus 66 ~~~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpv~ivV~NN~~~g~~~~~ 111 (205)
T cd02003 66 DREVYVLVG--DGSYLML--HSEIVTAVQEGLKIIIVLFDNHGFGCINNL 111 (205)
T ss_pred CCeEEEEEc--cchhhcc--HHHHHHHHHcCCCCEEEEEECCccHHHHHH
Confidence 567888876 5565553 357888999999999999953333454443
No 155
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=42.13 E-value=18 Score=29.16 Aligned_cols=25 Identities=32% Similarity=0.967 Sum_probs=19.2
Q ss_pred cceeEcCCCCeeecC--------CCCCCccccc
Q 022374 250 DMGYICSVCLSIYCK--------HLKKCSTCGS 274 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~--------~~~~C~~C~~ 274 (298)
..+|.|+.|...||. .--.|+-|..
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred ccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 357999999999993 2356888874
No 156
>PHA00626 hypothetical protein
Probab=41.91 E-value=16 Score=25.71 Aligned_cols=27 Identities=30% Similarity=0.422 Sum_probs=18.4
Q ss_pred EcCCCCe--ee-cCC------CCCCccccccccccc
Q 022374 254 ICSVCLS--IY-CKH------LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Cls--i~-C~~------~~~C~~C~~~f~~~~ 280 (298)
.||.|.+ |+ |.. .=.|+.||-.|....
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~~~ 37 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSKDA 37 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCCCeechhh
Confidence 4899988 22 222 237999999988655
No 157
>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=41.05 E-value=12 Score=41.75 Aligned_cols=28 Identities=29% Similarity=0.798 Sum_probs=20.9
Q ss_pred cceeEcCCCCeeecCC------------C-CCCcccccccccc
Q 022374 250 DMGYICSVCLSIYCKH------------L-KKCSTCGSVFGQA 279 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~~------------~-~~C~~C~~~f~~~ 279 (298)
.-.|+||.|. |.++ | ..||.||+.+..-
T Consensus 681 ~phy~c~~c~--~~ef~~~~~~~sg~dlp~k~cp~c~~~~~~d 721 (1213)
T TIGR01405 681 PPHYLCPNCK--YSEFITDGSVGSGFDLPDKDCPKCGAPLKKD 721 (1213)
T ss_pred cccccCcccc--cccccccccccccccCccccCcccccccccc
Confidence 3479999994 6543 3 4799999988743
No 158
>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=40.19 E-value=68 Score=28.38 Aligned_cols=36 Identities=19% Similarity=0.492 Sum_probs=24.7
Q ss_pred eeeeeccCcccceeEcCCCCeeec----------CCCCCCcccccccc
Q 022374 240 ASCFCHKNTIDMGYICSVCLSIYC----------KHLKKCSTCGSVFG 277 (298)
Q Consensus 240 a~C~CH~~~~~~GyvCp~Clsi~C----------~~~~~C~~C~~~f~ 277 (298)
...-+|+.+-. ..|+.|...+- ...|.|+.||..+.
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 45677877655 55888877654 23478999996643
No 159
>PLN02470 acetolactate synthase
Probab=39.99 E-value=1.5e+02 Score=30.23 Aligned_cols=71 Identities=11% Similarity=0.120 Sum_probs=47.0
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH------------------------------H
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ------------------------------A 193 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ------------------------------a 193 (298)
.++++.|.| |.+.+|. ++-+.+|.+.+++|-++.+....-.++++ +
T Consensus 444 ~~~Vv~i~G--DG~f~m~--~~eL~Ta~~~~l~v~ivV~NN~~yg~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~i 519 (585)
T PLN02470 444 DAIVVDIDG--DGSFIMN--IQELATIHVENLPVKIMVLNNQHLGMVVQWEDRFYKANRAHTYLGDPDAEAEIFPDFLKF 519 (585)
T ss_pred CCcEEEEEc--cchhhcc--HHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHHhCCceeeeecCccccccCCCCCHHHH
Confidence 467888876 6676665 47899999999999999995333233333 4
Q ss_pred HhhcCCeeeeeCCcchHHHHHHHhc
Q 022374 194 SYITGGVHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 194 ~~~T~G~Y~~~~~~~~L~q~Ll~~~ 218 (298)
|+..|+.+..+.+.+.|.+-|-..+
T Consensus 520 A~a~G~~~~~v~~~~el~~al~~a~ 544 (585)
T PLN02470 520 AEGCKIPAARVTRKSDLREAIQKML 544 (585)
T ss_pred HHHCCCeEEEECCHHHHHHHHHHHH
Confidence 4444556666666666666554443
No 160
>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=39.54 E-value=3.7 Score=27.93 Aligned_cols=28 Identities=25% Similarity=0.762 Sum_probs=21.2
Q ss_pred eeEcCCCCeeecCCCCCCcccccccccc
Q 022374 252 GYICSVCLSIYCKHLKKCSTCGSVFGQA 279 (298)
Q Consensus 252 GyvCp~Clsi~C~~~~~C~~C~~~f~~~ 279 (298)
.|.|=.|+++.=.....|++|+-.+...
T Consensus 21 HYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 21 HYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp -EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred hhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4999999999999999999999877543
No 161
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=39.28 E-value=88 Score=25.37 Aligned_cols=38 Identities=16% Similarity=0.229 Sum_probs=28.6
Q ss_pred EEEEEEcCCCCChhhhHHHH-HHHHHHcCCeeEEEEEcC
Q 022374 146 RILCLQGSPDGPEQYVAIMN-AIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 146 rILii~~S~d~~~qyi~lmN-~ifaAqk~~I~Idv~~L~ 183 (298)
+||+|.+|+...+.--.+.+ +...+++.++.++++-|.
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~ 40 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLA 40 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECT
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEecc
Confidence 79999999864444445666 455666679999999994
No 162
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=39.15 E-value=16 Score=24.96 Aligned_cols=24 Identities=29% Similarity=0.636 Sum_probs=14.6
Q ss_pred eEcCCCCe-eecCC--CCCCccccccc
Q 022374 253 YICSVCLS-IYCKH--LKKCSTCGSVF 276 (298)
Q Consensus 253 yvCp~Cls-i~C~~--~~~C~~C~~~f 276 (298)
=.||.|.+ +.=.. .-.|..||.++
T Consensus 21 ~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 21 KFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred CcCcCCCcchheccCCcEECCCcCCEE
Confidence 37888887 33322 24688887653
No 163
>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=39.12 E-value=13 Score=27.41 Aligned_cols=33 Identities=27% Similarity=0.619 Sum_probs=18.0
Q ss_pred eccCcc--cceeEcCCCCeeecCCCCCCcccccccc
Q 022374 244 CHKNTI--DMGYICSVCLSIYCKHLKKCSTCGSVFG 277 (298)
Q Consensus 244 CH~~~~--~~GyvCp~Clsi~C~~~~~C~~C~~~f~ 277 (298)
||..+. ...|.|..|..-|=. -+.||.|+..|-
T Consensus 7 C~~~L~~~~~~~~C~~C~~~~~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 7 CQQELEWQGGHYHCEACQKDYKK-EAFCPDCGQPLE 41 (70)
T ss_dssp S-SBEEEETTEEEETTT--EEEE-EEE-TTT-SB-E
T ss_pred CCCccEEeCCEEECcccccccee-cccCCCcccHHH
Confidence 555553 457999999987643 356888887664
No 164
>cd02013 TPP_Xsc_like Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the desulfonation of 2-sulfoacetaldehyde into sulfite and acetyl phosphate. This enzyme requires TPP and divalent metal ions for activity.
Probab=39.03 E-value=2.3e+02 Score=24.41 Aligned_cols=36 Identities=22% Similarity=0.423 Sum_probs=27.8
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
.+++++|.| |.+.+|. ++.+.+|.+++++|=++.+.
T Consensus 71 ~r~vv~i~G--DG~f~m~--~~eL~Ta~~~~lpvi~vV~N 106 (196)
T cd02013 71 DRPVVAIAG--DGAWGMS--MMEIMTAVRHKLPVTAVVFR 106 (196)
T ss_pred CCcEEEEEc--chHHhcc--HHHHHHHHHhCCCeEEEEEE
Confidence 567888886 6666663 46677899999999999984
No 165
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.47 E-value=14 Score=29.71 Aligned_cols=29 Identities=7% Similarity=-0.057 Sum_probs=24.3
Q ss_pred eeEcCCCCeeecCC---CCCCccccccccccc
Q 022374 252 GYICSVCLSIYCKH---LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 252 GyvCp~Clsi~C~~---~~~C~~C~~~f~~~~ 280 (298)
--+||-|.++|=.+ |.+||-||..|..+-
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~P~s~ 40 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSYPRSY 40 (129)
T ss_pred cccCccccchhhccCCCccccCcccccchHHH
Confidence 36899999999987 579999999986554
No 166
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=38.34 E-value=1.6e+02 Score=29.78 Aligned_cols=71 Identities=10% Similarity=0.181 Sum_probs=49.6
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHH---------------------HHHHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFL---------------------QQASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~L---------------------qQa~~~T~G~Y~ 202 (298)
.+++++|.| |.+.+|. ++-+.+|.++++++=++.+....-.++ .++++.-|+.|.
T Consensus 415 ~~~Vv~i~G--DGsf~~~--~~eL~Ta~~~~lpi~ivV~NN~~~g~i~~~q~~~~~~~~~~~~~~~d~~~lA~a~G~~~~ 490 (549)
T PRK06457 415 KRQVISFVG--DGGFTMT--MMELITAKKYDLPVKIIIYNNSKLGMIKFEQEVMGYPEWGVDLYNPDFTKIAESIGFKGF 490 (549)
T ss_pred CCeEEEEEc--ccHHhhh--HHHHHHHHHHCCCeEEEEEECCccchHHHHHHHhcCCcccccCCCCCHHHHHHHCCCeEE
Confidence 578888886 6676665 467889999999999998853332233 345556667777
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+++.|...|-..+
T Consensus 491 ~v~~~~el~~al~~a~ 506 (549)
T PRK06457 491 RLEEPKEAEEIIEEFL 506 (549)
T ss_pred EeCCHHHHHHHHHHHH
Confidence 7777777777666554
No 167
>PHA02768 hypothetical protein; Provisional
Probab=37.63 E-value=13 Score=26.10 Aligned_cols=28 Identities=36% Similarity=0.617 Sum_probs=22.4
Q ss_pred cceeEcCCCCeeecC------------CCCCCcccccccc
Q 022374 250 DMGYICSVCLSIYCK------------HLKKCSTCGSVFG 277 (298)
Q Consensus 250 ~~GyvCp~Clsi~C~------------~~~~C~~C~~~f~ 277 (298)
-.||.|+.|+-.|-. -+-.|..|+-.|.
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 369999999999984 1458999988776
No 168
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=37.57 E-value=1.9e+02 Score=29.22 Aligned_cols=71 Identities=18% Similarity=0.278 Sum_probs=47.3
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH-----------------------HHhhcCCe
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ-----------------------ASYITGGV 200 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ-----------------------a~~~T~G~ 200 (298)
.++++.|.| |.+.+|. ++.+.+|.+.++++-++.+....-.++++ +++.-|+.
T Consensus 419 ~~~vv~i~G--DG~f~~~--~~eL~ta~~~~l~v~ivV~NN~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~la~a~G~~ 494 (548)
T PRK08978 419 DDTVICVSG--DGSFMMN--VQELGTIKRKQLPVKIVLLDNQRLGMVRQWQQLFFDERYSETDLSDNPDFVMLASAFGIP 494 (548)
T ss_pred CCcEEEEEc--cchhhcc--HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCcceecCCCCCCCHHHHHHHCCCe
Confidence 568888886 6676665 57899999999999999996433333332 33334555
Q ss_pred eeeeCCcchHHHHHHHhc
Q 022374 201 HHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 201 Y~~~~~~~~L~q~Ll~~~ 218 (298)
|..+.+.+.|...|-..+
T Consensus 495 ~~~v~~~~el~~al~~a~ 512 (548)
T PRK08978 495 GQTITRKDQVEAALDTLL 512 (548)
T ss_pred EEEECCHHHHHHHHHHHH
Confidence 666666666666655443
No 169
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=35.55 E-value=33 Score=35.96 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=16.0
Q ss_pred eeeeeccCcccceeEcCCCCee
Q 022374 240 ASCFCHKNTIDMGYICSVCLSI 261 (298)
Q Consensus 240 a~C~CH~~~~~~GyvCp~Clsi 261 (298)
..|.-|+.....++.||.|++-
T Consensus 627 ~~C~~CG~~~g~~~~CP~CG~~ 648 (656)
T PRK08270 627 SICPKHGYLSGEHEFCPKCGEE 648 (656)
T ss_pred cccCCCCCcCCCCCCCcCCcCc
Confidence 4577666666678889988864
No 170
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=35.37 E-value=28 Score=21.72 Aligned_cols=22 Identities=36% Similarity=0.682 Sum_probs=14.5
Q ss_pred eee-eccCcc----cceeEcCCCCeee
Q 022374 241 SCF-CHKNTI----DMGYICSVCLSIY 262 (298)
Q Consensus 241 ~C~-CH~~~~----~~GyvCp~Clsi~ 262 (298)
.|. |++..+ +..|+|+.|.++|
T Consensus 5 ~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 5 KCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred EcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 355 665443 4678888888765
No 171
>PRK07586 hypothetical protein; Validated
Probab=35.31 E-value=2.1e+02 Score=28.55 Aligned_cols=45 Identities=24% Similarity=0.536 Sum_probs=33.6
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ 192 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ 192 (298)
.++++.|.| |.+.+|. ++.+.+|.+++++|-++.+....-.++++
T Consensus 403 ~r~Vv~i~G--DGsf~m~--~~EL~Ta~~~~lpv~ivV~NN~~y~~~~~ 447 (514)
T PRK07586 403 DRKVLALQG--DGSAMYT--IQALWTQARENLDVTTVIFANRAYAILRG 447 (514)
T ss_pred CCeEEEEEe--chHHHhH--HHHHHHHHHcCCCCEEEEEeCchhHHHHH
Confidence 568888886 6677765 57899999999999999995333335554
No 172
>PRK08322 acetolactate synthase; Reviewed
Probab=34.98 E-value=1.9e+02 Score=29.08 Aligned_cols=71 Identities=17% Similarity=0.179 Sum_probs=46.9
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH---------------------HHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ---------------------ASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ---------------------a~~~T~G~Y~ 202 (298)
.++++.|.| |.+.+|. ++.+.+|.+.++++=++.+....-.++++ +|+.-|+.|.
T Consensus 424 ~~~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpv~iiV~NN~~~g~~~~~~~~~~~~~~~~~~~~~df~~lA~a~G~~~~ 499 (547)
T PRK08322 424 DRKVLAVCG--DGGFMMN--SQELETAVRLGLPLVVLILNDNAYGMIRWKQENMGFEDFGLDFGNPDFVKYAESYGAKGY 499 (547)
T ss_pred CCcEEEEEc--chhHhcc--HHHHHHHHHhCCCeEEEEEeCCCcchHHHHHHhhcCCcccccCCCCCHHHHHHHCCCeEE
Confidence 567888876 5665544 35688899999999999995333334443 4444455666
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+.+.|.+.|-..+
T Consensus 500 ~v~~~~eL~~al~~a~ 515 (547)
T PRK08322 500 RVESADDLLPTLEEAL 515 (547)
T ss_pred EeCCHHHHHHHHHHHH
Confidence 6677777777665554
No 173
>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=34.40 E-value=29 Score=29.23 Aligned_cols=34 Identities=18% Similarity=0.434 Sum_probs=23.6
Q ss_pred eeeccCcc-cceeEcCCCCeeecCC----CCCCcccccc
Q 022374 242 CFCHKNTI-DMGYICSVCLSIYCKH----LKKCSTCGSV 275 (298)
Q Consensus 242 C~CH~~~~-~~GyvCp~Clsi~C~~----~~~C~~C~~~ 275 (298)
++..+.++ .+-|+|-.|+-...-. -|.||.||-.
T Consensus 101 ~Y~sGE~~g~G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 101 VYHSGEVVGPGTLVCENCGHEVELTHPERLPPCPKCGHT 139 (146)
T ss_pred CeecCcEecCceEecccCCCEEEecCCCcCCCCCCCCCC
Confidence 33444443 4569999999988842 3679999853
No 174
>PRK07064 hypothetical protein; Provisional
Probab=33.39 E-value=1.8e+02 Score=29.19 Aligned_cols=71 Identities=13% Similarity=0.124 Sum_probs=48.1
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH----------------------HHhhcCCee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ----------------------ASYITGGVH 201 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ----------------------a~~~T~G~Y 201 (298)
.++++.|.| |.+.+|. ++.+.+|.++++++=++.+....-.++++ +++.-|+.|
T Consensus 423 ~~~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpv~ivV~NN~~yg~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~ 498 (544)
T PRK07064 423 GRKTVGLVG--DGGLMLN--LGELATAVQENANMVIVLMNDGGYGVIRNIQDAQYGGRRYYVELHTPDFALLAASLGLPH 498 (544)
T ss_pred CCcEEEEEc--chHhhhh--HHHHHHHHHhCCCeEEEEEeCChhHHHHHHHHHhcCCccccccCCCCCHHHHHHHCCCeE
Confidence 567877776 6676664 47888999999999999985333334442 444445666
Q ss_pred eeeCCcchHHHHHHHhc
Q 022374 202 HKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 202 ~~~~~~~~L~q~Ll~~~ 218 (298)
..+.+.+.|.+.|-..+
T Consensus 499 ~~v~~~~eL~~al~~a~ 515 (544)
T PRK07064 499 WRVTSADDFEAVLREAL 515 (544)
T ss_pred EEeCCHHHHHHHHHHHH
Confidence 67777777777766554
No 175
>cd02014 TPP_POX Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates pyruvate, producing hydrogen peroxide and the energy-storage metabolite acetylphosphate. It requires FAD in addition to TPP and a divalent cation as cofactors.
Probab=32.83 E-value=3e+02 Score=23.16 Aligned_cols=36 Identities=19% Similarity=0.409 Sum_probs=27.7
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
.+++++|.| |.+.+|. ++.+.+|.++++++-++.+.
T Consensus 69 ~~~vv~i~G--DG~f~~~--~~el~t~~~~~lp~~~iv~N 104 (178)
T cd02014 69 DRQVIALSG--DGGFAML--MGDLITAVKYNLPVIVVVFN 104 (178)
T ss_pred CCcEEEEEc--chHHHhh--HHHHHHHHHhCCCcEEEEEE
Confidence 468888876 5666655 46678899999999999984
No 176
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=32.83 E-value=2.1e+02 Score=29.08 Aligned_cols=71 Identities=17% Similarity=0.224 Sum_probs=47.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH---------------------HHHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ---------------------QASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq---------------------Qa~~~T~G~Y~ 202 (298)
.+++++|.| |.+.+|. ++-+.+|.+++++|-++.+....-.+++ ++++.-|+.+.
T Consensus 426 ~r~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~ 501 (574)
T PRK09124 426 GRQVVALSG--DGGFSML--MGDFLSLVQLKLPVKIVVFNNSVLGFVAMEMKAGGYLTDGTDLHNPDFAAIAEACGITGI 501 (574)
T ss_pred CCeEEEEec--CcHHhcc--HHHHHHHHHhCCCeEEEEEeCCccccHHHHHHhcCCccccCcCCCCCHHHHHHHCCCeEE
Confidence 568888886 6676665 4678899999999999999532222222 24444456666
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+.+.|.+.|-..+
T Consensus 502 ~v~~~~eL~~al~~a~ 517 (574)
T PRK09124 502 RVEKASELDGALQRAF 517 (574)
T ss_pred EeCCHHHHHHHHHHHH
Confidence 6777777777776654
No 177
>cd02004 TPP_BZL_OCoD_HPCL Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves the acyloin linkage of benzoin producing 2 molecules of benzaldehyde and enabling the Pseudomonas to grow on benzoin as the sole carbon and energy source. OCoD has a role in the detoxification of oxalate, catalyzing the decarboxylation of oxalyl-CoA to formate. 2-HPCL is a peroxisomal enzyme which plays a role in the alpha-oxidation of 3-methyl-branched fatty acids, catalyzing the cleavage of 2-hydroxy-3-methylacyl-CoA into formyl-CoA and a 2-methyl-branched fatty aldehyde. All these enzymes depend on Mg2+ and TPP for activity.
Probab=32.63 E-value=2.7e+02 Score=23.18 Aligned_cols=36 Identities=22% Similarity=0.278 Sum_probs=27.4
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
.++++.+.| |.+.++. ++.+.+|.+.++++=++.+.
T Consensus 66 ~~~vv~i~G--DG~f~~~--~~el~ta~~~~lpv~ivv~N 101 (172)
T cd02004 66 DKRVVLVEG--DGAFGFS--GMELETAVRYNLPIVVVVGN 101 (172)
T ss_pred CCeEEEEEc--chhhcCC--HHHHHHHHHcCCCEEEEEEE
Confidence 568888876 5555543 47788999999999999885
No 178
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=32.06 E-value=32 Score=34.49 Aligned_cols=39 Identities=13% Similarity=0.166 Sum_probs=23.3
Q ss_pred CCcEEEEEEcCCCCChhhhHHHHHHHHH-HcC--CeeEEEEEcC
Q 022374 143 PQPRILCLQGSPDGPEQYVAIMNAIFSA-QRS--MVPIDSCYLG 183 (298)
Q Consensus 143 ~~~rILii~~S~d~~~qyi~lmN~ifaA-qk~--~I~Idv~~L~ 183 (298)
...+|+|++.|.-...+ .+.+.|... ++. +|.+.+..+.
T Consensus 250 ~~~kv~IvY~S~~GnTe--~mA~~ia~gl~~~g~gv~v~~~~v~ 291 (479)
T PRK05452 250 QEDRITIFYDTMSNNTR--MMADAIAQGIAEVDPRVAVKIFNVA 291 (479)
T ss_pred CcCcEEEEEECCccHHH--HHHHHHHHHHHhhCCCceEEEEECC
Confidence 45789999988532222 344555444 443 5777777664
No 179
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=32.01 E-value=2.5e+02 Score=28.54 Aligned_cols=71 Identities=13% Similarity=0.135 Sum_probs=46.9
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH-----------------------HHhhcCCe
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ-----------------------ASYITGGV 200 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ-----------------------a~~~T~G~ 200 (298)
.++++.|.| |.+.+|. ++.+.+|.+.++++-++.+....-.++++ +++..|+.
T Consensus 442 ~~~vv~i~G--DGsf~m~--~~eL~ta~r~~lpi~ivV~NN~~~~~i~~~~~~~~~~~~~~~~~~~~~d~~~~A~a~G~~ 517 (571)
T PRK07710 442 DETVVAIVG--DGGFQMT--LQELSVIKELSLPVKVVILNNEALGMVRQWQEEFYNQRYSHSLLSCQPDFVKLAEAYGIK 517 (571)
T ss_pred CCcEEEEEc--chHHhhh--HHHHHHHHHhCCCeEEEEEECchHHHHHHHHHHHhCCcceeccCCCCCCHHHHHHHCCCe
Confidence 457777776 6676664 45788999999999999996433334443 44444566
Q ss_pred eeeeCCcchHHHHHHHhc
Q 022374 201 HHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 201 Y~~~~~~~~L~q~Ll~~~ 218 (298)
|..+.+.+.|.+.|-..+
T Consensus 518 ~~~v~~~~el~~al~~a~ 535 (571)
T PRK07710 518 GVRIDDELEAKEQLQHAI 535 (571)
T ss_pred EEEECCHHHHHHHHHHHH
Confidence 666666666666555444
No 180
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=31.95 E-value=30 Score=33.61 Aligned_cols=30 Identities=37% Similarity=0.682 Sum_probs=22.6
Q ss_pred ce--eEcCCCCeeec---CCCCCCccccccccccc
Q 022374 251 MG--YICSVCLSIYC---KHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 251 ~G--yvCp~Clsi~C---~~~~~C~~C~~~f~~~~ 280 (298)
.| |.|+.|+-++= +....|+.||..+....
T Consensus 237 ~g~~~~c~~cg~~~~~~~~~~~~c~~Cg~~~~~~G 271 (380)
T COG1867 237 LGYIYHCSRCGEIVGSFREVDEKCPHCGGKVHLAG 271 (380)
T ss_pred cCcEEEcccccceecccccccccCCcccccceecc
Confidence 56 88999974443 34579999999887664
No 181
>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=31.73 E-value=19 Score=28.72 Aligned_cols=26 Identities=27% Similarity=0.522 Sum_probs=19.1
Q ss_pred EcCCCCeeecCCC---CCCcccccccccc
Q 022374 254 ICSVCLSIYCKHL---KKCSTCGSVFGQA 279 (298)
Q Consensus 254 vCp~Clsi~C~~~---~~C~~C~~~f~~~ 279 (298)
-||.|.|-|...- -+||-|+-.....
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~~~ 32 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWNEN 32 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccccccc
Confidence 3899999888543 4899998776533
No 182
>PRK04860 hypothetical protein; Provisional
Probab=31.44 E-value=56 Score=27.93 Aligned_cols=15 Identities=13% Similarity=0.093 Sum_probs=11.0
Q ss_pred HHHcCCeeEEEEEcC
Q 022374 169 SAQRSMVPIDSCYLG 183 (298)
Q Consensus 169 aAqk~~I~Idv~~L~ 183 (298)
-.|..+|+++-..|.
T Consensus 42 ~l~~~~I~~Np~ll~ 56 (160)
T PRK04860 42 WLQSNEIRLNPVLLL 56 (160)
T ss_pred hHhcCCeeeCHHHHh
Confidence 357788888877763
No 183
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=31.18 E-value=74 Score=24.77 Aligned_cols=43 Identities=9% Similarity=0.165 Sum_probs=24.3
Q ss_pred EEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHH
Q 022374 146 RILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQAS 194 (298)
Q Consensus 146 rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~ 194 (298)
-+++++.|. .+. .+.+++..|++.+++| +.+...+..-+.+.+
T Consensus 56 ~vi~is~sg-~~~---~~~~~~~~ak~~g~~v--i~iT~~~~~~l~~~a 98 (131)
T PF01380_consen 56 LVIIISYSG-ETR---ELIELLRFAKERGAPV--ILITSNSESPLARLA 98 (131)
T ss_dssp EEEEEESSS-TTH---HHHHHHHHHHHTTSEE--EEEESSTTSHHHHHS
T ss_pred eeEeeeccc-cch---hhhhhhHHHHhcCCeE--EEEeCCCCCchhhhC
Confidence 344444443 344 4557778899999888 444333333444444
No 184
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=30.94 E-value=35 Score=27.35 Aligned_cols=24 Identities=17% Similarity=0.488 Sum_probs=13.0
Q ss_pred eeEcCCCCeeecCC--C-CCCcccccc
Q 022374 252 GYICSVCLSIYCKH--L-KKCSTCGSV 275 (298)
Q Consensus 252 GyvCp~Clsi~C~~--~-~~C~~C~~~ 275 (298)
-+.|..|...|=.. . ..||.||..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~ 96 (114)
T PRK03681 70 ECWCETCQQYVTLLTQRVRRCPQCHGD 96 (114)
T ss_pred EEEcccCCCeeecCCccCCcCcCcCCC
Confidence 35566666555432 2 347777754
No 185
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=30.92 E-value=2.6e+02 Score=28.40 Aligned_cols=71 Identities=20% Similarity=0.307 Sum_probs=45.2
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH-----------------------HHHhhcCCe
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ-----------------------QASYITGGV 200 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq-----------------------Qa~~~T~G~ 200 (298)
.+++++|.| |.+.+|. ++.+.+|.+.++++-++.+......+++ ++++.-|+.
T Consensus 439 ~~~vv~i~G--DG~f~~~--~~eL~ta~~~~lpv~~vV~NN~~~~~i~~~q~~~~~~~~~~~~~~~~~d~~~la~a~G~~ 514 (574)
T PRK06882 439 EATVVCVTG--DGSIQMN--IQELSTAKQYDIPVVIVSLNNRFLGMVKQWQDLIYSGRHSQVYMNSLPDFAKLAEAYGHV 514 (574)
T ss_pred CCcEEEEEc--chhhhcc--HHHHHHHHHhCCCeEEEEEECchhHHHHHHHHHhcCCcccccCCCCCCCHHHHHHHCCCe
Confidence 457777776 6666664 4778889999999999999533223333 344444556
Q ss_pred eeeeCCcchHHHHHHHhc
Q 022374 201 HHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 201 Y~~~~~~~~L~q~Ll~~~ 218 (298)
+..+.+.+.|...|-..+
T Consensus 515 ~~~v~~~~eL~~al~~a~ 532 (574)
T PRK06882 515 GIQIDTPDELEEKLTQAF 532 (574)
T ss_pred EEEeCCHHHHHHHHHHHH
Confidence 666666666655554443
No 186
>PLN00209 ribosomal protein S27; Provisional
Probab=30.76 E-value=22 Score=27.19 Aligned_cols=27 Identities=26% Similarity=0.626 Sum_probs=21.1
Q ss_pred EcCCCCeeecCC-----CCCCccccccccccc
Q 022374 254 ICSVCLSIYCKH-----LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C~~-----~~~C~~C~~~f~~~~ 280 (298)
-||.|..+.--+ ...|..||+.|..+.
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 499998776543 478999999998766
No 187
>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=30.63 E-value=23 Score=25.45 Aligned_cols=44 Identities=25% Similarity=0.443 Sum_probs=30.1
Q ss_pred ceeEcCCCCe---eecCCC--------CCCccccccccccccCCCCCcc-cccccc
Q 022374 251 MGYICSVCLS---IYCKHL--------KKCSTCGSVFGQAQTQSDEPSA-TNRKRK 294 (298)
Q Consensus 251 ~GyvCp~Cls---i~C~~~--------~~C~~C~~~f~~~~~~~~~~~~-~~~~~~ 294 (298)
-...||+|.| +||.+. -.|..|.-.+........-|+- ..+|.|
T Consensus 4 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~rywT~GG~lRnVPvggg~Rk~k 59 (63)
T PF02701_consen 4 QPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRYWTHGGTLRNVPVGGGCRKNK 59 (63)
T ss_pred cCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHHHHhcceecCCccCCCcccCC
Confidence 3567999975 688542 4899999999988755545544 344443
No 188
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=30.29 E-value=46 Score=37.30 Aligned_cols=32 Identities=9% Similarity=0.137 Sum_probs=15.4
Q ss_pred HHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCC
Q 022374 40 HVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSS 75 (298)
Q Consensus 40 ~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~ 75 (298)
+++..+..|++--- |+- .=++|++--+.|-.+
T Consensus 356 Atm~l~d~FlAvGT--QlK--~ErPGKa~~v~Pvds 387 (1337)
T PRK14714 356 ATMHLVDDFLAVGT--QMK--TERPGKAAGVVPVDT 387 (1337)
T ss_pred HHHHHhhhheeece--eee--eccCCCceeEeeccc
Confidence 34555555655322 221 125566666666443
No 189
>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=29.82 E-value=28 Score=34.45 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=21.2
Q ss_pred eeeeecc--Ccccce---eEcCCCCeeecC-C-CCCCcccccccc
Q 022374 240 ASCFCHK--NTIDMG---YICSVCLSIYCK-H-LKKCSTCGSVFG 277 (298)
Q Consensus 240 a~C~CH~--~~~~~G---yvCp~Clsi~C~-~-~~~C~~C~~~f~ 277 (298)
.+-.|.. +++..| -.||.|++.|.. + ...|++|+..-+
T Consensus 363 pF~ICa~s~tPIY~G~~~v~CP~cgA~y~~~~kG~lC~vC~l~~I 407 (422)
T PF06957_consen 363 PFDICAASYTPIYRGSPSVKCPYCGAKYHPEYKGQLCPVCELSEI 407 (422)
T ss_dssp -EEEBTTT--EEETTS-EEE-TTT--EEEGGGTTSB-TTTTTBBT
T ss_pred CceeeecccccccCCCCCeeCCCCCCccChhhCCCCCCCCcceee
Confidence 3455554 444433 449999999995 3 479999987655
No 190
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=29.55 E-value=1.7e+02 Score=23.17 Aligned_cols=45 Identities=11% Similarity=0.060 Sum_probs=28.2
Q ss_pred cEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhh
Q 022374 145 PRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYI 196 (298)
Q Consensus 145 ~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~ 196 (298)
..|+++++- .++.+ ++..+++.+++|-++.....-+.-|+.+||.
T Consensus 97 d~ivLvSgD----~Df~~---~v~~l~~~g~~V~v~~~~~~~s~~L~~~ad~ 141 (146)
T PF01936_consen 97 DTIVLVSGD----SDFAP---LVRKLRERGKRVIVVGAEDSASEALRSAADE 141 (146)
T ss_dssp SEEEEE-------GGGHH---HHHHHHHH--EEEEEE-GGGS-HHHHHHSSE
T ss_pred CEEEEEECc----HHHHH---HHHHHHHcCCEEEEEEeCCCCCHHHHHhcCE
Confidence 678888862 45665 5666689999999998534577788888873
No 191
>PHA00733 hypothetical protein
Probab=29.29 E-value=33 Score=28.05 Aligned_cols=30 Identities=33% Similarity=0.891 Sum_probs=22.3
Q ss_pred ceeEcCCCCeeecC------------CCCCCccccccccccc
Q 022374 251 MGYICSVCLSIYCK------------HLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 251 ~GyvCp~Clsi~C~------------~~~~C~~C~~~f~~~~ 280 (298)
..|+|+.|...|-. .+-.|..|+..|....
T Consensus 72 kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~ 113 (128)
T PHA00733 72 SPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTD 113 (128)
T ss_pred CCccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHH
Confidence 45889999877663 2348999999988654
No 192
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=29.23 E-value=17 Score=34.69 Aligned_cols=42 Identities=14% Similarity=0.109 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHHcCCeeEEEEEcC-CCChHHHHHHHhhcCCeeeeeCC
Q 022374 160 YVAIMNAIFSAQRSMVPIDSCYLG-AQNSAFLQQASYITGGVHHKPQQ 206 (298)
Q Consensus 160 yi~lmN~ifaAqk~~I~Idv~~L~-~~e~~~LqQa~~~T~G~Y~~~~~ 206 (298)
|-+++.|.-.|. ||.+-|| ++|+..--++.++-.=.|+.-.|
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 8887776 67877777777776666664443
No 193
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=29.10 E-value=31 Score=32.06 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=7.5
Q ss_pred CCccccccccccc
Q 022374 268 KCSTCGSVFGQAQ 280 (298)
Q Consensus 268 ~C~~C~~~f~~~~ 280 (298)
.|++||..+++.+
T Consensus 163 ~C~~C~K~YvSmp 175 (279)
T KOG2462|consen 163 SCKYCGKVYVSMP 175 (279)
T ss_pred cCCCCCceeeehH
Confidence 5666666555554
No 194
>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=29.10 E-value=30 Score=22.90 Aligned_cols=13 Identities=38% Similarity=0.789 Sum_probs=10.1
Q ss_pred CC-CCCcccccccc
Q 022374 265 HL-KKCSTCGSVFG 277 (298)
Q Consensus 265 ~~-~~C~~C~~~f~ 277 (298)
+| .+|++||..|.
T Consensus 6 lp~K~C~~C~rpf~ 19 (42)
T PF10013_consen 6 LPSKICPVCGRPFT 19 (42)
T ss_pred CCCCcCcccCCcch
Confidence 44 48999998886
No 195
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=28.85 E-value=47 Score=26.53 Aligned_cols=24 Identities=21% Similarity=0.419 Sum_probs=13.4
Q ss_pred eeEcCCCCeeecCC--CCCCcccccc
Q 022374 252 GYICSVCLSIYCKH--LKKCSTCGSV 275 (298)
Q Consensus 252 GyvCp~Clsi~C~~--~~~C~~C~~~ 275 (298)
-+.|..|...|=.. .-.||.||..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 70 QAWCWDCSQVVEIHQHDAQCPHCHGE 95 (113)
T ss_pred EEEcccCCCEEecCCcCccCcCCCCC
Confidence 45666666555432 2347777753
No 196
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=28.84 E-value=29 Score=25.17 Aligned_cols=22 Identities=23% Similarity=0.456 Sum_probs=14.9
Q ss_pred EcCCCCeeecCCCCCCcccccccc
Q 022374 254 ICSVCLSIYCKHLKKCSTCGSVFG 277 (298)
Q Consensus 254 vCp~Clsi~C~~~~~C~~C~~~f~ 277 (298)
.|-.|..+. -...||.||..-.
T Consensus 7 AC~~C~~i~--~~~~Cp~Cgs~~~ 28 (64)
T PRK06393 7 ACKKCKRLT--PEKTCPVHGDEKT 28 (64)
T ss_pred hHhhCCccc--CCCcCCCCCCCcC
Confidence 466677776 3447888888743
No 197
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=28.65 E-value=26 Score=26.83 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=21.1
Q ss_pred EcCCCCeeecCC-----CCCCccccccccccc
Q 022374 254 ICSVCLSIYCKH-----LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C~~-----~~~C~~C~~~f~~~~ 280 (298)
-||.|..+.--+ ...|..||+.|..+.
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 499998776643 368999999998776
No 198
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=28.35 E-value=19 Score=34.63 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=15.4
Q ss_pred ccceeEcCCCCeeecCCC
Q 022374 249 IDMGYICSVCLSIYCKHL 266 (298)
Q Consensus 249 ~~~GyvCp~Clsi~C~~~ 266 (298)
...+|-||+|++.+|++-
T Consensus 26 nE~KYkCPRCl~rtCsLe 43 (390)
T KOG2858|consen 26 NEPKYKCPRCLARTCSLE 43 (390)
T ss_pred CcccccCcchhhhheecc
Confidence 467999999999999763
No 199
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=28.25 E-value=2.6e+02 Score=28.61 Aligned_cols=71 Identities=10% Similarity=0.114 Sum_probs=46.8
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH-------------------------------
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ------------------------------- 192 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ------------------------------- 192 (298)
.++++.|.| |.+.++. ..-+.+|.+++++|=++++....-.++++
T Consensus 436 dr~Vv~i~G--DG~f~m~--~~EL~Ta~r~~lpvv~iV~NN~~yg~i~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ 511 (588)
T TIGR01504 436 KRNVVALSG--DYDFQFM--IEELAVGAQHNIPYIHVLVNNAYLGLIRQAQRAFDMDYCVQLAFENINSSEVNGYGVDHV 511 (588)
T ss_pred CCcEEEEEc--chHhhcc--HHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcccccceeeccccccccccCCCCCHH
Confidence 568888886 5666554 35788999999999999995333334433
Q ss_pred -HHhhcCCeeeeeCCcchHHHHHHHhc
Q 022374 193 -ASYITGGVHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 193 -a~~~T~G~Y~~~~~~~~L~q~Ll~~~ 218 (298)
+++.-|+.+.++.+++.|.+-|-..+
T Consensus 512 ~lA~a~G~~~~~V~~~~eL~~al~~a~ 538 (588)
T TIGR01504 512 KVAEGLGCKAIRVFKPEEIAPAFEQAK 538 (588)
T ss_pred HHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 33344555666666677666665544
No 200
>PRK11032 hypothetical protein; Provisional
Probab=27.92 E-value=55 Score=28.06 Aligned_cols=38 Identities=18% Similarity=0.447 Sum_probs=26.1
Q ss_pred ccCccc-ceeEcCCCCeeecCC----CCCCccccc-cccccccC
Q 022374 245 HKNTID-MGYICSVCLSIYCKH----LKKCSTCGS-VFGQAQTQ 282 (298)
Q Consensus 245 H~~~~~-~GyvCp~Clsi~C~~----~~~C~~C~~-~f~~~~~~ 282 (298)
-+.++. +-+||-.|.-..+-. -+.||.||- .|...|+.
T Consensus 116 sGEvvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~~F~R~~~~ 159 (160)
T PRK11032 116 SGEVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGHDQFQRRPFE 159 (160)
T ss_pred cceeeecceEEecCCCCEEEecCCCcCCCCCCCCCCeeeeCCCC
Confidence 345543 458999999988842 367999985 56655544
No 201
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=27.90 E-value=2.6e+02 Score=28.74 Aligned_cols=71 Identities=13% Similarity=0.153 Sum_probs=48.0
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHH---------------------------HHHHhh
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFL---------------------------QQASYI 196 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~L---------------------------qQa~~~ 196 (298)
.++++.|.| |.+.+|. ++.+.+|.++++++=++.+....-.++ .++|+.
T Consensus 465 ~~~Vv~i~G--DG~f~m~--~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~q~~~~~~~~~~~~~~~~~~~~~d~~~lA~a 540 (612)
T PRK07789 465 DKEVWAIDG--DGCFQMT--NQELATCAIEGIPIKVALINNGNLGMVRQWQTLFYEERYSNTDLHTHSHRIPDFVKLAEA 540 (612)
T ss_pred CCcEEEEEc--chhhhcc--HHHHHHHHHcCCCeEEEEEECCchHHHHHHHHHhhCCCcceeecCcCCCCCCCHHHHHHH
Confidence 567888875 6676655 367999999999999999953322233 335555
Q ss_pred cCCeeeeeCCcchHHHHHHHhc
Q 022374 197 TGGVHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 197 T~G~Y~~~~~~~~L~q~Ll~~~ 218 (298)
-|+.|..+.+.+.|.+-|-..+
T Consensus 541 ~G~~~~~V~~~~eL~~al~~a~ 562 (612)
T PRK07789 541 YGCVGLRCEREEDVDAVIEKAR 562 (612)
T ss_pred CCCeEEEECCHHHHHHHHHHHH
Confidence 5666667777777766665544
No 202
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=27.70 E-value=33 Score=24.61 Aligned_cols=21 Identities=33% Similarity=0.700 Sum_probs=12.9
Q ss_pred EcCCCCeeecCCCCCCccccccc
Q 022374 254 ICSVCLSIYCKHLKKCSTCGSVF 276 (298)
Q Consensus 254 vCp~Clsi~C~~~~~C~~C~~~f 276 (298)
.|-.|..+. -...||.||..-
T Consensus 5 AC~~C~~i~--~~~~CP~Cgs~~ 25 (61)
T PRK08351 5 ACRHCHYIT--TEDRCPVCGSRD 25 (61)
T ss_pred hhhhCCccc--CCCcCCCCcCCc
Confidence 466666666 233677777654
No 203
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=27.21 E-value=55 Score=34.14 Aligned_cols=24 Identities=21% Similarity=0.308 Sum_probs=16.0
Q ss_pred eeeeeccCc-ccceeEcCCCCeeec
Q 022374 240 ASCFCHKNT-IDMGYICSVCLSIYC 263 (298)
Q Consensus 240 a~C~CH~~~-~~~GyvCp~Clsi~C 263 (298)
+.|.-|+.. ...++.||.|++--+
T Consensus 567 ~iC~~CG~~~~g~~~~CP~CGs~~~ 591 (623)
T PRK08271 567 TICNDCHHIDKRTGKRCPICGSENI 591 (623)
T ss_pred ccCCCCCCcCCCCCcCCcCCCCcch
Confidence 457655555 556888888887444
No 204
>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=26.87 E-value=19 Score=24.98 Aligned_cols=16 Identities=31% Similarity=0.781 Sum_probs=6.5
Q ss_pred CCCCCCcccccccccc
Q 022374 264 KHLKKCSTCGSVFGQA 279 (298)
Q Consensus 264 ~~~~~C~~C~~~f~~~ 279 (298)
+.|+.||.|+..+.++
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 3456677777666543
No 205
>PRK10220 hypothetical protein; Provisional
Probab=26.77 E-value=32 Score=27.56 Aligned_cols=24 Identities=25% Similarity=0.544 Sum_probs=16.9
Q ss_pred EcCCCCeeecCCC---CCCcccccccc
Q 022374 254 ICSVCLSIYCKHL---KKCSTCGSVFG 277 (298)
Q Consensus 254 vCp~Clsi~C~~~---~~C~~C~~~f~ 277 (298)
-||+|.+-|-..- -+||-|+-...
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW~ 31 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEWN 31 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcCC
Confidence 3888888877542 47888877665
No 206
>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=26.62 E-value=40 Score=27.86 Aligned_cols=27 Identities=30% Similarity=0.753 Sum_probs=18.1
Q ss_pred ceeEcCCCCeeecCCCC------CCcccccccc
Q 022374 251 MGYICSVCLSIYCKHLK------KCSTCGSVFG 277 (298)
Q Consensus 251 ~GyvCp~Clsi~C~~~~------~C~~C~~~f~ 277 (298)
.-|.|+.|...+-.... .|+.|+-.|+
T Consensus 122 ~~~~C~~C~~~~~r~~~~~~~~~~C~~C~~~l~ 154 (157)
T PF10263_consen 122 YVYRCPSCGREYKRHRRSKRKRYRCGRCGGPLV 154 (157)
T ss_pred eEEEcCCCCCEeeeecccchhhEECCCCCCEEE
Confidence 45888888866653322 5888887775
No 207
>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=25.94 E-value=28 Score=26.98 Aligned_cols=35 Identities=26% Similarity=0.638 Sum_probs=23.0
Q ss_pred eeEcCCCCeeecCC----CCCCccccccccccccCCCCC
Q 022374 252 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQSDEP 286 (298)
Q Consensus 252 GyvCp~Clsi~C~~----~~~C~~C~~~f~~~~~~~~~~ 286 (298)
-|.||+|...-=.. .-.|.-|+.+|.=..-.|.-|
T Consensus 35 ~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGAy~p~T~ 73 (91)
T TIGR00280 35 KYVCPFCGKKTVKRGSTGIWTCRKCGAKFAGGAYTPVTP 73 (91)
T ss_pred CccCCCCCCCceEEEeeEEEEcCCCCCEEeCCccccccc
Confidence 59999995432222 248999999998665444333
No 208
>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=25.44 E-value=30 Score=20.65 Aligned_cols=13 Identities=31% Similarity=0.833 Sum_probs=6.5
Q ss_pred CCccccccccccc
Q 022374 268 KCSTCGSVFGQAQ 280 (298)
Q Consensus 268 ~C~~C~~~f~~~~ 280 (298)
.||.||+.++...
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 4889998888544
No 209
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=25.43 E-value=3.6e+02 Score=27.55 Aligned_cols=70 Identities=16% Similarity=0.130 Sum_probs=45.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChH-HHH-----------------------HHHhhcCC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSA-FLQ-----------------------QASYITGG 199 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~-~Lq-----------------------Qa~~~T~G 199 (298)
.+++++|.| |.+.+|. ++-+.+|.++++++=++.+. ...+ ..+ ++++..|+
T Consensus 453 ~r~vv~i~G--DG~f~~~--~~el~Ta~~~~lpv~ivV~N-N~~y~~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~ 527 (588)
T PRK07525 453 DRPVVGFAG--DGAWGIS--MNEVMTAVRHNWPVTAVVFR-NYQWGAEKKNQVDFYNNRFVGTELDNNVSYAGIAEAMGA 527 (588)
T ss_pred CCcEEEEEc--CchHhcc--HHHHHHHHHhCCCeEEEEEe-CchhHHHHHHHHHHhCCCcccccCCCCCCHHHHHHHCCC
Confidence 567888876 5666664 46788999999999999984 3332 222 24555556
Q ss_pred eeeeeCCcchHHHHHHHhc
Q 022374 200 VHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 200 ~Y~~~~~~~~L~q~Ll~~~ 218 (298)
.+..+.+.+.|.+.|-..+
T Consensus 528 ~~~~v~~~~el~~al~~a~ 546 (588)
T PRK07525 528 EGVVVDTQEELGPALKRAI 546 (588)
T ss_pred eEEEECCHHHHHHHHHHHH
Confidence 6666666666666554443
No 210
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=25.42 E-value=3.4e+02 Score=27.68 Aligned_cols=43 Identities=9% Similarity=0.338 Sum_probs=30.4
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFL 190 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~L 190 (298)
.+++++|.| |.+.+|. ++-+.+|.+++++|=++.+....-..+
T Consensus 426 ~~~vv~i~G--DGsf~~~--~~el~Ta~~~~lpv~~vV~NN~~~g~i 468 (578)
T PRK06546 426 GRQVISMSG--DGGLSML--LGELLTVKLYDLPVKVVVFNNSTLGMV 468 (578)
T ss_pred CCcEEEEEc--CchHhhh--HHHHHHHHHhCCCeEEEEEECCccccH
Confidence 567888886 6666653 456788999999999999953333343
No 211
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=25.14 E-value=37 Score=31.31 Aligned_cols=21 Identities=29% Similarity=0.662 Sum_probs=14.4
Q ss_pred ceeEcCCCCe--------eecCCCCCCcc
Q 022374 251 MGYICSVCLS--------IYCKHLKKCST 271 (298)
Q Consensus 251 ~GyvCp~Cls--------i~C~~~~~C~~ 271 (298)
.-||||+|++ +||-+...|.+
T Consensus 267 R~YVCPiCGATgDnAHTiKyCPl~~~~~~ 295 (318)
T KOG4602|consen 267 RSYVCPICGATGDNAHTIKYCPLAFGDDT 295 (318)
T ss_pred hhhcCccccccCCcccceecccccCCCCc
Confidence 4788888886 57766655544
No 212
>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=25.08 E-value=24 Score=37.79 Aligned_cols=40 Identities=18% Similarity=0.311 Sum_probs=0.0
Q ss_pred ceeeeeccCcccceeEcCCCCeeecCCCCCCccccccccccc
Q 022374 239 RASCFCHKNTIDMGYICSVCLSIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 239 ~a~C~CH~~~~~~GyvCp~Clsi~C~~~~~C~~C~~~f~~~~ 280 (298)
...|--++.....-|+||.|...+= +..|+.||.......
T Consensus 667 ~~~Cp~CG~~T~~~~~Cp~C~~~~~--~~~C~~C~~~~~~~~ 706 (900)
T PF03833_consen 667 YNRCPECGSHTEPVYVCPDCGIEVE--EDECPKCGRETTSYS 706 (900)
T ss_dssp ------------------------------------------
T ss_pred hhcCcccCCccccceeccccccccC--ccccccccccCcccc
Confidence 3444222334445566666666443 238999988876554
No 213
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=24.99 E-value=60 Score=31.62 Aligned_cols=31 Identities=35% Similarity=0.847 Sum_probs=23.4
Q ss_pred cceeE--cCCCCeeec---CCCCCCccccccccccc
Q 022374 250 DMGYI--CSVCLSIYC---KHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 250 ~~Gyv--Cp~Clsi~C---~~~~~C~~C~~~f~~~~ 280 (298)
.+||+ |+.|+...= ..+..|+.||..++...
T Consensus 240 ~~g~~~~C~~c~~~~~~~~~~~~~C~~c~~~~~~~G 275 (382)
T PRK04338 240 NLGYVYYCPKCLYREEVEGLPPEECPVCGGKFGTAG 275 (382)
T ss_pred hceeEEECCCCCcEEEecCCCCCCCCCCCCcceecc
Confidence 46877 999998653 34678999999887554
No 214
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=24.95 E-value=41 Score=26.10 Aligned_cols=27 Identities=19% Similarity=0.457 Sum_probs=18.1
Q ss_pred EcCCCCeeecC----CCCCCccccccccccc
Q 022374 254 ICSVCLSIYCK----HLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C~----~~~~C~~C~~~f~~~~ 280 (298)
.|-.|+-.|=. .|..||.|++.-+..|
T Consensus 60 ~CkkCGfef~~~~ik~pSRCP~CKSE~Ie~p 90 (97)
T COG3357 60 RCKKCGFEFRDDKIKKPSRCPKCKSEWIEEP 90 (97)
T ss_pred hhcccCccccccccCCcccCCcchhhcccCC
Confidence 46667777765 3568888887766554
No 215
>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=24.82 E-value=42 Score=23.35 Aligned_cols=12 Identities=25% Similarity=0.872 Sum_probs=9.6
Q ss_pred cceeEcCCCCee
Q 022374 250 DMGYICSVCLSI 261 (298)
Q Consensus 250 ~~GyvCp~Clsi 261 (298)
.+-|+||.|+..
T Consensus 42 ~i~y~C~~Cg~~ 53 (54)
T PF10058_consen 42 EIQYRCPYCGAL 53 (54)
T ss_pred ceEEEcCCCCCc
Confidence 578999999763
No 216
>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=24.74 E-value=2.1e+02 Score=23.67 Aligned_cols=11 Identities=36% Similarity=0.730 Sum_probs=9.3
Q ss_pred eeEcCCCCeee
Q 022374 252 GYICSVCLSIY 262 (298)
Q Consensus 252 GyvCp~Clsi~ 262 (298)
-|.||.|+-+|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 68899998887
No 217
>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=24.68 E-value=26 Score=24.59 Aligned_cols=27 Identities=33% Similarity=0.753 Sum_probs=16.9
Q ss_pred EcCCCCeeecC-----CCCCCccccccccccc
Q 022374 254 ICSVCLSIYCK-----HLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~C~-----~~~~C~~C~~~f~~~~ 280 (298)
-||-|..+.-- ....|..||+.|..+.
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 48899876553 3479999999998765
No 218
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=24.48 E-value=4e+02 Score=27.00 Aligned_cols=46 Identities=17% Similarity=0.273 Sum_probs=33.2
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQA 193 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa 193 (298)
.++++.|.| |.+.+|. ++-+.+|.+++++|-++.+....-.++++.
T Consensus 439 ~~~vv~i~G--DG~f~m~--~~eL~Ta~~~~l~i~ivV~NN~~yg~i~~~ 484 (572)
T PRK06456 439 DKVVVDLDG--DGSFLMT--GTNLATAVDEHIPVISVIFDNRTLGLVRQV 484 (572)
T ss_pred CCeEEEEEc--cchHhcc--hHHHHHHHHhCCCeEEEEEECCchHHHHHH
Confidence 457777776 6676665 477889999999999999964433455544
No 219
>TIGR02720 pyruv_oxi_spxB pyruvate oxidase. Members of this family are examples of pyruvate oxidase (EC 1.2.3.3), an enzyme with FAD and TPP as cofactors that catalyzes the reaction pyruvate + phosphate + O2 + H2O = acetyl phosphate + CO2 + H2O2. It should not be confused with pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in E. coli PoxB, although the E. coli enzyme is closely homologous and has pyruvate oxidase as an alternate name.
Probab=24.25 E-value=4.4e+02 Score=26.85 Aligned_cols=71 Identities=14% Similarity=0.249 Sum_probs=47.0
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH---------------------HHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ---------------------ASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ---------------------a~~~T~G~Y~ 202 (298)
.++++.|.| |.+.+|. ++-+.+|.+++++|-++++....-.++++ +|+..|+.+.
T Consensus 426 ~r~Vv~i~G--DGsf~m~--~~eL~Tavr~~lpi~~VV~NN~~yg~i~~~~~~~~~~~~~~~~~~~df~~iA~a~G~~~~ 501 (575)
T TIGR02720 426 DRQVFNLAG--DGAFSMT--MQDLLTQVQYHLPVINIVFSNCTYGFIKDEQEDTNQPLIGVDFNDADFAKIAEGVGAVGF 501 (575)
T ss_pred CCcEEEEEc--ccHHHhh--HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhCCCcccccCCCCCHHHHHHHCCCEEE
Confidence 567888876 6676664 46688999999999999995444444443 3333445555
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
++.+.+.|...|-..+
T Consensus 502 ~v~~~~el~~al~~a~ 517 (575)
T TIGR02720 502 RVNKIEQLPAVFEQAK 517 (575)
T ss_pred EeCCHHHHHHHHHHHH
Confidence 6666666666665554
No 220
>cd02009 TPP_SHCHC_synthase Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting isochorismate and 2-oxoglutarate to SHCHC, pyruvate and carbon dioxide. The enzyme requires TPP and a divalent metal cation for activity.
Probab=24.22 E-value=2.5e+02 Score=23.63 Aligned_cols=36 Identities=11% Similarity=0.140 Sum_probs=27.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
.++++.|.| |.+.+|. ++.+.+|.+.+++|-++.+.
T Consensus 68 ~~~Vv~i~G--DGsf~m~--~~eL~ta~~~~l~v~ivVlN 103 (175)
T cd02009 68 DKPTVLLTG--DLSFLHD--LNGLLLGKQEPLNLTIVVIN 103 (175)
T ss_pred CCCEEEEEe--hHHHHHh--HHHHHhccccCCCeEEEEEE
Confidence 467777775 5565554 46788899999999999995
No 221
>PRK05858 hypothetical protein; Provisional
Probab=23.94 E-value=4.2e+02 Score=26.68 Aligned_cols=71 Identities=18% Similarity=0.148 Sum_probs=47.3
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH----------------------HHHhhcCCee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ----------------------QASYITGGVH 201 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq----------------------Qa~~~T~G~Y 201 (298)
.++++.|.| |.+.+|. .+-+.+|.++++++-++.+....-.+++ ++++.-|+.+
T Consensus 425 ~r~vv~i~G--DG~f~~~--~~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~ 500 (542)
T PRK05858 425 SRQVVLLQG--DGAFGFS--LMDVDTLVRHNLPVVSVIGNNGIWGLEKHPMEALYGYDVAADLRPGTRYDEVVRALGGHG 500 (542)
T ss_pred CCcEEEEEc--CchhcCc--HHHHHHHHHcCCCEEEEEEeCCchhhHHHHHHHhcCCccccccCCCCCHHHHHHHCCCeE
Confidence 567888876 5565543 2457788899999999999532222333 2555556667
Q ss_pred eeeCCcchHHHHHHHhc
Q 022374 202 HKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 202 ~~~~~~~~L~q~Ll~~~ 218 (298)
.++.+++.|.+.|-..+
T Consensus 501 ~~v~~~~eL~~al~~a~ 517 (542)
T PRK05858 501 ELVTVPAELGPALERAF 517 (542)
T ss_pred EEeCCHHHHHHHHHHHH
Confidence 77777777777776554
No 222
>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=23.91 E-value=49 Score=19.04 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=9.0
Q ss_pred ceeEcCCCCeee
Q 022374 251 MGYICSVCLSIY 262 (298)
Q Consensus 251 ~GyvCp~Clsi~ 262 (298)
.-|.|+.|...|
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 459999887665
No 223
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=23.45 E-value=45 Score=31.03 Aligned_cols=13 Identities=15% Similarity=0.631 Sum_probs=7.4
Q ss_pred ceeEcCCCCeeec
Q 022374 251 MGYICSVCLSIYC 263 (298)
Q Consensus 251 ~GyvCp~Clsi~C 263 (298)
.+++|.+|+..|.
T Consensus 186 l~c~C~iCGKaFS 198 (279)
T KOG2462|consen 186 LPCECGICGKAFS 198 (279)
T ss_pred CCccccccccccc
Confidence 4555555555555
No 224
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=23.37 E-value=4.3e+02 Score=26.81 Aligned_cols=70 Identities=13% Similarity=0.217 Sum_probs=43.7
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH-----------------------HHHhhcCCe
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ-----------------------QASYITGGV 200 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq-----------------------Qa~~~T~G~ 200 (298)
.+++++|.| |.+.+|. ++-+.+|.+.++++=++.+....-.+++ ++++.-|+.
T Consensus 432 ~~~vv~i~G--DG~f~m~--~~eL~Ta~~~~lpvi~vV~NN~~~~~i~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~ 507 (563)
T PRK08527 432 DKVVINFTG--DGSILMN--IQELMTAVEYKIPVINIILNNNFLGMVRQWQTFFYEERYSETDLSTQPDFVKLAESFGGI 507 (563)
T ss_pred CCcEEEEec--Cchhccc--HHHHHHHHHhCCCeEEEEEECCcchhHHHHHHhhcCCceeeccCCCCCCHHHHHHHCCCe
Confidence 467888876 6666653 3457888899999998888533323333 344444556
Q ss_pred eeeeCCcchHHHHHHHh
Q 022374 201 HHKPQQLDGLFQYLLTI 217 (298)
Q Consensus 201 Y~~~~~~~~L~q~Ll~~ 217 (298)
|..+.+.+.|.+.|-..
T Consensus 508 ~~~v~~~~el~~al~~a 524 (563)
T PRK08527 508 GFRVTTKEEFDKALKEA 524 (563)
T ss_pred EEEECCHHHHHHHHHHH
Confidence 66666666665555443
No 225
>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=23.22 E-value=32 Score=21.87 Aligned_cols=24 Identities=33% Similarity=0.610 Sum_probs=14.0
Q ss_pred eeE--cCCCCeeecCCC---CCCcccccc
Q 022374 252 GYI--CSVCLSIYCKHL---KKCSTCGSV 275 (298)
Q Consensus 252 Gyv--Cp~Clsi~C~~~---~~C~~C~~~ 275 (298)
|+. |++|.+.+=... -.|.-||+.
T Consensus 6 ~~~~~C~~C~~~~~~~~dG~~yC~~cG~~ 34 (36)
T PF11781_consen 6 GPNEPCPVCGSRWFYSDDGFYYCDRCGHQ 34 (36)
T ss_pred cCCCcCCCCCCeEeEccCCEEEhhhCceE
Confidence 555 888887733221 467666654
No 226
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=23.09 E-value=4.8e+02 Score=26.77 Aligned_cols=46 Identities=20% Similarity=0.352 Sum_probs=32.4
Q ss_pred CCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH
Q 022374 143 PQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ 192 (298)
Q Consensus 143 ~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ 192 (298)
..++++.|.| |.+.+|. ...+.+|.+.++++-++++....-.++++
T Consensus 447 p~r~Vv~i~G--DG~f~m~--~~EL~Ta~r~~lpvi~vV~NN~~y~~i~~ 492 (595)
T PRK09107 447 PDALVIDIAG--DASIQMC--IQEMSTAVQYNLPVKIFILNNQYMGMVRQ 492 (595)
T ss_pred CCCeEEEEEc--Cchhhcc--HHHHHHHHHhCCCeEEEEEeCCccHHHHH
Confidence 3567888876 6665554 24689999999999999996444445543
No 227
>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=23.02 E-value=53 Score=18.56 Aligned_cols=11 Identities=18% Similarity=0.736 Sum_probs=6.3
Q ss_pred eEcCCCCeeec
Q 022374 253 YICSVCLSIYC 263 (298)
Q Consensus 253 yvCp~Clsi~C 263 (298)
|.|..|...|-
T Consensus 2 ~~C~~C~~~F~ 12 (27)
T PF13912_consen 2 FECDECGKTFS 12 (27)
T ss_dssp EEETTTTEEES
T ss_pred CCCCccCCccC
Confidence 55666655554
No 228
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=22.88 E-value=4.3e+02 Score=26.51 Aligned_cols=71 Identities=14% Similarity=0.135 Sum_probs=44.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH---------------------HHHhhcCCeee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ---------------------QASYITGGVHH 202 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq---------------------Qa~~~T~G~Y~ 202 (298)
.++++.|.| |.+.+|. ++-+.+|.+.++++=++++....-.+++ ++++.-|+.+.
T Consensus 426 ~~~vv~i~G--DGsf~m~--~~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~ 501 (539)
T TIGR02418 426 NTKVVSVSG--DGGFLFS--SMELETAVRLKLNIVHIIWNDNGYNMVEFQEEMKYQRSSGVDFGPIDFVKYAESFGAKGL 501 (539)
T ss_pred CCcEEEEEc--chhhhch--HHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCcccccCCCCCHHHHHHHCCCeEE
Confidence 457787776 6676664 3568889999999999999533223333 34444445555
Q ss_pred eeCCcchHHHHHHHhc
Q 022374 203 KPQQLDGLFQYLLTIF 218 (298)
Q Consensus 203 ~~~~~~~L~q~Ll~~~ 218 (298)
.+.+.+.|.+.|-..+
T Consensus 502 ~V~~~~eL~~al~~a~ 517 (539)
T TIGR02418 502 RVESPDQLEPTLRQAM 517 (539)
T ss_pred EECCHHHHHHHHHHHH
Confidence 5555666655555443
No 229
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=22.87 E-value=63 Score=29.00 Aligned_cols=22 Identities=23% Similarity=0.617 Sum_probs=13.5
Q ss_pred eeeeccCccc------ceeEcCCCCeee
Q 022374 241 SCFCHKNTID------MGYICSVCLSIY 262 (298)
Q Consensus 241 ~C~CH~~~~~------~GyvCp~Clsi~ 262 (298)
-|+-|+.+.. +-|+||.|...-
T Consensus 197 ~C~hhngl~~~~ek~~~efiC~~Cn~~n 224 (251)
T COG5415 197 QCHHHNGLYRLAEKPIIEFICPHCNHKN 224 (251)
T ss_pred cccccccccccccccchheecccchhhc
Confidence 4676765543 258888776543
No 230
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=22.85 E-value=38 Score=28.53 Aligned_cols=27 Identities=30% Similarity=0.591 Sum_probs=20.8
Q ss_pred CceeeeeccCcccceeEcCCCCeeecCCC
Q 022374 238 FRASCFCHKNTIDMGYICSVCLSIYCKHL 266 (298)
Q Consensus 238 ~~a~C~CH~~~~~~GyvCp~Clsi~C~~~ 266 (298)
.|.+|.-.+ .+.-|.|-.|++.||..+
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 345666665 677899999999999765
No 231
>PRK11827 hypothetical protein; Provisional
Probab=22.39 E-value=58 Score=23.26 Aligned_cols=27 Identities=19% Similarity=0.252 Sum_probs=18.4
Q ss_pred eEcCCCCeeecC--CC--CCCcccccccccc
Q 022374 253 YICSVCLSIYCK--HL--KKCSTCGSVFGQA 279 (298)
Q Consensus 253 yvCp~Clsi~C~--~~--~~C~~C~~~f~~~ 279 (298)
-+||+|..-.=. -. -+|..|+..|...
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~~~~laYPI~ 39 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICKLDNLAFPLR 39 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECCccCeecccc
Confidence 479999875432 11 3799999888754
No 232
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=22.33 E-value=1.6e+02 Score=23.72 Aligned_cols=40 Identities=28% Similarity=0.368 Sum_probs=28.9
Q ss_pred EEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEe
Q 022374 16 VVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATG 63 (298)
Q Consensus 16 L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~ 63 (298)
|+|+||+|-+|-+. -|..++..+...+..+ ..++-||.+.
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 4777777777666655 4457777765
No 233
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=22.24 E-value=1.3e+02 Score=23.40 Aligned_cols=33 Identities=9% Similarity=-0.008 Sum_probs=21.9
Q ss_pred HHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHhh
Q 022374 162 AIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASYI 196 (298)
Q Consensus 162 ~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~~ 196 (298)
.+...+..|++.+++| +.+...+..-|.+.||.
T Consensus 61 e~~~~~~~a~~~g~~v--i~iT~~~~s~la~~ad~ 93 (126)
T cd05008 61 DTLAALRLAKEKGAKT--VAITNVVGSTLAREADY 93 (126)
T ss_pred HHHHHHHHHHHcCCeE--EEEECCCCChHHHhCCE
Confidence 5678899999999765 44433344456666664
No 234
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=22.22 E-value=4.3e+02 Score=26.99 Aligned_cols=44 Identities=14% Similarity=0.375 Sum_probs=31.5
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ 191 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq 191 (298)
.++++.|.| |.+.+|. .+-+.+|.+++++|=++++....-.+++
T Consensus 455 ~r~Vv~i~G--DGsf~m~--~~eL~Ta~r~~lpviivV~NN~~~~~i~ 498 (587)
T PRK06965 455 DDDVVCITG--EGSIQMC--IQELSTCLQYDTPVKIISLNNRYLGMVR 498 (587)
T ss_pred CCcEEEEEc--chhhhcC--HHHHHHHHHcCCCeEEEEEECCcchHHH
Confidence 467887876 6676655 3678899999999999999643333443
No 235
>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=22.15 E-value=51 Score=30.59 Aligned_cols=26 Identities=27% Similarity=0.507 Sum_probs=13.7
Q ss_pred eEcCCCCeeecCCCCCCccccccccc
Q 022374 253 YICSVCLSIYCKHLKKCSTCGSVFGQ 278 (298)
Q Consensus 253 yvCp~Clsi~C~~~~~C~~C~~~f~~ 278 (298)
..|+.|.+-.=.....|+.||..=..
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 56999998888788889999876443
No 236
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.13 E-value=39 Score=34.08 Aligned_cols=17 Identities=18% Similarity=0.294 Sum_probs=12.7
Q ss_pred CCCCccccccccccccC
Q 022374 266 LKKCSTCGSVFGQAQTQ 282 (298)
Q Consensus 266 ~~~C~~C~~~f~~~~~~ 282 (298)
+..||.|..++...-++
T Consensus 225 ~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 225 PCSCPICRSTITLKDLL 241 (513)
T ss_pred CccCCchhhhcccccee
Confidence 57899999988764444
No 237
>cd02005 TPP_PDC_IPDC Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of pyruvate to acetaldehyde and CO2. It is able to utilize other 2-oxo acids as substrates. In plants and various plant-associated bacteria, IPDC plays a role in the indole-3-pyruvic acid (IPA) pathway, a tryptophan-dependent biosynthetic route to indole-3-acetaldehyde (IAA). IPDC catalyzes the decarboxylation of IPA to IAA. Both PDC and IPDC depend on TPP and Mg2+ as cofactors.
Probab=21.98 E-value=3.9e+02 Score=22.70 Aligned_cols=71 Identities=15% Similarity=0.148 Sum_probs=48.0
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCCh------------------HHHHHHHhhcC----Cee
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNS------------------AFLQQASYITG----GVH 201 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~------------------~~LqQa~~~T~----G~Y 201 (298)
.++++++.| |.+.+|. ++-+.+|.+.++++-++.+....- .=+.++++..| +.|
T Consensus 68 ~~~vv~i~G--DG~f~~~--~~el~ta~~~~~p~~ivV~nN~~~~~~~~~~~~~~~~~~~~~~d~~~ia~a~G~~~~~~~ 143 (183)
T cd02005 68 DRRVILLVG--DGSFQMT--VQELSTMIRYGLNPIIFLINNDGYTIERAIHGPEASYNDIANWNYTKLPEVFGGGGGGLS 143 (183)
T ss_pred CCeEEEEEC--Cchhhcc--HHHHHHHHHhCCCCEEEEEECCCcEEEEEeccCCcCcccCCCCCHHHHHHHhCCCccccE
Confidence 357777775 5666653 466778999999998888842110 11346777777 578
Q ss_pred eeeCCcchHHHHHHHhc
Q 022374 202 HKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 202 ~~~~~~~~L~q~Ll~~~ 218 (298)
..+.+.+.|.+-|-..+
T Consensus 144 ~~v~~~~el~~al~~a~ 160 (183)
T cd02005 144 FRVKTEGELDEALKDAL 160 (183)
T ss_pred EEecCHHHHHHHHHHHH
Confidence 88888888877776655
No 238
>PF04641 Rtf2: Rtf2 RING-finger
Probab=21.90 E-value=68 Score=29.37 Aligned_cols=22 Identities=32% Similarity=0.833 Sum_probs=16.1
Q ss_pred CCeeecC-----CC--CCCcccccccccc
Q 022374 258 CLSIYCK-----HL--KKCSTCGSVFGQA 279 (298)
Q Consensus 258 Clsi~C~-----~~--~~C~~C~~~f~~~ 279 (298)
|+.+|++ +. ..|++||..|...
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 6666663 33 3799999999854
No 239
>PTZ00255 60S ribosomal protein L37a; Provisional
Probab=21.89 E-value=39 Score=26.17 Aligned_cols=32 Identities=19% Similarity=0.455 Sum_probs=21.3
Q ss_pred eeEcCCCCeeecCC----CCCCccccccccccccCC
Q 022374 252 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQS 283 (298)
Q Consensus 252 GyvCp~Clsi~C~~----~~~C~~C~~~f~~~~~~~ 283 (298)
-|.||.|...-=+. .-.|.-|+.+|.=..-.|
T Consensus 36 ~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGAy~~ 71 (90)
T PTZ00255 36 KYFCPFCGKHAVKRQAVGIWRCKGCKKTVAGGAWTL 71 (90)
T ss_pred CccCCCCCCCceeeeeeEEEEcCCCCCEEeCCcccc
Confidence 59999996432222 247999999998655444
No 240
>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=21.83 E-value=1.5e+02 Score=19.56 Aligned_cols=15 Identities=27% Similarity=0.295 Sum_probs=12.2
Q ss_pred ChHHHHHHHhhcCCe
Q 022374 186 NSAFLQQASYITGGV 200 (298)
Q Consensus 186 e~~~LqQa~~~T~G~ 200 (298)
--.|.++++++|+|.
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 241
>cd02002 TPP_BFDC Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of benzoylformate to benzaldehyde and carbon dioxide. This enzyme is dependent on TPP and a divalent metal cation as cofactors.
Probab=21.80 E-value=4.7e+02 Score=21.71 Aligned_cols=48 Identities=21% Similarity=0.400 Sum_probs=32.3
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHh
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASY 195 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~ 195 (298)
.++++++.| |.+.++. ++.+..|.+.++++=++.+....-.+.++.-+
T Consensus 67 ~~~vv~i~G--DG~f~~~--~~el~ta~~~~~p~~~iV~nN~~~~~~~~~~~ 114 (178)
T cd02002 67 DRKVVAIIG--DGSFMYT--IQALWTAARYGLPVTVVILNNRGYGALRSFLK 114 (178)
T ss_pred CCeEEEEEc--Cchhhcc--HHHHHHHHHhCCCeEEEEEcCccHHHHHHHHH
Confidence 467787776 5555554 36788888899999999995333445554443
No 242
>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=21.74 E-value=80 Score=28.13 Aligned_cols=35 Identities=23% Similarity=0.481 Sum_probs=23.7
Q ss_pred eeeeccCcccceeEcCCCCeeec---------CCCCCCcccccccc
Q 022374 241 SCFCHKNTIDMGYICSVCLSIYC---------KHLKKCSTCGSVFG 277 (298)
Q Consensus 241 ~C~CH~~~~~~GyvCp~Clsi~C---------~~~~~C~~C~~~f~ 277 (298)
..-+|+.+-. +.|+.|...|= ...|.|+.||..+.
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 5667776654 55888877652 34578999997544
No 243
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.65 E-value=1.1e+03 Score=25.94 Aligned_cols=226 Identities=11% Similarity=0.038 Sum_probs=118.8
Q ss_pred CCCeEEEEEeCCccccccCCccHHHHHHHHHHHHHHHHcCCCCCCEEEEEEecCceEEEecCCCCCC----CCCCCCC--
Q 022374 12 DVSLVVVLLDTNPFFWSSSSLSFSQFLTHVLAFLNAILTLNQLNQVVVIATGYNSCDYVYDSSSTGN----QSVGNGR-- 85 (298)
Q Consensus 12 ~~s~L~iIlD~s~~~w~~~~~~l~~~l~~l~~Fln~~l~~n~~N~l~VIa~~~~~a~~lyp~~~~~~----~~~~~~~-- 85 (298)
-+-..+..||+|-...+.+ -+..+.+.|..-+..+....+.=+||||... +..+|.-.++.-.+ ..++-.+
T Consensus 416 ~ppafvFmIDVSy~Ai~~G--~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd-~tvhFfnl~s~L~qp~mliVsdv~dvf 492 (1007)
T KOG1984|consen 416 KPPAFVFMIDVSYNAISNG--AVKAACEAIKSVLEDLPREEPNIRVGIVTFD-KTVHFFNLSSNLAQPQMLIVSDVDDVF 492 (1007)
T ss_pred CCceEEEEEEeehhhhhcc--hHHHHHHHHHHHHhhcCccCCceEEEEEEec-ceeEeeccCccccCceEEEeecccccc
Confidence 3457788899988766652 2333344444444444447888888988755 55666655553222 0000000
Q ss_pred ----chhHH--HHHHHHHHHHHhhhhccCCCCCCccccccchHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEcCCCC-C-
Q 022374 86 ----MPSLC--ATLLQNLEEFMNKDEQLGKQEPEGRIACSLLSGSLSMALCYIQRVFRSGLLHPQPRILCLQGSPDG-P- 157 (298)
Q Consensus 86 ----~~~~~--~~i~~~L~~l~~~~~~~~~~~~~~~~~~s~L~~aLs~ALc~inr~~~~~~~~~~~rILii~~S~d~-~- 157 (298)
...++ .+-.+.|+.+++.-+..-.+ ....++.+..+|..|+.-+... . -.+++|+..+.+. .
T Consensus 493 vPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~---sk~pes~~g~alqaa~lalk~~------~-gGKl~vF~s~Lpt~g~ 562 (1007)
T KOG1984|consen 493 VPFLDGLFVNPNESRKVIELLLDSIPTMFQD---SKIPESVFGSALQAAKLALKAA------D-GGKLFVFHSVLPTAGA 562 (1007)
T ss_pred cccccCeeccchHHHHHHHHHHHHhhhhhcc---CCCCchhHHHHHHHHHHHHhcc------C-CceEEEEecccccccC
Confidence 00010 11222233333332211100 0134678888888887766643 1 3456666544211 0
Q ss_pred -----------------hh------hhHHHHHHHHHHcCCeeEEEEEcCCC--ChHHHHHHHhhcCCeeeeeCC------
Q 022374 158 -----------------EQ------YVAIMNAIFSAQRSMVPIDSCYLGAQ--NSAFLQQASYITGGVHHKPQQ------ 206 (298)
Q Consensus 158 -----------------~q------yi~lmN~ifaAqk~~I~Idv~~L~~~--e~~~LqQa~~~T~G~Y~~~~~------ 206 (298)
+. -..+-.......+.+|.+|++.-..+ |+.-+-+++..|||.-++-..
T Consensus 563 g~kl~~r~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y~~F~a~~D 642 (1007)
T KOG1984|consen 563 GGKLSNRDDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKYYPFQALTD 642 (1007)
T ss_pred cccccccchhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEecchhhccc
Confidence 00 01111344556788999999988433 777889999999998776543
Q ss_pred cchHHHHHHHhcCCCccccccccCCCCCCCCCcee--eeeccCcccceeEcCCCCeeecC
Q 022374 207 LDGLFQYLLTIFGTDLHSRNFLQLPKPVGVDFRAS--CFCHKNTIDMGYICSVCLSIYCK 264 (298)
Q Consensus 207 ~~~L~q~Ll~~~~p~~~~r~~l~~P~~~~vd~~a~--C~CH~~~~~~GyvCp~Clsi~C~ 264 (298)
..-|++-|-+...... .|+++ --|-.-+...+|.|..|...-=+
T Consensus 643 ~~rl~nDL~~~vtk~~--------------gf~a~mrvRtStGirv~~f~Gnf~~~~~tD 688 (1007)
T KOG1984|consen 643 GPRLLNDLVRNVTKKQ--------------GFDAVMRVRTSTGIRVQDFYGNFLMRNPTD 688 (1007)
T ss_pred HHHHHHHHHHhcccce--------------eeeeEEEEeecCceeeeeeechhhhcCCCC
Confidence 3345555555543222 23221 23334455567888777655443
No 244
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=21.49 E-value=1.1e+02 Score=23.81 Aligned_cols=44 Identities=16% Similarity=0.239 Sum_probs=27.1
Q ss_pred EEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHHHHh
Q 022374 146 RILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQASY 195 (298)
Q Consensus 146 rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQa~~ 195 (298)
=+++++.|.... .+.+.+..|++.+++| +.|......-|.+.||
T Consensus 50 ~vi~iS~sG~t~----~~~~~~~~a~~~g~~v--i~iT~~~~s~la~~ad 93 (128)
T cd05014 50 VVIAISNSGETD----ELLNLLPHLKRRGAPI--IAITGNPNSTLAKLSD 93 (128)
T ss_pred EEEEEeCCCCCH----HHHHHHHHHHHCCCeE--EEEeCCCCCchhhhCC
Confidence 355555544333 5678999999999775 5554444455555666
No 245
>PRK12474 hypothetical protein; Provisional
Probab=21.48 E-value=5e+02 Score=25.98 Aligned_cols=46 Identities=26% Similarity=0.583 Sum_probs=33.4
Q ss_pred CCcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHHH
Q 022374 143 PQPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQQ 192 (298)
Q Consensus 143 ~~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~LqQ 192 (298)
..++++.|.| |.+.++. +.-+.+|.+++++|-++.+....-.++++
T Consensus 406 p~r~vv~i~G--DG~f~m~--~qEL~Ta~r~~lpv~iiV~NN~~y~~i~~ 451 (518)
T PRK12474 406 PDRKVVCPQG--DGGAAYT--MQALWTMARENLDVTVVIFANRSYAILNG 451 (518)
T ss_pred CCCcEEEEEc--Cchhcch--HHHHHHHHHHCCCcEEEEEcCCcchHHHH
Confidence 3568888886 6666655 46788999999999999995433445553
No 246
>PF01882 DUF58: Protein of unknown function DUF58; InterPro: IPR002881 This domain is found in a family of prokaryotic proteins that have no known function. Proteins belonging to this family include hypothetical proteins from eubacteria and archaebacteria. Some of these proteins also contain the Von Willebrand factor, type A domain (see IPR002035 from INTERPRO).
Probab=21.47 E-value=2.6e+02 Score=20.33 Aligned_cols=44 Identities=18% Similarity=0.262 Sum_probs=33.4
Q ss_pred CCCCCCeEEEEEeCCcccccc--CCccHHHHHHHHHHHHHHHHcCC
Q 022374 9 YSDDVSLVVVLLDTNPFFWSS--SSLSFSQFLTHVLAFLNAILTLN 52 (298)
Q Consensus 9 ~~~~~s~L~iIlD~s~~~w~~--~~~~l~~~l~~l~~Fln~~l~~n 52 (298)
+.+...-++|++|+++.+-.. ....+...+..+...++..+.++
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 34778889988888888777654
No 247
>PF03660 PHF5: PHF5-like protein; InterPro: IPR005345 Phf5 is a member of a novel murine multigene family that is highly conserved during evolution and belongs to the superfamily of PHD-finger proteins. At least one example, from Mus musculus (Mouse), may act as a chromatin-associated protein []. The Schizosaccharomyces pombe (Fission yeast) ini1 gene is essential, required for splicing []. It is localised in the nucleus, but not detected in the nucleolus and can be complemented by human ini1 []. The proteins of this family contain five CXXC motifs.; PDB: 2K0A_A.
Probab=21.36 E-value=34 Score=27.17 Aligned_cols=17 Identities=29% Similarity=0.870 Sum_probs=7.2
Q ss_pred eeccCc-ccceeEcCCCC
Q 022374 243 FCHKNT-IDMGYICSVCL 259 (298)
Q Consensus 243 ~CH~~~-~~~GyvCp~Cl 259 (298)
.|.+.. +.+|++|..|-
T Consensus 10 mC~KqpG~~iG~lC~kCd 27 (106)
T PF03660_consen 10 MCRKQPGTAIGRLCEKCD 27 (106)
T ss_dssp B----EEEEE-EE-GGGT
T ss_pred hhccCCcchhhhhhhhcC
Confidence 455555 67888876654
No 248
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=21.32 E-value=44 Score=19.27 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=10.0
Q ss_pred CCCcccccccccc
Q 022374 267 KKCSTCGSVFGQA 279 (298)
Q Consensus 267 ~~C~~C~~~f~~~ 279 (298)
..|++||-.|...
T Consensus 3 ~~C~~CgR~F~~~ 15 (25)
T PF13913_consen 3 VPCPICGRKFNPD 15 (25)
T ss_pred CcCCCCCCEECHH
Confidence 3699999999643
No 249
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=21.10 E-value=1.9e+02 Score=24.71 Aligned_cols=38 Identities=18% Similarity=0.224 Sum_probs=26.4
Q ss_pred EEEEEEcCCCCChhhh-HHHH-HHHHHHcCC-eeEEEEEcC
Q 022374 146 RILCLQGSPDGPEQYV-AIMN-AIFSAQRSM-VPIDSCYLG 183 (298)
Q Consensus 146 rILii~~S~d~~~qyi-~lmN-~ifaAqk~~-I~Idv~~L~ 183 (298)
+||||.+|++....+. .+-+ .+..+++.+ ..|.++-|.
T Consensus 2 kiLvI~asp~~~~S~s~~l~~~~~~~~~~~~~~~v~~~dL~ 42 (199)
T PF02525_consen 2 KILVINASPRPEGSFSRALADAFLEGLQEAGPHEVEIRDLY 42 (199)
T ss_dssp EEEEEE--SSTTTSHHHHHHHHHHHHHHHHTTSEEEEEETT
T ss_pred EEEEEEcCCCCccCHHHHHHHHHHHHHHHcCCCEEEEEECc
Confidence 7999999987633332 2333 577888888 999999995
No 250
>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=21.09 E-value=35 Score=20.75 Aligned_cols=20 Identities=25% Similarity=0.748 Sum_probs=6.7
Q ss_pred cCCCCeeecCC----CCCCccccc
Q 022374 255 CSVCLSIYCKH----LKKCSTCGS 274 (298)
Q Consensus 255 Cp~Clsi~C~~----~~~C~~C~~ 274 (298)
|++|++..=.. -..|+.||.
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 55555444322 235555554
No 251
>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=21.02 E-value=40 Score=23.75 Aligned_cols=28 Identities=18% Similarity=0.494 Sum_probs=18.4
Q ss_pred eEcCCCCeeecCC-CCCCccccccccccc
Q 022374 253 YICSVCLSIYCKH-LKKCSTCGSVFGQAQ 280 (298)
Q Consensus 253 yvCp~Clsi~C~~-~~~C~~C~~~f~~~~ 280 (298)
|.|-.|..-.=.. ..+||.||=.|+..|
T Consensus 27 fECTFC~~C~e~~l~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 27 FECTFCADCAETMLNGVCPNCGGELVRRP 55 (57)
T ss_pred EeCcccHHHHHHHhcCcCcCCCCccccCC
Confidence 4454444333233 789999999998766
No 252
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=20.99 E-value=39 Score=26.98 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=13.7
Q ss_pred ceeEcCCCCeeecC--CCCCCccccccc
Q 022374 251 MGYICSVCLSIYCK--HLKKCSTCGSVF 276 (298)
Q Consensus 251 ~GyvCp~Clsi~C~--~~~~C~~C~~~f 276 (298)
.-+.|..|+..|-- ..-.||.||..-
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEFDFSCPRCGSPD 96 (113)
T ss_dssp -EEEETTTS-EEECHHCCHH-SSSSSS-
T ss_pred CcEECCCCCCEEecCCCCCCCcCCcCCC
Confidence 34667777777763 224577777764
No 253
>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=20.97 E-value=37 Score=21.48 Aligned_cols=21 Identities=29% Similarity=0.556 Sum_probs=11.6
Q ss_pred eeecCCCCCCccccccccccc
Q 022374 260 SIYCKHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 260 si~C~~~~~C~~C~~~f~~~~ 280 (298)
-.|.+-|..|.+|+..|..-.
T Consensus 9 dtysdcpgfcktckaefgkyi 29 (41)
T PF11405_consen 9 DTYSDCPGFCKTCKAEFGKYI 29 (41)
T ss_dssp ---SS--TT-SSEEEETTEEE
T ss_pred cccccCchHHHHHHHHhcceE
Confidence 345567889999999887543
No 254
>PRK11269 glyoxylate carboligase; Provisional
Probab=20.97 E-value=4.3e+02 Score=26.96 Aligned_cols=71 Identities=10% Similarity=0.102 Sum_probs=47.6
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcCCCChHHHH--------------------------------
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLGAQNSAFLQ-------------------------------- 191 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~~~e~~~Lq-------------------------------- 191 (298)
.++++.|.| |.+.+|. .+.+.+|.+.++++-++.+....-.+++
T Consensus 437 ~r~Vv~i~G--DG~f~m~--~~eL~Ta~~~~lpv~~vV~NN~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~df~ 512 (591)
T PRK11269 437 DRNVVALSG--DYDFQFL--IEELAVGAQFNLPYIHVLVNNAYLGLIRQAQRAFDMDYCVQLAFENINSPELNGYGVDHV 512 (591)
T ss_pred CCcEEEEEc--cchhhcC--HHHHHHHHHhCCCeEEEEEeCCchhHHHHHHHHhccCccceeeccccccccccCCCCCHH
Confidence 567888886 6676665 3678899999999999999533223333
Q ss_pred HHHhhcCCeeeeeCCcchHHHHHHHhc
Q 022374 192 QASYITGGVHHKPQQLDGLFQYLLTIF 218 (298)
Q Consensus 192 Qa~~~T~G~Y~~~~~~~~L~q~Ll~~~ 218 (298)
++|+.-|+.+.++.+.+.|.+-|-..+
T Consensus 513 ~lA~a~G~~~~~v~~~~eL~~al~~a~ 539 (591)
T PRK11269 513 KVAEGLGCKAIRVFKPEDIAPALEQAK 539 (591)
T ss_pred HHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 344445566666677777766665544
No 255
>PF02775 TPP_enzyme_C: Thiamine pyrophosphate enzyme, C-terminal TPP binding domain; InterPro: IPR011766 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This represents the C-terminal TPP binding domain of TPP enzymes.; GO: 0003824 catalytic activity, 0030976 thiamine pyrophosphate binding; PDB: 2WVA_V 1ZPD_F 2WVG_B 2WVH_B 3OE1_D 2NXW_A 2Q5L_B 2Q5Q_B 2Q5J_A 2Q5O_A ....
Probab=20.88 E-value=2e+02 Score=23.44 Aligned_cols=36 Identities=19% Similarity=0.332 Sum_probs=28.8
Q ss_pred CcEEEEEEcCCCCChhhhHHHHHHHHHHcCCeeEEEEEcC
Q 022374 144 QPRILCLQGSPDGPEQYVAIMNAIFSAQRSMVPIDSCYLG 183 (298)
Q Consensus 144 ~~rILii~~S~d~~~qyi~lmN~ifaAqk~~I~Idv~~L~ 183 (298)
.+++++|.| |.+..+. ++.+.+|.+.+++|-++.+.
T Consensus 46 ~~~vv~i~G--DG~f~~~--~~el~ta~~~~~~v~~vv~n 81 (153)
T PF02775_consen 46 DRPVVAITG--DGSFLMS--LQELATAVRYGLPVVIVVLN 81 (153)
T ss_dssp TSEEEEEEE--HHHHHHH--GGGHHHHHHTTSSEEEEEEE
T ss_pred cceeEEecC--Ccceeec--cchhHHHhhccceEEEEEEe
Confidence 578888886 4454444 67899999999999999995
No 256
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=20.83 E-value=75 Score=25.44 Aligned_cols=25 Identities=20% Similarity=0.565 Sum_probs=13.5
Q ss_pred eeEcCCCCeeecCC--CCCCccccccc
Q 022374 252 GYICSVCLSIYCKH--LKKCSTCGSVF 276 (298)
Q Consensus 252 GyvCp~Clsi~C~~--~~~C~~C~~~f 276 (298)
-..|+.|...|-.. .-.||.||..-
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 70 ECECEDCSEEVSPEIDLYRCPKCHGIM 96 (115)
T ss_pred EEEcccCCCEEecCCcCccCcCCcCCC
Confidence 35566666555432 23477777543
No 257
>PRK03976 rpl37ae 50S ribosomal protein L37Ae; Reviewed
Probab=20.83 E-value=40 Score=26.08 Aligned_cols=35 Identities=26% Similarity=0.629 Sum_probs=22.6
Q ss_pred eeEcCCCCeeecCC----CCCCccccccccccccCCCCC
Q 022374 252 GYICSVCLSIYCKH----LKKCSTCGSVFGQAQTQSDEP 286 (298)
Q Consensus 252 GyvCp~Clsi~C~~----~~~C~~C~~~f~~~~~~~~~~ 286 (298)
-|.||.|...-=.. .-.|.-|+.+|.=..-.|.-|
T Consensus 36 ~y~CpfCgk~~vkR~a~GIW~C~~C~~~~AGGAy~~~T~ 74 (90)
T PRK03976 36 KHVCPVCGRPKVKRVGTGIWECRKCGAKFAGGAYTPETP 74 (90)
T ss_pred CccCCCCCCCceEEEEEEEEEcCCCCCEEeCCccccccc
Confidence 59999994332222 247999999998655444333
No 258
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=20.58 E-value=65 Score=17.80 Aligned_cols=11 Identities=27% Similarity=0.908 Sum_probs=6.1
Q ss_pred Ccccccccccc
Q 022374 269 CSTCGSVFGQA 279 (298)
Q Consensus 269 C~~C~~~f~~~ 279 (298)
|.+|+..|.+.
T Consensus 3 C~~C~~~f~s~ 13 (25)
T PF12874_consen 3 CDICNKSFSSE 13 (25)
T ss_dssp ETTTTEEESSH
T ss_pred CCCCCCCcCCH
Confidence 55566555543
No 259
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=20.32 E-value=64 Score=20.25 Aligned_cols=11 Identities=27% Similarity=0.612 Sum_probs=8.9
Q ss_pred eeEcCCCCeee
Q 022374 252 GYICSVCLSIY 262 (298)
Q Consensus 252 GyvCp~Clsi~ 262 (298)
-+|||.|..|.
T Consensus 22 R~vC~~Cg~Ih 32 (34)
T PF14803_consen 22 RLVCPACGFIH 32 (34)
T ss_dssp EEEETTTTEEE
T ss_pred ceECCCCCCEE
Confidence 48999998874
No 260
>COG3677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=20.15 E-value=61 Score=26.61 Aligned_cols=27 Identities=33% Similarity=0.640 Sum_probs=16.7
Q ss_pred EcCCCCeee--------c-CCCCCCccccccccccc
Q 022374 254 ICSVCLSIY--------C-KHLKKCSTCGSVFGQAQ 280 (298)
Q Consensus 254 vCp~Clsi~--------C-~~~~~C~~C~~~f~~~~ 280 (298)
.||.|.+-+ . .-...|+.|+..|..-.
T Consensus 32 ~cP~C~s~~~~k~g~~~~~~qRyrC~~C~~tf~~~~ 67 (129)
T COG3677 32 NCPRCKSSNVVKIGGIRRGHQRYKCKSCGSTFTVET 67 (129)
T ss_pred cCCCCCccceeeECCccccccccccCCcCcceeeec
Confidence 466666555 1 23467888888887554
No 261
>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=20.12 E-value=39 Score=23.06 Aligned_cols=10 Identities=30% Similarity=0.866 Sum_probs=3.6
Q ss_pred CCcccccccc
Q 022374 268 KCSTCGSVFG 277 (298)
Q Consensus 268 ~C~~C~~~f~ 277 (298)
.||+|+..|.
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 4666666655
No 262
>TIGR02827 RNR_anaer_Bdell anaerobic ribonucleoside-triphosphate reductase. Members of this family belong to the class III anaerobic ribonucleoside-triphosphate reductases (RNR). These glycine-radical-containing enzymes are oxygen-sensitive and operate under anaerobic conditions. The genes for this family are pair with genes for an acitivating protein that creates a glycine radical. Members of this family, though related, fall outside the scope of TIGR02487, a functionally equivalent protein set; no genome has members in both familes. Identification as RNR is supported by gene pairing with the activating protein, lack of other anaerobic RNR, and presence of an upstream regulatory element strongly conserved upstream of most RNR operons.
Probab=20.10 E-value=59 Score=33.61 Aligned_cols=20 Identities=25% Similarity=0.266 Sum_probs=9.3
Q ss_pred eeeeccCc-ccceeEcCCCCe
Q 022374 241 SCFCHKNT-IDMGYICSVCLS 260 (298)
Q Consensus 241 ~C~CH~~~-~~~GyvCp~Cls 260 (298)
.|.=|+.+ ...++.||+|++
T Consensus 534 iC~~CGy~~g~~~~~CP~CGs 554 (586)
T TIGR02827 534 ICNDCHHIDKRTLHRCPVCGS 554 (586)
T ss_pred ecCCCCCcCCCcCCcCcCCCC
Confidence 45434442 123456666654
Done!