Query 015282
Match_columns 410
No_of_seqs 193 out of 529
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:49:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015282.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015282hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2807 RNA polymerase II tran 100.0 8E-125 2E-129 911.6 26.8 361 24-400 7-377 (378)
2 COG5151 SSL1 RNA polymerase II 100.0 3E-108 7E-113 791.1 21.3 367 24-400 34-420 (421)
3 PF04056 Ssl1: Ssl1-like; Int 100.0 9E-61 2E-65 445.1 21.3 184 84-267 8-193 (193)
4 TIGR00622 ssl1 transcription f 100.0 3.8E-49 8.2E-54 335.5 7.8 105 289-398 1-111 (112)
5 TIGR00627 tfb4 transcription f 100.0 6.5E-40 1.4E-44 320.7 20.9 215 91-313 25-279 (279)
6 cd01453 vWA_transcription_fact 100.0 1.8E-33 4E-38 259.8 21.2 168 84-251 16-183 (183)
7 PF03850 Tfb4: Transcription f 100.0 6.5E-33 1.4E-37 271.7 19.2 211 92-310 22-276 (276)
8 cd01452 VWA_26S_proteasome_sub 100.0 6.5E-31 1.4E-35 244.4 19.3 144 84-228 16-163 (187)
9 KOG2487 RNA polymerase II tran 100.0 1.6E-30 3.5E-35 248.7 13.4 214 93-314 48-298 (314)
10 COG5242 TFB4 RNA polymerase II 99.9 7.4E-25 1.6E-29 205.4 16.9 211 95-313 44-284 (296)
11 PF07975 C1_4: TFIIH C1-like d 99.8 4.2E-22 9E-27 147.8 1.3 49 350-398 1-51 (51)
12 KOG2884 26S proteasome regulat 99.8 6.2E-19 1.4E-23 165.0 16.2 145 84-229 16-164 (259)
13 PRK13685 hypothetical protein; 99.7 9.7E-17 2.1E-21 160.7 19.6 159 84-247 101-287 (326)
14 COG5148 RPN10 26S proteasome r 99.7 6.3E-16 1.4E-20 142.3 15.2 144 84-228 16-162 (243)
15 PF13519 VWA_2: von Willebrand 99.6 4E-14 8.6E-19 124.7 16.8 154 84-246 12-172 (172)
16 cd01455 vWA_F11C1-5a_type Von 99.6 4E-14 8.6E-19 132.2 17.0 149 91-248 24-187 (191)
17 cd01467 vWA_BatA_type VWA BatA 99.6 1E-13 2.2E-18 125.4 17.2 148 84-238 15-179 (180)
18 TIGR03436 acidobact_VWFA VWFA- 99.5 1.6E-12 3.4E-17 127.8 16.7 153 92-248 68-252 (296)
19 cd01451 vWA_Magnesium_chelatas 99.4 9.1E-12 2E-16 113.8 17.1 144 92-238 17-169 (178)
20 cd01465 vWA_subgroup VWA subgr 99.4 3.7E-11 8.1E-16 107.1 17.5 146 93-243 17-170 (170)
21 cd01466 vWA_C3HC4_type VWA C3H 99.4 1.7E-11 3.8E-16 109.7 14.5 133 92-233 16-154 (155)
22 cd01456 vWA_ywmD_type VWA ywmD 99.3 2.7E-11 5.9E-16 113.0 15.8 140 90-236 40-203 (206)
23 smart00327 VWA von Willebrand 99.3 1.1E-10 2.5E-15 103.1 18.1 148 91-241 16-171 (177)
24 cd01480 vWA_collagen_alpha_1-V 99.3 5.1E-11 1.1E-15 109.8 16.2 154 91-249 17-182 (186)
25 TIGR00868 hCaCC calcium-activa 99.3 7.6E-11 1.7E-15 130.8 19.1 149 84-242 317-469 (863)
26 cd01461 vWA_interalpha_trypsin 99.3 1.1E-10 2.3E-15 104.1 16.7 146 91-243 17-169 (171)
27 cd01472 vWA_collagen von Wille 99.3 1.5E-10 3.2E-15 103.8 17.3 142 90-234 14-161 (164)
28 cd01450 vWFA_subfamily_ECM Von 99.3 1.6E-10 3.5E-15 101.0 16.0 138 92-230 16-159 (161)
29 cd01470 vWA_complement_factors 99.3 1.9E-10 4.2E-15 106.5 17.2 154 89-243 13-197 (198)
30 cd01469 vWA_integrins_alpha_su 99.3 3.4E-10 7.3E-15 103.6 17.0 152 89-241 13-176 (177)
31 cd01474 vWA_ATR ATR (Anthrax T 99.2 7.7E-10 1.7E-14 101.6 17.7 146 99-247 26-178 (185)
32 cd01463 vWA_VGCC_like VWA Volt 99.2 4E-10 8.6E-15 103.9 15.3 138 91-236 28-189 (190)
33 cd01475 vWA_Matrilin VWA_Matri 99.2 2.3E-09 5E-14 101.6 18.4 157 89-248 15-181 (224)
34 cd01477 vWA_F09G8-8_type VWA F 99.1 3.1E-09 6.7E-14 99.5 17.0 142 89-231 32-190 (193)
35 cd00198 vWFA Von Willebrand fa 99.1 3.5E-09 7.6E-14 90.6 15.9 140 90-230 14-160 (161)
36 PRK13406 bchD magnesium chelat 99.1 2.5E-09 5.5E-14 115.2 17.5 150 91-243 416-579 (584)
37 cd01482 vWA_collagen_alphaI-XI 99.0 1E-08 2.2E-13 92.3 16.5 137 90-229 14-156 (164)
38 cd01471 vWA_micronemal_protein 99.0 2.5E-08 5.5E-13 91.1 17.6 153 92-245 17-184 (186)
39 PF00092 VWA: von Willebrand f 99.0 1.8E-08 3.9E-13 89.6 15.8 156 89-245 12-177 (178)
40 PTZ00441 sporozoite surface pr 98.9 3.5E-08 7.6E-13 105.3 17.8 156 90-246 57-226 (576)
41 cd01460 vWA_midasin VWA_Midasi 98.9 1.5E-08 3.3E-13 99.5 13.4 125 84-215 73-205 (266)
42 TIGR02031 BchD-ChlD magnesium 98.9 5.1E-08 1.1E-12 105.5 17.1 144 90-236 421-583 (589)
43 TIGR02442 Cob-chelat-sub cobal 98.9 6.3E-08 1.4E-12 105.5 17.2 140 91-233 481-632 (633)
44 cd01473 vWA_CTRP CTRP for CS 98.8 8.7E-08 1.9E-12 89.4 15.0 126 98-224 23-160 (192)
45 cd01476 VWA_integrin_invertebr 98.8 2.2E-07 4.7E-12 82.8 16.3 133 93-227 16-155 (163)
46 cd01458 vWA_ku Ku70/Ku80 N-ter 98.8 1.1E-07 2.4E-12 89.9 14.4 133 84-216 14-174 (218)
47 PF13768 VWA_3: von Willebrand 98.8 2.8E-07 6.2E-12 81.7 14.8 128 95-231 18-154 (155)
48 TIGR03788 marine_srt_targ mari 98.7 2.9E-07 6.3E-12 99.6 17.3 146 91-243 286-438 (596)
49 COG1240 ChlD Mg-chelatase subu 98.6 8.2E-07 1.8E-11 86.4 14.7 145 91-238 94-249 (261)
50 cd01481 vWA_collagen_alpha3-VI 98.6 4.1E-06 8.8E-11 76.3 16.9 135 89-226 13-156 (165)
51 cd01454 vWA_norD_type norD typ 98.5 4E-06 8.6E-11 76.0 16.2 120 92-216 17-154 (174)
52 cd01464 vWA_subfamily VWA subf 98.5 1.4E-06 3.1E-11 79.2 11.1 130 90-224 17-159 (176)
53 cd01462 VWA_YIEM_type VWA YIEM 98.4 1.3E-05 2.8E-10 70.7 14.8 119 92-215 16-135 (152)
54 cd01457 vWA_ORF176_type VWA OR 98.1 6.2E-05 1.3E-09 70.1 14.1 137 84-225 15-165 (199)
55 PF04811 Sec23_trunk: Sec23/Se 97.8 0.00055 1.2E-08 65.8 14.7 141 92-237 20-227 (243)
56 cd01479 Sec24-like Sec24-like: 97.8 0.00091 2E-08 64.9 15.9 80 151-234 112-219 (244)
57 cd01468 trunk_domain trunk dom 97.7 0.0019 4.1E-08 62.2 16.4 140 91-235 19-223 (239)
58 cd01478 Sec23-like Sec23-like: 97.3 0.0089 1.9E-07 59.0 16.1 92 152-243 139-265 (267)
59 PLN00162 transport protein sec 97.2 0.013 2.7E-07 65.9 17.6 97 153-249 261-392 (761)
60 PF03731 Ku_N: Ku70/Ku80 N-ter 97.0 0.011 2.5E-07 55.6 12.9 120 93-212 22-172 (224)
61 COG4245 TerY Uncharacterized p 96.0 0.11 2.3E-06 49.2 11.6 141 89-244 16-178 (207)
62 TIGR00578 ku70 ATP-dependent D 95.8 0.16 3.5E-06 55.5 14.0 124 91-214 33-183 (584)
63 KOG1984 Vesicle coat complex C 95.6 0.16 3.5E-06 57.0 12.8 135 92-231 433-632 (1007)
64 PTZ00395 Sec24-related protein 95.5 0.15 3.2E-06 59.8 12.4 77 151-229 1073-1174(1560)
65 PF11265 Med25_VWA: Mediator c 95.4 0.59 1.3E-05 45.3 14.7 120 110-230 57-202 (226)
66 PRK10997 yieM hypothetical pro 94.5 0.59 1.3E-05 50.1 13.2 100 111-214 356-457 (487)
67 PF10138 vWA-TerF-like: vWA fo 94.5 1.3 2.8E-05 42.3 14.0 115 112-227 38-157 (200)
68 KOG2462 C2H2-type Zn-finger pr 93.9 0.068 1.5E-06 52.9 4.3 40 289-328 130-187 (279)
69 KOG1986 Vesicle coat complex C 93.8 2.5 5.4E-05 46.9 16.2 96 154-249 249-379 (745)
70 PF05762 VWA_CoxE: VWA domain 93.6 1.1 2.4E-05 42.8 11.9 107 100-211 76-186 (222)
71 smart00187 INB Integrin beta s 91.7 6.5 0.00014 41.5 15.4 151 92-246 114-334 (423)
72 COG5028 Vesicle coat complex C 91.6 2.2 4.8E-05 47.8 12.2 74 152-229 386-480 (861)
73 COG2304 Uncharacterized protei 91.6 2.3 5E-05 42.9 11.9 139 94-236 55-201 (399)
74 COG4867 Uncharacterized protei 91.2 4.9 0.00011 42.5 13.6 123 101-239 492-638 (652)
75 KOG1985 Vesicle coat complex C 91.1 2.5 5.5E-05 47.6 12.1 76 153-232 404-508 (887)
76 PF01363 FYVE: FYVE zinc finge 91.0 0.13 2.7E-06 40.0 1.6 38 344-385 5-42 (69)
77 smart00064 FYVE Protein presen 90.5 0.18 3.9E-06 39.0 2.1 40 342-385 4-43 (68)
78 KOG2462 C2H2-type Zn-finger pr 90.1 0.24 5.1E-06 49.1 2.9 77 288-381 160-256 (279)
79 TIGR00373 conserved hypothetic 89.5 0.23 5E-06 45.4 2.2 26 289-314 109-139 (158)
80 PRK04023 DNA polymerase II lar 88.6 0.27 5.9E-06 56.2 2.4 69 324-402 595-675 (1121)
81 PRK06266 transcription initiat 88.2 0.3 6.5E-06 45.6 2.1 27 289-315 117-148 (178)
82 PF06707 DUF1194: Protein of u 87.6 3.6 7.8E-05 39.4 8.9 105 111-215 43-157 (205)
83 cd00729 rubredoxin_SM Rubredox 87.0 0.48 1.1E-05 32.4 2.0 24 289-312 2-27 (34)
84 cd00065 FYVE FYVE domain; Zinc 86.4 0.4 8.7E-06 35.6 1.5 34 349-386 3-36 (57)
85 PF09538 FYDLN_acid: Protein o 84.8 0.44 9.6E-06 41.1 1.2 28 289-316 9-39 (108)
86 TIGR00288 conserved hypothetic 84.5 9.4 0.0002 35.2 9.7 43 177-224 107-150 (160)
87 smart00531 TFIIE Transcription 84.2 0.56 1.2E-05 42.2 1.6 27 289-315 99-135 (147)
88 COG2425 Uncharacterized protei 83.8 14 0.0003 39.4 11.8 136 89-232 285-423 (437)
89 PF07002 Copine: Copine; Inte 82.9 25 0.00054 31.7 11.7 118 90-213 9-144 (146)
90 cd00350 rubredoxin_like Rubred 82.8 1 2.2E-05 30.5 2.1 22 290-311 2-25 (33)
91 TIGR02300 FYDLN_acid conserved 82.1 0.76 1.7E-05 40.7 1.6 32 289-320 9-43 (129)
92 PRK00398 rpoP DNA-directed RNA 81.8 1 2.2E-05 32.5 1.9 26 289-314 3-32 (46)
93 PF01485 IBR: IBR domain; Int 81.2 1 2.2E-05 33.7 1.8 42 349-390 19-62 (64)
94 TIGR02605 CxxC_CxxC_SSSS putat 80.2 1 2.2E-05 33.1 1.4 30 289-318 5-45 (52)
95 TIGR01206 lysW lysine biosynth 80.2 0.92 2E-05 34.4 1.3 25 289-314 2-33 (54)
96 PF10571 UPF0547: Uncharacteri 80.2 1 2.2E-05 29.1 1.3 23 291-313 2-24 (26)
97 PF04438 zf-HIT: HIT zinc fing 80.1 0.7 1.5E-05 30.9 0.5 14 289-302 13-26 (30)
98 PF09723 Zn-ribbon_8: Zinc rib 78.9 1.3 2.9E-05 31.5 1.7 30 368-398 5-34 (42)
99 COG1592 Rubrerythrin [Energy p 78.7 1.4 3E-05 40.9 2.1 24 289-312 134-158 (166)
100 PF07754 DUF1610: Domain of un 78.2 1.8 3.8E-05 27.7 1.9 24 351-376 1-24 (24)
101 PF03833 PolC_DP2: DNA polymer 77.6 0.72 1.6E-05 52.0 0.0 67 323-399 622-701 (900)
102 PF13639 zf-RING_2: Ring finge 77.5 1.1 2.5E-05 31.6 1.0 42 350-396 2-43 (44)
103 PF13240 zinc_ribbon_2: zinc-r 77.2 1.3 2.7E-05 27.9 1.0 23 291-313 1-23 (23)
104 PRK14890 putative Zn-ribbon RN 75.9 3.1 6.7E-05 32.2 3.0 47 348-398 7-56 (59)
105 TIGR01384 TFS_arch transcripti 75.5 2.9 6.3E-05 35.1 3.1 31 348-378 62-100 (104)
106 PRK14714 DNA polymerase II lar 75.5 2.6 5.7E-05 49.6 3.7 52 289-377 667-718 (1337)
107 PF08271 TF_Zn_Ribbon: TFIIB z 74.9 1.1 2.4E-05 31.9 0.3 24 290-313 1-29 (43)
108 PF12760 Zn_Tnp_IS1595: Transp 74.8 1.5 3.3E-05 31.7 1.1 24 288-311 17-45 (46)
109 PF13248 zf-ribbon_3: zinc-rib 73.6 1.6 3.5E-05 27.9 0.8 24 290-313 3-26 (26)
110 cd06167 LabA_like LabA_like pr 73.6 9.4 0.0002 33.3 6.0 43 177-224 101-144 (149)
111 PF13719 zinc_ribbon_5: zinc-r 73.4 1.9 4.2E-05 29.9 1.2 29 350-378 4-35 (37)
112 KOG4317 Predicted Zn-finger pr 72.8 1.6 3.5E-05 44.2 1.0 28 276-303 6-33 (383)
113 smart00647 IBR In Between Ring 72.6 3.6 7.9E-05 30.7 2.7 43 348-390 18-62 (64)
114 PRK14559 putative protein seri 72.5 3.1 6.6E-05 46.3 3.2 6 292-297 4-9 (645)
115 TIGR00599 rad18 DNA repair pro 72.3 3.4 7.4E-05 43.3 3.3 46 348-401 26-71 (397)
116 KOG3768 DEAD box RNA helicase 72.1 42 0.00092 37.2 11.3 68 92-168 23-101 (888)
117 PF05191 ADK_lid: Adenylate ki 71.9 3.6 7.7E-05 28.6 2.3 26 290-315 2-33 (36)
118 PF01936 NYN: NYN domain; Int 71.6 6.2 0.00013 33.9 4.4 43 177-224 97-140 (146)
119 PF01927 Mut7-C: Mut7-C RNAse 70.8 4 8.7E-05 36.6 3.0 11 368-378 124-134 (147)
120 PF13923 zf-C3HC4_2: Zinc fing 70.7 1.9 4.2E-05 29.7 0.8 29 368-396 11-39 (39)
121 cd02340 ZZ_NBR1_like Zinc fing 70.4 3 6.4E-05 30.0 1.7 28 350-383 2-30 (43)
122 smart00834 CxxC_CXXC_SSSS Puta 70.3 3.2 7E-05 28.6 1.8 31 367-398 4-34 (41)
123 PRK12496 hypothetical protein; 69.7 3.4 7.3E-05 38.0 2.3 30 289-318 127-158 (164)
124 cd01459 vWA_copine_like VWA Co 69.1 72 0.0016 31.5 11.6 132 90-224 60-206 (254)
125 PLN03086 PRLI-interacting fact 68.8 6.6 0.00014 43.0 4.6 10 304-313 454-463 (567)
126 TIGR02098 MJ0042_CXXC MJ0042 f 68.5 2.7 5.8E-05 28.9 1.1 25 290-314 3-36 (38)
127 PF03853 YjeF_N: YjeF-related 67.9 16 0.00035 33.3 6.5 79 159-239 9-93 (169)
128 PRK14714 DNA polymerase II lar 67.3 3.4 7.3E-05 48.8 2.2 45 349-401 668-720 (1337)
129 COG1675 TFA1 Transcription ini 66.3 3.1 6.6E-05 39.0 1.3 27 289-315 113-144 (176)
130 PF11775 CobT_C: Cobalamin bio 65.4 38 0.00083 32.8 8.6 58 157-216 119-189 (219)
131 PF09538 FYDLN_acid: Protein o 64.8 5.6 0.00012 34.3 2.6 34 345-381 6-39 (108)
132 PRK04023 DNA polymerase II lar 63.3 5.4 0.00012 46.2 2.8 23 288-312 625-647 (1121)
133 cd00730 rubredoxin Rubredoxin; 63.2 4.8 0.0001 30.1 1.6 22 290-311 2-42 (50)
134 PRK00415 rps27e 30S ribosomal 63.1 3.5 7.5E-05 32.0 0.9 27 291-317 13-44 (59)
135 KOG2660 Locus-specific chromos 63.0 2 4.2E-05 43.7 -0.6 56 304-397 16-73 (331)
136 PF13717 zinc_ribbon_4: zinc-r 63.0 5.4 0.00012 27.6 1.8 29 350-378 4-35 (36)
137 PHA02929 N1R/p28-like protein; 62.0 7.8 0.00017 37.9 3.3 51 348-398 174-224 (238)
138 PRK14892 putative transcriptio 61.9 4.2 9.1E-05 34.6 1.3 25 289-313 21-52 (99)
139 PF14369 zf-RING_3: zinc-finge 61.7 5.9 0.00013 27.3 1.8 29 349-378 3-31 (35)
140 COG2888 Predicted Zn-ribbon RN 61.4 7.6 0.00016 30.2 2.4 47 348-398 9-58 (61)
141 KOG0320 Predicted E3 ubiquitin 60.5 6.2 0.00013 37.1 2.2 28 371-398 148-175 (187)
142 KOG1819 FYVE finger-containing 60.4 2.7 5.9E-05 45.0 -0.1 35 345-383 898-932 (990)
143 PRK14559 putative protein seri 60.2 7.4 0.00016 43.3 3.1 21 379-399 30-50 (645)
144 PF02318 FYVE_2: FYVE-type zin 58.1 2.6 5.7E-05 36.5 -0.6 47 347-396 53-100 (118)
145 TIGR00627 tfb4 transcription f 57.5 8.1 0.00018 38.7 2.6 35 349-398 243-277 (279)
146 cd00162 RING RING-finger (Real 57.5 8 0.00017 25.9 1.9 41 351-398 2-43 (45)
147 cd02335 ZZ_ADA2 Zinc finger, Z 57.5 7 0.00015 28.7 1.6 30 350-384 2-32 (49)
148 KOG2932 E3 ubiquitin ligase in 57.5 5.6 0.00012 40.4 1.5 40 349-398 91-131 (389)
149 PRK12726 flagellar biosynthesi 57.1 1.6E+02 0.0035 31.2 12.1 96 151-246 175-280 (407)
150 smart00661 RPOL9 RNA polymeras 56.9 10 0.00023 27.4 2.5 29 350-378 2-30 (52)
151 cd05017 SIS_PGI_PMI_1 The memb 56.8 17 0.00038 30.8 4.3 56 177-238 45-101 (119)
152 PRK07418 acetolactate synthase 56.5 1.2E+02 0.0027 33.2 11.8 91 152-248 432-547 (616)
153 smart00154 ZnF_AN1 AN1-like Zi 56.4 7.5 0.00016 27.4 1.6 25 368-395 12-36 (39)
154 KOG2593 Transcription initiati 55.3 3.6 7.8E-05 43.3 -0.3 26 289-314 128-164 (436)
155 cd02010 TPP_ALS Thiamine pyrop 54.9 1.3E+02 0.0028 27.4 10.0 91 150-248 44-158 (177)
156 TIGR01651 CobT cobaltochelatas 54.8 69 0.0015 35.5 9.2 80 157-245 499-591 (600)
157 PRK13130 H/ACA RNA-protein com 52.9 9.4 0.0002 29.3 1.7 25 290-316 6-30 (56)
158 PF00643 zf-B_box: B-box zinc 52.8 6.3 0.00014 27.4 0.7 34 348-389 3-36 (42)
159 cd02249 ZZ Zinc finger, ZZ typ 52.6 8.8 0.00019 27.6 1.5 29 350-384 2-31 (46)
160 PTZ00062 glutaredoxin; Provisi 52.1 2.2E+02 0.0047 27.2 12.8 103 114-227 60-165 (204)
161 KOG0317 Predicted E3 ubiquitin 52.0 14 0.0003 37.2 3.2 51 347-405 238-288 (293)
162 KOG2353 L-type voltage-depende 51.2 96 0.0021 36.9 10.2 143 89-237 238-399 (1104)
163 PF09237 GAGA: GAGA factor; I 51.1 6.5 0.00014 29.8 0.6 24 301-324 22-45 (54)
164 PLN02948 phosphoribosylaminoim 50.8 1.6E+02 0.0035 32.4 11.5 115 111-251 369-491 (577)
165 cd02002 TPP_BFDC Thiamine pyro 50.1 1.5E+02 0.0033 26.5 9.6 91 150-247 46-166 (178)
166 KOG0804 Cytoplasmic Zn-finger 49.9 5.4 0.00012 42.3 -0.0 64 301-380 174-252 (493)
167 COG1996 RPC10 DNA-directed RNA 49.2 9.4 0.0002 28.5 1.2 26 289-315 6-36 (49)
168 PF00096 zf-C2H2: Zinc finger, 48.3 7.3 0.00016 23.4 0.4 16 369-384 1-16 (23)
169 cd00568 TPP_enzymes Thiamine p 47.4 1.6E+02 0.0035 25.7 9.1 91 151-247 43-156 (168)
170 COG1533 SplB DNA repair photol 47.0 83 0.0018 31.8 7.9 110 156-269 65-186 (297)
171 smart00291 ZnF_ZZ Zinc-binding 46.9 14 0.00029 26.5 1.7 29 348-382 4-33 (44)
172 PHA00733 hypothetical protein 46.8 20 0.00044 31.6 3.1 33 289-321 73-117 (128)
173 PF02775 TPP_enzyme_C: Thiamin 46.4 75 0.0016 27.9 6.8 89 151-247 25-143 (153)
174 PF02780 Transketolase_C: Tran 46.4 40 0.00087 28.7 4.9 48 177-227 11-62 (124)
175 PF02670 DXP_reductoisom: 1-de 46.3 1.5E+02 0.0032 26.4 8.5 61 179-244 1-64 (129)
176 PRK00420 hypothetical protein; 46.1 11 0.00025 32.8 1.4 26 289-314 23-51 (112)
177 cd02008 TPP_IOR_alpha Thiamine 46.1 63 0.0014 29.4 6.4 90 153-247 50-164 (178)
178 PTZ00260 dolichyl-phosphate be 45.9 2.4E+02 0.0053 28.4 11.2 96 93-202 84-189 (333)
179 COG1645 Uncharacterized Zn-fin 45.9 8.7 0.00019 34.3 0.7 24 289-312 28-53 (131)
180 TIGR02300 FYDLN_acid conserved 45.6 16 0.00034 32.6 2.2 34 345-381 6-39 (129)
181 COG3183 Predicted restriction 45.5 5.2 0.00011 39.6 -0.9 32 304-335 196-232 (272)
182 TIGR00622 ssl1 transcription f 45.4 33 0.00071 30.0 4.1 13 288-300 80-92 (112)
183 PF14570 zf-RING_4: RING/Ubox 45.3 13 0.00029 27.6 1.5 44 351-398 1-45 (48)
184 PRK06260 threonine synthase; V 44.9 14 0.00031 38.3 2.2 42 289-330 3-57 (397)
185 cd02004 TPP_BZL_OCoD_HPCL Thia 44.8 1.5E+02 0.0033 26.5 8.7 91 151-247 45-159 (172)
186 cd02341 ZZ_ZZZ3 Zinc finger, Z 44.8 13 0.00029 27.4 1.4 28 350-383 2-33 (48)
187 COG0062 Uncharacterized conser 44.5 71 0.0015 30.6 6.6 57 159-217 33-89 (203)
188 COG5574 PEX10 RING-finger-cont 44.4 11 0.00024 37.4 1.2 51 347-405 214-266 (271)
189 PF03604 DNA_RNApol_7kD: DNA d 44.2 18 0.0004 24.5 1.9 25 290-314 1-28 (32)
190 PRK05978 hypothetical protein; 44.0 13 0.00028 33.9 1.5 23 291-313 35-62 (148)
191 cd07041 STAS_RsbR_RsbS_like Su 43.8 92 0.002 25.5 6.6 43 175-217 41-86 (109)
192 PF00301 Rubredoxin: Rubredoxi 43.8 16 0.00034 27.0 1.6 10 290-299 2-11 (47)
193 KOG3217 Protein tyrosine phosp 43.5 34 0.00075 31.3 4.1 52 194-253 58-111 (159)
194 smart00355 ZnF_C2H2 zinc finge 43.2 7.5 0.00016 23.0 -0.1 23 369-391 1-23 (26)
195 TIGR00570 cdk7 CDK-activating 43.1 12 0.00025 38.1 1.2 26 373-398 25-51 (309)
196 PF03850 Tfb4: Transcription f 42.8 13 0.00029 37.1 1.5 36 349-397 241-276 (276)
197 cd04919 ACT_AK-Hom3_2 ACT doma 42.8 57 0.0012 24.1 4.7 36 178-213 3-38 (66)
198 smart00659 RPOLCX RNA polymera 42.6 19 0.00041 26.1 1.9 26 289-314 2-30 (44)
199 PF02635 DrsE: DsrE/DsrF-like 42.5 46 0.001 27.2 4.6 92 150-244 11-114 (122)
200 KOG0978 E3 ubiquitin ligase in 42.4 7 0.00015 43.7 -0.6 42 349-398 644-686 (698)
201 COG1432 Uncharacterized conser 41.9 75 0.0016 29.5 6.3 64 150-223 90-154 (181)
202 PF15227 zf-C3HC4_4: zinc fing 41.4 10 0.00022 26.9 0.3 10 373-382 15-24 (42)
203 COG2051 RPS27A Ribosomal prote 41.1 11 0.00024 29.9 0.5 27 291-317 21-52 (67)
204 COG1198 PriA Primosomal protei 40.8 42 0.0009 38.1 5.1 131 195-377 340-484 (730)
205 PF01428 zf-AN1: AN1-like Zinc 40.8 15 0.00033 26.1 1.1 26 367-395 12-37 (43)
206 KOG1818 Membrane trafficking a 40.7 12 0.00026 41.4 0.9 45 348-396 165-217 (634)
207 PRK02842 light-independent pro 40.5 2.6E+02 0.0056 29.3 10.8 80 192-272 301-385 (427)
208 cd02339 ZZ_Mind_bomb Zinc fing 40.4 19 0.0004 26.2 1.6 29 350-384 2-32 (45)
209 cd02001 TPP_ComE_PpyrDC Thiami 40.0 1.6E+02 0.0036 26.3 8.1 87 154-248 42-143 (157)
210 PHA02768 hypothetical protein; 40.0 23 0.0005 27.1 2.1 19 305-323 7-25 (55)
211 PF05596 Taeniidae_ag: Taeniid 39.9 28 0.00061 27.4 2.6 27 90-116 4-30 (64)
212 cd02013 TPP_Xsc_like Thiamine 39.7 2.3E+02 0.0051 26.2 9.3 91 152-248 51-164 (196)
213 PF13920 zf-C3HC4_3: Zinc fing 39.6 13 0.00028 26.8 0.7 44 349-400 3-47 (50)
214 KOG2879 Predicted E3 ubiquitin 39.6 16 0.00035 36.6 1.5 48 301-376 237-284 (298)
215 PF09186 DUF1949: Domain of un 39.4 62 0.0014 23.2 4.4 42 188-229 3-56 (56)
216 cd02003 TPP_IolD Thiamine pyro 39.4 3.1E+02 0.0067 25.5 10.2 91 151-247 45-171 (205)
217 cd01840 SGNH_hydrolase_yrhL_li 39.2 2.1E+02 0.0045 25.0 8.5 75 157-234 35-116 (150)
218 PRK12380 hydrogenase nickel in 38.9 15 0.00033 31.6 1.1 8 368-375 70-77 (113)
219 COG4548 NorD Nitric oxide redu 38.9 2E+02 0.0043 31.8 9.5 90 149-242 528-627 (637)
220 cd04922 ACT_AKi-HSDH-ThrA_2 AC 38.8 70 0.0015 23.4 4.6 36 178-213 3-38 (66)
221 cd04868 ACT_AK-like ACT domain 38.5 1.3E+02 0.0028 20.6 7.0 34 181-214 5-38 (60)
222 PF13824 zf-Mss51: Zinc-finger 38.1 22 0.00047 27.2 1.7 23 291-313 1-24 (55)
223 cd04924 ACT_AK-Arch_2 ACT doma 38.1 76 0.0016 23.1 4.7 36 178-213 3-38 (66)
224 TIGR00100 hypA hydrogenase nic 37.9 16 0.00036 31.5 1.2 10 350-359 72-81 (115)
225 PF07649 C1_3: C1-like domain; 37.3 15 0.00032 24.0 0.6 27 350-381 2-28 (30)
226 PF06220 zf-U1: U1 zinc finger 37.3 13 0.00028 26.1 0.4 14 376-389 3-17 (38)
227 PRK08611 pyruvate oxidase; Pro 37.2 2E+02 0.0043 31.3 9.6 87 154-248 408-518 (576)
228 PTZ00303 phosphatidylinositol 36.9 23 0.0005 40.3 2.3 37 348-384 460-497 (1374)
229 PF00097 zf-C3HC4: Zinc finger 36.7 18 0.00039 24.7 1.0 26 371-396 14-41 (41)
230 PF06750 DiS_P_DiS: Bacterial 36.1 12 0.00027 31.2 0.1 37 303-359 33-69 (92)
231 KOG2326 DNA-binding subunit of 35.9 3.6E+02 0.0078 30.1 10.9 160 84-250 17-214 (669)
232 COG0743 Dxr 1-deoxy-D-xylulose 35.9 1.5E+02 0.0032 31.2 7.7 59 179-242 4-65 (385)
233 COG3958 Transketolase, C-termi 35.7 1.7E+02 0.0037 29.9 7.9 67 192-269 206-283 (312)
234 PRK06450 threonine synthase; V 35.6 24 0.00052 36.0 2.1 42 289-330 3-48 (338)
235 PRK14571 D-alanyl-alanine synt 35.6 1.6E+02 0.0035 28.9 7.9 29 217-245 69-105 (299)
236 PRK05580 primosome assembly pr 35.3 35 0.00076 38.2 3.5 63 275-377 368-430 (679)
237 PRK00448 polC DNA polymerase I 35.3 18 0.00038 44.0 1.2 24 289-314 908-944 (1437)
238 PF07191 zinc-ribbons_6: zinc- 35.2 14 0.00031 29.6 0.3 33 280-313 7-40 (70)
239 COG0375 HybF Zn finger protein 35.1 20 0.00043 31.4 1.2 26 348-377 70-95 (115)
240 PRK13981 NAD synthetase; Provi 34.8 3.2E+02 0.0068 29.5 10.6 91 92-217 258-348 (540)
241 PF14634 zf-RING_5: zinc-RING 34.7 26 0.00056 24.8 1.6 42 351-397 2-43 (44)
242 PLN03208 E3 ubiquitin-protein 34.5 26 0.00056 33.3 2.0 51 347-405 17-83 (193)
243 cd02525 Succinoglycan_BP_ExoA 34.4 3.4E+02 0.0073 24.6 9.4 91 101-206 15-112 (249)
244 PF01155 HypA: Hydrogenase exp 34.3 11 0.00024 32.4 -0.5 10 350-359 72-81 (113)
245 PRK00481 NAD-dependent deacety 34.3 34 0.00073 33.1 2.8 40 368-409 122-161 (242)
246 TIGR02886 spore_II_AA anti-sig 34.2 1.2E+02 0.0027 24.6 5.9 43 175-217 39-84 (106)
247 PF13453 zf-TFIIB: Transcripti 34.1 20 0.00043 25.1 0.9 28 351-378 2-29 (41)
248 cd02522 GT_2_like_a GT_2_like_ 34.1 3.4E+02 0.0074 24.2 9.8 93 101-209 14-106 (221)
249 cd04916 ACT_AKiii-YclM-BS_2 AC 33.7 95 0.0021 22.7 4.7 36 178-213 3-38 (66)
250 PRK00564 hypA hydrogenase nick 33.1 22 0.00048 30.8 1.2 6 393-398 91-96 (117)
251 KOG2858 Uncharacterized conser 33.1 15 0.00032 38.0 0.1 16 288-303 28-43 (390)
252 PRK07525 sulfoacetaldehyde ace 33.1 1.8E+02 0.004 31.6 8.5 91 152-248 433-547 (588)
253 PRK09545 znuA high-affinity zi 33.1 1.7E+02 0.0037 29.4 7.7 44 189-232 237-280 (311)
254 PF08274 PhnA_Zn_Ribbon: PhnA 32.9 11 0.00024 25.2 -0.5 8 368-375 19-26 (30)
255 COG4888 Uncharacterized Zn rib 32.8 19 0.00042 30.8 0.7 25 289-313 22-56 (104)
256 TIGR01405 polC_Gram_pos DNA po 32.7 20 0.00044 42.8 1.2 24 289-314 683-719 (1213)
257 PF13912 zf-C2H2_6: C2H2-type 32.6 20 0.00044 22.2 0.7 23 369-391 2-24 (27)
258 TIGR01279 DPOR_bchN light-inde 32.5 2.3E+02 0.0049 29.6 8.8 79 191-271 284-367 (407)
259 COG1579 Zn-ribbon protein, pos 32.5 17 0.00038 35.6 0.5 55 315-377 172-230 (239)
260 cd02006 TPP_Gcl Thiamine pyrop 32.4 4.1E+02 0.0088 24.6 9.8 90 152-247 55-177 (202)
261 PF14803 Nudix_N_2: Nudix N-te 32.3 20 0.00044 24.6 0.7 28 350-377 2-31 (34)
262 KOG4275 Predicted E3 ubiquitin 32.3 9.3 0.0002 38.6 -1.4 44 349-397 45-88 (350)
263 PRK03681 hypA hydrogenase nick 32.2 23 0.0005 30.6 1.2 9 368-376 70-78 (114)
264 PF03358 FMN_red: NADPH-depend 32.1 90 0.002 27.1 5.0 39 177-215 2-42 (152)
265 PF00462 Glutaredoxin: Glutare 31.8 2E+02 0.0044 20.8 6.6 46 179-227 1-46 (60)
266 TIGR00595 priA primosomal prot 31.6 29 0.00062 37.5 2.0 40 347-398 212-261 (505)
267 PF09862 DUF2089: Protein of u 31.6 20 0.00043 31.3 0.6 22 292-313 1-22 (113)
268 PRK11425 PTS system N-acetylga 31.5 1.1E+02 0.0023 28.0 5.5 94 140-245 43-136 (157)
269 KOG1356 Putative transcription 31.5 22 0.00048 40.6 1.1 31 348-384 229-259 (889)
270 PF02591 DUF164: Putative zinc 31.4 20 0.00043 26.8 0.5 30 348-377 22-55 (56)
271 PRK00432 30S ribosomal protein 31.2 29 0.00062 25.8 1.3 25 289-313 20-47 (50)
272 cd03028 GRX_PICOT_like Glutare 31.1 1.9E+02 0.004 23.3 6.3 50 177-227 9-60 (90)
273 COG2176 PolC DNA polymerase II 31.0 22 0.00049 42.1 1.1 39 289-334 914-963 (1444)
274 PF13894 zf-C2H2_4: C2H2-type 30.9 25 0.00053 20.5 0.8 20 369-388 1-20 (24)
275 KOG1813 Predicted E3 ubiquitin 30.8 24 0.00053 35.6 1.2 50 350-407 243-292 (313)
276 PRK06457 pyruvate dehydrogenas 30.7 2.4E+02 0.0052 30.4 8.8 90 152-248 394-507 (549)
277 PRK12286 rpmF 50S ribosomal pr 30.7 49 0.0011 25.3 2.6 21 289-311 27-48 (57)
278 TIGR00686 phnA alkylphosphonat 30.5 30 0.00065 30.0 1.5 23 371-398 5-27 (109)
279 smart00504 Ubox Modified RING 30.5 36 0.00079 25.2 1.9 44 350-401 3-46 (63)
280 TIGR01285 nifN nitrogenase mol 30.4 3.6E+02 0.0077 28.5 9.9 85 176-271 312-404 (432)
281 KOG1940 Zn-finger protein [Gen 30.3 23 0.0005 35.5 1.0 115 261-398 30-166 (276)
282 cd02014 TPP_POX Thiamine pyrop 30.1 4.1E+02 0.009 23.9 9.8 91 151-247 48-160 (178)
283 TIGR00595 priA primosomal prot 30.0 58 0.0013 35.1 4.0 50 289-377 213-262 (505)
284 cd04914 ACT_AKi-DapG-BS_1 ACT 29.9 1.7E+02 0.0036 22.4 5.5 26 188-213 11-36 (67)
285 PRK14715 DNA polymerase II lar 29.9 29 0.00064 41.6 1.8 63 228-318 1507-1572(1627)
286 cd06427 CESA_like_2 CESA_like_ 29.8 4.5E+02 0.0098 24.3 11.2 49 155-210 71-119 (241)
287 PF15135 UPF0515: Uncharacteri 29.8 38 0.00082 33.6 2.3 54 349-405 133-189 (278)
288 TIGR02720 pyruv_oxi_spxB pyruv 29.7 2.5E+02 0.0055 30.5 8.9 88 152-247 406-517 (575)
289 cd04918 ACT_AK1-AT_2 ACT domai 29.3 1.2E+02 0.0025 22.9 4.5 37 177-214 2-38 (65)
290 cd03376 TPP_PFOR_porB_like Thi 29.1 4.1E+02 0.0088 25.6 9.3 88 154-247 62-187 (235)
291 KOG2272 Focal adhesion protein 29.0 29 0.00064 34.4 1.4 91 274-378 119-231 (332)
292 PRK11468 dihydroxyacetone kina 29.0 1.1E+02 0.0024 31.8 5.6 41 175-216 96-136 (356)
293 KOG4399 C2HC-type Zn-finger pr 28.8 20 0.00043 35.7 0.2 42 350-398 237-282 (325)
294 cd03031 GRX_GRX_like Glutaredo 28.7 1.9E+02 0.0041 26.1 6.5 51 178-228 2-54 (147)
295 cd01407 SIR2-fam SIR2 family o 28.6 41 0.0009 31.8 2.3 40 369-409 110-152 (218)
296 TIGR00197 yjeF_nterm yjeF N-te 28.5 3.3E+02 0.0071 25.6 8.4 50 161-214 33-82 (205)
297 PRK14093 UDP-N-acetylmuramoyla 28.4 2.9E+02 0.0064 29.2 8.9 89 159-250 352-444 (479)
298 COG1439 Predicted nucleic acid 28.4 33 0.00072 32.2 1.5 25 368-400 139-163 (177)
299 PF14353 CpXC: CpXC protein 28.3 36 0.00079 29.4 1.8 21 368-388 38-58 (128)
300 PLN03049 pyridoxine (pyridoxam 28.3 1.3E+02 0.0027 32.4 6.1 54 159-214 43-96 (462)
301 cd02015 TPP_AHAS Thiamine pyro 28.2 4.6E+02 0.0099 23.8 9.3 90 152-247 48-161 (186)
302 PF09297 zf-NADH-PPase: NADH p 27.8 30 0.00065 23.0 0.8 22 291-312 5-30 (32)
303 PHA00616 hypothetical protein 27.7 18 0.00039 26.4 -0.3 19 369-387 2-20 (44)
304 cd02009 TPP_SHCHC_synthase Thi 27.7 2.4E+02 0.0053 25.5 7.2 89 150-247 47-162 (175)
305 TIGR03111 glyc2_xrt_Gpos1 puta 27.7 6.5E+02 0.014 26.3 11.3 89 101-203 64-159 (439)
306 PF11181 YflT: Heat induced st 27.6 88 0.0019 26.1 3.9 75 191-269 10-85 (103)
307 PRK06882 acetolactate synthase 27.5 3E+02 0.0065 29.8 8.9 90 152-247 419-532 (574)
308 PF00569 ZZ: Zinc finger, ZZ t 27.5 30 0.00065 24.9 0.9 30 348-383 4-35 (46)
309 cd02338 ZZ_PCMF_like Zinc fing 27.4 35 0.00076 25.1 1.2 29 350-384 2-32 (49)
310 TIGR02363 dhaK1 dihydroxyaceto 27.4 1.1E+02 0.0024 31.5 5.3 42 175-217 97-138 (329)
311 PRK14483 DhaKLM operon coactiv 27.4 1.1E+02 0.0024 31.5 5.2 43 175-218 95-137 (329)
312 PRK04155 chaperone protein Hch 27.2 1.2E+02 0.0025 30.5 5.3 44 171-214 45-100 (287)
313 cd04923 ACT_AK-LysC-DapG-like_ 27.1 2.3E+02 0.0051 20.1 7.2 32 181-212 5-36 (63)
314 cd06349 PBP1_ABC_ligand_bindin 27.1 2.3E+02 0.0051 27.6 7.5 13 156-168 19-31 (340)
315 PRK11425 PTS system N-acetylga 27.0 1.9E+02 0.0041 26.4 6.2 70 175-248 28-98 (157)
316 PRK11788 tetratricopeptide rep 26.9 35 0.00075 34.0 1.5 24 289-312 354-377 (389)
317 PRK03564 formate dehydrogenase 26.8 48 0.001 33.8 2.5 41 350-398 214-260 (309)
318 PRK08978 acetolactate synthase 26.8 2.7E+02 0.0058 29.9 8.4 89 151-247 398-512 (548)
319 COG1656 Uncharacterized conser 26.7 28 0.00062 32.3 0.8 30 349-378 98-140 (165)
320 PRK12361 hypothetical protein; 26.7 5.9E+02 0.013 27.5 11.0 47 159-215 286-332 (547)
321 KOG2857 Predicted MYND Zn-fing 26.6 27 0.00059 31.7 0.6 15 289-303 17-31 (157)
322 PLN00209 ribosomal protein S27 26.5 28 0.00062 28.9 0.7 26 291-316 38-68 (86)
323 PF12773 DZR: Double zinc ribb 26.5 51 0.0011 23.7 2.0 39 347-396 11-49 (50)
324 PTZ00083 40S ribosomal protein 26.3 29 0.00063 28.8 0.7 27 291-317 37-68 (85)
325 CHL00073 chlN photochlorophyll 26.3 5.7E+02 0.012 27.5 10.6 90 176-272 315-416 (457)
326 TIGR00375 conserved hypothetic 26.3 20 0.00043 37.4 -0.3 10 320-329 290-299 (374)
327 TIGR01504 glyox_carbo_lig glyo 26.2 3.1E+02 0.0067 30.0 8.8 88 152-247 416-538 (588)
328 cd02012 TPP_TK Thiamine pyroph 26.0 3.8E+02 0.0081 25.9 8.5 72 175-247 127-213 (255)
329 PF07295 DUF1451: Protein of u 25.8 47 0.001 30.1 2.1 29 367-399 111-139 (146)
330 PRK08617 acetolactate synthase 25.8 2.4E+02 0.0052 30.3 7.8 86 154-247 414-523 (552)
331 KOG4317 Predicted Zn-finger pr 25.8 38 0.00082 34.6 1.5 25 348-380 7-31 (383)
332 PF13465 zf-H2C2_2: Zinc-finge 25.6 30 0.00065 21.9 0.5 11 368-378 14-24 (26)
333 TIGR02362 dhaK1b probable dihy 25.5 1.2E+02 0.0026 31.2 5.1 42 175-217 93-134 (326)
334 PRK00762 hypA hydrogenase nick 25.5 37 0.0008 29.8 1.3 8 350-358 72-79 (124)
335 PF14949 ARF7EP_C: ARF7 effect 25.4 39 0.00084 29.1 1.3 19 349-380 68-86 (103)
336 cd01017 AdcA Metal binding pro 25.3 2E+02 0.0044 28.1 6.6 45 188-232 204-248 (282)
337 cd04921 ACT_AKi-HSDH-ThrA-like 25.2 1.6E+02 0.0034 22.6 4.7 35 179-213 4-38 (80)
338 PF01667 Ribosomal_S27e: Ribos 25.2 33 0.00071 26.2 0.8 26 291-316 9-39 (55)
339 TIGR01556 rhamnosyltran L-rham 25.2 4.7E+02 0.01 24.9 9.1 55 153-211 55-109 (281)
340 PF02875 Mur_ligase_C: Mur lig 25.2 1E+02 0.0023 24.6 3.8 49 159-209 26-77 (91)
341 PRK14481 dihydroxyacetone kina 25.2 1.3E+02 0.0029 31.0 5.3 41 175-216 96-136 (331)
342 PF02540 NAD_synthase: NAD syn 25.1 5E+02 0.011 25.2 9.2 41 176-216 45-85 (242)
343 cd01019 ZnuA Zinc binding prot 25.0 1.8E+02 0.004 28.6 6.3 43 188-230 212-254 (286)
344 cd06370 PBP1_Speract_GC_like L 24.7 5.1E+02 0.011 26.4 9.6 56 154-211 19-75 (404)
345 KOG0688 Peptide chain release 24.7 2.1E+02 0.0045 29.8 6.4 62 99-170 130-194 (431)
346 PF14205 Cys_rich_KTR: Cystein 24.6 55 0.0012 25.1 1.8 23 290-312 5-37 (55)
347 KOG1812 Predicted E3 ubiquitin 24.6 47 0.001 34.7 2.1 90 289-397 258-352 (384)
348 PF01155 HypA: Hydrogenase exp 24.5 37 0.0008 29.2 1.0 27 367-399 69-95 (113)
349 KOG2813 Predicted molecular ch 24.5 72 0.0016 32.8 3.2 69 277-383 187-263 (406)
350 cd06533 Glyco_transf_WecG_TagA 24.4 3E+02 0.0065 25.0 7.1 77 188-270 29-113 (171)
351 cd00001 PTS_IIB_man PTS_IIB, P 24.4 2.1E+02 0.0046 25.8 6.0 56 160-225 60-134 (151)
352 PRK08266 hypothetical protein; 24.4 3.2E+02 0.007 29.3 8.4 90 152-247 400-512 (542)
353 PF06957 COPI_C: Coatomer (COP 24.3 44 0.00096 35.5 1.8 160 136-317 200-410 (422)
354 PLN02470 acetolactate synthase 24.2 3.1E+02 0.0067 29.9 8.3 89 152-248 424-545 (585)
355 cd04892 ACT_AK-like_2 ACT doma 24.1 2E+02 0.0044 20.1 4.9 35 179-213 3-37 (65)
356 PF07282 OrfB_Zn_ribbon: Putat 24.1 71 0.0015 24.4 2.5 32 345-378 25-56 (69)
357 cd02344 ZZ_HERC2 Zinc finger, 23.8 56 0.0012 23.9 1.7 29 350-383 2-31 (45)
358 KOG1812 Predicted E3 ubiquitin 23.6 31 0.00068 36.0 0.5 40 350-389 240-279 (384)
359 COG4530 Uncharacterized protei 23.5 42 0.0009 29.4 1.2 25 289-313 9-36 (129)
360 smart00547 ZnF_RBZ Zinc finger 23.5 44 0.00096 20.7 1.0 24 289-312 2-25 (26)
361 PRK07789 acetolactate synthase 23.5 3.4E+02 0.0073 29.8 8.5 90 151-248 444-563 (612)
362 PF03854 zf-P11: P-11 zinc fin 23.3 23 0.0005 26.4 -0.3 25 289-313 21-45 (50)
363 PRK03815 murD UDP-N-acetylmura 23.3 7.1E+02 0.015 25.9 10.5 66 176-245 299-364 (401)
364 PF10122 Mu-like_Com: Mu-like 23.1 40 0.00086 25.4 0.8 31 348-378 4-34 (51)
365 cd04936 ACT_AKii-LysC-BS-like_ 23.0 2E+02 0.0043 20.5 4.7 32 181-212 5-36 (63)
366 PRK12496 hypothetical protein; 22.9 44 0.00096 30.7 1.3 25 349-377 128-152 (164)
367 KOG3362 Predicted BBOX Zn-fing 22.8 49 0.0011 30.2 1.5 76 219-303 68-143 (156)
368 COG1545 Predicted nucleic-acid 22.8 56 0.0012 29.2 1.9 24 289-312 29-52 (140)
369 cd01979 Pchlide_reductase_N Pc 22.7 5.5E+02 0.012 26.5 9.5 79 192-272 287-370 (396)
370 PRK14454 ribosomal RNA large s 22.6 92 0.002 31.9 3.7 69 177-249 151-227 (342)
371 PRK03824 hypA hydrogenase nick 22.5 56 0.0012 29.1 1.8 12 289-300 70-81 (135)
372 COG5399 Uncharacterized protei 22.5 2.4E+02 0.0052 25.2 5.6 55 161-216 28-94 (139)
373 PF03119 DNA_ligase_ZBD: NAD-d 22.5 39 0.00084 22.1 0.6 14 305-318 1-14 (28)
374 PF14835 zf-RING_6: zf-RING of 22.5 86 0.0019 24.8 2.6 41 350-401 9-51 (65)
375 PF02733 Dak1: Dak1 domain; I 22.4 1.1E+02 0.0024 31.4 4.2 40 175-215 80-119 (325)
376 PRK08329 threonine synthase; V 22.3 47 0.001 33.8 1.5 41 290-331 2-54 (347)
377 COG1779 C4-type Zn-finger prot 22.2 30 0.00066 33.0 0.1 42 304-361 15-56 (201)
378 COG1198 PriA Primosomal protei 22.2 57 0.0012 37.0 2.2 41 189-231 229-270 (730)
379 KOG2041 WD40 repeat protein [G 22.2 74 0.0016 36.2 3.0 59 292-396 1120-1180(1189)
380 PF02089 Palm_thioest: Palmito 22.1 7E+02 0.015 25.1 9.7 90 176-271 6-119 (279)
381 TIGR02803 ExbD_1 TonB system t 22.1 3E+02 0.0065 23.5 6.3 33 180-212 88-121 (122)
382 PF06676 DUF1178: Protein of u 22.1 34 0.00073 31.2 0.4 22 304-325 33-58 (148)
383 PLN02918 pyridoxine (pyridoxam 22.0 1.8E+02 0.0039 32.0 5.9 53 159-213 119-171 (544)
384 TIGR00377 ant_ant_sig anti-ant 22.0 2.6E+02 0.0057 22.5 5.7 43 175-217 43-88 (108)
385 TIGR03844 cysteate_syn cysteat 21.9 58 0.0013 34.1 2.1 22 289-310 2-24 (398)
386 PF12675 DUF3795: Protein of u 21.9 51 0.0011 26.4 1.3 24 377-400 7-44 (78)
387 PF14206 Cys_rich_CPCC: Cystei 21.8 56 0.0012 26.7 1.5 21 290-310 2-27 (78)
388 cd06844 STAS Sulphate Transpor 21.8 1.9E+02 0.0041 23.4 4.8 42 175-216 39-83 (100)
389 KOG1680 Enoyl-CoA hydratase [L 21.5 61 0.0013 32.6 2.1 14 151-165 135-148 (290)
390 cd04934 ACT_AK-Hom3_1 CT domai 21.5 1.9E+02 0.0041 22.7 4.5 30 183-212 8-37 (73)
391 TIGR00243 Dxr 1-deoxy-D-xylulo 21.5 4.1E+02 0.0089 28.1 8.1 58 179-241 4-64 (389)
392 PRK07591 threonine synthase; V 21.5 79 0.0017 33.2 3.0 28 289-316 18-46 (421)
393 cd03372 TPP_ComE Thiamine pyro 21.4 6.3E+02 0.014 23.0 9.1 87 154-247 42-144 (179)
394 PF06221 zf-C2HC5: Putative zi 21.4 68 0.0015 24.7 1.8 45 276-320 3-52 (57)
395 PLN03050 pyridoxine (pyridoxam 21.3 2.5E+02 0.0055 27.4 6.3 53 176-230 61-117 (246)
396 PRK14873 primosome assembly pr 21.3 62 0.0013 36.3 2.3 39 348-399 383-431 (665)
397 KOG2858 Uncharacterized conser 21.1 47 0.001 34.5 1.2 41 347-396 16-57 (390)
398 PRK14462 ribosomal RNA large s 21.1 97 0.0021 32.1 3.5 44 179-225 164-216 (356)
399 cd04476 RPA1_DBD_C RPA1_DBD_C: 21.1 58 0.0012 29.4 1.7 26 350-378 36-61 (166)
400 KOG1842 FYVE finger-containing 21.0 26 0.00057 37.3 -0.6 43 341-387 173-215 (505)
401 PRK00420 hypothetical protein; 20.9 66 0.0014 28.0 1.9 27 348-377 23-49 (112)
402 cd01018 ZntC Metal binding pro 20.9 3.1E+02 0.0068 26.6 6.9 45 188-232 201-245 (266)
403 PRK06965 acetolactate synthase 20.9 5.5E+02 0.012 28.0 9.5 90 151-248 434-549 (587)
404 PRK03681 hypA hydrogenase nick 20.9 43 0.00093 28.9 0.8 26 348-376 70-95 (114)
405 KOG0825 PHD Zn-finger protein 20.8 31 0.00067 39.3 -0.2 47 347-398 122-168 (1134)
406 PF00641 zf-RanBP: Zn-finger i 20.8 75 0.0016 20.6 1.7 23 289-311 4-26 (30)
407 PRK15404 leucine ABC transport 20.8 6.1E+02 0.013 25.5 9.3 52 155-207 44-95 (369)
408 cd01412 SIRT5_Af1_CobB SIRT5_A 20.7 84 0.0018 29.8 2.8 40 369-409 110-149 (224)
409 PF10906 DUF2697: Protein of u 20.7 1.7E+02 0.0036 23.4 3.9 25 84-108 40-64 (68)
410 TIGR01053 LSD1 zinc finger dom 20.7 92 0.002 21.0 2.1 25 350-376 3-27 (31)
411 PRK11823 DNA repair protein Ra 20.6 56 0.0012 34.7 1.7 24 289-312 7-30 (446)
412 KOG2177 Predicted E3 ubiquitin 20.5 41 0.00089 31.3 0.6 43 347-397 12-54 (386)
413 PF13842 Tnp_zf-ribbon_2: DDE_ 20.4 94 0.002 20.9 2.2 15 367-381 15-29 (32)
414 PF10825 DUF2752: Protein of u 20.4 33 0.00072 25.6 -0.1 15 305-327 11-25 (52)
415 COG4306 Uncharacterized protei 20.3 40 0.00086 30.2 0.4 29 375-406 27-55 (160)
416 cd04915 ACT_AK-Ectoine_2 ACT d 20.3 2E+02 0.0044 21.8 4.4 36 178-214 4-39 (66)
417 PRK14457 ribosomal RNA large s 20.2 1.1E+02 0.0025 31.4 3.8 47 177-226 150-203 (345)
418 PRK05447 1-deoxy-D-xylulose 5- 20.2 4.4E+02 0.0095 27.8 8.1 52 191-242 11-65 (385)
419 cd06438 EpsO_like EpsO protein 20.1 6E+02 0.013 22.3 10.6 81 113-202 25-108 (183)
420 PF01297 TroA: Periplasmic sol 20.0 2.8E+02 0.006 26.5 6.3 44 188-231 183-226 (256)
No 1
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=7.7e-125 Score=911.60 Aligned_cols=361 Identities=57% Similarity=0.999 Sum_probs=336.2
Q ss_pred cccccccccccccccccccccccCCCCcccccchhhHHHHhhhhhhcccccccchHHhHH----------HhcCCCCCCH
Q 015282 24 LNGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQK----------AAEMDFRPSR 93 (410)
Q Consensus 24 ~~~~~~~WE~~y~~~rsWe~l~ede~g~l~~~~~~~~~~~kr~r~~~~~~~~~~~~~i~r----------M~~~D~~P~R 93 (410)
.+++ |+||++| +||||.|+|||+|+|+.+++++++.+||||+++.. ++.+++.||. |.++||+|||
T Consensus 7 ~~~~-y~WE~eY--~RsWe~l~ede~Gsl~~~ia~~v~~~krk~~~~~~-t~~r~GiiRhl~iviD~S~am~e~Df~P~r 82 (378)
T KOG2807|consen 7 MNKG-YTWEGEY--KRSWEILKEDESGSLEKSIASIVNEAKRKRRLRYS-TRIRKGIIRHLYIVIDCSRAMEEKDFRPSR 82 (378)
T ss_pred hccc-cchhhhh--hhhHHHhhcccccchHHHHHHHHHHHHHhhhhhcc-chhhhhhheeEEEEEEhhhhhhhccCCchH
Confidence 3566 8999999 99999999999999999999999999999987632 1223333332 9999999999
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCC
Q 015282 94 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSY 173 (410)
Q Consensus 94 l~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~ 173 (410)
+..+.++++.||.+||+|||+||||||+++||+|++++.+||||+.|+++|+.+.++.|++||||||+||+..|+++|+|
T Consensus 83 ~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~ltgnp~~hI~aL~~~~~~~g~fSLqNaLe~a~~~Lk~~p~H 162 (378)
T KOG2807|consen 83 FANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLTGNPRIHIHALKGLTECSGDFSLQNALELAREVLKHMPGH 162 (378)
T ss_pred HHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhcCCHHHHHHHHhcccccCCChHHHHHHHHHHHHhcCCCcc
Confidence 99999999999999999999999999999999999999999999999999999878999999999999999999999999
Q ss_pred CCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccc
Q 015282 174 GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAI 253 (410)
Q Consensus 174 ~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~ 253 (410)
.+||||||+||+.|+|||||++||+++|+.+|||+||||+|||+|||+||+.|||.|.|++|++||++||.+++.|||+.
T Consensus 163 ~sREVLii~sslsT~DPgdi~~tI~~lk~~kIRvsvIgLsaEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~~~Pp~~~ 242 (378)
T KOG2807|consen 163 VSREVLIIFSSLSTCDPGDIYETIDKLKAYKIRVSVIGLSAEVFICKELCKATGGRYSVALDEGHLKELLLEHTHPPPAN 242 (378)
T ss_pred cceEEEEEEeeecccCcccHHHHHHHHHhhCeEEEEEeechhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhcCCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred hhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCc
Q 015282 254 AEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFD 333 (410)
Q Consensus 254 ~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~ 333 (410)
++ .+.+||+||||++...+.|++|+||..++.. ||+||||+++||+||++||+|+|+|||||||||||||||||++|.
T Consensus 243 ~~-~~~sLvkmGFP~~~~e~~ps~C~CH~~~~~~-Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL~~F~ 320 (378)
T KOG2807|consen 243 KS-KECSLVKMGFPSRSPEDTPSFCACHSELSGG-GYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFPLKPFV 320 (378)
T ss_pred cc-cCCceEEecCCCcccccCcchheeccccccC-ceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcCCcchh
Confidence 44 4899999999999999999999999888888 999999999999999999999999999999999999999999999
Q ss_pred ccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 015282 334 EVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 400 (410)
Q Consensus 334 ~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~ 400 (410)
|+++ .+..+++.||+|+..+. .+.+|+|+.|+++||.|||+||||+||+||||++++
T Consensus 321 Eip~-----~~~~~~~~Cf~C~~~~~-----~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~~ 377 (378)
T KOG2807|consen 321 EIPE-----TEYNGSRFCFACQGELL-----SSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHKP 377 (378)
T ss_pred hccc-----cccCCCcceeeeccccC-----CCCcEEchhccceeeccchHHHHhhhhcCCCcCCCC
Confidence 9964 45667889999975553 346899999999999999999999999999999653
No 2
>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=3.4e-108 Score=791.09 Aligned_cols=367 Identities=43% Similarity=0.758 Sum_probs=345.7
Q ss_pred cccccccccccccccccccccccCCCCcccccchhhHHHHhhhhhhcccccccchHHhHH----------HhcCCCCCCH
Q 015282 24 LNGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQK----------AAEMDFRPSR 93 (410)
Q Consensus 24 ~~~~~~~WE~~y~~~rsWe~l~ede~g~l~~~~~~~~~~~kr~r~~~~~~~~~~~~~i~r----------M~~~D~~P~R 93 (410)
..+| |+||++| +||||.+++|++|+|..+|+++.+.+|+++..+ +.++.+++.||. |.++||+|+|
T Consensus 34 ~n~g-ysWE~Ey--kRsWd~v~~d~eg~l~~vva~~~~~~k~~~~~~-~~tp~qrGIiRhl~l~lD~Seam~e~Df~p~r 109 (421)
T COG5151 34 MNKG-YSWEQEY--KRSWDDVNDDKEGSLVGVVAEFNLETKAPYSNN-RTTPLQRGIIRHLHLILDVSEAMDESDFLPTR 109 (421)
T ss_pred cccC-cchHHhh--hhhhhhhcccccccHHHHHHHHHHhcccccccc-CCChhhhhhhheeEEEEEhhhhhhhhhccchH
Confidence 4566 8999999 999999999999999999999999999998763 445667777765 9999999999
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCC
Q 015282 94 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSY 173 (410)
Q Consensus 94 l~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~ 173 (410)
...+.++++.||.+||+|||+||||||.++||.|.+++.+.|||..|+.+|+.+.+++|++||||||+||+..|.+.+.|
T Consensus 110 ~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~~~s~~~gnpq~hi~~lkS~rd~~gnfSLqNaLEmar~~l~~~~~H 189 (421)
T COG5151 110 RANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAKYTSSMDGNPQAHIGQLKSKRDCSGNFSLQNALEMARIELMKNTMH 189 (421)
T ss_pred HHHHHHHHHHHhHHHhccCCchheeeeehhhhHHHHhhhcCCCHHHHHHHhhcccccCCChhHHhHHHHhhhhhcccccc
Confidence 99999999999999999999999999999999999999999999999999999889999999999999999999999999
Q ss_pred CCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhh----CCeeEEeCCHHHHHHHHHhcCCC
Q 015282 174 GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDT----GGSYSVALDESHFKELIMEHAPP 249 (410)
Q Consensus 174 ~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~T----gG~Y~va~d~~hl~~lL~~~~~P 249 (410)
++|||||||||..|.|||+|++||++|...+|||.+|||+||+.|||+||+.| .|.|+|+.|+.||++|+.+...|
T Consensus 190 ~trEvLiifgS~st~DPgdi~~tid~Lv~~~IrV~~igL~aevaicKeickaTn~~~e~~y~v~vde~Hl~el~~E~~~P 269 (421)
T COG5151 190 GTREVLIIFGSTSTRDPGDIAETIDKLVAYNIRVHFIGLCAEVAICKEICKATNSSTEGRYYVPVDEGHLSELMRELSHP 269 (421)
T ss_pred cceEEEEEEeecccCCCccHHHHHHHHHhhceEEEEEeehhHHHHHHHHHhhcCcCcCceeEeeecHHHHHHHHHhcCCC
Confidence 99999999999999999999999999999999999999999999999999999 59999999999999999999999
Q ss_pred CccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCC
Q 015282 250 PPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPI 329 (410)
Q Consensus 250 p~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl 329 (410)
|+....++..+|++||||++.-++.|++|+||++++.+ ||.||+|++|||+||+.||+|.|+||+++||||||||||||
T Consensus 270 ~~~n~~k~~~sLVkmGFPs~~~E~~Ps~CaCHs~~~~g-Gy~CP~CktkVCsLPi~CP~Csl~LilsthLarSyhhL~PL 348 (421)
T COG5151 270 TDFNGTKTDLSLVKMGFPSPMMEQLPSVCACHSEVKGG-GYECPVCKTKVCSLPISCPICSLQLILSTHLARSYHHLYPL 348 (421)
T ss_pred CCCCccccCceEEEecCCchhhhcCccceeeeeeeccC-ceeCCcccceeecCCccCcchhHHHHHHHHHHHHHHhhccC
Confidence 99876667789999999999999999999999999998 99999999999999999999999999999999999999999
Q ss_pred CCCcccCccCCCCCCCCCCCccccccccccCCCC------CCCceeeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 015282 330 APFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN------KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 400 (410)
Q Consensus 330 ~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~------~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~ 400 (410)
++|.|+++ .....++.||.||.+||.++. ..+++|+|+.|++.||.|||+||||+||+||||+...
T Consensus 349 k~f~E~p~-----~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~~~ 420 (421)
T COG5151 349 KPFVEKPE-----GTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCELPH 420 (421)
T ss_pred cccccccC-----CCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcCCC
Confidence 99999964 455678899999999998752 2467999999999999999999999999999998754
No 3
>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=9e-61 Score=445.06 Aligned_cols=184 Identities=53% Similarity=0.960 Sum_probs=179.5
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNALD 161 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~--~~~G~~SLqnaL~ 161 (410)
|.++||+||||.+++++++.||++||+|||+||||||+|+||+|+++++|+||+++|+++|+++. ++.|++||||||+
T Consensus 8 m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls~lsgn~~~h~~~L~~~~~~~~~G~~SLqN~Le 87 (193)
T PF04056_consen 8 MREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLSELSGNPQEHIEALKKLRKLEPSGEPSLQNGLE 87 (193)
T ss_pred HHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEeeecCCCHHHHHHHHHHhccCCCCCChhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999875 7999999999999
Q ss_pred HHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 015282 162 LVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKE 241 (410)
Q Consensus 162 ~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~ 241 (410)
+|+..|+++|+|++||||||+||++|||||||++||+.+++++|||+||||+||++|||+||++|||+|+|++|++||++
T Consensus 88 ~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~di~~ti~~l~~~~IrvsvI~laaEv~I~k~i~~~T~G~y~V~lde~H~~~ 167 (193)
T PF04056_consen 88 MARSSLKHMPSHGSREILVIFGSLTTCDPGDIHETIESLKKENIRVSVISLAAEVYICKKICKETGGTYGVILDEDHFKE 167 (193)
T ss_pred HHHHHHhhCccccceEEEEEEeecccCCchhHHHHHHHHHHcCCEEEEEEEhHHHHHHHHHHHhhCCEEEEecCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCCCccchhhhhhceeeecCC
Q 015282 242 LIMEHAPPPPAIAEFAIANLIKMGFP 267 (410)
Q Consensus 242 lL~~~~~Pp~~~~~~~~~~Li~mGFP 267 (410)
+|+++++|||+....++++||+||||
T Consensus 168 lL~~~~~PP~~~~~~~~~~Li~mGFP 193 (193)
T PF04056_consen 168 LLMEHVPPPPTSSSKSEASLIKMGFP 193 (193)
T ss_pred HHHhhCCCCcccccCCCCCEEEecCC
Confidence 99999999999855558999999999
No 4
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.8e-49 Score=335.50 Aligned_cols=105 Identities=50% Similarity=1.134 Sum_probs=95.2
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC-----
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN----- 363 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~----- 363 (410)
||+||||+||||+||++||+|||||||||||||||||||||++|+||+|+ ....++.||||+++|+.++.
T Consensus 1 GY~CPrC~skvC~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~-----~~~~~~~C~~C~~~f~~~~~~~~~~ 75 (112)
T TIGR00622 1 GYFCPQCRAKVCELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPLE-----EYNGSRFCFGCQGPFPKPPVSPFDE 75 (112)
T ss_pred CccCCCCCCCccCCCCcCCcCCCEEeccchHHHhhhccCCCccccccccc-----ccCCCCcccCcCCCCCCcccccccc
Confidence 79999999999999999999999999999999999999999999999753 34456789999999986531
Q ss_pred -CCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 364 -KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 364 -~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
..+++|+|++|+++||+|||+||||+|||||||++
T Consensus 76 ~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 76 LKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred cccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 34679999999999999999999999999999984
No 5
>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=6.5e-40 Score=320.74 Aligned_cols=215 Identities=16% Similarity=0.302 Sum_probs=184.7
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCH------------------------HHHHHHHhh
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP------------------------ESHIKALMG 146 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~------------------------~~~i~~L~~ 146 (410)
+.-|..+++.+..|++.|+.+|+.+||+||+.+.+.+..|.|-+.++ +.+++.|.+
T Consensus 25 ~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~~~~~~~~y~~f~~v~~~v~~~l~~ 104 (279)
T TIGR00627 25 KRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDPKRLRELLYRDFRTVDETIVEEIKP 104 (279)
T ss_pred CCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCccccccccccccccccchhccchhHHHHHHHHHHHH
Confidence 45678899999999999999999999999999999999998864100 014455543
Q ss_pred hc---C----CCCcchHHHHHHHHHHHHhCC------CCCCCceEEEEEeCCCC-CCcccHHHHHHHHHHcCeEEEEEEc
Q 015282 147 KL---G----CSGDSSLQNALDLVQGLLSQI------PSYGHREVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGL 212 (410)
Q Consensus 147 ~~---~----~~G~~SLqnaL~~A~~~L~~~------p~~~sreILVi~~S~~t-~DpgdI~~ti~~akk~~IrV~vIgL 212 (410)
.. . ..+++.|.+||.||+++++++ +.+.++|||||.+|+.. .++.++|++|+.|||.+|+||||+|
T Consensus 105 l~~~~~~~~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~~~~qYi~~mn~Ifaaqk~~I~Idv~~L 184 (279)
T TIGR00627 105 LMAHADKHMKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITPDMALQYIPLMNCIFSAQKQNIPIDVVSI 184 (279)
T ss_pred HHhhchhcccccccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCCchHHHHHHHHHHHHHHHcCceEEEEEe
Confidence 32 1 125678999999999999875 22446789999987765 8899999999999999999999999
Q ss_pred chh--HHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCee
Q 015282 213 SAE--MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGY 290 (410)
Q Consensus 213 ~aE--~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY 290 (410)
++| +.+|||+|++|||.|+++.|++||+++|+.++.||+.. ...|++ |++..+|++++||||++++++ ||
T Consensus 185 ~~e~~~~~lqQa~~~TgG~Y~~~~~~~~L~q~L~~~~~pp~~~----r~~Li~---P~~~~vd~ra~CfCh~k~v~~-Gy 256 (279)
T TIGR00627 185 GGDFTSGFLQQAADITGGSYLHVKKPQGLLQYLMTNMLPDPTL----RAVLSK---PNHNSVDYRASCFCHHQLVSI-GF 256 (279)
T ss_pred CCccccHHHHHHHHHhCCEEeccCCHhHHHHHHHHhcCCChhh----hHhhcC---CCCCCCCCcceeeecCccccc-eE
Confidence 988 99999999999999999999999999999999888754 245765 999899999999999999999 99
Q ss_pred EcCCCCcccccCCCCCCCCCcee
Q 015282 291 TCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 291 ~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
+||+|+|+||++|++|++||+.|
T Consensus 257 vCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 257 VCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred ECCCccCCcCCCCCCCCCCCCCC
Confidence 99999999999999999999864
No 6
>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=100.00 E-value=1.8e-33 Score=259.78 Aligned_cols=168 Identities=57% Similarity=0.981 Sum_probs=158.3
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
|.+.|+.||||++++..+++|++.+|++||.+|+|||+|+++.|++++|+|+|+..++..|+....+.|+++|.+||++|
T Consensus 16 M~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~PlT~D~~~~~~~L~~~~~~~G~t~l~~aL~~A 95 (183)
T cd01453 16 MEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLTDLTGNPRKHIQALKTARECSGEPSLQNGLEMA 95 (183)
T ss_pred HhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEECCCCCHHHHHHHhhcccCCCCchhHHHHHHHH
Confidence 99999999999999999999999999999999999999988999999999999999999998754567889999999999
Q ss_pred HHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHH
Q 015282 164 QGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELI 243 (410)
Q Consensus 164 ~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL 243 (410)
...|++.+.+..++||||+++..++|++++.++++.+++++|+|++||+|.++.+|++||+.|||+|+.+.|+++|+++|
T Consensus 96 ~~~l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~~tgG~~~~~~~~~~l~~~~ 175 (183)
T cd01453 96 LESLKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICKATNGTYKVILDETHLKELL 175 (183)
T ss_pred HHHHhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHHHhCCeeEeeCCHHHHHHHH
Confidence 99999876666788999999877788888989999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCCc
Q 015282 244 MEHAPPPP 251 (410)
Q Consensus 244 ~~~~~Pp~ 251 (410)
..+++||+
T Consensus 176 ~~~~~p~~ 183 (183)
T cd01453 176 LEHVTPPP 183 (183)
T ss_pred HhcCCCCC
Confidence 99999986
No 7
>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=6.5e-33 Score=271.68 Aligned_cols=211 Identities=19% Similarity=0.353 Sum_probs=175.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC-----------------CH--------HHHHHHHhh
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-----------------SP--------ESHIKALMG 146 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg-----------------n~--------~~~i~~L~~ 146 (410)
.-|..+++.+-.|++.|+.+|..+||+||+...+.++.|.|... +. +.+.+.|++
T Consensus 22 ~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~~~~~y~~f~~v~~~v~~~l~~ 101 (276)
T PF03850_consen 22 LSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSSDSNKYRQFRNVDETVLEELKK 101 (276)
T ss_pred ccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCcccccccccchhHHHHHHHHHHHHHHHH
Confidence 57888999999999999999999999999999999999999877 01 113344443
Q ss_pred hcC-------CCCcchHHHHHHHHHHHHhCC----C---CCCCceEEE-EEeCCCC-CCcccHHHHHHHHHHcCeEEEEE
Q 015282 147 KLG-------CSGDSSLQNALDLVQGLLSQI----P---SYGHREVLI-LYSALST-CDPGDIMETIQKCKESKIRCSVI 210 (410)
Q Consensus 147 ~~~-------~~G~~SLqnaL~~A~~~L~~~----p---~~~sreILV-i~~S~~t-~DpgdI~~ti~~akk~~IrV~vI 210 (410)
..+ ....+.|.+||.||+++++++ + ..-+.|||| +.+|+.. .++..+||+|+.|+|.+|.|||+
T Consensus 102 l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~~~QYi~~MN~iFaAqk~~v~IDv~ 181 (276)
T PF03850_consen 102 LMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDSSSQYIPLMNCIFAAQKQKVPIDVC 181 (276)
T ss_pred HHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCccHHHHHHHHHHHHHhcCCceeEEE
Confidence 321 112379999999999999976 2 244568999 6666655 78999999999999999999999
Q ss_pred Ecch-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCe
Q 015282 211 GLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVG 289 (410)
Q Consensus 211 gL~a-E~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~G 289 (410)
.|+. +..+|||+|++|||.|+.+.+.+.|.++|+.++.|++.. +..|+ .|.+..+|+|+.||||++.++. |
T Consensus 182 ~L~~~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L~~~fl~~~~~----R~~l~---~p~~~~vd~ra~Cfch~k~vd~-g 253 (276)
T PF03850_consen 182 KLGGKDSTFLQQASDITGGIYLKVSKPEGLLQYLLTAFLPDPSS----RSFLI---LPTQSSVDFRASCFCHRKVVDI-G 253 (276)
T ss_pred EecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHHH----Hhhcc---CCCCCCCCcceeeeecCCcccc-e
Confidence 9999 899999999999999999999988888777777676543 23343 6999999999999999999999 9
Q ss_pred eEcCCCCcccccCCC--CCCCCC
Q 015282 290 YTCPRCKARVCELPT--DCRICG 310 (410)
Q Consensus 290 Y~Cp~C~s~~C~lP~--~C~~Cg 310 (410)
|+||+|+|+||++|. +|++||
T Consensus 254 ~vCsvCLsIfc~~p~~~~C~tC~ 276 (276)
T PF03850_consen 254 YVCSVCLSIFCEFPDGGICPTCG 276 (276)
T ss_pred eEchhhhhhhhCCCCCCCCCCCC
Confidence 999999999999984 999997
No 8
>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=99.97 E-value=6.5e-31 Score=244.40 Aligned_cols=144 Identities=15% Similarity=0.246 Sum_probs=136.7
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
|+++||+||||+++++++..|+.+||++||.+|||||+|+++.|++++|||+|+..++..|+.+ .+.|+++|++||++|
T Consensus 16 M~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~plT~D~~~~~~~L~~i-~~~g~~~l~~AL~~A 94 (187)
T cd01452 16 MRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLVTLTNDQGKILSKLHDV-QPKGKANFITGIQIA 94 (187)
T ss_pred HHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEECCCCCHHHHHHHHHhC-CCCCcchHHHHHHHH
Confidence 9999999999999999999999999999999999999999889999999999999999999875 678999999999999
Q ss_pred HHHHhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCC
Q 015282 164 QGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGG 228 (410)
Q Consensus 164 ~~~L~~~p~~~sr-eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG 228 (410)
..+|++.+.+++| |||||++|+.++|+++++++++.+||+||+|+|||||.+ ...|+.+.+..++
T Consensus 95 ~~~L~~~~~~~~~~rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~~ 163 (187)
T cd01452 95 QLALKHRQNKNQKQRIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAVNG 163 (187)
T ss_pred HHHHhcCCCcCCcceEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHhcC
Confidence 9999999999886 999999999999999999999999999999999999976 4788888888864
No 9
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=99.97 E-value=1.6e-30 Score=248.69 Aligned_cols=214 Identities=16% Similarity=0.312 Sum_probs=174.9
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeec--------------CC-----------CCHHHHHHHHhhh
Q 015282 93 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTD--------------LG-----------GSPESHIKALMGK 147 (410)
Q Consensus 93 Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~--------------lt-----------gn~~~~i~~L~~~ 147 (410)
-+..+++++..|.++++.+|..+|++||+..-..-+.+.| ++ .+-+-+++.|.++
T Consensus 48 ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~n~~~~~~t~~~~~~y~~~~~~d~tiv~ei~~l 127 (314)
T KOG2487|consen 48 TISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDRNASELDPTRLVLFDYSEFRTVDDTIVEEIYRL 127 (314)
T ss_pred eHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCccCccccCchhhhcchhhhhcccchHHHHHHHHH
Confidence 3557889999999999999999999999996556666666 22 1112245666554
Q ss_pred cC-----CCC-cchHHHHHHHHHHHHhCCCCCC-----CceEEEEEeCCCC-CCcccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 148 LG-----CSG-DSSLQNALDLVQGLLSQIPSYG-----HREVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 148 ~~-----~~G-~~SLqnaL~~A~~~L~~~p~~~-----sreILVi~~S~~t-~DpgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
.+ ..| .+-|.++|+.|+.+...+.... +.+||||.-+... .+++++|+.|+.|+|.||+|||++|+..
T Consensus 128 m~~~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSRilV~t~t~d~~~qyi~~MNciFaAqKq~I~Idv~~l~~~ 207 (314)
T KOG2487|consen 128 MEHPDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSRILVFTLTRDRALQYIPYMNCIFAAQKQNIPIDVVSLGGD 207 (314)
T ss_pred HhCccccccccceeeccchhhccchHhhhhhhhhhhhhhceEEEEEechHHHhhhhhHHHHHHHHHhcCceeEEEEecCC
Confidence 31 223 6789999999999998774433 5689999765555 8999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCC
Q 015282 216 MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRC 295 (410)
Q Consensus 216 ~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C 295 (410)
..+|||.|++|||.|..+.+++.|.++|+..+.|.|.. ++.|++ |.+..+|||+.|+||++++.. ||+||+|
T Consensus 208 s~~LqQa~D~TGG~YL~v~~~~gLLqyLlt~~~~D~~~----R~~l~k---pnh~~VDfRAtC~CH~~lv~i-G~VCSVC 279 (314)
T KOG2487|consen 208 SGFLQQACDITGGDYLHVEKPDGLLQYLLTLLLTDPEL----RAVLSK---PNHNSVDFRATCYCHNRLVLI-GFVCSVC 279 (314)
T ss_pred chHHHHHHhhcCCeeEecCCcchHHHHHHHHhcCCcch----hhhccC---CCCCCcCcceeeeeecceeee-eeehHHH
Confidence 99999999999999999998877666665555554432 266765 999999999999999999999 9999999
Q ss_pred CcccccCCCCCCCCCceec
Q 015282 296 KARVCELPTDCRICGLQLV 314 (410)
Q Consensus 296 ~s~~C~lP~~C~~Cgl~Lv 314 (410)
+|++|.+++.|++|...+-
T Consensus 280 LSVfC~~~PiC~~C~s~F~ 298 (314)
T KOG2487|consen 280 LSVFCRFVPICKTCKSKFS 298 (314)
T ss_pred HHHhhCCCCccchhhhhcc
Confidence 9999999999999999874
No 10
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=99.93 E-value=7.4e-25 Score=205.36 Aligned_cols=211 Identities=15% Similarity=0.203 Sum_probs=171.4
Q ss_pred HHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHH----------------------HHHHHhhhcC-CC
Q 015282 95 AVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPES----------------------HIKALMGKLG-CS 151 (410)
Q Consensus 95 ~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~----------------------~i~~L~~~~~-~~ 151 (410)
..++..+..|.++++.-|..++++||+-....-+.|.|-+....+ .++.+.++.+ +.
T Consensus 44 ~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~tr~sd~yrrfr~vde~~i~eiyrl~e~~~ 123 (296)
T COG5242 44 DKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESENTRNSDMYRRFRNVDETDITEIYRLIEHPH 123 (296)
T ss_pred HHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccCccchhhhhhhcccchHHHHHHHHHHhCcc
Confidence 367788999999999999999999999865556777776544111 4455555432 22
Q ss_pred C---cchHHHHHHHHHHHHhCCCCCCC--ceEEEEEeCC--CCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHH
Q 015282 152 G---DSSLQNALDLVQGLLSQIPSYGH--REVLILYSAL--STCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQ 224 (410)
Q Consensus 152 G---~~SLqnaL~~A~~~L~~~p~~~s--reILVi~~S~--~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~ 224 (410)
+ ...+++|+..++.+..|+....+ .+|||+.-|. .-.++..+|+.|+.|+|.||+|+|+++++...+|+|.|+
T Consensus 124 k~sqr~~v~gams~glay~n~~~~e~slkSriliftlsG~d~~~qYip~mnCiF~Aqk~~ipI~v~~i~g~s~fl~Q~~d 203 (296)
T COG5242 124 KNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLSGRDRKDQYIPYMNCIFAAQKFGIPISVFSIFGNSKFLLQCCD 203 (296)
T ss_pred cccceeehhhhhhhhHHHHhhhcccccccceEEEEEecCchhhhhhchhhhheeehhhcCCceEEEEecCccHHHHHHhh
Confidence 2 36899999999999999865533 5788886544 236889999999999999999999999999999999999
Q ss_pred hhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcccccCCC
Q 015282 225 DTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPT 304 (410)
Q Consensus 225 ~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~~C~lP~ 304 (410)
.|||.|....|.+.|.++|+..+-|.+.. .+-++ -|.+..+|+|+.|+||++.+.. ||+||+|+|++|+.-+
T Consensus 204 aTgG~Yl~ve~~eGllqyL~~~lf~d~~l----rp~~~---~pn~~svdFratCych~rvv~~-GfvCsVCLsvfc~p~~ 275 (296)
T COG5242 204 ATGGDYLTVEDTEGLLQYLLSLLFTDGEL----RPLGV---KPNHGSVDFRATCYCHNRVVLL-GFVCSVCLSVFCRPVP 275 (296)
T ss_pred ccCCeeEeecCchhHHHHHHHHhcCCCCc----ccccc---CCCcccccccceeEEeccEEEE-eeehhhhheeecCCcC
Confidence 99999999999877777666666555432 24444 3999999999999999999999 9999999999999999
Q ss_pred CCCCCCcee
Q 015282 305 DCRICGLQL 313 (410)
Q Consensus 305 ~C~~Cgl~L 313 (410)
.|+.|...+
T Consensus 276 ~C~~C~skF 284 (296)
T COG5242 276 VCKKCKSKF 284 (296)
T ss_pred cCccccccc
Confidence 999999887
No 11
>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=99.84 E-value=4.2e-22 Score=147.81 Aligned_cols=49 Identities=55% Similarity=1.338 Sum_probs=33.3
Q ss_pred ccccccccccCCCC--CCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 350 TCFGCQQSLLSSGN--KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 350 ~C~~C~~~~~~~~~--~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
+||||+++|+.++. ..+.+|+||+|+++||+|||+||||+|||||||++
T Consensus 1 ~CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~s 51 (51)
T PF07975_consen 1 YCFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCES 51 (51)
T ss_dssp EETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT--
T ss_pred CCccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCCC
Confidence 59999999987642 23579999999999999999999999999999974
No 12
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.81 E-value=6.2e-19 Score=165.01 Aligned_cols=145 Identities=13% Similarity=0.258 Sum_probs=135.7
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
|+++||.||||.+.+++++-.+...|..||.+.+|||++.+....+|+.+|.+..+++..|+.+ .+.|+..|..||..|
T Consensus 16 mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T~d~gkils~lh~i-~~~g~~~~~~~i~iA 94 (259)
T KOG2884|consen 16 MRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDRGKILSKLHGI-QPHGKANFMTGIQIA 94 (259)
T ss_pred hhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccchHHHHHhcCC-CcCCcccHHHHHHHH
Confidence 9999999999999999999999999999999999999999989999999999999999999985 889999999999999
Q ss_pred HHHHhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCe
Q 015282 164 QGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGS 229 (410)
Q Consensus 164 ~~~L~~~p~~~sr-eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~ 229 (410)
..+|||+++++.| +|++|+||+...+..++...++.+||++|.|++|.||.. ...|.+.-+.+||.
T Consensus 95 ~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~ 164 (259)
T KOG2884|consen 95 QLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGK 164 (259)
T ss_pred HHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCC
Confidence 9999999887765 799999999998888999999999999999999999964 36788888889884
No 13
>PRK13685 hypothetical protein; Provisional
Probab=99.74 E-value=9.7e-17 Score=160.66 Aligned_cols=159 Identities=16% Similarity=0.211 Sum_probs=130.8
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
|...|..|+||+.++..+..|++. .+|.+++|+|+|. +.++.+.|+|.|.+.+...|..+ .+.|.|+++.+|..|
T Consensus 101 M~~~D~~p~RL~~ak~~~~~~l~~---l~~~d~vglv~Fa-~~a~~~~p~t~d~~~l~~~l~~l-~~~~~T~~g~al~~A 175 (326)
T PRK13685 101 MRATDVEPNRLAAAQEAAKQFADE---LTPGINLGLIAFA-GTATVLVSPTTNREATKNAIDKL-QLADRTATGEAIFTA 175 (326)
T ss_pred ccCCCCCCCHHHHHHHHHHHHHHh---CCCCCeEEEEEEc-CceeecCCCCCCHHHHHHHHHhC-CCCCCcchHHHHHHH
Confidence 999999999999999999999985 3688999999996 77999999999999999999875 677889999999999
Q ss_pred HHHHhCC----C--CCCCceEEEEEeCCCCCC------cccHHHHHHHHHHcCeEEEEEEcchh----------------
Q 015282 164 QGLLSQI----P--SYGHREVLILYSALSTCD------PGDIMETIQKCKESKIRCSVIGLSAE---------------- 215 (410)
Q Consensus 164 ~~~L~~~----p--~~~sreILVi~~S~~t~D------pgdI~~ti~~akk~~IrV~vIgL~aE---------------- 215 (410)
+..+... . ....+..||+++...... +....++++.+++.+|+|++||+|.+
T Consensus 176 ~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~~~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d 255 (326)
T PRK13685 176 LQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNPRGAYTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVD 255 (326)
T ss_pred HHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCcccHHHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCC
Confidence 9988742 1 111234556666333221 12345788999999999999999973
Q ss_pred HHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 216 MFICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 216 ~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
...|++||+.|||.|+.+.|.+.|.+++.++-
T Consensus 256 ~~~L~~iA~~tgG~~~~~~~~~~L~~if~~I~ 287 (326)
T PRK13685 256 DESLKKIAQLSGGEFYTAASLEELRAVYATLQ 287 (326)
T ss_pred HHHHHHHHHhcCCEEEEcCCHHHHHHHHHHHH
Confidence 47899999999999999999999999988874
No 14
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=6.3e-16 Score=142.29 Aligned_cols=144 Identities=17% Similarity=0.258 Sum_probs=133.5
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
|.++||.||||.+.+++++-.+...|+.||.+.+|||...+.....|+++|.+..+++..|+.+ ...|+..+..+|+.|
T Consensus 16 s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vlsT~T~~~gkilt~lhd~-~~~g~a~~~~~lqia 94 (243)
T COG5148 16 SQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLSTPTKQRGKILTFLHDI-RLHGGADIMRCLQIA 94 (243)
T ss_pred hhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhccchhhhhHHHHHhccc-cccCcchHHHHHHHH
Confidence 8999999999999999999999999999999999999999999999999999999999999985 667889999999999
Q ss_pred HHHHhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhhCC
Q 015282 164 QGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGG 228 (410)
Q Consensus 164 ~~~L~~~p~~~sr-eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~TgG 228 (410)
...|+|+.+++.| +|++|+||+-..+..++...++.+||+||.|++|.+|. ++..|.+.-+.||-
T Consensus 95 ql~lkhR~nk~q~qriVaFvgSpi~esedeLirlak~lkknnVAidii~fGE~~n~~~l~efIda~N~ 162 (243)
T COG5148 95 QLILKHRDNKGQRQRIVAFVGSPIQESEDELIRLAKQLKKNNVAIDIIFFGEAANMAGLFEFIDATNF 162 (243)
T ss_pred HHHHhcccCCccceEEEEEecCcccccHHHHHHHHHHHHhcCeeEEEEehhhhhhhhHHHHHHHhhcc
Confidence 9999999887754 79999999999888899999999999999999999984 46788888888886
No 15
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.60 E-value=4e-14 Score=124.65 Aligned_cols=154 Identities=19% Similarity=0.284 Sum_probs=124.3
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNAL 160 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~---~~~G~~SLqnaL 160 (410)
|...|..++|+..++.++..|++.+ |.+++||+.|.+ .+..+.++|.|+..+.+.|.++. .+.|.+.+..||
T Consensus 12 M~~~~~~~~~~~~~~~~~~~~~~~~----~~~~v~l~~f~~-~~~~~~~~t~~~~~~~~~l~~~~~~~~~~~~t~~~~al 86 (172)
T PF13519_consen 12 MNGYDGNRTRIDQAKDALNELLANL----PGDRVGLVSFSD-SSRTLSPLTSDKDELKNALNKLSPQGMPGGGTNLYDAL 86 (172)
T ss_dssp GGTTTSSS-HHHHHHHHHHHHHHHH----TTSEEEEEEEST-SCEEEEEEESSHHHHHHHHHTHHHHG--SSS--HHHHH
T ss_pred cCCCCCCCcHHHHHHHHHHHHHHHC----CCCEEEEEEecc-cccccccccccHHHHHHHhhcccccccCccCCcHHHHH
Confidence 7777778999999999999999874 788999999974 57899999999999999998764 357889999999
Q ss_pred HHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH---HHHHHHHHhhCCeeEEe-CCH
Q 015282 161 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---FICKHLCQDTGGSYSVA-LDE 236 (410)
Q Consensus 161 ~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~---~iLk~la~~TgG~Y~va-~d~ 236 (410)
..|...|...+ ..+++||+++... +..+..++++.+++.+|+|++|+++... ..|+++|+.|||.|+.+ .+.
T Consensus 87 ~~a~~~~~~~~--~~~~~iv~iTDG~--~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~~~~ 162 (172)
T PF13519_consen 87 QEAAKMLASSD--NRRRAIVLITDGE--DNSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVDNDP 162 (172)
T ss_dssp HHHHHHHHC-S--SEEEEEEEEES-T--THCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-SSS
T ss_pred HHHHHHHHhCC--CCceEEEEecCCC--CCcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEecCCH
Confidence 99999999864 4566777777432 2245557899999999999999999874 58999999999999999 688
Q ss_pred HHHHHHHHhc
Q 015282 237 SHFKELIMEH 246 (410)
Q Consensus 237 ~hl~~lL~~~ 246 (410)
+.|.++|.+|
T Consensus 163 ~~l~~~~~~I 172 (172)
T PF13519_consen 163 EDLDDAFQQI 172 (172)
T ss_dssp HHHHHHHHH-
T ss_pred HHHHHHHhcC
Confidence 9999998764
No 16
>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=99.60 E-value=4e-14 Score=132.23 Aligned_cols=149 Identities=16% Similarity=0.113 Sum_probs=113.6
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCH---------HHHHHHHhhhc-CCCC-cchHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP---------ESHIKALMGKL-GCSG-DSSLQNA 159 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~---------~~~i~~L~~~~-~~~G-~~SLqna 159 (410)
.+||++++..++.|+ +|-++++.++||+ .|.+..+.+++.++ +.+.+.|.... ...| .|+ .|
T Consensus 24 ~~RL~a~k~v~~~f~-~f~~~r~~DriG~----~g~~~~~~~lt~d~p~t~d~~~~~~l~~~l~~~q~g~ag~~Ta--dA 96 (191)
T cd01455 24 DRSLEAVVMVMEAFD-GFEDKIQYDIIGH----SGDGPCVPFVKTNHPPKNNKERLETLKMMHAHSQFCWSGDHTV--EA 96 (191)
T ss_pred ccHHHHHHHHHHHHH-HHHHhCccceeee----cCcccccCccccccCcccchhHHHHHHHHHHhcccCccCccHH--HH
Confidence 599999999999996 3567899999994 46666676666555 34444444321 2334 355 99
Q ss_pred HHHHHHHHh-CCCCCCCceEEEEEeCCCCCCc-ccHHH-HHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCeeEEeCC
Q 015282 160 LDLVQGLLS-QIPSYGHREVLILYSALSTCDP-GDIME-TIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALD 235 (410)
Q Consensus 160 L~~A~~~L~-~~p~~~sreILVi~~S~~t~Dp-gdI~~-ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y~va~d 235 (410)
|.+|++.|+ ..+ ...+|||+++....+.. .+..+ ++..+++.||+||+|++|. ....|+.+++.|||.||++.|
T Consensus 97 i~~av~rl~~~~~--a~~kvvILLTDG~n~~~~i~P~~aAa~lA~~~gV~iytIgiG~~d~~~l~~iA~~tgG~~F~A~d 174 (191)
T cd01455 97 TEFAIKELAAKED--FDEAIVIVLSDANLERYGIQPKKLADALAREPNVNAFVIFIGSLSDEADQLQRELPAGKAFVCMD 174 (191)
T ss_pred HHHHHHHHHhcCc--CCCcEEEEEeCCCcCCCCCChHHHHHHHHHhCCCEEEEEEecCCCHHHHHHHHhCCCCcEEEeCC
Confidence 999999998 754 34579999884443222 24446 4789999999999999997 568899999999999999999
Q ss_pred HHHHHHHHHhcCC
Q 015282 236 ESHFKELIMEHAP 248 (410)
Q Consensus 236 ~~hl~~lL~~~~~ 248 (410)
.+.|.++|.++++
T Consensus 175 ~~~L~~iy~~I~~ 187 (191)
T cd01455 175 TSELPHIMQQIFT 187 (191)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998874
No 17
>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=99.58 E-value=1e-13 Score=125.40 Aligned_cols=148 Identities=22% Similarity=0.249 Sum_probs=118.0
Q ss_pred HhcCCC-CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHH
Q 015282 84 AAEMDF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNAL 160 (410)
Q Consensus 84 M~~~D~-~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~--~~~G~~SLqnaL 160 (410)
|...|+ .++|+..++..+..|+. +.|.+++|||+|. +.++.+.+++.+...+.+.|..+. ...|.+++..||
T Consensus 15 M~~~~~~~~~r~~~a~~~~~~~~~----~~~~~~v~lv~f~-~~~~~~~~~~~~~~~~~~~l~~l~~~~~~g~T~l~~al 89 (180)
T cd01467 15 MLAQDFVKPSRLEAAKEVLSDFID----RRENDRIGLVVFA-GAAFTQAPLTLDRESLKELLEDIKIGLAGQGTAIGDAI 89 (180)
T ss_pred cccccCCCCCHHHHHHHHHHHHHH----hCCCCeEEEEEEc-CCeeeccCCCccHHHHHHHHHHhhhcccCCCCcHHHHH
Confidence 777777 68999999888887775 5689999999995 667889999999887777776543 357789999999
Q ss_pred HHHHHHHhCCCCCCCceEEEEEeCCCCC-CcccHHHHHHHHHHcCeEEEEEEcch-------------hHHHHHHHHHhh
Q 015282 161 DLVQGLLSQIPSYGHREVLILYSALSTC-DPGDIMETIQKCKESKIRCSVIGLSA-------------EMFICKHLCQDT 226 (410)
Q Consensus 161 ~~A~~~L~~~p~~~sreILVi~~S~~t~-DpgdI~~ti~~akk~~IrV~vIgL~a-------------E~~iLk~la~~T 226 (410)
..|...|...+ ..+.+|||++..... .+.+..++++.+++.+|+|++|+++. +...|++||+.|
T Consensus 90 ~~a~~~l~~~~--~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~t 167 (180)
T cd01467 90 GLAIKRLKNSE--AKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKT 167 (180)
T ss_pred HHHHHHHHhcC--CCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhc
Confidence 99999997653 345678888744332 23345567788888999999999997 467999999999
Q ss_pred CCeeEEeCCHHH
Q 015282 227 GGSYSVALDESH 238 (410)
Q Consensus 227 gG~Y~va~d~~h 238 (410)
||.|+.+.|+..
T Consensus 168 gG~~~~~~~~~~ 179 (180)
T cd01467 168 GGRIFRALDGFE 179 (180)
T ss_pred CCEEEEecCccc
Confidence 999999988753
No 18
>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=99.46 E-value=1.6e-12 Score=127.77 Aligned_cols=153 Identities=16% Similarity=0.176 Sum_probs=119.5
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcC--------------CCCcchHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG--------------CSGDSSLQ 157 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~--------------~~G~~SLq 157 (410)
.++..+++++..|++..+ +|.+++|||.|. +.+..+.++|.|+..+.++|.++.. +.|.+.|.
T Consensus 68 ~~~~~a~~a~~~~l~~~l--~~~d~v~lv~f~-~~~~~~~~~t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~ 144 (296)
T TIGR03436 68 NDLDRARAAAIRFLKTVL--RPNDRVFVVTFN-TRLRLLQDFTSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALY 144 (296)
T ss_pred HHHHHHHHHHHHHHHhhC--CCCCEEEEEEeC-CceeEeecCCCCHHHHHHHHHhccCCCccccccccccccCCCcchhH
Confidence 468888999999998753 689999999995 6789999999999999999987532 17889999
Q ss_pred HHHHHHHH-HHhCCC-CCCCceEEEEEeCCCC-CCcccHHHHHHHHHHcCeEEEEEEcch---------------hHHHH
Q 015282 158 NALDLVQG-LLSQIP-SYGHREVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLSA---------------EMFIC 219 (410)
Q Consensus 158 naL~~A~~-~L~~~p-~~~sreILVi~~S~~t-~DpgdI~~ti~~akk~~IrV~vIgL~a---------------E~~iL 219 (410)
+||.+|.. .+.... ....|++||+++.... ....++.++++.+++.+|.|++|+++. ....|
T Consensus 145 ~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L 224 (296)
T TIGR03436 145 DAITLAALEQLANALAGIPGRKALIVISDGGDNRSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEAL 224 (296)
T ss_pred HHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcchHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHH
Confidence 99987754 443321 1113567777774433 334567789999999999999999973 35789
Q ss_pred HHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 220 KHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 220 k~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
++||+.|||.|+.+ |.+.|.+.+..+..
T Consensus 225 ~~iA~~TGG~~~~~-~~~~l~~~f~~i~~ 252 (296)
T TIGR03436 225 ERLAEETGGRAFYV-NSNDLDGAFAQIAE 252 (296)
T ss_pred HHHHHHhCCeEecc-cCccHHHHHHHHHH
Confidence 99999999999998 88888877777663
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=99.42 E-value=9.1e-12 Score=113.81 Aligned_cols=144 Identities=22% Similarity=0.254 Sum_probs=113.4
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHH-hCC
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLL-SQI 170 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L-~~~ 170 (410)
+|+..++.++..|+... .++.+++|||+|.++.++.+.|++.+...+.+.|..+ .+.|.|.|..||..|...| ...
T Consensus 17 ~rl~~ak~a~~~~~~~~--~~~~d~v~lv~F~~~~~~~~~~~t~~~~~~~~~l~~l-~~~G~T~l~~aL~~a~~~l~~~~ 93 (178)
T cd01451 17 HRMAAAKGAVLSLLRDA--YQRRDKVALIAFRGTEAEVLLPPTRSVELAKRRLARL-PTGGGTPLAAGLLAAYELAAEQA 93 (178)
T ss_pred cHHHHHHHHHHHHHHHh--hcCCCEEEEEEECCCCceEEeCCCCCHHHHHHHHHhC-CCCCCCcHHHHHHHHHHHHHHHh
Confidence 69999999999998654 3578999999997666888999999988887877764 5678899999999999998 332
Q ss_pred CCCCCceEEEEEeCCCCC---Ccc-cH-HHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeCCHHH
Q 015282 171 PSYGHREVLILYSALSTC---DPG-DI-METIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDESH 238 (410)
Q Consensus 171 p~~~sreILVi~~S~~t~---Dpg-dI-~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~d~~h 238 (410)
+..+.+.+|||++..... +|. .. .+.++.+++.+|.|.+|+++.. ...|++||+.|||.|+.+.|.++
T Consensus 94 ~~~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~~ 169 (178)
T cd01451 94 RDPGQRPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLSA 169 (178)
T ss_pred cCCCCceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCCH
Confidence 223345677777744433 222 12 4668899999999999999864 57999999999999999987754
No 20
>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=99.37 E-value=3.7e-11 Score=107.11 Aligned_cols=146 Identities=12% Similarity=0.169 Sum_probs=109.2
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC--CHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCC
Q 015282 93 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 93 Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg--n~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
++..++.++..++.. .+|.+++|||+|. +.+..+.+++. +...+.+.|.+. .+.|.+.+..||..|+..+...
T Consensus 17 ~~~~~k~a~~~~~~~---l~~~~~v~li~f~-~~~~~~~~~~~~~~~~~l~~~l~~~-~~~g~T~~~~al~~a~~~~~~~ 91 (170)
T cd01465 17 KLPLVKSALKLLVDQ---LRPDDRLAIVTYD-GAAETVLPATPVRDKAAILAAIDRL-TAGGSTAGGAGIQLGYQEAQKH 91 (170)
T ss_pred hHHHHHHHHHHHHHh---CCCCCEEEEEEec-CCccEEecCcccchHHHHHHHHHcC-CCCCCCCHHHHHHHHHHHHHhh
Confidence 577788888888874 4788999999996 56778877753 566666666653 5678899999999999999764
Q ss_pred CCCCCceEEEEEeCCCC-CCc---ccHHHHHHHHHHcCeEEEEEEcchh--HHHHHHHHHhhCCeeEEeCCHHHHHHHH
Q 015282 171 PSYGHREVLILYSALST-CDP---GDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKELI 243 (410)
Q Consensus 171 p~~~sreILVi~~S~~t-~Dp---gdI~~ti~~akk~~IrV~vIgL~aE--~~iLk~la~~TgG~Y~va~d~~hl~~lL 243 (410)
......+.|||++.... .++ .++.+.+..+++.+|+|++|++|.. ...|+++|+.++|.|+.+.|.+.+.+++
T Consensus 92 ~~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~~~~~ 170 (170)
T cd01465 92 FVPGGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIADAGNGNTAYIDNLAEARKVF 170 (170)
T ss_pred cCCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHhcCCceEEEeCCHHHHHhhC
Confidence 32222245566664432 333 2344566777889999999999964 5899999999999999999998887753
No 21
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=99.36 E-value=1.7e-11 Score=109.70 Aligned_cols=133 Identities=17% Similarity=0.267 Sum_probs=98.8
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC----CHHHHHHHHhhhcCCCCcchHHHHHHHHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKLGCSGDSSLQNALDLVQGLL 167 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg----n~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L 167 (410)
+|+..++.++..+++. .++.+++|||+|. +.++.+.|++. +...+.+.|.. ..+.|.|++..||..|...+
T Consensus 16 ~rl~~ak~a~~~l~~~---l~~~~~~~li~F~-~~~~~~~~~~~~~~~~~~~~~~~i~~-~~~~g~T~~~~al~~a~~~~ 90 (155)
T cd01466 16 DKLQLVKHALRFVISS---LGDADRLSIVTFS-TSAKRLSPLRRMTAKGKRSAKRVVDG-LQAGGGTNVVGGLKKALKVL 90 (155)
T ss_pred HHHHHHHHHHHHHHHh---CCCcceEEEEEec-CCccccCCCcccCHHHHHHHHHHHHh-ccCCCCccHHHHHHHHHHHH
Confidence 4888888888877764 3567899999996 56888888863 23444455554 36788999999999999999
Q ss_pred hCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc--hhHHHHHHHHHhhCCeeEEe
Q 015282 168 SQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--AEMFICKHLCQDTGGSYSVA 233 (410)
Q Consensus 168 ~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~--aE~~iLk~la~~TgG~Y~va 233 (410)
......+...+||+++.....+ + .....+++.+|+|++|++| .....|++||..|||.|+.+
T Consensus 91 ~~~~~~~~~~~iillTDG~~~~-~---~~~~~~~~~~v~v~~igig~~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 91 GDRRQKNPVASIMLLSDGQDNH-G---AVVLRADNAPIPIHTFGLGASHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred hhcccCCCceEEEEEcCCCCCc-c---hhhhcccCCCceEEEEecCCCCCHHHHHHHHhccCceEEEe
Confidence 7643333345777777443322 2 3344566789999999999 56789999999999999976
No 22
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=99.35 E-value=2.7e-11 Score=113.02 Aligned_cols=140 Identities=19% Similarity=0.197 Sum_probs=99.9
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCe-----eEEee---cCC--------CCHHHHHHHHhhhcCCCCc
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV-----ANCLT---DLG--------GSPESHIKALMGKLGCSGD 153 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~-----Ae~ls---~lt--------gn~~~~i~~L~~~~~~~G~ 153 (410)
.++||..++..+..|++. .+|.+++|||+|.+.. ...+. +++ .+...+.+.|..+..+.|.
T Consensus 40 ~~~rl~~ak~a~~~~l~~---l~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~i~~i~~~~G~ 116 (206)
T cd01456 40 GETRLDNAKAALDETANA---LPDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQTPTGW 116 (206)
T ss_pred cchHHHHHHHHHHHHHHh---CCCCceEEEEEecCCCCCCccccccccccccccccCCCCcccHHHHHHHHHhhcCCCCc
Confidence 578999999999999986 4678999999997521 12222 222 3566677777665327889
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHH-----cCeEEEEEEcchh--HHHHHHHHHhh
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSVIGLSAE--MFICKHLCQDT 226 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk-----~~IrV~vIgL~aE--~~iLk~la~~T 226 (410)
+.|..||+.|...|. + +....|||++.....+..+..+.+..+.+ .+|+|++|+||.+ ...|++||+.|
T Consensus 117 T~l~~aL~~a~~~l~--~--~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~iA~~t 192 (206)
T cd01456 117 TPLAAALAEAAAYVD--P--GRVNVVVLITDGEDTCGPDPCEVARELAKRRTPAPPIKVNVIDFGGDADRAELEAIAEAT 192 (206)
T ss_pred ChHHHHHHHHHHHhC--C--CCcceEEEEcCCCccCCCCHHHHHHHHHHhcCCCCCceEEEEEecCcccHHHHHHHHHhc
Confidence 999999999999996 2 23145555553333333355555555554 4999999999986 68999999999
Q ss_pred CCee-EEeCCH
Q 015282 227 GGSY-SVALDE 236 (410)
Q Consensus 227 gG~Y-~va~d~ 236 (410)
||.| +.+.|.
T Consensus 193 gG~~~~~~~~~ 203 (206)
T cd01456 193 GGTYAYNQSDL 203 (206)
T ss_pred CCeEecccccc
Confidence 9999 665553
No 23
>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=99.33 E-value=1.1e-10 Score=103.06 Aligned_cols=148 Identities=26% Similarity=0.302 Sum_probs=121.8
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecC--CCCHHHHHHHHhhhcC-CCCcchHHHHHHHHHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPESHIKALMGKLG-CSGDSSLQNALDLVQGLL 167 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~l--tgn~~~~i~~L~~~~~-~~G~~SLqnaL~~A~~~L 167 (410)
++++..++..+..|+..+..+++..++||++|.+ ......++ +.+...+...+..+.- ..|.+++..||..|...+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~al~~~~~~~ 94 (177)
T smart00327 16 PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSD-DATVLFPLNDSRSKDALLEALASLSYKLGGGTNLGAALQYALENL 94 (177)
T ss_pred hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCC-CceEEEcccccCCHHHHHHHHHhcCCCCCCCchHHHHHHHHHHHh
Confidence 6799999999999999999999999999999975 56777777 7888888888887532 578899999999999998
Q ss_pred hCCC---CCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 015282 168 SQIP---SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFKE 241 (410)
Q Consensus 168 ~~~p---~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~TgG~Y~va~d~~hl~~ 241 (410)
.... ....+++|||++.....++.++.+.++.+++.+|.|++|+++. ....+++++..++|.|.. +..++..
T Consensus 95 ~~~~~~~~~~~~~~iviitDg~~~~~~~~~~~~~~~~~~~i~i~~i~~~~~~~~~~l~~~~~~~~~~~~~--~~~~~~~ 171 (177)
T smart00327 95 FSKSAGSRRGAPKVLILITDGESNDGGDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLASAPGGVYVF--LPELFDL 171 (177)
T ss_pred cCcCCCCCCCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCCEEEEEEccCccCHHHHHHHhCCCcceEEe--cHHHhhh
Confidence 6321 2223678888886655665688899999999999999999998 579999999999999987 4444443
No 24
>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=99.33 E-value=5.1e-11 Score=109.75 Aligned_cols=154 Identities=12% Similarity=0.094 Sum_probs=118.8
Q ss_pred CCHHHHHHHHHHHHHHhhhcC------CCCCceEEEEeeCCeeEEeecCC---CCHHHHHHHHhhhcCCCCcchHHHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQ------NPLSQIGLVTVKDGVANCLTDLG---GSPESHIKALMGKLGCSGDSSLQNALD 161 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdq------NPisqlGII~~~~g~Ae~ls~lt---gn~~~~i~~L~~~~~~~G~~SLqnaL~ 161 (410)
+++++.++..++.|++.+..+ +...++|||.|. ..+....+++ .|...+.++|.++....|.+.++.||.
T Consensus 17 ~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~~l~~~i~~l~~~gg~T~~~~AL~ 95 (186)
T cd01480 17 LQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYS-DQQEVEAGFLRDIRNYTSLKEAVDNLEYIGGGTFTDCALK 95 (186)
T ss_pred hhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEec-CCceeeEecccccCCHHHHHHHHHhCccCCCCccHHHHHH
Confidence 456777777788888777542 556899999996 6788889998 688889999987643468899999999
Q ss_pred HHHHHHhCCCCCCCceEEEEEeCCCCC--CcccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCeeEEeCCHHH
Q 015282 162 LVQGLLSQIPSYGHREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESH 238 (410)
Q Consensus 162 ~A~~~L~~~p~~~sreILVi~~S~~t~--DpgdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y~va~d~~h 238 (410)
.|...+...+....+++|||++...+. +..++.+++..+++.||+|++|++|. ....|++||...+|.|++. .
T Consensus 96 ~a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~~~~~~~~~~----~ 171 (186)
T cd01480 96 YATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIACDGKSALYRE----N 171 (186)
T ss_pred HHHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHcCCcchhhhc----c
Confidence 999999863334556788888755432 23467788999999999999999986 4467999999999987776 4
Q ss_pred HHHHHHhcCCC
Q 015282 239 FKELIMEHAPP 249 (410)
Q Consensus 239 l~~lL~~~~~P 249 (410)
|.++++.++.-
T Consensus 172 ~~~l~~~~~~~ 182 (186)
T cd01480 172 FAELLWSFFID 182 (186)
T ss_pred hhhhccccccc
Confidence 66666666543
No 25
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=99.31 E-value=7.6e-11 Score=130.82 Aligned_cols=149 Identities=19% Similarity=0.186 Sum_probs=109.1
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC-CHHHHHHHHhhhc--CCCCcchHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-SPESHIKALMGKL--GCSGDSSLQNAL 160 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg-n~~~~i~~L~~~~--~~~G~~SLqnaL 160 (410)
|... +||..++.+++.|+... .+|.++||||+|. +.|+.+.+|+. +.....++|...+ ...|.|+|..||
T Consensus 317 M~g~----dRL~~lkqAA~~fL~~~--l~~~DrVGLVtFs-ssA~vl~pLt~Its~~dr~aL~~~L~~~A~GGT~I~~GL 389 (863)
T TIGR00868 317 MTVE----DRLKRMNQAAKLFLLQT--VEKGSWVGMVTFD-SAAYIKNELIQITSSAERDALTANLPTAASGGTSICSGL 389 (863)
T ss_pred cccc----CHHHHHHHHHHHHHHHh--CCCCCEEEEEEEC-CceeEeeccccCCcHHHHHHHHHhhccccCCCCcHHHHH
Confidence 6544 49999999999999876 4578999999995 77888888863 1112233333222 367889999999
Q ss_pred HHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHHhhCCeeEEeCCHHHH
Q 015282 161 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGSYSVALDESHF 239 (410)
Q Consensus 161 ~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~~TgG~Y~va~d~~hl 239 (410)
.+|+..|.+.........|||++..... ++..++..+++.+|+|++|++|.. -..|++||+.|||.|+.+.|...+
T Consensus 390 ~~Alq~L~~~~~~~~~~~IILLTDGedn---~~~~~l~~lk~~gVtI~TIg~G~dad~~L~~IA~~TGG~~f~asd~~dl 466 (863)
T TIGR00868 390 KAAFQVIKKSYQSTDGSEIVLLTDGEDN---TISSCFEEVKQSGAIIHTIALGPSAAKELEELSDMTGGLRFYASDQADN 466 (863)
T ss_pred HHHHHHHHhcccccCCCEEEEEeCCCCC---CHHHHHHHHHHcCCEEEEEEeCCChHHHHHHHHHhcCCEEEEeCCHHHH
Confidence 9999999976432333466666633222 345778889999999999999964 356899999999999999887644
Q ss_pred HHH
Q 015282 240 KEL 242 (410)
Q Consensus 240 ~~l 242 (410)
..|
T Consensus 467 ~~L 469 (863)
T TIGR00868 467 NGL 469 (863)
T ss_pred HHH
Confidence 333
No 26
>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=99.31 E-value=1.1e-10 Score=104.06 Aligned_cols=146 Identities=12% Similarity=0.259 Sum_probs=107.7
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecC--CCCHH---HHHHHHhhhcCCCCcchHHHHHHHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPE---SHIKALMGKLGCSGDSSLQNALDLVQG 165 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~l--tgn~~---~~i~~L~~~~~~~G~~SLqnaL~~A~~ 165 (410)
..+++.+++++..|+.. .++.++++|++|.+ .+..+.+. ..+.. ..++.|... .+.|.+.|..||..|..
T Consensus 17 ~~~~~~~~~al~~~l~~---l~~~~~~~l~~Fs~-~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~g~T~l~~al~~a~~ 91 (171)
T cd01461 17 GTKIEQTKEALLTALKD---LPPGDYFNIIGFSD-TVEEFSPSSVSATAENVAAAIEYVNRL-QALGGTNMNDALEAALE 91 (171)
T ss_pred ChhHHHHHHHHHHHHHh---CCCCCEEEEEEeCC-CceeecCcceeCCHHHHHHHHHHHHhc-CCCCCcCHHHHHHHHHH
Confidence 45788888888888875 45677999999964 45655543 22322 233333332 56788999999999999
Q ss_pred HHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhhCCeeEEeCCHHHHHHHH
Q 015282 166 LLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFKELI 243 (410)
Q Consensus 166 ~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~TgG~Y~va~d~~hl~~lL 243 (410)
.+... ...+.+||+++.....++..+.++++.+.+.+|+|++|++|. ....|+++|+.|||.|+.+.|.+.+.+-+
T Consensus 92 ~l~~~--~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia~~~gG~~~~~~~~~~~~~~~ 169 (171)
T cd01461 92 LLNSS--PGSVPQIILLTDGEVTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAREGRGIARRIYETDDIESQL 169 (171)
T ss_pred hhccC--CCCccEEEEEeCCCCCCHHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHHcCCCeEEEecChHHHHHHh
Confidence 99763 234567777775554555566677777777899999999995 46899999999999999999998876644
No 27
>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=99.30 E-value=1.5e-10 Score=103.80 Aligned_cols=142 Identities=18% Similarity=0.166 Sum_probs=113.3
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHH
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLL 167 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L 167 (410)
.+.++..+++.+..+++.|...+...++|||+|. +.+..+.+++ .|...+.+.|..+.-..|.+++..||..|...|
T Consensus 14 ~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs-~~~~~~~~~~~~~~~~~~~~~l~~l~~~~g~T~~~~al~~a~~~l 92 (164)
T cd01472 14 GLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYS-DDPRTEFYLNTYRSKDDVLEAVKNLRYIGGGTNTGKALKYVRENL 92 (164)
T ss_pred CHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEc-CceeEEEecCCCCCHHHHHHHHHhCcCCCCCchHHHHHHHHHHHh
Confidence 4467888888888888887656677899999996 7789999999 888999888887533367799999999999999
Q ss_pred hCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCeeEEeC
Q 015282 168 SQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVAL 234 (410)
Q Consensus 168 ~~~---p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y~va~ 234 (410)
... +....++++|+++.....+ +....+..+++.+|+|++||++. ....|++||..++|.|.-.+
T Consensus 93 ~~~~~~~~~~~~~~iiliTDG~~~~--~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~~~~~~~~~~~ 161 (164)
T cd01472 93 FTEASGSREGVPKVLVVITDGKSQD--DVEEPAVELKQAGIEVFAVGVKNADEEELKQIASDPKELYVFNV 161 (164)
T ss_pred CCcccCCCCCCCEEEEEEcCCCCCc--hHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHCCCchheEEec
Confidence 863 2344567888887443322 44566778889999999999997 78999999999999887654
No 28
>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=99.28 E-value=1.6e-10 Score=100.97 Aligned_cols=138 Identities=18% Similarity=0.170 Sum_probs=113.3
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCC--HHHHHHHHhhhcCCC-CcchHHHHHHHHHHHHh
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKALMGKLGCS-GDSSLQNALDLVQGLLS 168 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn--~~~~i~~L~~~~~~~-G~~SLqnaL~~A~~~L~ 168 (410)
.++..++..+..|+..+...++..++|||+|.+ .+....+++.+ ..++.+.|....... |.+++..||+.|...+.
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~t~~~~al~~a~~~~~ 94 (161)
T cd01450 16 ENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYSD-DVRVEFSLNDYKSKDDLLKAVKNLKYLGGGGTNTGKALQYALEQLF 94 (161)
T ss_pred HHHHHHHHHHHHHHHheeeCCCceEEEEEEEcC-CceEEEECCCCCCHHHHHHHHHhcccCCCCCccHHHHHHHHHHHhc
Confidence 477788889999999888888999999999964 57788888776 778888887654333 38999999999999998
Q ss_pred CCC--CCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCee
Q 015282 169 QIP--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSY 230 (410)
Q Consensus 169 ~~p--~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y 230 (410)
..+ ....+.+||+++.....++.++.++++.+++.+|+|++|+++. ....|++++..||+.|
T Consensus 95 ~~~~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~~~~~~ 159 (161)
T cd01450 95 SESNARENVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIASCPSERH 159 (161)
T ss_pred ccccccCCCCeEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCCCCCCc
Confidence 764 2456678888886655565578899999999999999999997 7789999999995544
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=99.28 E-value=1.9e-10 Score=106.54 Aligned_cols=154 Identities=12% Similarity=0.168 Sum_probs=111.4
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC----CCHHHHHHHHhhhc----CCCCcchHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG----GSPESHIKALMGKL----GCSGDSSLQNAL 160 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt----gn~~~~i~~L~~~~----~~~G~~SLqnaL 160 (410)
+.++||..++..+..|++.+-..++..++|||+|. +.+..+.|++ .+...++++|..+. ...|.|.+..||
T Consensus 13 M~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ggT~~~~Al 91 (198)
T cd01470 13 IGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYA-SDPKEIVSIRDFNSNDADDVIKRLEDFNYDDHGDKTGTNTAAAL 91 (198)
T ss_pred ccHHHHHHHHHHHHHHHHHccccCCCceEEEEEec-CCceEEEecccCCCCCHHHHHHHHHhCCcccccCccchhHHHHH
Confidence 45678999999999999876444568999999996 5577777664 45677888887642 134779999999
Q ss_pred HHHHHHHhCC---CC---CCCceEEEEEeCCCCCC---cccHHHHHHHH----------HHcCeEEEEEEcchh--HHHH
Q 015282 161 DLVQGLLSQI---PS---YGHREVLILYSALSTCD---PGDIMETIQKC----------KESKIRCSVIGLSAE--MFIC 219 (410)
Q Consensus 161 ~~A~~~L~~~---p~---~~sreILVi~~S~~t~D---pgdI~~ti~~a----------kk~~IrV~vIgL~aE--~~iL 219 (410)
.+|...|... +. ...+.+|||++.....+ |....+.++.+ ++.+|+|++||+|.. ...|
T Consensus 92 ~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L 171 (198)
T cd01470 92 KKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGDDVNKEEL 171 (198)
T ss_pred HHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHHHHHhcccccccchhcceeEEEEecCcccCHHHH
Confidence 9998877321 11 12356788887554443 32233334333 455899999999864 6899
Q ss_pred HHHHHhhCC--eeEEeCCHHHHHHHH
Q 015282 220 KHLCQDTGG--SYSVALDESHFKELI 243 (410)
Q Consensus 220 k~la~~TgG--~Y~va~d~~hl~~lL 243 (410)
++||..||| .||.+.|.+.|+++|
T Consensus 172 ~~iA~~~~g~~~~f~~~~~~~l~~v~ 197 (198)
T cd01470 172 NDLASKKDNERHFFKLKDYEDLQEVF 197 (198)
T ss_pred HHHhcCCCCCceEEEeCCHHHHHHhc
Confidence 999999999 578888989888876
No 30
>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=99.25 E-value=3.4e-10 Score=103.61 Aligned_cols=152 Identities=14% Similarity=0.113 Sum_probs=116.9
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC--CHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGCSGDSSLQNALDLVQGL 166 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg--n~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~ 166 (410)
+.|.++..++..++.||..+....+..|+|||.+. +.+....+|+. +...+++++..+....|.+.++.||+.|...
T Consensus 13 ~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs-~~~~~~~~l~~~~~~~~~~~~i~~~~~~~g~T~~~~AL~~a~~~ 91 (177)
T cd01469 13 IYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYS-ESFRTEFTLNEYRTKEEPLSLVKHISQLLGLTNTATAIQYVVTE 91 (177)
T ss_pred CCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEEC-CceeEEEecCccCCHHHHHHHHHhCccCCCCccHHHHHHHHHHH
Confidence 45778999999999999988776778999999996 66788888863 4456677776654456779999999999998
Q ss_pred HhCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh------HHHHHHHHHhhCC-eeEEeCCH
Q 015282 167 LSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKHLCQDTGG-SYSVALDE 236 (410)
Q Consensus 167 L~~~---p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE------~~iLk~la~~TgG-~Y~va~d~ 236 (410)
|... .....++|+|+++...+.++.....+++.||+.||.|++||+|.. ...|+.||..+++ .||...|.
T Consensus 92 l~~~~~g~R~~~~kv~illTDG~~~~~~~~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~ 171 (177)
T cd01469 92 LFSESNGARKDATKVLVVITDGESHDDPLLKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDF 171 (177)
T ss_pred hcCcccCCCCCCCeEEEEEeCCCCCCccccHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCH
Confidence 7432 113456789998866666655556778999999999999999975 4789999999886 45566676
Q ss_pred HHHHH
Q 015282 237 SHFKE 241 (410)
Q Consensus 237 ~hl~~ 241 (410)
+.|+.
T Consensus 172 ~~l~~ 176 (177)
T cd01469 172 AALKD 176 (177)
T ss_pred HHhcc
Confidence 65543
No 31
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=99.22 E-value=7.7e-10 Score=101.59 Aligned_cols=146 Identities=13% Similarity=0.082 Sum_probs=108.9
Q ss_pred HHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhh--cCCCCcchHHHHHHHHHHHHhCC--CCCC
Q 015282 99 KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK--LGCSGDSSLQNALDLVQGLLSQI--PSYG 174 (410)
Q Consensus 99 ~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~--~~~~G~~SLqnaL~~A~~~L~~~--p~~~ 174 (410)
+.++.++..|. +|..++|||+|. ..+..+.|++.+...+.++|..+ ..+.|.|.++.||+.|...|... ....
T Consensus 26 ~~~~~l~~~~~--~~~~rvglv~Fs-~~~~~~~~l~~~~~~~~~~l~~l~~~~~~g~T~~~~aL~~a~~~l~~~~~~~r~ 102 (185)
T cd01474 26 DFVEQLVDRFN--SPGLRFSFITFS-TRATKILPLTDDSSAIIKGLEVLKKVTPSGQTYIHEGLENANEQIFNRNGGGRE 102 (185)
T ss_pred HHHHHHHHHcC--CCCcEEEEEEec-CCceEEEeccccHHHHHHHHHHHhccCCCCCCcHHHHHHHHHHHHHhhccCCCC
Confidence 44555555542 477999999996 67899999999887776776433 24578899999999999888532 1111
Q ss_pred CceEEEEEeCCCCC--CcccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 175 HREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 175 sreILVi~~S~~t~--DpgdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
..++||+++...+. +..+....++.+++.||.|++||++. ....|++||..+++.|.+..|.+.|+.++.++.
T Consensus 103 ~~~~villTDG~~~~~~~~~~~~~a~~l~~~gv~i~~vgv~~~~~~~L~~iA~~~~~~f~~~~~~~~l~~~~~~~~ 178 (185)
T cd01474 103 TVSVIIALTDGQLLLNGHKYPEHEAKLSRKLGAIVYCVGVTDFLKSQLINIADSKEYVFPVTSGFQALSGIIESVV 178 (185)
T ss_pred CCeEEEEEcCCCcCCCCCcchHHHHHHHHHcCCEEEEEeechhhHHHHHHHhCCCCeeEecCccHHHHHHHHHHHH
Confidence 12678888755442 23456677899999999999999953 346799999999888878888899998887765
No 32
>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=99.21 E-value=4e-10 Score=103.91 Aligned_cols=138 Identities=13% Similarity=0.089 Sum_probs=101.0
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC---------CHHHHHHHHhhhcCCCCcchHHHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG---------SPESHIKALMGKLGCSGDSSLQNALD 161 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg---------n~~~~i~~L~~~~~~~G~~SLqnaL~ 161 (410)
.+||+.++.++..|+.. .+|.+++|||+|. +.++.+.|++. |...+.+.|..+ .+.|.+.+..||.
T Consensus 28 ~~~l~~ak~~~~~ll~~---l~~~d~v~lv~F~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~G~T~~~~al~ 102 (190)
T cd01463 28 GQRLHLAKQTVSSILDT---LSDNDFFNIITFS-NEVNPVVPCFNDTLVQATTSNKKVLKEALDML-EAKGIANYTKALE 102 (190)
T ss_pred cHHHHHHHHHHHHHHHh---CCCCCEEEEEEeC-CCeeEEeeecccceEecCHHHHHHHHHHHhhC-CCCCcchHHHHHH
Confidence 36899999999999875 4778899999996 56777776543 455566666543 5678899999999
Q ss_pred HHHHHHhC---C--C--CCCCceEEEEEeCCCCCCcccHHHHHHHHHH-----cCeEEEEEEcchh---HHHHHHHHHhh
Q 015282 162 LVQGLLSQ---I--P--SYGHREVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSVIGLSAE---MFICKHLCQDT 226 (410)
Q Consensus 162 ~A~~~L~~---~--p--~~~sreILVi~~S~~t~DpgdI~~ti~~akk-----~~IrV~vIgL~aE---~~iLk~la~~T 226 (410)
.|...|.. . + ....+.+|||++.....++.+ .+..+.+ .+|+|++||+|.+ ...|++||..+
T Consensus 103 ~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~---~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~~~ 179 (190)
T cd01463 103 FAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYKE---IFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMACEN 179 (190)
T ss_pred HHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHhH---HHHHhcccccCCCcEEEEEEecCCccccchHHHHHHhhc
Confidence 99999985 1 1 112345778887555444433 3333322 2599999999976 47999999999
Q ss_pred CCeeEEeCCH
Q 015282 227 GGSYSVALDE 236 (410)
Q Consensus 227 gG~Y~va~d~ 236 (410)
||.|+.+.|.
T Consensus 180 ~G~~~~i~~~ 189 (190)
T cd01463 180 KGYYSHIQSL 189 (190)
T ss_pred CCeEEEcccC
Confidence 9999988764
No 33
>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=99.16 E-value=2.3e-09 Score=101.65 Aligned_cols=157 Identities=15% Similarity=0.102 Sum_probs=120.1
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGL 166 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~ 166 (410)
+.+++++.++..++.|++.|--.+...++|||.+. ..+....+|+ .+..++.++|.++.-..|.+.++.||..|+..
T Consensus 15 m~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~l~~~i~~i~~~~~~t~tg~AL~~a~~~ 93 (224)
T cd01475 15 VRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYS-STVKQEFPLGRFKSKADLKRAVRRMEYLETGTMTGLAIQYAMNN 93 (224)
T ss_pred CCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEec-CceeEEecccccCCHHHHHHHHHhCcCCCCCChHHHHHHHHHHH
Confidence 45678999999999999876545557899999996 6788999997 56677888887654345668888999999876
Q ss_pred HhC-----CCCC-CCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHHhhCC-eeEEeCCHHH
Q 015282 167 LSQ-----IPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGG-SYSVALDESH 238 (410)
Q Consensus 167 L~~-----~p~~-~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~~TgG-~Y~va~d~~h 238 (410)
+.. .|.. ..++|||+++...+.| ++.+.++.+++.||+|++||+|.- ...|++||..+++ .|+.+.|.+.
T Consensus 94 ~~~~~~g~r~~~~~~~kvvillTDG~s~~--~~~~~a~~lk~~gv~i~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~ 171 (224)
T cd01475 94 AFSEAEGARPGSERVPRVGIVVTDGRPQD--DVSEVAAKARALGIEMFAVGVGRADEEELREIASEPLADHVFYVEDFST 171 (224)
T ss_pred hCChhcCCCCCCCCCCeEEEEEcCCCCcc--cHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHH
Confidence 542 1211 1267888888554433 578889999999999999999863 5789999987764 6788889898
Q ss_pred HHHHHHhcCC
Q 015282 239 FKELIMEHAP 248 (410)
Q Consensus 239 l~~lL~~~~~ 248 (410)
|.++...+..
T Consensus 172 l~~~~~~l~~ 181 (224)
T cd01475 172 IEELTKKFQG 181 (224)
T ss_pred HHHHhhhccc
Confidence 8888877764
No 34
>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=99.12 E-value=3.1e-09 Score=99.53 Aligned_cols=142 Identities=15% Similarity=0.189 Sum_probs=104.5
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcC--CCC----CceEEEEeeCCeeEEeecCCC--CHHHHHHHHhhhc---CCCCcchHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQ--NPL----SQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKL---GCSGDSSLQ 157 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdq--NPi----sqlGII~~~~g~Ae~ls~ltg--n~~~~i~~L~~~~---~~~G~~SLq 157 (410)
+.|.||+.++..+..|+..+-.- +|. .|+|||+|. +.+....+|+. +..+++.+|.... ...|.|.++
T Consensus 32 m~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~fs-~~a~~~~~L~d~~~~~~~~~ai~~~~~~~~~~ggT~ig 110 (193)
T cd01477 32 MTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTYN-SNATVVADLNDLQSFDDLYSQIQGSLTDVSSTNASYLD 110 (193)
T ss_pred cchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEcc-CceEEEEecccccCHHHHHHHHHHHhhccccCCcchHH
Confidence 34678888777777777655321 343 699999995 88999999974 4567777777522 245679999
Q ss_pred HHHHHHHHHHhCC---CCCCCceEEEEEeCCCCCCc-ccHHHHHHHHHHcCeEEEEEEcchh--HHHHHHHHHhhCCeeE
Q 015282 158 NALDLVQGLLSQI---PSYGHREVLILYSALSTCDP-GDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYS 231 (410)
Q Consensus 158 naL~~A~~~L~~~---p~~~sreILVi~~S~~t~Dp-gdI~~ti~~akk~~IrV~vIgL~aE--~~iLk~la~~TgG~Y~ 231 (410)
.||.+|...|... .....++||||++++...+. .+....++.|++.||+|++||+|.. ...+++|+++..+.|+
T Consensus 111 ~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~~ias~~~~ 190 (193)
T cd01477 111 TGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAFTQDESSNLLDKLGKIASPGMN 190 (193)
T ss_pred HHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEeCCCCCHHHHHHHHHhcCCCCC
Confidence 9999999999742 11234578888885433222 5677889999999999999999985 3678899998877664
No 35
>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=99.12 E-value=3.5e-09 Score=90.65 Aligned_cols=140 Identities=21% Similarity=0.256 Sum_probs=113.7
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC--CHHHHHHHHhhhcC-CCCcchHHHHHHHHHHH
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG-CSGDSSLQNALDLVQGL 166 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg--n~~~~i~~L~~~~~-~~G~~SLqnaL~~A~~~ 166 (410)
.++++..++..+..++..+-..++.+++||+.+.+ ....+.+++. +...+.+.+..... ..|.+.+..||..|...
T Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~al~~~~~~ 92 (161)
T cd00198 14 GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFGS-NARVVLPLTTDTDKADLLEAIDALKKGLGGGTNIGAALRLALEL 92 (161)
T ss_pred CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEecC-ccceeecccccCCHHHHHHHHHhcccCCCCCccHHHHHHHHHHH
Confidence 56899999999999999988778899999999974 5677778776 77888888876533 67889999999999999
Q ss_pred HhCCCCCCCceEEEEEeCCCCCCcc-cHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhh-CCee
Q 015282 167 LSQIPSYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT-GGSY 230 (410)
Q Consensus 167 L~~~p~~~sreILVi~~S~~t~Dpg-dI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~T-gG~Y 230 (410)
+........+++||+++.....++. ++..+++.+++.+|+|++|+++. ....|+.++..| +|.|
T Consensus 93 ~~~~~~~~~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v~v~~v~~g~~~~~~~l~~l~~~~~~~~~ 160 (161)
T cd00198 93 LKSAKRPNARRVIILLTDGEPNDGPELLAEAARELRKLGITVYTIGIGDDANEDELKEIADKTTGGAV 160 (161)
T ss_pred hcccCCCCCceEEEEEeCCCCCCCcchhHHHHHHHHHcCCEEEEEEcCCCCCHHHHHHHhcccccccc
Confidence 9875334456777777755444433 68899999999999999999995 678999999998 5554
No 36
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=99.10 E-value=2.5e-09 Score=115.23 Aligned_cols=150 Identities=19% Similarity=0.187 Sum_probs=118.5
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCC
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
-+||..++.++..|+.+- ..+-++||||+|++..++.+.|+|.+.....+.|..+ ...|.|.|+.||.+|...+...
T Consensus 416 ~~rl~~aK~a~~~ll~~a--y~~rD~v~lI~F~g~~a~~~lppT~~~~~~~~~L~~l-~~gGgTpL~~gL~~A~~~l~~~ 492 (584)
T PRK13406 416 LHRLAEAKGAVELLLAEA--YVRRDQVALVAFRGRGAELLLPPTRSLVRAKRSLAGL-PGGGGTPLAAGLDAAAALALQV 492 (584)
T ss_pred HhHHHHHHHHHHHHHHhh--cCCCCEEEEEEECCCceeEEcCCCcCHHHHHHHHhcC-CCCCCChHHHHHHHHHHHHHHh
Confidence 369999999999999762 2578999999998778999999999999998888864 5678899999999999999876
Q ss_pred CCCCCceEEEEEeCCCCCCc-----------ccHHHHHHHHHHcCeEEEEEEcchhH-HHHHHHHHhhCCeeEEeCCH--
Q 015282 171 PSYGHREVLILYSALSTCDP-----------GDIMETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGGSYSVALDE-- 236 (410)
Q Consensus 171 p~~~sreILVi~~S~~t~Dp-----------gdI~~ti~~akk~~IrV~vIgL~aE~-~iLk~la~~TgG~Y~va~d~-- 236 (410)
...+.+.+|||++....+.+ .+...++..+++.+|++.+|..+... ..+++||+.|||.|+...+-
T Consensus 493 ~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~y~~l~~~~a 572 (584)
T PRK13406 493 RRKGMTPTVVLLTDGRANIARDGTAGRAQAEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGARYLPLPRADA 572 (584)
T ss_pred ccCCCceEEEEEeCCCCCCCccccccccchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCeEEECCCCCH
Confidence 44555677888874444321 12346688899999999999998654 57999999999999976543
Q ss_pred HHHHHHH
Q 015282 237 SHFKELI 243 (410)
Q Consensus 237 ~hl~~lL 243 (410)
+.+.++.
T Consensus 573 ~~~~~~v 579 (584)
T PRK13406 573 GRLSQAV 579 (584)
T ss_pred HHHHHHH
Confidence 4444443
No 37
>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=99.05 E-value=1e-08 Score=92.31 Aligned_cols=137 Identities=18% Similarity=0.122 Sum_probs=103.5
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHH
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLL 167 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L 167 (410)
.+.++..++..+..+++.|--.++..++|||+|. +.+....+++ .+..++.+.|.++.-..|.+.++.||..|...+
T Consensus 14 ~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs-~~~~~~~~l~~~~~~~~l~~~l~~~~~~~g~T~~~~aL~~a~~~~ 92 (164)
T cd01482 14 GRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYS-DDPRTEFDLNAYTSKEDVLAAIKNLPYKGGNTRTGKALTHVREKN 92 (164)
T ss_pred ChhhHHHHHHHHHHHHhheeeCCCceEEEEEEEC-CCeeEEEecCCCCCHHHHHHHHHhCcCCCCCChHHHHHHHHHHHh
Confidence 3456777888888888876345678999999996 6788888886 677778888877544678899999999988765
Q ss_pred hCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHHhhCCe
Q 015282 168 SQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGS 229 (410)
Q Consensus 168 ~~~---p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~~TgG~ 229 (410)
... .....+++|||++...+. .++.++++.+++.||.|++||++.. ...|++||..+++.
T Consensus 93 ~~~~~~~r~~~~k~iillTDG~~~--~~~~~~a~~lk~~gi~i~~ig~g~~~~~~L~~ia~~~~~~ 156 (164)
T cd01482 93 FTPDAGARPGVPKVVILITDGKSQ--DDVELPARVLRNLGVNVFAVGVKDADESELKMIASKPSET 156 (164)
T ss_pred cccccCCCCCCCEEEEEEcCCCCC--chHHHHHHHHHHCCCEEEEEecCcCCHHHHHHHhCCCchh
Confidence 332 123346788888744443 3677889999999999999999854 57788888887653
No 38
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=99.00 E-value=2.5e-08 Score=91.12 Aligned_cols=153 Identities=16% Similarity=0.134 Sum_probs=107.9
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC----CHHH---HHHHHhhhcCCCCcchHHHHHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPES---HIKALMGKLGCSGDSSLQNALDLVQ 164 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg----n~~~---~i~~L~~~~~~~G~~SLqnaL~~A~ 164 (410)
+|+..+++.+..|++.+-..++..++|||+|. +.+..+.+++. +... .++.|.......|.+.+..||..|.
T Consensus 17 ~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs-~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~~~~G~T~l~~aL~~a~ 95 (186)
T cd01471 17 NWVTHVVPFLHTFVQNLNISPDEINLYLVTFS-TNAKELIRLSSPNSTNKDLALNAIRALLSLYYPNGSTNTTSALLVVE 95 (186)
T ss_pred hhHHHHHHHHHHHHHhcccCCCceEEEEEEec-CCceEEEECCCccccchHHHHHHHHHHHhCcCCCCCccHHHHHHHHH
Confidence 35888888888998876545667799999996 66788887764 4444 3444443334678899999999999
Q ss_pred HHHhCC--CCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhh--CC--eeEEeCCH
Q 015282 165 GLLSQI--PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT--GG--SYSVALDE 236 (410)
Q Consensus 165 ~~L~~~--p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~T--gG--~Y~va~d~ 236 (410)
..|... .....+.++||++.....++....+.++.+++.+|.|.+||+|. ....|+.|+..- +| ..+...+-
T Consensus 96 ~~l~~~~~~r~~~~~~villTDG~~~~~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ia~~~~~~~~~~~~~~~~~ 175 (186)
T cd01471 96 KHLFDTRGNRENAPQLVIIMTDGIPDSKFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCDPDDSPCPLYLQSSW 175 (186)
T ss_pred HHhhccCCCcccCceEEEEEccCCCCCCcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHHhcCCCCCCCCCCeeecCCH
Confidence 999763 11233457777775555555566678899999999999999986 467888888654 21 33344455
Q ss_pred HHHHHHHHh
Q 015282 237 SHFKELIME 245 (410)
Q Consensus 237 ~hl~~lL~~ 245 (410)
++++..+..
T Consensus 176 ~~~~~~~~~ 184 (186)
T cd01471 176 SEVQNVIKP 184 (186)
T ss_pred HHHHHHhhc
Confidence 666665543
No 39
>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=99.00 E-value=1.8e-08 Score=89.65 Aligned_cols=156 Identities=19% Similarity=0.209 Sum_probs=123.8
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCC--HHHHHHHH-hhhcCCCCcchHHHHHHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKAL-MGKLGCSGDSSLQNALDLVQG 165 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn--~~~~i~~L-~~~~~~~G~~SLqnaL~~A~~ 165 (410)
+...++..+++.+..|+..+-..++..++|||.|. ..+..+.+++.. ..+....+ .......|.++++.||..|..
T Consensus 12 m~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~g~t~~~~aL~~a~~ 90 (178)
T PF00092_consen 12 MSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFS-DSARVLFSLTDYQSKNDLLNAINDSIPSSGGGTNLGAALKFARE 90 (178)
T ss_dssp SCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEES-SSEEEEEETTSHSSHHHHHHHHHTTGGCCBSSB-HHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHhhhccccccccceeeee-cccccccccccccccccccccccccccccchhhhHHHHHhhhhh
Confidence 44467889999999999987789999999999996 667777888654 67788887 555567888999999999999
Q ss_pred HHhCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHH-cCeEEEEEEc-chhHHHHHHHHHhh--CCeeEEeCCHHH
Q 015282 166 LLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGL-SAEMFICKHLCQDT--GGSYSVALDESH 238 (410)
Q Consensus 166 ~L~~~---p~~~sreILVi~~S~~t~DpgdI~~ti~~akk-~~IrV~vIgL-~aE~~iLk~la~~T--gG~Y~va~d~~h 238 (410)
.|... .....+++||+++.....+..........+++ .+|.+-+||. +++...|+.|+..+ +|.++.+.|...
T Consensus 91 ~l~~~~~~~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 91 QLFSSNNGGRPNSPKVIILITDGNSNDSDSPSEEAANLKKSNGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFSD 170 (178)
T ss_dssp HTTSGGGTTGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHHCTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHHH
T ss_pred cccccccccccccccceEEEEeecccCCcchHHHHHHHHHhcCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHHH
Confidence 99864 22356789999987777676666666666665 5999999999 88899999999775 368888889888
Q ss_pred HHHHHHh
Q 015282 239 FKELIME 245 (410)
Q Consensus 239 l~~lL~~ 245 (410)
+.++..+
T Consensus 171 l~~~~~~ 177 (178)
T PF00092_consen 171 LSQIIQQ 177 (178)
T ss_dssp HHHHHHH
T ss_pred HHHHHhc
Confidence 8877654
No 40
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=98.93 E-value=3.5e-08 Score=105.26 Aligned_cols=156 Identities=15% Similarity=0.131 Sum_probs=115.7
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCC----HHHHHHHHhhhc---CCCCcchHHHHHHH
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PESHIKALMGKL---GCSGDSSLQNALDL 162 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn----~~~~i~~L~~~~---~~~G~~SLqnaL~~ 162 (410)
.++++..++..+..||..|.-+.=..+||||+|. ..+..+.+++.. ...++..|.++. .+.|.|.++.||..
T Consensus 57 ~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FS-d~~r~vfpL~s~~s~Dk~~aL~~I~sL~~~~~pgGgTnig~AL~~ 135 (576)
T PTZ00441 57 YHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFS-NNTTELIRLGSGASKDKEQALIIVKSLRKTYLPYGKTNMTDALLE 135 (576)
T ss_pred CccHHHHHHHHHHHHHHHhccCCCceEEEEEEeC-CCceEEEecCCCccccHHHHHHHHHHHHhhccCCCCccHHHHHHH
Confidence 4678888888999999877555556678889996 567777787543 345666665542 46788999999999
Q ss_pred HHHHHhCCC-CCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh--HHHHHHHH----HhhCCeeEEeCC
Q 015282 163 VQGLLSQIP-SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLC----QDTGGSYSVALD 235 (410)
Q Consensus 163 A~~~L~~~p-~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE--~~iLk~la----~~TgG~Y~va~d 235 (410)
|...|.+.. .....++|||++.....+..+..++++.|++.||.|.+||+|.. ..+|+.|| ..++|.|+...+
T Consensus 136 Aae~L~sr~~R~nvpKVVILLTDG~sns~~dvleaAq~LR~~GVeI~vIGVG~g~n~e~LrlIAgC~p~~g~c~~Y~vad 215 (576)
T PTZ00441 136 VRKHLNDRVNRENAIQLVILMTDGIPNSKYRALEESRKLKDRNVKLAVIGIGQGINHQFNRLLAGCRPREGKCKFYSDAD 215 (576)
T ss_pred HHHHHhhcccccCCceEEEEEecCCCCCcccHHHHHHHHHHCCCEEEEEEeCCCcCHHHHHHHhccCCCCCCCceEEeCC
Confidence 999997631 22334688888866555556677888999999999999999963 56888888 446678888888
Q ss_pred HHHHHHHHHhc
Q 015282 236 ESHFKELIMEH 246 (410)
Q Consensus 236 ~~hl~~lL~~~ 246 (410)
-+.|+.+...+
T Consensus 216 f~eL~~ivk~L 226 (576)
T PTZ00441 216 WEEAKNLIKPF 226 (576)
T ss_pred HHHHHHHHHHH
Confidence 87776655444
No 41
>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=98.92 E-value=1.5e-08 Score=99.46 Aligned_cols=125 Identities=11% Similarity=0.073 Sum_probs=96.6
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHH
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNAL 160 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~---~~~G~~SLqnaL 160 (410)
|.+.|..|+|++ ++..+.+|+ .+.+.+++||++|. +.+..+.|+|.+... ...++.+. -..+.|.+..+|
T Consensus 73 M~~~~~~~~ale-ak~lIs~al----~~Le~g~vgVv~Fg-~~~~~v~Plt~d~~~-~a~~~~l~~~~f~~~~Tni~~aL 145 (266)
T cd01460 73 MSENNSKKLALE-SLCLVSKAL----TLLEVGQLGVCSFG-EDVQILHPFDEQFSS-QSGPRILNQFTFQQDKTDIANLL 145 (266)
T ss_pred cccccccccHHH-HHHHHHHHH----HhCcCCcEEEEEeC-CCceEeCCCCCCchh-hHHHHHhCcccCCCCCCcHHHHH
Confidence 999999999998 566566665 58899999999995 789999999999987 44544321 244669999999
Q ss_pred HHHHHHHhCC--CCCCC--ceEEEEEeCCCC-CCcccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 161 DLVQGLLSQI--PSYGH--REVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 161 ~~A~~~L~~~--p~~~s--reILVi~~S~~t-~DpgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
.+|+..+... +.++. .+++||+|.... .+.+..-..++.|++.+|.|++|+|...
T Consensus 146 ~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~~~~~~~r~a~e~~i~l~~I~ld~~ 205 (266)
T cd01460 146 KFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEGAQKVRLREAREQNVFVVFIIIDNP 205 (266)
T ss_pred HHHHHHHHhhhccccccccccEEEEEECCCcccCccHHHHHHHHHHHcCCeEEEEEEcCC
Confidence 9999999865 23332 267777774432 4556665779999999999999999864
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=98.88 E-value=5.1e-08 Score=105.47 Aligned_cols=144 Identities=19% Similarity=0.191 Sum_probs=112.9
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhC
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 169 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~ 169 (410)
..+||..++.++..|+...+ .+.+++|||+|.++.++.+.|++.+.......|..+ ...|.|.|..||.+|...+..
T Consensus 421 ~~~rl~~aK~av~~Ll~~~~--~~~D~v~Li~F~~~~a~~~lp~t~~~~~~~~~L~~l-~~gGgTpL~~gL~~A~~~~~~ 497 (589)
T TIGR02031 421 AVARMSEAKGAVELLLGEAY--VHRDQVSLIAFRGTAAEVLLPPSRSVEQAKRRLDVL-PGGGGTPLAAGLAAAFQTALQ 497 (589)
T ss_pred ChHHHHHHHHHHHHHHHhhc--cCCCEEEEEEECCCCceEECCCCCCHHHHHHHHhcC-CCCCCCcHHHHHHHHHHHHHH
Confidence 35799999999999997643 356899999998777889999999988887777764 567889999999999999986
Q ss_pred CCCCCCceEEEEEeCCCCCCc----------------ccHHHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCee
Q 015282 170 IPSYGHREVLILYSALSTCDP----------------GDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSY 230 (410)
Q Consensus 170 ~p~~~sreILVi~~S~~t~Dp----------------gdI~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y 230 (410)
......+.+|||++....+.+ .++...+..+++.+|.+.||+.+.. ...+++||+..||.|
T Consensus 498 ~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~y 577 (589)
T TIGR02031 498 ARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAHY 577 (589)
T ss_pred hcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCcE
Confidence 433344557777774443321 1245568889999999999999865 467999999999999
Q ss_pred EEeCCH
Q 015282 231 SVALDE 236 (410)
Q Consensus 231 ~va~d~ 236 (410)
+...|.
T Consensus 578 ~~l~~~ 583 (589)
T TIGR02031 578 IYLPNA 583 (589)
T ss_pred EeCCCC
Confidence 987654
No 43
>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=98.86 E-value=6.3e-08 Score=105.53 Aligned_cols=140 Identities=20% Similarity=0.215 Sum_probs=109.0
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCC
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
.+|+..++.++..|+..-+ .+-+++|||+|.+..++.+.|+|.+.......|..+ ...|.|.|..||..|...|...
T Consensus 481 ~~rl~~ak~a~~~ll~~a~--~~~D~v~lI~F~g~~a~~~~p~t~~~~~~~~~L~~l-~~gG~Tpl~~aL~~A~~~l~~~ 557 (633)
T TIGR02442 481 RGRMAAAKGAVLSLLRDAY--QKRDKVALITFRGEEAEVLLPPTSSVELAARRLEEL-PTGGRTPLAAGLLKAAEVLSNE 557 (633)
T ss_pred ccHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEcCCCCCHHHHHHHHHhC-CCCCCCCHHHHHHHHHHHHHHh
Confidence 3699999999999887543 356999999998667999999999988877777664 5678899999999999999841
Q ss_pred --CCCCCceEEEEEeCCCCCCc-------ccHHHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEe
Q 015282 171 --PSYGHREVLILYSALSTCDP-------GDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA 233 (410)
Q Consensus 171 --p~~~sreILVi~~S~~t~Dp-------gdI~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va 233 (410)
.....+.+|||++....+.+ .+....+..+++.+|.+.||..... ...+++||+.|||.|+..
T Consensus 558 ~~~~~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 558 LLRDDDGRPLLVVITDGRANVADGGEPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred hccCCCCceEEEEECCCCCCCCCCCCChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 22345567777775544332 1234567888889999999988664 578999999999999864
No 44
>cd01473 vWA_CTRP CTRP for CS protein-TRAP-related protein: Adhesion of Plasmodium to host cells is an important phenomenon in parasite invasion and in malaria associated pathology.CTRP encodes a protein containing a putative signal sequence followed by a long extracellular region of 1990 amino acids, a transmembrane domain, and a short cytoplasmic segment. The extracellular region of CTRP contains two separated adhesive domains. The first domain contains six 210-amino acid-long homologous VWA domain repeats. The second domain contains seven repeats of 87-60 amino acids in length, which share similarities with the thrombospondin type 1 domain found in a variety of adhesive molecules. Finally, CTRP also contains consensus motifs found in the superfamily of haematopoietin receptors. The VWA domains in these proteins likely mediate protein-protein interactions.
Probab=98.84 E-value=8.7e-08 Score=89.39 Aligned_cols=126 Identities=12% Similarity=0.137 Sum_probs=92.6
Q ss_pred HHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC----CHHHHHHHHhhhc---CCCCcchHHHHHHHHHHHHhCC
Q 015282 98 AKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 98 ~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg----n~~~~i~~L~~~~---~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
++.++.+|+.|--.....++|||.|. +.++...|++. +..+++++|.++. ...|.|.++.||..|+..+...
T Consensus 23 ~~f~~~lv~~l~i~~~~~rvgvv~fs-~~~~~~~~~~~~~~~~~~~l~~~i~~l~~~~~~~g~T~~~~AL~~a~~~~~~~ 101 (192)
T cd01473 23 IPFTEKIINNLNISKDKVHVGILLFA-EKNRDVVPFSDEERYDKNELLKKINDLKNSYRSGGETYIVEALKYGLKNYTKH 101 (192)
T ss_pred HHHHHHHHHhCccCCCccEEEEEEec-CCceeEEecCcccccCHHHHHHHHHHHHhccCCCCcCcHHHHHHHHHHHhccC
Confidence 33455556655456678899999996 67888888875 4556777776542 2467899999999999988653
Q ss_pred CC--CCCceEEEEEeCCCCCCc--ccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHH
Q 015282 171 PS--YGHREVLILYSALSTCDP--GDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQ 224 (410)
Q Consensus 171 p~--~~sreILVi~~S~~t~Dp--gdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~ 224 (410)
.. ...++|+|+++...+.++ .++..+++.|++.||+|++||+|.. ..-|+.||.
T Consensus 102 ~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~ 160 (192)
T cd01473 102 GNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAG 160 (192)
T ss_pred CCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcC
Confidence 21 223679999986666554 3577889999999999999999964 345777775
No 45
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=98.82 E-value=2.2e-07 Score=82.80 Aligned_cols=133 Identities=14% Similarity=0.119 Sum_probs=92.9
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCC-eeEEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhC
Q 015282 93 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG-VANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 169 (410)
Q Consensus 93 Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g-~Ae~ls~lt--gn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~ 169 (410)
++..+++.++.|+..+....+..++|||+|.+. .+....+++ .++..+.+.|..+....|.++++.||..|...|..
T Consensus 16 ~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~~~~~~~l~~~i~~l~~~gg~T~l~~aL~~a~~~l~~ 95 (163)
T cd01476 16 KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPKHNDGEELLEKVDNLRFIGGTTATGAAIEVALQQLDP 95 (163)
T ss_pred hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCCCCCHHHHHHHHHhCccCCCCccHHHHHHHHHHHhcc
Confidence 455667778888887766677899999999643 567777775 46777888887753345779999999999999963
Q ss_pred C--CCCCCceEEEEEeCCCCCCcccHHHHHHHHHH-cCeEEEEEEcchhH-HHHHHHHHhhC
Q 015282 170 I--PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAEM-FICKHLCQDTG 227 (410)
Q Consensus 170 ~--p~~~sreILVi~~S~~t~DpgdI~~ti~~akk-~~IrV~vIgL~aE~-~iLk~la~~Tg 227 (410)
. .....+.++||++...+. .+....++.+++ .+|.|++|+++... .-.++|..++|
T Consensus 96 ~~~~r~~~~~~villTDG~~~--~~~~~~~~~l~~~~~v~v~~vg~g~~~~~~~~~L~~ia~ 155 (163)
T cd01476 96 SEGRREGIPKVVVVLTDGRSH--DDPEKQARILRAVPNIETFAVGTGDPGTVDTEELHSITG 155 (163)
T ss_pred ccCCCCCCCeEEEEECCCCCC--CchHHHHHHHhhcCCCEEEEEECCCccccCHHHHHHHhC
Confidence 2 112334678888744332 235566788888 99999999998761 11344444444
No 46
>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=98.80 E-value=1.1e-07 Score=89.85 Aligned_cols=133 Identities=18% Similarity=0.163 Sum_probs=92.6
Q ss_pred HhcC-CC-CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCe---------eEEeecCCCCHHHHHHHHhhhcC---
Q 015282 84 AAEM-DF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV---------ANCLTDLGGSPESHIKALMGKLG--- 149 (410)
Q Consensus 84 M~~~-D~-~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~---------Ae~ls~ltgn~~~~i~~L~~~~~--- 149 (410)
|.+. |. .|+||+.+++++..|+....-.+|.+++|||.|.... ...+.|+...-.+.++.|.+...
T Consensus 14 M~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~~~l~~l~~~~~~~~ 93 (218)
T cd01458 14 MFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGAERVEDLKELIEPGG 93 (218)
T ss_pred HcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCCHHHHHHHHHHhhcch
Confidence 5433 43 4999999999999999977667999999999996442 12567774444555566655432
Q ss_pred --------CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC-CC-----cccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 150 --------CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST-CD-----PGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 150 --------~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t-~D-----pgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
..++++|.+||..|+..|.+...+...+.||+++.... .. +..+...++.+++.+|.|++|+++..
T Consensus 94 ~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~~~~~~~~~~~a~~l~~~gI~i~~i~i~~~ 173 (218)
T cd01458 94 LSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGDSIKDSQAAVKAEDLKDKGIELELFPLSSP 173 (218)
T ss_pred hhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEEecCCC
Confidence 24568999999999999997433333345555553322 21 13334668888899999999999866
Q ss_pred H
Q 015282 216 M 216 (410)
Q Consensus 216 ~ 216 (410)
.
T Consensus 174 ~ 174 (218)
T cd01458 174 G 174 (218)
T ss_pred C
Confidence 4
No 47
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.75 E-value=2.8e-07 Score=81.65 Aligned_cols=128 Identities=19% Similarity=0.313 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecC--CC---CHHHHHHHHhhhcCC-CCcchHHHHHHHHHHHHh
Q 015282 95 AVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GG---SPESHIKALMGKLGC-SGDSSLQNALDLVQGLLS 168 (410)
Q Consensus 95 ~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~l--tg---n~~~~i~~L~~~~~~-~G~~SLqnaL~~A~~~L~ 168 (410)
..++++++.+++. .+|.+++.||.|. ..+..+.|- .. +.+..++.|+.+ .+ .|.+.|..||+.|+..+.
T Consensus 18 ~~~k~al~~~l~~---L~~~d~fnii~f~-~~~~~~~~~~~~~~~~~~~~a~~~I~~~-~~~~G~t~l~~aL~~a~~~~~ 92 (155)
T PF13768_consen 18 ELVKDALRAILRS---LPPGDRFNIIAFG-SSVRPLFPGLVPATEENRQEALQWIKSL-EANSGGTDLLAALRAALALLQ 92 (155)
T ss_pred HHHHHHHHHHHHh---CCCCCEEEEEEeC-CEeeEcchhHHHHhHHHHHHHHHHHHHh-cccCCCccHHHHHHHHHHhcc
Confidence 7888899999986 7899999999996 456666644 11 222233344442 45 899999999999998772
Q ss_pred CCCCCCCceEEEEEeCCC-CCCcccHHHHHHHHHHcCeEEEEEEcchhH--HHHHHHHHhhCCeeE
Q 015282 169 QIPSYGHREVLILYSALS-TCDPGDIMETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYS 231 (410)
Q Consensus 169 ~~p~~~sreILVi~~S~~-t~DpgdI~~ti~~akk~~IrV~vIgL~aE~--~iLk~la~~TgG~Y~ 231 (410)
+ .+..+.|||++... +.....+.+.+.... .+|||.++++|... .+|++||+.|||.|.
T Consensus 93 --~-~~~~~~IilltDG~~~~~~~~i~~~v~~~~-~~~~i~~~~~g~~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 93 --R-PGCVRAIILLTDGQPVSGEEEILDLVRRAR-GHIRIFTFGIGSDADADFLRELARATGGSFH 154 (155)
T ss_pred --c-CCCccEEEEEEeccCCCCHHHHHHHHHhcC-CCceEEEEEECChhHHHHHHHHHHcCCCEEE
Confidence 1 22334555555333 233334555555433 67999999999864 899999999999995
No 48
>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=98.74 E-value=2.9e-07 Score=99.57 Aligned_cols=146 Identities=10% Similarity=0.122 Sum_probs=101.1
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCC--CH---HHHHHHHhhhcCCCCcchHHHHHHHHHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SP---ESHIKALMGKLGCSGDSSLQNALDLVQG 165 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltg--n~---~~~i~~L~~~~~~~G~~SLqnaL~~A~~ 165 (410)
.+++..++.++..++.. .+|.++++||+|. ..++.+.+.+- +. ....+.|..+ ...|.|.|..||..|+.
T Consensus 286 g~~i~~ak~al~~~l~~---L~~~d~~~ii~F~-~~~~~~~~~~~~~~~~~~~~a~~~i~~l-~a~GgT~l~~aL~~a~~ 360 (596)
T TIGR03788 286 GESIEQAKSALLLALDQ---LRPGDRFNIIQFD-SDVTLLFPVPVPATAHNLARARQFVAGL-QADGGTEMAGALSAALR 360 (596)
T ss_pred CccHHHHHHHHHHHHHh---CCCCCEEEEEEEC-CcceEeccccccCCHHHHHHHHHHHhhC-CCCCCccHHHHHHHHHH
Confidence 35688889888888874 6899999999995 66777766532 22 2233334442 56788999999999998
Q ss_pred HHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh--HHHHHHHHHhhCCeeEEeCCHHHHHHHH
Q 015282 166 LLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKELI 243 (410)
Q Consensus 166 ~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE--~~iLk~la~~TgG~Y~va~d~~hl~~lL 243 (410)
.......... +.|||++.....+...+.+.++. +..++||++||+|.. ..+|++||+.+||.|..+.+.+.+.+.+
T Consensus 361 ~~~~~~~~~~-~~iillTDG~~~~~~~~~~~~~~-~~~~~ri~tvGiG~~~n~~lL~~lA~~g~G~~~~i~~~~~~~~~~ 438 (596)
T TIGR03788 361 DDGPESSGAL-RQVVFLTDGAVGNEDALFQLIRT-KLGDSRLFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQRKM 438 (596)
T ss_pred hhcccCCCce-eEEEEEeCCCCCCHHHHHHHHHH-hcCCceEEEEEeCCCcCHHHHHHHHHcCCCEEEECCCHHHHHHHH
Confidence 7543222223 34555654433344455554433 235799999999985 6899999999999999998887754433
No 49
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=98.63 E-value=8.2e-07 Score=86.36 Aligned_cols=145 Identities=19% Similarity=0.214 Sum_probs=116.7
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCC
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
..|+.+++.++..|+++=+. --++|++|+|++-.|+++.|+|.+.....+.|+++ .+.|.|-|..||.+|...+...
T Consensus 94 ~~Rm~aaKG~~~~lL~dAYq--~RdkvavI~F~G~~A~lll~pT~sv~~~~~~L~~l-~~GG~TPL~~aL~~a~ev~~r~ 170 (261)
T COG1240 94 RRRMAAAKGAALSLLRDAYQ--RRDKVAVIAFRGEKAELLLPPTSSVELAERALERL-PTGGKTPLADALRQAYEVLARE 170 (261)
T ss_pred HHHHHHHHHHHHHHHHHHHH--ccceEEEEEecCCcceEEeCCcccHHHHHHHHHhC-CCCCCCchHHHHHHHHHHHHHh
Confidence 34999999999999987543 45899999999999999999999999999999885 7788999999999999999875
Q ss_pred CC--CCCceEEEEEeCCCCCCcc--c-HH---HHHHHHHHcCeEEEEEEcchhH---HHHHHHHHhhCCeeEEeCCHHH
Q 015282 171 PS--YGHREVLILYSALSTCDPG--D-IM---ETIQKCKESKIRCSVIGLSAEM---FICKHLCQDTGGSYSVALDESH 238 (410)
Q Consensus 171 p~--~~sreILVi~~S~~t~Dpg--d-I~---~ti~~akk~~IrV~vIgL~aE~---~iLk~la~~TgG~Y~va~d~~h 238 (410)
.. ...+-++|+++....+++. + .. .++..+...++.+-||...... .+-++||..-||.|+...+..+
T Consensus 171 ~r~~p~~~~~~vviTDGr~n~~~~~~~~~e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l~~ 249 (261)
T COG1240 171 KRRGPDRRPVMVVITDGRANVPIPLGPKAETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDLSD 249 (261)
T ss_pred hccCCCcceEEEEEeCCccCCCCCCchHHHHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccccc
Confidence 32 2345678888766655543 3 22 4466677789999999987653 6899999999999998766543
No 50
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.57 E-value=4.1e-06 Score=76.32 Aligned_cols=135 Identities=16% Similarity=0.114 Sum_probs=100.3
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhcCCCC-cchHHHHHHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSG-DSSLQNALDLVQG 165 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~~~~G-~~SLqnaL~~A~~ 165 (410)
+.+..++.+++.+..++..|--.+...|+|||.+. ..+....+|. .+..+++++|.++.-..| .+..+.||..+..
T Consensus 13 i~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys-~~~~~~~~l~~~~~~~~l~~~i~~i~~~~g~~t~t~~AL~~~~~ 91 (165)
T cd01481 13 VGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFS-DTPRPEFYLNTHSTKADVLGAVRRLRLRGGSQLNTGSALDYVVK 91 (165)
T ss_pred cCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEec-CCeeEEEeccccCCHHHHHHHHHhcccCCCCcccHHHHHHHHHH
Confidence 45678888899999999886555667899999996 6677777774 366778888887532344 3689999999988
Q ss_pred HHhCCCC-----CCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc-hhHHHHHHHHHhh
Q 015282 166 LLSQIPS-----YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQDT 226 (410)
Q Consensus 166 ~L~~~p~-----~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~-aE~~iLk~la~~T 226 (410)
.+...+. .+.++|||+++...+. +++.+.++.|++.||.|.+||++ ....-|+.||..-
T Consensus 92 ~~f~~~~g~R~~~~~~kv~vviTdG~s~--d~~~~~a~~lr~~gv~i~~vG~~~~~~~eL~~ias~p 156 (165)
T cd01481 92 NLFTKSAGSRIEEGVPQFLVLITGGKSQ--DDVERPAVALKRAGIVPFAIGARNADLAELQQIAFDP 156 (165)
T ss_pred hhcCccccCCccCCCCeEEEEEeCCCCc--chHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhCCC
Confidence 7754321 2334788888866554 36888999999999999999998 5566666666444
No 51
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=98.55 E-value=4e-06 Score=76.05 Aligned_cols=120 Identities=14% Similarity=0.115 Sum_probs=84.7
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCC---e--eEEeecCCCCH---HHHHHHHhhhcCCCCcchHHHHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---V--ANCLTDLGGSP---ESHIKALMGKLGCSGDSSLQNALDLV 163 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g---~--Ae~ls~ltgn~---~~~i~~L~~~~~~~G~~SLqnaL~~A 163 (410)
+|++.+++++..|+..... +.+++||++|.++ . ...+.+.+.+. ....+.|..+ .+.|.+.++.||..|
T Consensus 17 ~kl~~ak~a~~~l~~~l~~--~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~g~T~~~~al~~a 93 (174)
T cd01454 17 RRIDVAKKAAVLLAEALEA--CGVPHAILGFTTDAGGRERVRWIKIKDFDESLHERARKRLAAL-SPGGNTRDGAAIRHA 93 (174)
T ss_pred cHHHHHHHHHHHHHHHHHH--cCCcEEEEEecCCCCCccceEEEEecCcccccchhHHHHHHcc-CCCCCCcHHHHHHHH
Confidence 7999999999988876533 7899999999765 2 23344223222 2344455443 567889999999999
Q ss_pred HHHHhCCCCCCCceEEEEEeCCCCCCc----cc---HHHH---HHHHHHcCeEEEEEEcchhH
Q 015282 164 QGLLSQIPSYGHREVLILYSALSTCDP----GD---IMET---IQKCKESKIRCSVIGLSAEM 216 (410)
Q Consensus 164 ~~~L~~~p~~~sreILVi~~S~~t~Dp----gd---I~~t---i~~akk~~IrV~vIgL~aE~ 216 (410)
...|...+ ..+++||+++.....+. ++ +.++ ++.+++.+|+|++||++.+.
T Consensus 94 ~~~l~~~~--~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 94 AERLLARP--EKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred HHHHhcCC--CcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 99998753 34678888875444332 22 3455 78889999999999999875
No 52
>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=98.47 E-value=1.4e-06 Score=79.19 Aligned_cols=130 Identities=16% Similarity=0.198 Sum_probs=88.5
Q ss_pred CCCHHHHHHHHHHHHHHhhhcC---CCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQ---NPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 166 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdq---NPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~ 166 (410)
...++..++.++..|+...-.. .+..++|||+|. +.++.+.|++...... + ..+...|.|.+..||..|...
T Consensus 17 ~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~-~~a~~~~~l~~~~~~~---~-~~l~~~GgT~l~~aL~~a~~~ 91 (176)
T cd01464 17 AGEPIEALNQGLQMLQSELRQDPYALESVEISVITFD-SAARVIVPLTPLESFQ---P-PRLTASGGTSMGAALELALDC 91 (176)
T ss_pred CChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEec-CCceEecCCccHHhcC---C-CcccCCCCCcHHHHHHHHHHH
Confidence 4557778888888888765432 256789999996 5789999997532211 1 112467889999999999999
Q ss_pred HhCCC-------CCCCceEEEEEeCCCCCC-cccHHHHHHHHHHcCeEEEEEEcchh--HHHHHHHHH
Q 015282 167 LSQIP-------SYGHREVLILYSALSTCD-PGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQ 224 (410)
Q Consensus 167 L~~~p-------~~~sreILVi~~S~~t~D-pgdI~~ti~~akk~~IrV~vIgL~aE--~~iLk~la~ 224 (410)
|.... ....+.+||+++.....| +....+.++.+++.+++|++||+|.+ ...|++||.
T Consensus 92 l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 92 IDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred HHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHHHHhhcccCCcEEEEEeccccCHHHHHHHHC
Confidence 96531 112234777777444333 33333567777778899999999964 567777764
No 53
>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=98.38 E-value=1.3e-05 Score=70.74 Aligned_cols=119 Identities=13% Similarity=0.149 Sum_probs=82.1
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCC
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIP 171 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p 171 (410)
+|+..++..+..|+..... +.++++||+|.++......+...+..+.++.|... ...|.|++..||..|...+...
T Consensus 16 ~k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~~~~~~~~~~~~~~~~~~l~~~-~~~ggT~l~~al~~a~~~l~~~- 91 (152)
T cd01462 16 APEEVAKAVALALLRIALA--ENRDTYLILFDSEFQTKIVDKTDDLEEPVEFLSGV-QLGGGTDINKALRYALELIERR- 91 (152)
T ss_pred CHHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCceEEecCCcccHHHHHHHHhcC-CCCCCcCHHHHHHHHHHHHHhc-
Confidence 4667777777777765433 46799999997663333334455666666666543 4678899999999999998764
Q ss_pred CCCCceEEEEEeCC-CCCCcccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 172 SYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 172 ~~~sreILVi~~S~-~t~DpgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
...+.+|||++.. ...++..+.+..+.+++.+++|++|++|..
T Consensus 92 -~~~~~~ivliTDG~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 92 -DPRKADIVLITDGYEGGVSDELLREVELKRSRVARFVALALGDH 135 (152)
T ss_pred -CCCCceEEEECCCCCCCCCHHHHHHHHHHHhcCcEEEEEEecCC
Confidence 2234577777744 334444555456677777899999999975
No 54
>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=98.13 E-value=6.2e-05 Score=70.07 Aligned_cols=137 Identities=15% Similarity=0.137 Sum_probs=90.7
Q ss_pred HhcCC--CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHH
Q 015282 84 AAEMD--FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALD 161 (410)
Q Consensus 84 M~~~D--~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~ 161 (410)
|...+ ..|+|+..++.++..++.-- .+...+.++++.|. +.+..+.+++ ...+.+.+.+ ..+.|.+.+..+|+
T Consensus 15 M~~~~~~~~~~k~~~ak~~~~~l~~~~-~~~D~d~i~l~~f~-~~~~~~~~~~--~~~v~~~~~~-~~p~G~T~l~~~l~ 89 (199)
T cd01457 15 MAEADEAKERSRWEEAQESTRALARKC-EEYDSDGITVYLFS-GDFRRYDNVN--SSKVDQLFAE-NSPDGGTNLAAVLQ 89 (199)
T ss_pred CCCCCCCCCchHHHHHHHHHHHHHHHH-HhcCCCCeEEEEec-CCccccCCcC--HHHHHHHHhc-CCCCCcCcHHHHHH
Confidence 54444 46789999999999988643 33445668889885 5566666776 5555555544 35678899999999
Q ss_pred HHHHHHhC-CCC---CCCceEEEEEeCCCCCCcccHHHHH-HHHHH----cCeEEEEEEcchh---HHHHHHHHHh
Q 015282 162 LVQGLLSQ-IPS---YGHREVLILYSALSTCDPGDIMETI-QKCKE----SKIRCSVIGLSAE---MFICKHLCQD 225 (410)
Q Consensus 162 ~A~~~L~~-~p~---~~sreILVi~~S~~t~DpgdI~~ti-~~akk----~~IrV~vIgL~aE---~~iLk~la~~ 225 (410)
.|+..+.. .+. ...+.+|||++.....|...+.+.| +.+++ .+|.|++|++|.+ ...|+++.+.
T Consensus 90 ~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d~~~~~~~i~~a~~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~ 165 (199)
T cd01457 90 DALNNYFQRKENGATCPEGETFLVITDGAPDDKDAVERVIIKASDELDADNELAISFLQIGRDPAATAFLKALDDQ 165 (199)
T ss_pred HHHHHHHHHHhhccCCCCceEEEEEcCCCCCcHHHHHHHHHHHHHhhccccCceEEEEEeCCcHHHHHHHHHHhHH
Confidence 99854432 211 1124677777755555555554443 22222 4799999999974 4669999876
No 55
>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=97.82 E-value=0.00055 Score=65.81 Aligned_cols=141 Identities=16% Similarity=0.253 Sum_probs=89.5
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecC------------------------------CCCHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL------------------------------GGSPESHI 141 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~l------------------------------tgn~~~~i 141 (410)
..++.+++.+...++. +..++.++||||+|. ... .+..+ ......+.
T Consensus 20 g~~~~~~~sl~~~l~~-l~~~~~~~vgiitfd-~~V-~~y~l~~~~~~~~~~v~~dl~~~~~p~~~~llv~~~e~~~~i~ 96 (243)
T PF04811_consen 20 GLLQSLIESLKSALDS-LPGDERTRVGIITFD-SSV-HFYNLSSSLSQPQMIVVSDLDDPFIPLPDGLLVPLSECRDAIE 96 (243)
T ss_dssp THHHHHHHHHHHHGCT-SSTSTT-EEEEEEES-SSE-EEEETTTTSSSTEEEEEHHTTSHHSSTSSSSSEETTTCHHHHH
T ss_pred cHHHHHHHHHHHHHHh-ccCCCCcEEEEEEeC-CEE-EEEECCCCcCCCcccchHHHhhcccCCcccEEEEhHHhHHHHH
Confidence 4567788888888854 335699999999993 322 22222 22223333
Q ss_pred HHHhhh---cC----CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcc-----------------------
Q 015282 142 KALMGK---LG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG----------------------- 191 (410)
Q Consensus 142 ~~L~~~---~~----~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~Dpg----------------------- 191 (410)
+.|+++ .. ...+..++.||+.|...|+... ..-+|+++.+++-+..||
T Consensus 97 ~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~--~gGkI~~F~s~~pt~G~Gg~l~~~~~~~~~~~~~~~~~~~~ 174 (243)
T PF04811_consen 97 ELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRN--TGGKILVFTSGPPTYGPGGSLKKREDSSHYDTEKEKALLLP 174 (243)
T ss_dssp HHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHT--S-EEEEEEESS---SSSTTSS-SBTTSCCCCHCTTHHCHSH
T ss_pred HHHHHhhhhcccccccCccccHHHHHHHHHHHHhccc--cCCEEEEEeccCCCCCCCceecccccccccccccchhhhcc
Confidence 333332 11 2345799999999999999432 234799998877665552
Q ss_pred --c-HH-HHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeCCHH
Q 015282 192 --D-IM-ETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDES 237 (410)
Q Consensus 192 --d-I~-~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~d~~ 237 (410)
+ .+ +.+..+.+.+|-||+..++.+ +..+..+++.|||.-+.-.+-.
T Consensus 175 ~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~f~ 227 (243)
T PF04811_consen 175 PANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPNFN 227 (243)
T ss_dssp SSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETTTT
T ss_pred ccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCCCC
Confidence 1 33 678999999999999999876 7899999999999766655443
No 56
>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=97.80 E-value=0.00091 Score=64.87 Aligned_cols=80 Identities=24% Similarity=0.318 Sum_probs=62.0
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH------------------------H-HHHHHHHHcCe
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI------------------------M-ETIQKCKESKI 205 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI------------------------~-~ti~~akk~~I 205 (410)
..+..++.||+.|...|++. + -+|+++.+++-|.-||.| + +.+..+.+++|
T Consensus 112 ~~~~c~G~Al~~A~~lL~~~---G-GkIi~f~s~~pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~i 187 (244)
T cd01479 112 ETESALGPALQAAFLLLKET---G-GKIIVFQSSLPTLGAGKLKSREDPKLLSTDKEKQLLQPQTDFYKKLALECVKSQI 187 (244)
T ss_pred CCcccHHHHHHHHHHHHHhc---C-CEEEEEeCCCCCcCCcccccCccccccCchhhhhhcCcchHHHHHHHHHHHHcCe
Confidence 34589999999999999954 2 468888877655444432 2 56888999999
Q ss_pred EEEEEEcchh---HHHHHHHHHhhCCeeEEeC
Q 015282 206 RCSVIGLSAE---MFICKHLCQDTGGSYSVAL 234 (410)
Q Consensus 206 rV~vIgL~aE---~~iLk~la~~TgG~Y~va~ 234 (410)
-||+...+.+ +..+..+++.|||..+.-.
T Consensus 188 svDlF~~~~~~~dla~l~~l~~~TGG~v~~y~ 219 (244)
T cd01479 188 SVDLFLFSNQYVDVATLGCLSRLTGGQVYYYP 219 (244)
T ss_pred EEEEEEccCcccChhhhhhhhhhcCceEEEEC
Confidence 9999988765 6889999999999655443
No 57
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=97.70 E-value=0.0019 Score=62.17 Aligned_cols=140 Identities=18% Similarity=0.239 Sum_probs=94.3
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCC--------------------------H----HHH
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--------------------------P----ESH 140 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn--------------------------~----~~~ 140 (410)
..-++.++..+...+... ..+|..+||||+|. +.. .+..++.. . ..+
T Consensus 19 ~~~l~~~~~sl~~~l~~l-p~~~~~~igiITf~-~~V-~~~~~~~~~~~~~~~v~~dl~d~f~p~~~~~l~~~~e~~~~i 95 (239)
T cd01468 19 EGLLQALKESLLASLDLL-PGDPRARVGLITYD-STV-HFYNLSSDLAQPKMYVVSDLKDVFLPLPDRFLVPLSECKKVI 95 (239)
T ss_pred ccHHHHHHHHHHHHHHhC-CCCCCcEEEEEEeC-CeE-EEEECCCCCCCCeEEEeCCCccCcCCCcCceeeeHHHHHHHH
Confidence 455777888888888652 33589999999993 322 22222211 1 123
Q ss_pred HHHHhhhc---C----CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH--------------------
Q 015282 141 IKALMGKL---G----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-------------------- 193 (410)
Q Consensus 141 i~~L~~~~---~----~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI-------------------- 193 (410)
.+.|+++. . ......++.||+.|...|++.- ..-+|+++.+++-|.-||.+
T Consensus 96 ~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~--~gGkI~~f~sg~pt~GpG~l~~~~~~~~~~~~~e~~~~~~ 173 (239)
T cd01468 96 HDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTF--AGGRIIVFQGGLPTVGPGKLKSREDKEPIRSHDEAQLLKP 173 (239)
T ss_pred HHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcC--CCceEEEEECCCCCCCCCccccCcccccCCCccchhcccc
Confidence 33333321 1 2245799999999999999852 23478888877766554433
Q ss_pred ----H-HHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeCC
Q 015282 194 ----M-ETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 235 (410)
Q Consensus 194 ----~-~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~d 235 (410)
+ +.+..+.+.+|-||+...+.+ +..++.+++.|||..+.-.+
T Consensus 174 a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~ 223 (239)
T cd01468 174 ATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDS 223 (239)
T ss_pred cHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCC
Confidence 2 457888999999999988875 68899999999997665544
No 58
>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=97.34 E-value=0.0089 Score=58.97 Aligned_cols=92 Identities=17% Similarity=0.229 Sum_probs=66.5
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH------------------------------HHHHHHH
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM------------------------------ETIQKCK 201 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~------------------------------~ti~~ak 201 (410)
....++.||..|...|...-.+..-+|+++.+++-|.-||.+. +.+..+.
T Consensus 139 ~~r~~G~Al~~A~~ll~~~~~~~gGki~~F~sg~pT~GpG~l~~r~~~~~~r~~~d~~~~~~~~~~~a~~fY~~la~~~~ 218 (267)
T cd01478 139 PLRCTGVALSIAVGLLEACFPNTGARIMLFAGGPCTVGPGAVVSTELKDPIRSHHDIDKDNAKYYKKAVKFYDSLAKRLA 218 (267)
T ss_pred CCCchHHHHHHHHHHHHhhcCCCCcEEEEEECCCCCCCCceeeccccccccccccccccchhhhhhhHHHHHHHHHHHHH
Confidence 4579999999999999864222335799999877665554331 2345567
Q ss_pred HcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeC--CHHHHHHHH
Q 015282 202 ESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVAL--DESHFKELI 243 (410)
Q Consensus 202 k~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~--d~~hl~~lL 243 (410)
+.+|-||+...+.+ +..++.+++.|||.-+... +..-|++-|
T Consensus 219 ~~~vsvDlF~~s~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s~ 265 (267)
T cd01478 219 ANGHAVDIFAGCLDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQSF 265 (267)
T ss_pred hCCeEEEEEeccccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHHh
Confidence 79999999998864 6899999999999655443 445566544
No 59
>PLN00162 transport protein sec23; Provisional
Probab=97.23 E-value=0.013 Score=65.88 Aligned_cols=97 Identities=20% Similarity=0.168 Sum_probs=72.6
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH-----------------------------H-HHHHHHHH
Q 015282 153 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCKE 202 (410)
Q Consensus 153 ~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI-----------------------------~-~ti~~akk 202 (410)
..+++.||+.|...|...-....-+|+++.|++-|.-||.| + +.+..+.+
T Consensus 261 ~r~tG~AL~vA~~lL~~~~~~~gGrI~~F~sgppT~GpG~v~~r~~~~~~rsh~di~k~~~~~~~~a~~fY~~la~~~~~ 340 (761)
T PLN00162 261 ARCTGAALSVAAGLLGACVPGTGARIMAFVGGPCTEGPGAIVSKDLSEPIRSHKDLDKDAAPYYKKAVKFYEGLAKQLVA 340 (761)
T ss_pred CccHHHHHHHHHHHHhhccCCCceEEEEEeCCCCCCCCceeecccccccccCccccccchhhhcchHHHHHHHHHHHHHH
Confidence 47899999999999986532334579999988766555543 1 24566788
Q ss_pred cCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeC--CHHHHHHHHHhcCCC
Q 015282 203 SKIRCSVIGLSAE---MFICKHLCQDTGGSYSVAL--DESHFKELIMEHAPP 249 (410)
Q Consensus 203 ~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~--d~~hl~~lL~~~~~P 249 (410)
++|-||+...+.+ +..++.+++.|||.-+... +...|++-|..++.-
T Consensus 341 ~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~r~~~r 392 (761)
T PLN00162 341 QGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLRRVFER 392 (761)
T ss_pred cCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHHHHhcc
Confidence 9999999988864 7899999999999655444 445688877777754
No 60
>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=97.04 E-value=0.011 Score=55.65 Aligned_cols=120 Identities=17% Similarity=0.248 Sum_probs=81.1
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCe------------eEEeecCCCCHHHHHHHHhhhcC----------C
Q 015282 93 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV------------ANCLTDLGGSPESHIKALMGKLG----------C 150 (410)
Q Consensus 93 Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~------------Ae~ls~ltgn~~~~i~~L~~~~~----------~ 150 (410)
.|..+++++..++....-.+|.+.+|||.+.-.. ...+.+++.--.+.++.|.+... .
T Consensus 22 ~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~~~~l~~L~~~~~~~~~~~~~~~~ 101 (224)
T PF03731_consen 22 PLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPSAERLKELEELLKPGDKFENFFSG 101 (224)
T ss_dssp HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEEECC--BHHHHHHHHTTSHHHHHHHHHC-S
T ss_pred hHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEeecCCccCHHHHHHHHHhhcccccccccCCC
Confidence 8999999999999999999999999999993221 24567777766777788876432 3
Q ss_pred CCcchHHHHHHHHHHHHhC--C-CCCCCceEEEEEeCCCCC-CcccHHHHHHH-----HHHcCeEEEEEEc
Q 015282 151 SGDSSLQNALDLVQGLLSQ--I-PSYGHREVLILYSALSTC-DPGDIMETIQK-----CKESKIRCSVIGL 212 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~--~-p~~~sreILVi~~S~~t~-DpgdI~~ti~~-----akk~~IrV~vIgL 212 (410)
..+.++.+||-.|...|+. . +...+|+|++|.-...-. +...+..++.. ++..+|.+.++.|
T Consensus 102 ~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~~~~~~~~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 102 SDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHEDDDELERIIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp SS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT-CCCHHHHHHHHHHHHHHHHTEEEEEEEC
T ss_pred CCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCCHHHHHHHHHhhccccchhcCcceeEeec
Confidence 4567999999999999986 3 344555555544322223 55666666555 8999999999999
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=96.00 E-value=0.11 Score=49.15 Aligned_cols=141 Identities=16% Similarity=0.252 Sum_probs=86.8
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCC----CceEEEEeeCCeeEEeecCCCCHHHHHHHHhhh----cCCCCcchHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPL----SQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----LGCSGDSSLQNAL 160 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPi----sqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~----~~~~G~~SLqnaL 160 (410)
|.-.++++.-.-++.++++ +.|+|. ..|+||+| ||.|....|++. +.+. +...|.++|+.||
T Consensus 16 M~Ge~IealN~Glq~m~~~-Lkqdp~Ale~v~lsIVTF-~~~a~~~~pf~~--------~~nF~~p~L~a~GgT~lGaAl 85 (207)
T COG4245 16 MIGEPIEALNAGLQMMIDT-LKQDPYALERVELSIVTF-GGPARVIQPFTD--------AANFNPPILTAQGGTPLGAAL 85 (207)
T ss_pred cccccHHHHHHHHHHHHHH-HHhChhhhheeEEEEEEe-cCcceEEechhh--------HhhcCCCceecCCCCchHHHH
Confidence 4556788877788888876 467775 46999999 578999999973 3332 2457999999999
Q ss_pred HHHHHHHhCCC----CCCC---ceEEEEEeCCCCCCcccHHHHH--HHHHHc--CeEEEEEEcc---hhHHHHHHHHHhh
Q 015282 161 DLVQGLLSQIP----SYGH---REVLILYSALSTCDPGDIMETI--QKCKES--KIRCSVIGLS---AEMFICKHLCQDT 226 (410)
Q Consensus 161 ~~A~~~L~~~p----~~~s---reILVi~~S~~t~DpgdI~~ti--~~akk~--~IrV~vIgL~---aE~~iLk~la~~T 226 (410)
+.|+..+.... ..++ |-.+++++ +++ |.|-.... ...++. +.+|-.+++| ++..+|+|+++.-
T Consensus 86 ~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiT-DG~--PtD~w~~~~~~~~~~~~~~k~v~a~~~G~~~ad~~~L~qit~~V 162 (207)
T COG4245 86 TLALDMIEERKRKYDANGKGDYRPWVFLIT-DGE--PTDDWQAGAALVFQGERRAKSVAAFSVGVQGADNKTLNQITEKV 162 (207)
T ss_pred HHHHHHHHHHHhhcccCCccccceEEEEec-CCC--cchHHHhHHHHhhhcccccceEEEEEecccccccHHHHHHHHhh
Confidence 99999997531 1111 34566665 332 23333221 111111 1233334444 5678888888665
Q ss_pred CCeeEEeCCHHHHHHHHH
Q 015282 227 GGSYSVALDESHFKELIM 244 (410)
Q Consensus 227 gG~Y~va~d~~hl~~lL~ 244 (410)
+=-| .+|...|.+++.
T Consensus 163 ~~~~--t~d~~~f~~fFk 178 (207)
T COG4245 163 RQFL--TLDGLQFREFFK 178 (207)
T ss_pred cccc--ccchHHHHHHHH
Confidence 4322 346677777663
No 62
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=95.80 E-value=0.16 Score=55.50 Aligned_cols=124 Identities=12% Similarity=0.130 Sum_probs=90.0
Q ss_pred CCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCC---------eeEEeecCCCCHHHHHHHHhhhcCC-----------
Q 015282 91 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---------VANCLTDLGGSPESHIKALMGKLGC----------- 150 (410)
Q Consensus 91 P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g---------~Ae~ls~ltgn~~~~i~~L~~~~~~----------- 150 (410)
.++|..+++++..++....-.+|.+.||||.+.-. ..+++.+|..--.++++.|+++...
T Consensus 33 ~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p~a~~i~~L~~l~~~~~~~~~~~~~~ 112 (584)
T TIGR00578 33 LTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRILELDQFKGDQGPKKFRDTYG 112 (584)
T ss_pred CChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCCCHHHHHHHHHHhhccCccchhhccC
Confidence 58999999999999999999999999999998322 2345778877777787887765321
Q ss_pred CCc-chHHHHHHHHHHHHhCC-CCCCCceEEEEEeCCCC-CCcccHH----HHHHHHHHcCeEEEEEEcch
Q 015282 151 SGD-SSLQNALDLVQGLLSQI-PSYGHREVLILYSALST-CDPGDIM----ETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 151 ~G~-~SLqnaL~~A~~~L~~~-p~~~sreILVi~~S~~t-~DpgdI~----~ti~~akk~~IrV~vIgL~a 214 (410)
.++ ++|.++|-.|...|... +..++|+|++|...+.- .+..+.. ..++.|++.||.|.++.|..
T Consensus 113 ~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~~~~~~~~a~~~a~dl~~~gi~ielf~l~~ 183 (584)
T TIGR00578 113 HGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGNDSAKASRARTKAGDLRDTGIFLDLMHLKK 183 (584)
T ss_pred CCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCCchhHHHHHHHHHHHHHhcCeEEEEEecCC
Confidence 122 48999999999999863 45667777666542221 1222221 24888999999999998864
No 63
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.58 E-value=0.16 Score=57.04 Aligned_cols=135 Identities=16% Similarity=0.222 Sum_probs=91.9
Q ss_pred CHHH-HHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC-----------------------------CCHHHHH
Q 015282 92 SRMA-VVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG-----------------------------GSPESHI 141 (410)
Q Consensus 92 ~Rl~-~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt-----------------------------gn~~~~i 141 (410)
|++. ++.++++.-+..+-..-|.-+||||+|. ..-+ +..++ .+-+.||
T Consensus 433 ~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtfd-~tvh-Ffnl~s~L~qp~mliVsdv~dvfvPf~~g~~V~~~es~~~i 510 (1007)
T KOG1984|consen 433 NGAVKAACEAIKSVLEDLPREEPNIRVGIVTFD-KTVH-FFNLSSNLAQPQMLIVSDVDDVFVPFLDGLFVNPNESRKVI 510 (1007)
T ss_pred cchHHHHHHHHHHHHhhcCccCCceEEEEEEec-ceeE-eeccCccccCceEEEeecccccccccccCeeccchHHHHHH
Confidence 3444 4455555555555457888999999993 3322 22221 1223355
Q ss_pred HHHhhhc------CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcc------------------------
Q 015282 142 KALMGKL------GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------------------------ 191 (410)
Q Consensus 142 ~~L~~~~------~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~Dpg------------------------ 191 (410)
+.|-... ...-++.++++|+.|..+|+... + .+++|+.+++-|-+.+
T Consensus 511 ~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~~--g-GKl~vF~s~Lpt~g~g~kl~~r~D~~l~~t~kek~l~~pq 587 (1007)
T KOG1984|consen 511 ELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAAD--G-GKLFVFHSVLPTAGAGGKLSNRDDRRLIGTDKEKNLLQPQ 587 (1007)
T ss_pred HHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhccC--C-ceEEEEecccccccCcccccccchhhhhcccchhhccCcc
Confidence 5554321 23456899999999999999863 3 4688888888886555
Q ss_pred --cHHHHHHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeE
Q 015282 192 --DIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYS 231 (410)
Q Consensus 192 --dI~~ti~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~ 231 (410)
.+.+.++.+.+.+|-||+....+. |..+-+++..|||+-+
T Consensus 588 ~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy 632 (1007)
T KOG1984|consen 588 DKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVY 632 (1007)
T ss_pred hhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeE
Confidence 123568888999999999988654 7889999999999544
No 64
>PTZ00395 Sec24-related protein; Provisional
Probab=95.46 E-value=0.15 Score=59.84 Aligned_cols=77 Identities=19% Similarity=0.292 Sum_probs=60.9
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH-------------------H-HHHHHHHHcCeEEEEE
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-------------------M-ETIQKCKESKIRCSVI 210 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI-------------------~-~ti~~akk~~IrV~vI 210 (410)
..++.|+.||+.|..+|++... .-+|++|.+++-+.-+|.+ + +.+..+.+.+|-||+.
T Consensus 1073 ~~esCLGSALqAA~~aLk~~GG--GGKIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLF 1150 (1560)
T PTZ00395 1073 SYGSCGNSALKIAMDMLKERNG--LGSICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIF 1150 (1560)
T ss_pred CCcccHHHHHHHHHHHHHhcCC--CceEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEE
Confidence 3468999999999999998632 3479999887766555543 2 4688889999999999
Q ss_pred Ecchh-----HHHHHHHHHhhCCe
Q 015282 211 GLSAE-----MFICKHLCQDTGGS 229 (410)
Q Consensus 211 gL~aE-----~~iLk~la~~TgG~ 229 (410)
.++.. +..|..|++.|||.
T Consensus 1151 LfSsqYvDVDVATLg~Lsr~TGGq 1174 (1560)
T PTZ00395 1151 IISSNNVRVCVPSLQYVAQNTGGK 1174 (1560)
T ss_pred EccCcccccccccccchhccccee
Confidence 98754 46799999999993
No 65
>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=95.40 E-value=0.59 Score=45.33 Aligned_cols=120 Identities=12% Similarity=0.094 Sum_probs=80.0
Q ss_pred cCCCCCceEEEEeeCCee-----EEeecCCCCHHHHHHHHhhhc--CCCCc--chHHHHHHHHHHHHhCCC-------CC
Q 015282 110 DQNPLSQIGLVTVKDGVA-----NCLTDLGGSPESHIKALMGKL--GCSGD--SSLQNALDLVQGLLSQIP-------SY 173 (410)
Q Consensus 110 dqNPisqlGII~~~~g~A-----e~ls~ltgn~~~~i~~L~~~~--~~~G~--~SLqnaL~~A~~~L~~~p-------~~ 173 (410)
.++...++|||+++..-. -.-+.+|.|+..+++.|+++. +..++ ..+..||..|+..+...+ ..
T Consensus 57 ~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~~~~~fl~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~ 136 (226)
T PF11265_consen 57 GDYSNTEYGLVVFNTADCYPEPIVQRSGPTSSPQKFLQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQT 136 (226)
T ss_pred ccCCCceEEEEEEeccCCCcccceeccCCcCCHHHHHHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCcc
Confidence 456788999999975422 223567999999999999874 22222 349999999999887432 11
Q ss_pred -CCceEEEEEeCCCCCC---------cccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCee
Q 015282 174 -GHREVLILYSALSTCD---------PGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 230 (410)
Q Consensus 174 -~sreILVi~~S~~t~D---------pgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y 230 (410)
..|-.|+|-.|+-..- ....+..+....+.+|..|||+- ..+..|++|-+..+|.=
T Consensus 137 ~~~khcILI~nSpP~~~p~~~~~~~~~~~~d~la~~~~~~~I~LSiisP-rklP~l~~Lfeka~~~~ 202 (226)
T PF11265_consen 137 DVQKHCILICNSPPYRLPVNECPQYSGKTCDQLAVLISERNISLSIISP-RKLPSLRSLFEKAKGNP 202 (226)
T ss_pred cccceEEEEeCCCCccccccCCCcccCCCHHHHHHHHHhcCceEEEEcC-ccCHHHHHHHHhcCCCc
Confidence 2344444444433211 12455778888899999999988 45666777777766643
No 66
>PRK10997 yieM hypothetical protein; Provisional
Probab=94.54 E-value=0.59 Score=50.13 Aligned_cols=100 Identities=12% Similarity=0.109 Sum_probs=70.2
Q ss_pred CCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC-CC
Q 015282 111 QNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST-CD 189 (410)
Q Consensus 111 qNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t-~D 189 (410)
....+++++|.|.++....-.+.......++..|... ..|+|.+..+|..|+..+.... -.+..|||+|.... ..
T Consensus 356 l~q~dr~~li~Fs~~i~~~~l~~~~gl~~ll~fL~~~--f~GGTDl~~aL~~al~~l~~~~--~r~adIVVISDF~~~~~ 431 (487)
T PRK10997 356 LAENRRCYIMLFSTEVVTYELTGPDGLEQAIRFLSQS--FRGGTDLAPCLRAIIEKMQGRE--WFDADAVVISDFIAQRL 431 (487)
T ss_pred HhcCCCEEEEEecCCceeeccCCccCHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHcccc--cCCceEEEECCCCCCCC
Confidence 5678899999998655432112223455666666543 4688999999999999998632 23456666664433 23
Q ss_pred cccHHHHHHHHHH-cCeEEEEEEcch
Q 015282 190 PGDIMETIQKCKE-SKIRCSVIGLSA 214 (410)
Q Consensus 190 pgdI~~ti~~akk-~~IrV~vIgL~a 214 (410)
|..+.+.++.+++ .+.|++.+.++.
T Consensus 432 ~eel~~~L~~Lk~~~~~rf~~l~i~~ 457 (487)
T PRK10997 432 PDELVAKVKELQRQHQHRFHAVAMSA 457 (487)
T ss_pred hHHHHHHHHHHHHhcCcEEEEEEeCC
Confidence 5678889999988 899999999984
No 67
>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=94.47 E-value=1.3 Score=42.26 Aligned_cols=115 Identities=14% Similarity=0.136 Sum_probs=84.7
Q ss_pred CCCCceEEEEeeCCeeEEeecCCCC-HHHHHHHHhhhc---CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC
Q 015282 112 NPLSQIGLVTVKDGVANCLTDLGGS-PESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST 187 (410)
Q Consensus 112 NPisqlGII~~~~g~Ae~ls~ltgn-~~~~i~~L~~~~---~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t 187 (410)
.+...|=+..|. ....++-++|.+ ....++.+.... +.-|.+...-+++.++.......+......++|++....
T Consensus 38 DdDG~i~v~~Fs-~~~~~~~~vt~~~~~~~v~~~~~~~~~~~~~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~ 116 (200)
T PF10138_consen 38 DDDGEIDVWFFS-TEFDRLPDVTLDNYEGYVDELHAGLPDWGRMGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGP 116 (200)
T ss_pred CCCCceEEEEeC-CCCCcCCCcCHHHHHHHHHHHhccccccCCCCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCc
Confidence 466789999995 667777777643 333444443221 334679999999999988885433333566666776666
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHHhhC
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTG 227 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~~Tg 227 (410)
.|...+.+.|..+.+..|-...||+|.. ..+|++|-++.|
T Consensus 117 ~~~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~l~g 157 (200)
T PF10138_consen 117 DDRRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDDLAG 157 (200)
T ss_pred cchHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhccCC
Confidence 7888899999999999999999999976 579999999644
No 68
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=93.89 E-value=0.068 Score=52.86 Aligned_cols=40 Identities=33% Similarity=0.722 Sum_probs=33.6
Q ss_pred eeEcCCCCcccccCC-----------------CCCCCCCceecCchhHHhhhc-ccCC
Q 015282 289 GYTCPRCKARVCELP-----------------TDCRICGLQLVSSPHLARSYH-HLFP 328 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-----------------~~C~~Cgl~LvssphLarsyh-HlfP 328 (410)
-|.|+.|+..|-... -.|++||...||-|-|+.-.. |-.|
T Consensus 130 r~~c~eCgk~ysT~snLsrHkQ~H~~~~s~ka~~C~~C~K~YvSmpALkMHirTH~l~ 187 (279)
T KOG2462|consen 130 RYKCPECGKSYSTSSNLSRHKQTHRSLDSKKAFSCKYCGKVYVSMPALKMHIRTHTLP 187 (279)
T ss_pred ceeccccccccccccccchhhcccccccccccccCCCCCceeeehHHHhhHhhccCCC
Confidence 799999999887765 389999999999999988765 6544
No 69
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.82 E-value=2.5 Score=46.89 Aligned_cols=96 Identities=17% Similarity=0.202 Sum_probs=69.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH------------------------------HHHHHHHHHc
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI------------------------------METIQKCKES 203 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI------------------------------~~ti~~akk~ 203 (410)
-+.+.||++|...|...-.....+|+.+.|++-|--||-| ...++.+..+
T Consensus 249 RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~vv~~el~~piRshhdi~~d~a~y~kKa~KfY~~La~r~~~~ 328 (745)
T KOG1986|consen 249 RCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTVVSRELKEPIRSHHDIEKDNAPYYKKAIKFYEKLAERLANQ 328 (745)
T ss_pred cchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCceecchhhcCCCcCcccccCcchHHHHHHHHHHHHHHHHHHhC
Confidence 4788999999999987533445678888887666555421 1346677778
Q ss_pred CeEEEEEEcchh---HHHHHHHHHhhCCeeEEeCCH--HHHHHHHHhcCCC
Q 015282 204 KIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDE--SHFKELIMEHAPP 249 (410)
Q Consensus 204 ~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~d~--~hl~~lL~~~~~P 249 (410)
|-.+|+.+-+-. +..+|.+++.|||.-....+- +-|++-+..++.-
T Consensus 329 ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~Fk~sfqR~f~~ 379 (745)
T KOG1986|consen 329 GHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSIFKQSFQRIFTR 379 (745)
T ss_pred CceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHHHHHHHHHHhcc
Confidence 888887665543 567899999999977666544 4588888888763
No 70
>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=93.59 E-value=1.1 Score=42.77 Aligned_cols=107 Identities=17% Similarity=0.216 Sum_probs=73.2
Q ss_pred HHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhc-CCCCcchHHHHHHHHHHHHhCCCCCCCc
Q 015282 100 QVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHR 176 (410)
Q Consensus 100 ~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~-~~~G~~SLqnaL~~A~~~L~~~p~~~sr 176 (410)
.+..|+.....+.+ ++.+++|.+. ...+++.- .++.+.+..+.... .-.|.|.|+.||+.+...+..- .. .+
T Consensus 76 ~~l~~~~~l~~~~~--~~~~f~F~~~-l~~vT~~l~~~~~~~~l~~~~~~~~~~~GgTdi~~aL~~~~~~~~~~-~~-~~ 150 (222)
T PF05762_consen 76 FMLAFLYALQRQFR--RVRVFVFSTR-LTEVTPLLRRRDPEEALARLSALVQSFGGGTDIGQALREFLRQYARP-DL-RR 150 (222)
T ss_pred HHHHHHHHHHHhCC--CEEEEEEeee-hhhhhhhhccCCHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcc-cc-cC
Confidence 34456666666666 8999999754 34444442 36666666665322 4678899999999999988742 23 55
Q ss_pred eEEEEEeCC-CCCCcccHHHHHHHHHHcCeEEEEEE
Q 015282 177 EVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIG 211 (410)
Q Consensus 177 eILVi~~S~-~t~DpgdI~~ti~~akk~~IrV~vIg 211 (410)
-+|||+|.. .+.++....+.+..++..+-+|..+.
T Consensus 151 t~vvIiSDg~~~~~~~~~~~~l~~l~~r~~rviwLn 186 (222)
T PF05762_consen 151 TTVVIISDGWDTNDPEPLAEELRRLRRRGRRVIWLN 186 (222)
T ss_pred cEEEEEecccccCChHHHHHHHHHHHHhCCEEEEEC
Confidence 677777755 56777777788899998888776544
No 71
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=91.70 E-value=6.5 Score=41.52 Aligned_cols=151 Identities=17% Similarity=0.140 Sum_probs=98.4
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCee----------------------------EEeecCCCCHHHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA----------------------------NCLTDLGGSPESHIKA 143 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~A----------------------------e~ls~ltgn~~~~i~~ 143 (410)
+-|+..+.....+.++.=.--+..|||+=+|-|+.. .-+.+||.|..+..+.
T Consensus 114 ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~f~f~~~L~LT~~~~~F~~~ 193 (423)
T smart00187 114 DDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPPYGFKHVLSLTDDTDEFNEE 193 (423)
T ss_pred HHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCCcceeeeccCCCCHHHHHHH
Confidence 466777777777777766677889999999877622 2346789999999888
Q ss_pred Hhhhc------CCCCcchHHHHHHHHHHHHhCCC-CCCCceEEEEEeCCCC-----------------------------
Q 015282 144 LMGKL------GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALST----------------------------- 187 (410)
Q Consensus 144 L~~~~------~~~G~~SLqnaL~~A~~~L~~~p-~~~sreILVi~~S~~t----------------------------- 187 (410)
+.+.. .|+|.. +||-.|.---+.+- ...+|+|||+.+....
T Consensus 194 V~~~~iSgN~D~PEgG~---DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~Yt~ 270 (423)
T smart00187 194 VKKQRISGNLDAPEGGF---DAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNGEYTM 270 (423)
T ss_pred HhhceeecCCcCCcccH---HHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCCCcCc
Confidence 87642 144432 13322221112221 2356788888762211
Q ss_pred ---CCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHHhhCCeeEEe--CCHHHHHHHHHhc
Q 015282 188 ---CDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGSYSVA--LDESHFKELIMEH 246 (410)
Q Consensus 188 ---~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~~TgG~Y~va--~d~~hl~~lL~~~ 246 (410)
-|+..|-+..++|++++|.+= .++..+ ..+.+++++.-.|...=. .|....-+|+.+.
T Consensus 271 s~~~DYPSi~ql~~kL~e~nI~~I-FAVT~~~~~~Y~~Ls~lipgs~vg~Ls~DSsNIv~LI~~a 334 (423)
T smart00187 271 STTQDYPSIGQLNQKLAENNINPI-FAVTKKQVSLYKELSALIPGSSVGVLSEDSSNVVELIKDA 334 (423)
T ss_pred cCcCCCCCHHHHHHHHHhcCceEE-EEEcccchhHHHHHHHhcCcceeeecccCcchHHHHHHHH
Confidence 378889999999999999654 344444 579999999999877744 3445554444443
No 72
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=91.59 E-value=2.2 Score=47.75 Aligned_cols=74 Identities=23% Similarity=0.403 Sum_probs=56.3
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH------------------HHHHHHHHHcCeEEEEEEcc
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI------------------METIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI------------------~~ti~~akk~~IrV~vIgL~ 213 (410)
-++.+++||..|...++.. ..+|+++++++-+---|++ .+.+..+.|.+|-|++-..+
T Consensus 386 pk~~~G~aLk~a~~l~g~~----GGkii~~~stlPn~G~Gkl~~r~d~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~ 461 (861)
T COG5028 386 PKNALGPALKAAKSLIGGT----GGKIIVFLSTLPNMGIGKLQLREDKESSLLSCKDSFYKEFAIECSKVGISVDLFLTS 461 (861)
T ss_pred CccccCHHHHHHHHHhhcc----CceEEEEeecCCCcccccccccccchhhhccccchHHHHHHHHHHHhcceEEEEecc
Confidence 3568999999999998875 3368888876443332322 24577889999999998886
Q ss_pred h---hHHHHHHHHHhhCCe
Q 015282 214 A---EMFICKHLCQDTGGS 229 (410)
Q Consensus 214 a---E~~iLk~la~~TgG~ 229 (410)
+ ++..+-.+++.|||.
T Consensus 462 ~~yidvaTls~l~~~T~G~ 480 (861)
T COG5028 462 EDYIDVATLSHLCRYTGGQ 480 (861)
T ss_pred ccccchhhhcchhhccCcc
Confidence 5 589999999999994
No 73
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=91.59 E-value=2.3 Score=42.89 Aligned_cols=139 Identities=17% Similarity=0.235 Sum_probs=100.2
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhC-C
Q 015282 94 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ-I 170 (410)
Q Consensus 94 l~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~lt--gn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~-~ 170 (410)
+.-++.....++.. .+|...++++++.. .+..+.+.+ .+...+..++.......|.+.+..++..+...+.. .
T Consensus 55 ~~~~~~~~~~~v~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 (399)
T COG2304 55 LELAKSAAIELVNG---LNPGDLLSIVTFAG-SADVLIPPTGATNKESITAAIDQSLQAGGATAVEASLSLAVELAAKAL 130 (399)
T ss_pred HHHHHHHHHHHhcc---cCCCCceEEEEecC-CcceecCcccccCHHHHHHHHhhhhccccccHHHHHHHHHHHHhhhcC
Confidence 55666666666654 68999999999976 888888877 78888888888866788889999999999988887 3
Q ss_pred CCCCCceEEEEEeCCCCC---CcccHHHHHHHHHHcCeEEEEEEcchhH--HHHHHHHHhhCCeeEEeCCH
Q 015282 171 PSYGHREVLILYSALSTC---DPGDIMETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSVALDE 236 (410)
Q Consensus 171 p~~~sreILVi~~S~~t~---DpgdI~~ti~~akk~~IrV~vIgL~aE~--~iLk~la~~TgG~Y~va~d~ 236 (410)
+......+++...+.... |+..+....+..-+.+|.++++|++.+. ..+..+...++|.+....+.
T Consensus 131 ~~~~~~~~~~~tdg~~~~~~~d~~~~~~~~~~~~~~~i~~~~~g~~~~~n~~~~~~~~~~~~g~l~~~~~~ 201 (399)
T COG2304 131 PRGTLNRILLLTDGENNLGLVDPSRLSALAKLAAGKGIVLDTLGLGDDVNEDELTGIAAAANGNLAFIYLS 201 (399)
T ss_pred CccceeeEeeeccCccccCCCCHHHHHHHhcccccCceEEEEEecccccchhhhhhhhhccCcccccccCc
Confidence 333333455554444333 4445556666666679999999999874 45567778877766655433
No 74
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=91.18 E-value=4.9 Score=42.54 Aligned_cols=123 Identities=17% Similarity=0.215 Sum_probs=81.3
Q ss_pred HHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHHHHHHHHHhCCCCCCCceE
Q 015282 101 VEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNALDLVQGLLSQIPSYGHREV 178 (410)
Q Consensus 101 l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~--~~~G~~SLqnaL~~A~~~L~~~p~~~sreI 178 (410)
+--.|.. +=|-+.|.||+|. ..|+.+. ++.|-... .+.| +.+..||.+|-..|++-++. .+-|
T Consensus 492 LhHLv~T---rfrGD~l~~i~Fg-r~A~~v~---------v~eLt~l~~v~eqg-TNlhhaL~LA~r~l~Rh~~~-~~~i 556 (652)
T COG4867 492 LHHLVCT---RFRGDALQIIAFG-RYARTVT---------AAELTGLAGVYEQG-TNLHHALALAGRHLRRHAGA-QPVV 556 (652)
T ss_pred HHHHHHh---cCCCcceEEEecc-chhcccC---------HHHHhcCCCccccc-cchHHHHHHHHHHHHhCccc-CceE
Confidence 3445554 5588999999995 4454321 23333321 2344 89999999999999986532 2335
Q ss_pred EEEEeC-CCC---------------CCcccHHHH---HHHHHHcCeEEEEEEcchh---HHHHHHHHHhhCCeeEEeCCH
Q 015282 179 LILYSA-LST---------------CDPGDIMET---IQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDE 236 (410)
Q Consensus 179 LVi~~S-~~t---------------~DpgdI~~t---i~~akk~~IrV~vIgL~aE---~~iLk~la~~TgG~Y~va~d~ 236 (410)
|||.-+ ++. .||--|..| +..+.+.||.|.+.-|+.+ ++++++++++|+|+-+++ |.
T Consensus 557 l~vTDGePtAhle~~DG~~~~f~yp~DP~t~~~Tvr~~d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~p-dl 635 (652)
T COG4867 557 LVVTDGEPTAHLEDGDGTSVFFDYPPDPRTIAHTVRGFDDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVP-DL 635 (652)
T ss_pred EEEeCCCccccccCCCCceEecCCCCChhHHHHHHHHHHHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEec-Cc
Confidence 555421 111 123344444 5677899999999999976 689999999999988776 44
Q ss_pred HHH
Q 015282 237 SHF 239 (410)
Q Consensus 237 ~hl 239 (410)
+.+
T Consensus 636 dgl 638 (652)
T COG4867 636 DGL 638 (652)
T ss_pred chh
Confidence 443
No 75
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.07 E-value=2.5 Score=47.61 Aligned_cols=76 Identities=24% Similarity=0.370 Sum_probs=56.9
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcc------------------------cHHH-HHHHHHHcCeEE
Q 015282 153 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------------------------DIME-TIQKCKESKIRC 207 (410)
Q Consensus 153 ~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~Dpg------------------------dI~~-ti~~akk~~IrV 207 (410)
+.+|+-||+.|..+|... + .+|+||.+++-+.-.| ++++ .+-.+-|.+|.|
T Consensus 404 ~~alGpALkaaf~li~~~---G-Gri~vf~s~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~V 479 (887)
T KOG1985|consen 404 GSALGPALKAAFNLIGST---G-GRISVFQSTLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQICV 479 (887)
T ss_pred ccccCHHHHHHHHHHhhc---C-CeEEEEeccCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCceEE
Confidence 479999999999999985 2 3688888765432221 2333 355678899999
Q ss_pred EEEEcchh---HHHHHHHHHhhCC-eeEE
Q 015282 208 SVIGLSAE---MFICKHLCQDTGG-SYSV 232 (410)
Q Consensus 208 ~vIgL~aE---~~iLk~la~~TgG-~Y~v 232 (410)
|.-.+..+ +..|..|++-||| .|+.
T Consensus 480 DlFl~s~qY~DlAsLs~LskySgG~~y~Y 508 (887)
T KOG1985|consen 480 DLFLFSEQYTDLASLSCLSKYSGGQVYYY 508 (887)
T ss_pred EEEeecccccchhhhhccccccCceeEEc
Confidence 99999864 8999999999999 3443
No 76
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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 FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=90.98 E-value=0.13 Score=40.01 Aligned_cols=38 Identities=18% Similarity=0.448 Sum_probs=21.3
Q ss_pred CCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchh
Q 015282 344 RNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY 385 (410)
Q Consensus 344 ~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~f 385 (410)
+......|..|.++|.- ...++-|..|+.+||.+|-.+
T Consensus 5 ~d~~~~~C~~C~~~F~~----~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 5 PDSEASNCMICGKKFSL----FRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp SGGG-SB-TTT--B-BS----SS-EEE-TTT--EEECCCS-E
T ss_pred CCCCCCcCcCcCCcCCC----ceeeEccCCCCCEECCchhCC
Confidence 33456789999999953 234799999999999999753
No 77
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=90.08 E-value=0.24 Score=49.13 Aligned_cols=77 Identities=25% Similarity=0.631 Sum_probs=47.5
Q ss_pred CeeEcCCCCcccccC------------CCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccc
Q 015282 288 VGYTCPRCKARVCEL------------PTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQ 355 (410)
Q Consensus 288 ~GY~Cp~C~s~~C~l------------P~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~ 355 (410)
..+.|+-|.-.|=++ |-+|.+||..|-- |-|-.. |+ .- -.-...-.|.-|.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR-PWLLQG--Hi-------RT-------HTGEKPF~C~hC~ 222 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR-PWLLQG--HI-------RT-------HTGEKPFSCPHCG 222 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccc-hHHhhc--cc-------cc-------ccCCCCccCCccc
Confidence 378999999988754 5799999987521 111000 10 00 0011233699999
Q ss_pred ccccCCCC--------CCCceeeCCCCCcccccc
Q 015282 356 QSLLSSGN--------KPGLYVACPKCKKHFCLE 381 (410)
Q Consensus 356 ~~~~~~~~--------~~~~~~~C~~C~~~FC~d 381 (410)
+.|.+..+ ...-.|+|++|++.|=.-
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~ 256 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALK 256 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcchhhHHHHH
Confidence 99976531 122369999999998554
No 79
>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=89.51 E-value=0.23 Score=45.39 Aligned_cols=26 Identities=31% Similarity=0.534 Sum_probs=22.3
Q ss_pred eeEcCCCCccccc-----CCCCCCCCCceec
Q 015282 289 GYTCPRCKARVCE-----LPTDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~-----lP~~C~~Cgl~Lv 314 (410)
+|+||+|+.+|-. .--.||.||.+|+
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAMELNFTCPRCGAMLD 139 (158)
T ss_pred eEECCCCCcEeeHHHHHHcCCcCCCCCCEee
Confidence 9999999999864 3469999999986
No 80
>PRK04023 DNA polymerase II large subunit; Validated
Probab=88.59 E-value=0.27 Score=56.20 Aligned_cols=69 Identities=29% Similarity=0.581 Sum_probs=44.1
Q ss_pred cccCCCCCCcccCccCCCC-------CCCCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhccCC
Q 015282 324 HHLFPIAPFDEVTPLCLND-------PRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHESLH 391 (410)
Q Consensus 324 hHlfPl~~f~~v~~~~~~~-------~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----FC~dCD~fiHe~Lh 391 (410)
|-|||+-..--...++.+. .-..+.+.|..|.... ..+.||.|+.. ||.+|-.-... -
T Consensus 595 h~LFPiG~~GG~~R~i~~A~~~~g~~eVEVg~RfCpsCG~~t--------~~frCP~CG~~Te~i~fCP~CG~~~~~--y 664 (1121)
T PRK04023 595 HVLFPIGNAGGSTRDINKAAKYKGTIEVEIGRRKCPSCGKET--------FYRRCPFCGTHTEPVYRCPRCGIEVEE--D 664 (1121)
T ss_pred cccccccccCcccccHHHHHhcCCceeecccCccCCCCCCcC--------CcccCCCCCCCCCcceeCccccCcCCC--C
Confidence 7799987664322110000 0122467999998554 35789999975 99999765543 3
Q ss_pred CCCCCCCCCCC
Q 015282 392 NCPGCESLRHS 402 (410)
Q Consensus 392 ~CPgC~~~~~~ 402 (410)
.||.|...+.+
T Consensus 665 ~CPKCG~El~~ 675 (1121)
T PRK04023 665 ECEKCGREPTP 675 (1121)
T ss_pred cCCCCCCCCCc
Confidence 49999875543
No 81
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=88.21 E-value=0.3 Score=45.56 Aligned_cols=27 Identities=30% Similarity=0.618 Sum_probs=22.9
Q ss_pred eeEcCCCCccccc-----CCCCCCCCCceecC
Q 015282 289 GYTCPRCKARVCE-----LPTDCRICGLQLVS 315 (410)
Q Consensus 289 GY~Cp~C~s~~C~-----lP~~C~~Cgl~Lvs 315 (410)
+|+||+|+.+|-. .--.||.||-.|+-
T Consensus 117 ~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred EEECCCCCcEEeHHHHhhcCCcCCCCCCCCee
Confidence 9999999999864 34699999999874
No 82
>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=87.57 E-value=3.6 Score=39.43 Aligned_cols=105 Identities=16% Similarity=0.223 Sum_probs=71.2
Q ss_pred CCCCCceEEEEe--eC-CeeEEeecCC-----CCHHHHHHHHhhhc-CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEE
Q 015282 111 QNPLSQIGLVTV--KD-GVANCLTDLG-----GSPESHIKALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHREVLIL 181 (410)
Q Consensus 111 qNPisqlGII~~--~~-g~Ae~ls~lt-----gn~~~~i~~L~~~~-~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi 181 (410)
..|..+|+|-++ .+ +....+.|-| .+.......|...- ...|.|+|++||..|...|...|-.+.|+||=|
T Consensus 43 ~g~~g~Iav~~~eWsg~~~q~~~v~Wt~i~~~~da~a~A~~l~~~~r~~~~~Taig~Al~~a~~ll~~~~~~~~RrVIDv 122 (205)
T PF06707_consen 43 SGPIGRIAVAVVEWSGPGRQRVVVPWTRIDSPADAEAFAARLRAAPRRFGGRTAIGSALDFAAALLAQNPFECWRRVIDV 122 (205)
T ss_pred cCCCCeEEEEEEEecCCCCceEEeCCEEeCCHHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHhCCCCCceEEEEE
Confidence 467788877666 32 2344444442 23333445554432 234559999999999999999987799999888
Q ss_pred EeCCCCCCc-ccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 182 YSALSTCDP-GDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 182 ~~S~~t~Dp-gdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
.|...+++. .....+-..+...||.|+-+.+..+
T Consensus 123 SGDG~~N~G~~p~~~ard~~~~~GitINgL~I~~~ 157 (205)
T PF06707_consen 123 SGDGPNNQGPRPVTSARDAAVAAGITINGLAILDD 157 (205)
T ss_pred CCCCCCCCCCCccHHHHHHHHHCCeEEeeeEecCC
Confidence 874444333 3333777888999999999888754
No 83
>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=86.99 E-value=0.48 Score=32.43 Aligned_cols=24 Identities=33% Similarity=0.778 Sum_probs=19.7
Q ss_pred eeEcCCCCccccc--CCCCCCCCCce
Q 015282 289 GYTCPRCKARVCE--LPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~--lP~~C~~Cgl~ 312 (410)
-|+|+.|+-++=. .|..||+||..
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCc
Confidence 4899999988654 57899999963
No 84
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=86.43 E-value=0.4 Score=35.60 Aligned_cols=34 Identities=26% Similarity=0.729 Sum_probs=27.7
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhh
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI 386 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fi 386 (410)
..|..|.+.|..- ...+.|..|+.+||.+|..+-
T Consensus 3 ~~C~~C~~~F~~~----~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLT----RRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCC----ccccccCcCcCCcChHHcCCe
Confidence 4799999999642 246889999999999998754
No 85
>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=84.79 E-value=0.44 Score=41.08 Aligned_cols=28 Identities=36% Similarity=0.859 Sum_probs=24.7
Q ss_pred eeEcCCCCcccccC---CCCCCCCCceecCc
Q 015282 289 GYTCPRCKARVCEL---PTDCRICGLQLVSS 316 (410)
Q Consensus 289 GY~Cp~C~s~~C~l---P~~C~~Cgl~Lvss 316 (410)
-.+||-|++||=.| |+.||-||..+..+
T Consensus 9 KR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 47899999999887 68899999998766
No 86
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=84.45 E-value=9.4 Score=35.23 Aligned_cols=43 Identities=21% Similarity=0.223 Sum_probs=34.0
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHH
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQ 224 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~ 224 (410)
..+||+||+ +|+.-.+..++..|.+|.++|... -..-|+..|+
T Consensus 107 D~~vLvSgD-----~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd 150 (160)
T TIGR00288 107 DAVALVTRD-----ADFLPVINKAKENGKETIVIGAEPGFSTALQNSAD 150 (160)
T ss_pred CEEEEEecc-----HhHHHHHHHHHHCCCEEEEEeCCCCChHHHHHhcC
Confidence 477888866 588899999999999999999754 2356777775
No 87
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=84.15 E-value=0.56 Score=42.19 Aligned_cols=27 Identities=33% Similarity=0.760 Sum_probs=22.5
Q ss_pred eeEcCCCCccccc-----CC-----CCCCCCCceecC
Q 015282 289 GYTCPRCKARVCE-----LP-----TDCRICGLQLVS 315 (410)
Q Consensus 289 GY~Cp~C~s~~C~-----lP-----~~C~~Cgl~Lvs 315 (410)
+|+||.|+.+|-. +. -.||.||..|+.
T Consensus 99 ~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 99 YYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEE 135 (147)
T ss_pred EEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEE
Confidence 8999999998874 44 689999999864
No 88
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=83.75 E-value=14 Score=39.38 Aligned_cols=136 Identities=13% Similarity=0.059 Sum_probs=92.8
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCee-EEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-NCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLL 167 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~A-e~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L 167 (410)
|.-+..++++..+-..++-=+.+| -.+.++.|.+..- ..+++...|..++++-|... ..|+|.+..+|..|+..+
T Consensus 285 M~G~~e~~AKAvalAl~~~alaen--R~~~~~lF~s~~~~~el~~k~~~~~e~i~fL~~~--f~GGTD~~~~l~~al~~~ 360 (437)
T COG2425 285 MSGFKEQWAKAVALALMRIALAEN--RDCYVILFDSEVIEYELYEKKIDIEELIEFLSYV--FGGGTDITKALRSALEDL 360 (437)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHhc--cceEEEEecccceeeeecCCccCHHHHHHHHhhh--cCCCCChHHHHHHHHHHh
Confidence 344577777776655555433333 4589999976322 34566677888888887764 344499999999999999
Q ss_pred hCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHHcCeEEEEEEcchhH-HHHHHHHHhhCCeeEE
Q 015282 168 SQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGGSYSV 232 (410)
Q Consensus 168 ~~~p~~~sreILVi~~S~~t~DpgdI~-~ti~~akk~~IrV~vIgL~aE~-~iLk~la~~TgG~Y~v 232 (410)
+..+-+. -.||||.-.-.--+ .++. +.-+..++.+.+++.|.+++.- .-|.++.+.+ +|-+
T Consensus 361 k~~~~~~-adiv~ITDg~~~~~-~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~Isd~~--i~~~ 423 (437)
T COG2425 361 KSRELFK-ADIVVITDGEDERL-DDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRISDHI--IYRV 423 (437)
T ss_pred hcccccC-CCEEEEeccHhhhh-hHHHHHHHHHHHHhhceEEEEEecCCCCcccceeeeee--EEee
Confidence 9887666 45777754332222 2333 5566667999999999999875 6777777776 5554
No 89
>PF07002 Copine: Copine; InterPro: IPR010734 This represents a conserved region approximately 180 residues long within eukaryotic copines. Copines are Ca2+-dependent phospholipid-binding proteins that are thought to be involved in membrane-trafficking, and may also be involved in cell division and growth [].
Probab=82.93 E-value=25 Score=31.75 Aligned_cols=118 Identities=18% Similarity=0.268 Sum_probs=71.2
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCee-----EEeecCCCCH--------HHHHHHHhhhc---CCCCc
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-----NCLTDLGGSP--------ESHIKALMGKL---GCSGD 153 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~A-----e~ls~ltgn~--------~~~i~~L~~~~---~~~G~ 153 (410)
.||-.+.++..+-..+..| ++..++-+.+|.++.. .---||++|+ +.++++-++.+ ...|-
T Consensus 9 ~~N~Y~~ai~~vg~il~~Y---d~dk~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v~l~GP 85 (146)
T PF07002_consen 9 QPNPYQQAIRAVGEILQDY---DSDKMIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKVQLSGP 85 (146)
T ss_pred CCCHHHHHHHHHHHHHHhh---ccCCccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhheEECCC
Confidence 5899999999999999887 4455556666643322 2236677664 33555555432 46787
Q ss_pred chHHHHHHHHHHHHhCCCCCC-CceEEEEEeCCCCCCcccHHHHHHHH-HHcCeEEEEEEcc
Q 015282 154 SSLQNALDLVQGLLSQIPSYG-HREVLILYSALSTCDPGDIMETIQKC-KESKIRCSVIGLS 213 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~-sreILVi~~S~~t~DpgdI~~ti~~a-kk~~IrV~vIgL~ 213 (410)
+.+.--|+.|...-+.....+ .=-||+|++...-. |+.+|++++ +..+-++|+|-+|
T Consensus 86 T~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~---D~~~T~~aIv~AS~~PlSIIiVG 144 (146)
T PF07002_consen 86 TNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQIT---DMEETIDAIVEASKLPLSIIIVG 144 (146)
T ss_pred ccHHHHHHHHHHHHhhhccCCceEEEEEEecccccc---cHHHHHHHHHHHccCCeEEEEEE
Confidence 788777777777766321111 12488888744333 566665544 3345566665543
No 90
>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=82.78 E-value=1 Score=30.46 Aligned_cols=22 Identities=36% Similarity=0.827 Sum_probs=18.4
Q ss_pred eEcCCCCcccccC--CCCCCCCCc
Q 015282 290 YTCPRCKARVCEL--PTDCRICGL 311 (410)
Q Consensus 290 Y~Cp~C~s~~C~l--P~~C~~Cgl 311 (410)
|+|+.|+-++=.- |-.||+||.
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCC
Confidence 8899999887665 679999986
No 91
>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=82.08 E-value=0.76 Score=40.74 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=26.4
Q ss_pred eeEcCCCCcccccC---CCCCCCCCceecCchhHH
Q 015282 289 GYTCPRCKARVCEL---PTDCRICGLQLVSSPHLA 320 (410)
Q Consensus 289 GY~Cp~C~s~~C~l---P~~C~~Cgl~LvssphLa 320 (410)
-.+||.|++||=.| |+.||-||...-.+|-+.
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCccCcchhhc
Confidence 57999999999877 799999999876664443
No 92
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.82 E-value=1 Score=32.50 Aligned_cols=26 Identities=31% Similarity=0.764 Sum_probs=20.6
Q ss_pred eeEcCCCCcccccC----CCCCCCCCceec
Q 015282 289 GYTCPRCKARVCEL----PTDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~l----P~~C~~Cgl~Lv 314 (410)
-|.||.|++.+=.- ...||-||..++
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 59999999976322 568999998876
No 93
>PF01485 IBR: IBR domain; InterPro: IPR002867 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 cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=81.25 E-value=1 Score=33.67 Aligned_cols=42 Identities=26% Similarity=0.639 Sum_probs=25.9
Q ss_pred Ccccc--ccccccCCCCCCCceeeCCCCCcccccccchhhhccC
Q 015282 349 STCFG--CQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 390 (410)
Q Consensus 349 ~~C~~--C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~L 390 (410)
+.|.. |...+............|+.|+..||..|..-.|+.+
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~ 62 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGV 62 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCC
Confidence 58966 9888865433222237899999999999998888754
No 94
>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=80.24 E-value=1 Score=33.11 Aligned_cols=30 Identities=33% Similarity=0.651 Sum_probs=21.9
Q ss_pred eeEcCCCCcccccC-------CCCCCCCCc----eecCchh
Q 015282 289 GYTCPRCKARVCEL-------PTDCRICGL----QLVSSPH 318 (410)
Q Consensus 289 GY~Cp~C~s~~C~l-------P~~C~~Cgl----~Lvssph 318 (410)
-|.|+.|+..|=.+ ++.||.||- .++|+|.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~s~~~ 45 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLLSAVG 45 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEecccc
Confidence 58999999855443 457999996 3666664
No 95
>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=80.22 E-value=0.92 Score=34.45 Aligned_cols=25 Identities=40% Similarity=0.954 Sum_probs=19.5
Q ss_pred eeEcCCCCcccccCC-------CCCCCCCceec
Q 015282 289 GYTCPRCKARVCELP-------TDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-------~~C~~Cgl~Lv 314 (410)
-|.||.|++.+ ++| +.|+.||..|-
T Consensus 2 ~~~CP~CG~~i-ev~~~~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 2 QFECPDCGAEI-ELENPELGELVICDECGAELE 33 (54)
T ss_pred ccCCCCCCCEE-ecCCCccCCEEeCCCCCCEEE
Confidence 36899999966 555 48999998763
No 96
>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=80.18 E-value=1 Score=29.15 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=19.6
Q ss_pred EcCCCCcccccCCCCCCCCCcee
Q 015282 291 TCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 291 ~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
.||.|.+.+=.--..||.||-.+
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 59999999877778999999765
No 97
>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=80.08 E-value=0.7 Score=30.88 Aligned_cols=14 Identities=64% Similarity=1.483 Sum_probs=10.1
Q ss_pred eeEcCCCCcccccC
Q 015282 289 GYTCPRCKARVCEL 302 (410)
Q Consensus 289 GY~Cp~C~s~~C~l 302 (410)
-|.||+|+.++|+|
T Consensus 13 kY~Cp~C~~~~CSl 26 (30)
T PF04438_consen 13 KYRCPRCGARYCSL 26 (30)
T ss_dssp SEE-TTT--EESSH
T ss_pred EEECCCcCCceeCc
Confidence 79999999999987
No 98
>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=78.93 E-value=1.3 Score=31.50 Aligned_cols=30 Identities=27% Similarity=0.544 Sum_probs=24.6
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 368 YVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
-|+|++|++.|=.---+-= +....||.|..
T Consensus 5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 5899999999988765544 58889999987
No 99
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.70 E-value=1.4 Score=40.90 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=18.8
Q ss_pred eeEcCCCCcccc-cCCCCCCCCCce
Q 015282 289 GYTCPRCKARVC-ELPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C-~lP~~C~~Cgl~ 312 (410)
-|+||+|+-.+= +-|-.||+||..
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 599999997544 556689999953
No 100
>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=78.17 E-value=1.8 Score=27.67 Aligned_cols=24 Identities=21% Similarity=0.715 Sum_probs=16.6
Q ss_pred cccccccccCCCCCCCceeeCCCCCc
Q 015282 351 CFGCQQSLLSSGNKPGLYVACPKCKK 376 (410)
Q Consensus 351 C~~C~~~~~~~~~~~~~~~~C~~C~~ 376 (410)
|..|...+... .....|.||+|+.
T Consensus 1 C~sC~~~i~~r--~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPR--EQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCc--ccCceEeCCCCCC
Confidence 66787777532 2256899999974
No 101
>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=77.64 E-value=0.72 Score=52.05 Aligned_cols=67 Identities=30% Similarity=0.692 Sum_probs=0.0
Q ss_pred hcccCCCCCCcccCccCCCCCC--------CCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhcc
Q 015282 323 YHHLFPIAPFDEVTPLCLNDPR--------NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHES 389 (410)
Q Consensus 323 yhHlfPl~~f~~v~~~~~~~~~--------~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----FC~dCD~fiHe~ 389 (410)
-|-|||+-..--...++.+... ..+.+.|-.|... +....||.|+.+ +|.+|..-+-+.
T Consensus 622 ~h~LFPIG~~GG~~R~i~~A~~~~~g~i~vei~~r~Cp~Cg~~--------t~~~~Cp~CG~~T~~~~~Cp~C~~~~~~~ 693 (900)
T PF03833_consen 622 PHVLFPIGEAGGSRRDIQKAAKKGKGTIEVEIGRRRCPKCGKE--------TFYNRCPECGSHTEPVYVCPDCGIEVEED 693 (900)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CceeccccccCcccccHHHHHhcCCCeeEEeeecccCcccCCc--------chhhcCcccCCccccceeccccccccCcc
Confidence 4779998765332111111111 1135689999732 345689999988 999999877666
Q ss_pred CCCCCCCCCC
Q 015282 390 LHNCPGCESL 399 (410)
Q Consensus 390 Lh~CPgC~~~ 399 (410)
.||-|...
T Consensus 694 --~C~~C~~~ 701 (900)
T PF03833_consen 694 --ECPKCGRE 701 (900)
T ss_dssp ----------
T ss_pred --cccccccc
Confidence 99999764
No 102
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=77.51 E-value=1.1 Score=31.59 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=29.3
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCC
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 396 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC 396 (410)
.|.-|+..|... ...+..+ |+..||.+|=.-.=+.-..||.|
T Consensus 2 ~C~IC~~~~~~~----~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~C 43 (44)
T PF13639_consen 2 ECPICLEEFEDG----EKVVKLP-CGHVFHRSCIKEWLKRNNSCPVC 43 (44)
T ss_dssp CETTTTCBHHTT----SCEEEET-TSEEEEHHHHHHHHHHSSB-TTT
T ss_pred CCcCCChhhcCC----CeEEEcc-CCCeeCHHHHHHHHHhCCcCCcc
Confidence 488898888542 2356677 99999999964443445699988
No 103
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=77.18 E-value=1.3 Score=27.85 Aligned_cols=23 Identities=35% Similarity=0.780 Sum_probs=16.7
Q ss_pred EcCCCCcccccCCCCCCCCCcee
Q 015282 291 TCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 291 ~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
.||.|++.+=+=-..|+.||..|
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCcC
Confidence 37888887766667788888654
No 104
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=75.86 E-value=3.1 Score=32.23 Aligned_cols=47 Identities=21% Similarity=0.583 Sum_probs=36.1
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc---cccccchhhhccCCCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH---FCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~---FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
...|.+|...+...+ ....|.||.|+.. .|..|-.+- ....||-|..
T Consensus 7 ~~~CtSCg~~i~~~~--~~~~F~CPnCG~~~I~RC~~CRk~~--~~Y~CP~CGF 56 (59)
T PRK14890 7 PPKCTSCGIEIAPRE--KAVKFLCPNCGEVIIYRCEKCRKQS--NPYTCPKCGF 56 (59)
T ss_pred CccccCCCCcccCCC--ccCEeeCCCCCCeeEeechhHHhcC--CceECCCCCC
Confidence 447999998886432 2467999999977 899998854 5678999975
No 105
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=75.48 E-value=2.9 Score=35.07 Aligned_cols=31 Identities=19% Similarity=0.477 Sum_probs=18.5
Q ss_pred CCcccccccc--------ccCCCCCCCceeeCCCCCccc
Q 015282 348 RSTCFGCQQS--------LLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 348 ~~~C~~C~~~--------~~~~~~~~~~~~~C~~C~~~F 378 (410)
...|..|... ..+.+......|.|.+|+..+
T Consensus 62 ~~~Cp~Cg~~~a~f~~~Q~RsadE~~T~fy~C~~C~~~w 100 (104)
T TIGR01384 62 RVECPKCGHKEAYYWLLQTRRADEPETRFYKCTKCGYVW 100 (104)
T ss_pred cCCCCCCCCCeeEEEEeccCCCCCCcEEEEEeCCCCCee
Confidence 5679888422 112222345579999998643
No 106
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=75.46 E-value=2.6 Score=49.64 Aligned_cols=52 Identities=25% Similarity=0.636 Sum_probs=34.5
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLY 368 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~ 368 (410)
-+.||.|++.. ....||.||..+ + ....|..|...++.... ..
T Consensus 667 ~rkCPkCG~~t--~~~fCP~CGs~t--------------------e------------~vy~CPsCGaev~~des---~a 709 (1337)
T PRK14714 667 RRRCPSCGTET--YENRCPDCGTHT--------------------E------------PVYVCPDCGAEVPPDES---GR 709 (1337)
T ss_pred EEECCCCCCcc--ccccCcccCCcC--------------------C------------CceeCccCCCccCCCcc---cc
Confidence 47899999964 335999999874 0 01258899877754321 14
Q ss_pred eeCCCCCcc
Q 015282 369 VACPKCKKH 377 (410)
Q Consensus 369 ~~C~~C~~~ 377 (410)
..||.|+..
T Consensus 710 ~~CP~CGtp 718 (1337)
T PRK14714 710 VECPRCDVE 718 (1337)
T ss_pred ccCCCCCCc
Confidence 568888754
No 107
>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=74.89 E-value=1.1 Score=31.91 Aligned_cols=24 Identities=33% Similarity=0.785 Sum_probs=14.4
Q ss_pred eEcCCCCcccc--c---CCCCCCCCCcee
Q 015282 290 YTCPRCKARVC--E---LPTDCRICGLQL 313 (410)
Q Consensus 290 Y~Cp~C~s~~C--~---lP~~C~~Cgl~L 313 (410)
|.||.|++..= + --..|+.||+.|
T Consensus 1 m~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl 29 (43)
T PF08271_consen 1 MKCPNCGSKEIVFDPERGELVCPNCGLVL 29 (43)
T ss_dssp ESBTTTSSSEEEEETTTTEEEETTT-BBE
T ss_pred CCCcCCcCCceEEcCCCCeEECCCCCCEe
Confidence 67888888651 1 113788888765
No 108
>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=74.79 E-value=1.5 Score=31.68 Aligned_cols=24 Identities=33% Similarity=0.944 Sum_probs=17.6
Q ss_pred CeeEcCCCCc-ccccCCC----CCCCCCc
Q 015282 288 VGYTCPRCKA-RVCELPT----DCRICGL 311 (410)
Q Consensus 288 ~GY~Cp~C~s-~~C~lP~----~C~~Cgl 311 (410)
.|++||.|++ ++..+.. .|.-|+-
T Consensus 17 ~g~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 17 DGFVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 3899999999 5666655 6777653
No 109
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=73.63 E-value=1.6 Score=27.94 Aligned_cols=24 Identities=33% Similarity=0.718 Sum_probs=16.5
Q ss_pred eEcCCCCcccccCCCCCCCCCcee
Q 015282 290 YTCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 290 Y~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
..||.|++..=.=-..|+-||..|
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCCcccccChhhCCCC
Confidence 368888885444446788888765
No 110
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=73.57 E-value=9.4 Score=33.29 Aligned_cols=43 Identities=19% Similarity=0.291 Sum_probs=33.5
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc-hhHHHHHHHHH
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQ 224 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~-aE~~iLk~la~ 224 (410)
.++||+|+++ |+..+++.+++.|++|-+++.. .-..-|+..|+
T Consensus 101 d~ivLvSgD~-----Df~~~i~~lr~~G~~V~v~~~~~~~s~~L~~~~d 144 (149)
T cd06167 101 DTIVLVSGDS-----DFVPLVERLRELGKRVIVVGFEAKTSRELRKAAD 144 (149)
T ss_pred CEEEEEECCc-----cHHHHHHHHHHcCCEEEEEccCccChHHHHHhCC
Confidence 4677777553 8889999999999999999997 34456666665
No 111
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.40 E-value=1.9 Score=29.92 Aligned_cols=29 Identities=38% Similarity=0.776 Sum_probs=21.4
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 015282 350 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 378 (410)
Q Consensus 350 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~F 378 (410)
.|-.|+..|.-+++ ..+...+|++|++.|
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 68899888865432 234578999999987
No 112
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=72.76 E-value=1.6 Score=44.20 Aligned_cols=28 Identities=36% Similarity=0.648 Sum_probs=21.7
Q ss_pred ceeeeccCccccCeeEcCCCCcccccCC
Q 015282 276 SICSCHKEVKVGVGYTCPRCKARVCELP 303 (410)
Q Consensus 276 a~C~CH~~~~~~~GY~Cp~C~s~~C~lP 303 (410)
++=+||--.+...-|.||||...||+|+
T Consensus 6 ~~~~C~ic~vq~~~YtCPRCn~~YCsl~ 33 (383)
T KOG4317|consen 6 SFLACGICGVQKREYTCPRCNLLYCSLK 33 (383)
T ss_pred ceeeccccccccccccCCCCCccceeee
Confidence 3457787555444799999999999998
No 113
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=72.61 E-value=3.6 Score=30.68 Aligned_cols=43 Identities=26% Similarity=0.671 Sum_probs=31.3
Q ss_pred CCccc--cccccccCCCCCCCceeeCCCCCcccccccchhhhccC
Q 015282 348 RSTCF--GCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 390 (410)
Q Consensus 348 ~~~C~--~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~L 390 (410)
-..|- +|...+....+.......|+.|+..||..|-.--|+-.
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~ 62 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPV 62 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCC
Confidence 45788 89776655321233467899999999999988878654
No 114
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=72.49 E-value=3.1 Score=46.27 Aligned_cols=6 Identities=50% Similarity=1.735 Sum_probs=2.5
Q ss_pred cCCCCc
Q 015282 292 CPRCKA 297 (410)
Q Consensus 292 Cp~C~s 297 (410)
||+|+.
T Consensus 4 Cp~Cg~ 9 (645)
T PRK14559 4 CPQCQF 9 (645)
T ss_pred CCCCCC
Confidence 444443
No 115
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.25 E-value=3.4 Score=43.30 Aligned_cols=46 Identities=20% Similarity=0.455 Sum_probs=33.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRH 401 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~ 401 (410)
...|..|...|..+ .-..|++.||..|-...=+.-..||.|.....
T Consensus 26 ~l~C~IC~d~~~~P--------vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 26 SLRCHICKDFFDVP--------VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccCCCcCchhhhCc--------cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 45899999777533 13589999999997643344457999986443
No 116
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=72.14 E-value=42 Score=37.17 Aligned_cols=68 Identities=21% Similarity=0.246 Sum_probs=40.5
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCH-----------HHHHHHHhhhcCCCCcchHHHHH
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP-----------ESHIKALMGKLGCSGDSSLQNAL 160 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~-----------~~~i~~L~~~~~~~G~~SLqnaL 160 (410)
+-|+.++.+++.|+. |+--.+- .. |..+.++.+.--| ..+++.|+++.-+-|..-+++++
T Consensus 23 tylD~AKgaVEtFiK----~R~r~~~----~~-gdryml~TfeepP~~vk~~~~~~~a~~~~eik~l~a~~~s~~~~~~~ 93 (888)
T KOG3768|consen 23 TYLDLAKGAVETFIK----QRTRVGR----ET-GDRYMLTTFEEPPKNVKVACEKLGAVVIEEIKKLHAPYGSCQLHHAI 93 (888)
T ss_pred hhhHHHHHHHHHHHH----HHhcccc----cc-CceEEEEecccCchhhhhHHhhcccHHHHHHHhhcCccchhhhhHHH
Confidence 567777777777776 3332211 12 4445555554333 44666776654455666788887
Q ss_pred HHHHHHHh
Q 015282 161 DLVQGLLS 168 (410)
Q Consensus 161 ~~A~~~L~ 168 (410)
--|...|+
T Consensus 94 t~AFdlLn 101 (888)
T KOG3768|consen 94 TEAFDLLN 101 (888)
T ss_pred HHHhhhhh
Confidence 77888775
No 117
>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=71.87 E-value=3.6 Score=28.63 Aligned_cols=26 Identities=31% Similarity=0.646 Sum_probs=20.0
Q ss_pred eEcCCCCccccc------CCCCCCCCCceecC
Q 015282 290 YTCPRCKARVCE------LPTDCRICGLQLVS 315 (410)
Q Consensus 290 Y~Cp~C~s~~C~------lP~~C~~Cgl~Lvs 315 (410)
++||.|+++|=. .+..|..||-.||.
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 589999998742 34689999998874
No 118
>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=71.65 E-value=6.2 Score=33.91 Aligned_cols=43 Identities=19% Similarity=0.269 Sum_probs=27.9
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEc-chhHHHHHHHHH
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGL-SAEMFICKHLCQ 224 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL-~aE~~iLk~la~ 224 (410)
..+||++++ +|+..+++.+++.|++|.+++. ..-...|+..|+
T Consensus 97 d~ivLvSgD-----~Df~~~v~~l~~~g~~V~v~~~~~~~s~~L~~~ad 140 (146)
T PF01936_consen 97 DTIVLVSGD-----SDFAPLVRKLRERGKRVIVVGAEDSASEALRSAAD 140 (146)
T ss_dssp SEEEEE--------GGGHHHHHHHHHH--EEEEEE-GGGS-HHHHHHSS
T ss_pred CEEEEEECc-----HHHHHHHHHHHHcCCEEEEEEeCCCCCHHHHHhcC
Confidence 456666645 5789999999999999999995 333567777764
No 119
>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=70.84 E-value=4 Score=36.62 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=8.7
Q ss_pred eeeCCCCCccc
Q 015282 368 YVACPKCKKHF 378 (410)
Q Consensus 368 ~~~C~~C~~~F 378 (410)
.|+||.|+++|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 57888888876
No 120
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=70.70 E-value=1.9 Score=29.70 Aligned_cols=29 Identities=34% Similarity=0.675 Sum_probs=22.3
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCC
Q 015282 368 YVACPKCKKHFCLECDIYIHESLHNCPGC 396 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC 396 (410)
...-..|+..||.+|=.-..+.-..||.|
T Consensus 11 ~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 11 PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 35678999999999976666667788877
No 121
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=70.42 E-value=3 Score=30.02 Aligned_cols=28 Identities=32% Similarity=0.942 Sum_probs=21.5
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECD 383 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~FC~dCD 383 (410)
.|-+|..++. +.+|+|..| .-.+|.+|-
T Consensus 2 ~Cd~C~~~i~------G~ry~C~~C~d~dLC~~C~ 30 (43)
T cd02340 2 ICDGCQGPIV------GVRYKCLVCPDYDLCESCE 30 (43)
T ss_pred CCCCCCCcCc------CCeEECCCCCCccchHHhh
Confidence 5999998553 258999999 567788883
No 122
>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=70.35 E-value=3.2 Score=28.60 Aligned_cols=31 Identities=26% Similarity=0.575 Sum_probs=22.1
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 367 LYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 367 ~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
..|+|+.|++.|=..-.+-. +.+..||.|..
T Consensus 4 Y~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEEEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 35899999998754443322 66788999987
No 123
>PRK12496 hypothetical protein; Provisional
Probab=69.73 E-value=3.4 Score=38.05 Aligned_cols=30 Identities=27% Similarity=0.451 Sum_probs=23.5
Q ss_pred eeEcCCCCcccccCC--CCCCCCCceecCchh
Q 015282 289 GYTCPRCKARVCELP--TDCRICGLQLVSSPH 318 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP--~~C~~Cgl~Lvssph 318 (410)
.|.|+-|+..|=+-+ -.||+||..|.--+.
T Consensus 127 ~~~C~gC~~~~~~~~~~~~C~~CG~~~~r~~~ 158 (164)
T PRK12496 127 RKVCKGCKKKYPEDYPDDVCEICGSPVKRKMV 158 (164)
T ss_pred eEECCCCCccccCCCCCCcCCCCCChhhhcch
Confidence 799999999987644 469999988754443
No 124
>cd01459 vWA_copine_like VWA Copine: Copines are phospholipid-binding proteins originally identified in paramecium. They are found in human and orthologues have been found in C. elegans and Arabidopsis Thaliana. None have been found in D. Melanogaster or S. Cereviciae. Phylogenetic distribution suggests that copines have been lost in some eukaryotes. No functional properties have been assigned to the VWA domains present in copines. The members of this subgroup contain a functional MIDAS motif based on their preferential binding to magnesium and manganese. However, the MIDAS motif is not totally conserved, in most cases the MIDAS consists of the sequence DxTxS instead of the motif DxSxS that is found in most cases. The C2 domains present in copines mediate phospholipid binding.
Probab=69.08 E-value=72 Score=31.49 Aligned_cols=132 Identities=12% Similarity=0.165 Sum_probs=81.0
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCee--EEeecCC-CCH--------HHHHHHHhhhc---CCCCcch
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA--NCLTDLG-GSP--------ESHIKALMGKL---GCSGDSS 155 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~A--e~ls~lt-gn~--------~~~i~~L~~~~---~~~G~~S 155 (410)
.||-.+.++..+-.-+..| +....+-+-+|.++.. ..++++- +|+ ..++++-++.+ ...|-+.
T Consensus 60 ~~N~Yq~aI~~vg~il~~y---D~D~~ip~~GFGa~~~~~~~v~~~f~~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~ 136 (254)
T cd01459 60 RLNPYQKAIRIVGEVLQPY---DSDKLIPAFGFGAIVTKDQSVFSFFPGYSESPECQGFEGVLRAYREALPNVSLSGPTN 136 (254)
T ss_pred CccHHHHHHHHHHHHHHhc---CCCCceeeEeecccCCCCCccccccCCCCCCCcccCHHHHHHHHHHHhceeeecCcch
Confidence 4677777777777777655 5566788888854321 1123321 232 45555544432 4568778
Q ss_pred HHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-HHHHHHHHH
Q 015282 156 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQ 224 (410)
Q Consensus 156 LqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~iLk~la~ 224 (410)
+.-.+..|...-+.....++--||+|++.....|-....++|-.|.+.-|-|=+||+|.. ...++++-.
T Consensus 137 fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i~D~~~t~~aIv~AS~~PlSIiiVGVGd~~F~~M~~LD~ 206 (254)
T cd01459 137 FAPVIRAAANIAKASNSQSKYHILLIITDGEITDMNETIKAIVEASKYPLSIVIVGVGDGPFDAMERLDD 206 (254)
T ss_pred HHHHHHHHHHHHHHhcCCCceEEEEEECCCCcccHHHHHHHHHHHhcCCeEEEEEEeCCCChHHHHHhcC
Confidence 777777777666544322233588888866555655566777777777787888888754 456666653
No 125
>PLN03086 PRLI-interacting factor K; Provisional
Probab=68.84 E-value=6.6 Score=43.03 Aligned_cols=10 Identities=30% Similarity=0.949 Sum_probs=6.1
Q ss_pred CCCCCCCcee
Q 015282 304 TDCRICGLQL 313 (410)
Q Consensus 304 ~~C~~Cgl~L 313 (410)
..|+.||..+
T Consensus 454 ~~C~~Cgk~f 463 (567)
T PLN03086 454 VHCEKCGQAF 463 (567)
T ss_pred ccCCCCCCcc
Confidence 3566666655
No 126
>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=68.48 E-value=2.7 Score=28.89 Aligned_cols=25 Identities=28% Similarity=0.680 Sum_probs=17.5
Q ss_pred eEcCCCCcccccC----C-----CCCCCCCceec
Q 015282 290 YTCPRCKARVCEL----P-----TDCRICGLQLV 314 (410)
Q Consensus 290 Y~Cp~C~s~~C~l----P-----~~C~~Cgl~Lv 314 (410)
+.||.|++.|--- + +.|+.||..+.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 6799999865421 1 57999988763
No 127
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=67.86 E-value=16 Score=33.27 Aligned_cols=79 Identities=11% Similarity=0.027 Sum_probs=54.1
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch------hHHHHHHHHHhhCCeeEE
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA------EMFICKHLCQDTGGSYSV 232 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a------E~~iLk~la~~TgG~Y~v 232 (410)
|..+|...++..+.+..++|+||.|+. ++.||=.-++..|.+.+++|.|+.+.. +...-.++++.+|+.+..
T Consensus 9 g~~~a~~i~~~~~~~~~~~v~il~G~G--nNGgDgl~~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 86 (169)
T PF03853_consen 9 GRAIAELIRKLFGSPKGPRVLILCGPG--NNGGDGLVAARHLANRGYNVTVYLVGPPEKLSEDAKQQLEILKKMGIKIIE 86 (169)
T ss_dssp HHHHHHHHHHHSTCCTT-EEEEEE-SS--HHHHHHHHHHHHHHHTTCEEEEEEEESSSSTSHHHHHHHHHHHHTT-EEES
T ss_pred HHHHHHHHHHHhcccCCCeEEEEECCC--CChHHHHHHHHHHHHCCCeEEEEEEeccccCCHHHHHHHHHHHhcCCcEee
Confidence 344444444444345667899999865 567788899999999999999977654 356777888889988876
Q ss_pred eCCHHHH
Q 015282 233 ALDESHF 239 (410)
Q Consensus 233 a~d~~hl 239 (410)
..+...+
T Consensus 87 ~~~~~~~ 93 (169)
T PF03853_consen 87 LDSDEDL 93 (169)
T ss_dssp SCCGSGG
T ss_pred ccccchh
Confidence 5555443
No 128
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=67.31 E-value=3.4 Score=48.79 Aligned_cols=45 Identities=24% Similarity=0.668 Sum_probs=31.0
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccc-----ccccchhhhcc---CCCCCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHF-----CLECDIYIHES---LHNCPGCESLRH 401 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~F-----C~dCD~fiHe~---Lh~CPgC~~~~~ 401 (410)
..|-.|....+ ...||.|+.+. |.+|..-+... --.||.|.....
T Consensus 668 rkCPkCG~~t~--------~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 668 RRCPSCGTETY--------ENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EECCCCCCccc--------cccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 67999975432 23699999774 99998866433 236999986443
No 129
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=66.33 E-value=3.1 Score=38.98 Aligned_cols=27 Identities=37% Similarity=0.838 Sum_probs=22.9
Q ss_pred eeEcCCCCcccc-----cCCCCCCCCCceecC
Q 015282 289 GYTCPRCKARVC-----ELPTDCRICGLQLVS 315 (410)
Q Consensus 289 GY~Cp~C~s~~C-----~lP~~C~~Cgl~Lvs 315 (410)
+|+||+|..+|- ++--.||.||-.|+-
T Consensus 113 ~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L~~ 144 (176)
T COG1675 113 YYVCPNCHVKYSFDEAMELGFTCPKCGEDLEE 144 (176)
T ss_pred ceeCCCCCCcccHHHHHHhCCCCCCCCchhhh
Confidence 999999999874 666799999988864
No 130
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=65.45 E-value=38 Score=32.85 Aligned_cols=58 Identities=24% Similarity=0.396 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHhCCCCCCCceEEEEEeCCCCC-------CcccHH-----HHHHHHHH-cCeEEEEEEcchhH
Q 015282 157 QNALDLVQGLLSQIPSYGHREVLILYSALSTC-------DPGDIM-----ETIQKCKE-SKIRCSVIGLSAEM 216 (410)
Q Consensus 157 qnaL~~A~~~L~~~p~~~sreILVi~~S~~t~-------DpgdI~-----~ti~~akk-~~IrV~vIgL~aE~ 216 (410)
+.||.-|...|...| ..|+||+++|...-. +++++. .+|+...+ .+|.+-.||++.++
T Consensus 119 GeAl~~a~~rL~~r~--e~rkiLiViSDG~P~d~st~~~n~~~~L~~HLr~vi~~ie~~~~Vel~aiGIg~D~ 189 (219)
T PF11775_consen 119 GEALRWAAERLLARP--EQRKILIVISDGAPADDSTLSANDGDYLDAHLRQVIAEIETRSDVELIAIGIGHDV 189 (219)
T ss_pred HHHHHHHHHHHHcCC--ccceEEEEEeCCCcCcccccccCChHHHHHHHHHHHHHHhccCCcEEEEEEcCCCc
Confidence 358888999998764 467899999733222 344443 55666554 47999889988663
No 131
>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=64.84 E-value=5.6 Score=34.32 Aligned_cols=34 Identities=26% Similarity=0.604 Sum_probs=25.1
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccc
Q 015282 345 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 381 (410)
Q Consensus 345 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~d 381 (410)
.+.++.|..|.++|..-... .-.||+|+..|=++
T Consensus 6 lGtKR~Cp~CG~kFYDLnk~---PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLNKD---PIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccCCCC---CccCCCCCCccCcc
Confidence 35678999999999865432 34599999987544
No 132
>PRK04023 DNA polymerase II large subunit; Validated
Probab=63.33 E-value=5.4 Score=46.15 Aligned_cols=23 Identities=26% Similarity=0.743 Sum_probs=18.9
Q ss_pred CeeEcCCCCcccccCCCCCCCCCce
Q 015282 288 VGYTCPRCKARVCELPTDCRICGLQ 312 (410)
Q Consensus 288 ~GY~Cp~C~s~~C~lP~~C~~Cgl~ 312 (410)
+...||.|+... .-..||.||..
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~ 647 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTH 647 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCC
Confidence 367999999985 55689999986
No 133
>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=63.24 E-value=4.8 Score=30.05 Aligned_cols=22 Identities=36% Similarity=0.851 Sum_probs=16.1
Q ss_pred eEcCCCCccccc-----------------CCC--CCCCCCc
Q 015282 290 YTCPRCKARVCE-----------------LPT--DCRICGL 311 (410)
Q Consensus 290 Y~Cp~C~s~~C~-----------------lP~--~C~~Cgl 311 (410)
|+|+.|+-+|=+ ||. .||+|+.
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCC
Confidence 778888877763 675 7888874
No 134
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=63.07 E-value=3.5 Score=31.96 Aligned_cols=27 Identities=26% Similarity=0.721 Sum_probs=22.5
Q ss_pred EcCCCCccc-----ccCCCCCCCCCceecCch
Q 015282 291 TCPRCKARV-----CELPTDCRICGLQLVSSP 317 (410)
Q Consensus 291 ~Cp~C~s~~-----C~lP~~C~~Cgl~Lvssp 317 (410)
.||.|.... -..++.|.+||.+|.-++
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 599999988 677799999999987543
No 135
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=62.98 E-value=2 Score=43.75 Aligned_cols=56 Identities=30% Similarity=0.695 Sum_probs=37.3
Q ss_pred CCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccc
Q 015282 304 TDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECD 383 (410)
Q Consensus 304 ~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD 383 (410)
..|..|+=.||.|+-+---+|- +|-+|...--. .+.+|.-||
T Consensus 16 itC~LC~GYliDATTI~eCLHT------------------------FCkSCivk~l~--------------~~~~CP~C~ 57 (331)
T KOG2660|consen 16 ITCRLCGGYLIDATTITECLHT------------------------FCKSCIVKYLE--------------ESKYCPTCD 57 (331)
T ss_pred eehhhccceeecchhHHHHHHH------------------------HHHHHHHHHHH--------------HhccCCccc
Confidence 3566777777777766544442 47777633321 156788889
Q ss_pred hhhhcc--CCCCCCCC
Q 015282 384 IYIHES--LHNCPGCE 397 (410)
Q Consensus 384 ~fiHe~--Lh~CPgC~ 397 (410)
++||.+ |++++.+-
T Consensus 58 i~ih~t~pl~ni~~Dr 73 (331)
T KOG2660|consen 58 IVIHKTHPLLNIRSDR 73 (331)
T ss_pred eeccCccccccCCcch
Confidence 999999 88887763
No 136
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=62.97 E-value=5.4 Score=27.56 Aligned_cols=29 Identities=34% Similarity=0.651 Sum_probs=20.8
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 015282 350 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 378 (410)
Q Consensus 350 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~F 378 (410)
.|-.|+..|.-++. ......+|++|++.|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 58899888864431 233468999999876
No 137
>PHA02929 N1R/p28-like protein; Provisional
Probab=61.96 E-value=7.8 Score=37.94 Aligned_cols=51 Identities=22% Similarity=0.543 Sum_probs=35.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
...|.-|+-.+..+.......-.=+.|++.||.+|=.--.+.-..||-|-.
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~ 224 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRT 224 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCC
Confidence 468999997765332100001134689999999998777788889999964
No 138
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=61.92 E-value=4.2 Score=34.63 Aligned_cols=25 Identities=32% Similarity=0.704 Sum_probs=19.2
Q ss_pred eeEcCCCCccccc-------CCCCCCCCCcee
Q 015282 289 GYTCPRCKARVCE-------LPTDCRICGLQL 313 (410)
Q Consensus 289 GY~Cp~C~s~~C~-------lP~~C~~Cgl~L 313 (410)
-|.||+|++..-. .-..|++||..-
T Consensus 21 ~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y~ 52 (99)
T PRK14892 21 IFECPRCGKVSISVKIKKNIAIITCGNCGLYT 52 (99)
T ss_pred EeECCCCCCeEeeeecCCCcceEECCCCCCcc
Confidence 7999999976443 247899999873
No 139
>PF14369 zf-RING_3: zinc-finger
Probab=61.73 E-value=5.9 Score=27.32 Aligned_cols=29 Identities=28% Similarity=0.614 Sum_probs=15.2
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccc
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
..|+.|++.+......... -.||.|+.-|
T Consensus 3 ywCh~C~~~V~~~~~~~~~-~~CP~C~~gF 31 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSD-VACPRCHGGF 31 (35)
T ss_pred EeCccCCCEeEeCcCCCCC-cCCcCCCCcE
Confidence 3577887665432111111 2477777665
No 140
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=61.36 E-value=7.6 Score=30.18 Aligned_cols=47 Identities=21% Similarity=0.655 Sum_probs=35.1
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCc---ccccccchhhhccCCCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKK---HFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
...|.+|...+... .....|.||.|++ ..|.-|-. |-+...||-|.+
T Consensus 9 ~~~CtSCg~~i~p~--e~~v~F~CPnCGe~~I~Rc~~CRk--~g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPG--ETAVKFPCPNCGEVEIYRCAKCRK--LGNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccC--CceeEeeCCCCCceeeehhhhHHH--cCCceECCCcCc
Confidence 45899999988322 2335799999994 57888876 566788999975
No 141
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.51 E-value=6.2 Score=37.09 Aligned_cols=28 Identities=29% Similarity=0.755 Sum_probs=25.5
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCC
Q 015282 371 CPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 371 C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
=.+|+++||-.|=.=.-..-|-||-|-.
T Consensus 148 sTkCGHvFC~~Cik~alk~~~~CP~C~k 175 (187)
T KOG0320|consen 148 STKCGHVFCSQCIKDALKNTNKCPTCRK 175 (187)
T ss_pred ccccchhHHHHHHHHHHHhCCCCCCccc
Confidence 4699999999999988899999999975
No 142
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=60.38 E-value=2.7 Score=44.99 Aligned_cols=35 Identities=23% Similarity=0.621 Sum_probs=27.2
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccccc
Q 015282 345 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECD 383 (410)
Q Consensus 345 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD 383 (410)
......|-+|+.+|..- .-+.-|-.|+.+||..|.
T Consensus 898 d~~a~~cmacq~pf~af----rrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 898 DEDAEQCMACQMPFNAF----RRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred CCcchhhhhccCcHHHH----HHhhhhcccCceeecccc
Confidence 33456899999999632 235779999999999995
No 143
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=60.16 E-value=7.4 Score=43.33 Aligned_cols=21 Identities=24% Similarity=0.729 Sum_probs=13.6
Q ss_pred ccccchhhhccCCCCCCCCCC
Q 015282 379 CLECDIYIHESLHNCPGCESL 399 (410)
Q Consensus 379 C~dCD~fiHe~Lh~CPgC~~~ 399 (410)
|..|..-+...-.+||.|...
T Consensus 30 Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 30 CPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCCCCCCCCcccccccccCCc
Confidence 444444477777788888763
No 144
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=58.10 E-value=2.6 Score=36.47 Aligned_cols=47 Identities=26% Similarity=0.598 Sum_probs=32.2
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhh-hccCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI-HESLHNCPGC 396 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fi-He~Lh~CPgC 396 (410)
+...|.-|..+|.-..+ ..-.|..|+..+|-.|-++. .+..-.|.-|
T Consensus 53 ~~~~C~~C~~~fg~l~~---~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC 100 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFN---RGRVCVDCKHRVCKKCGVYSKKEPIWLCKVC 100 (118)
T ss_dssp CCSB-TTTS-BCSCTST---TCEEETTTTEEEETTSEEETSSSCCEEEHHH
T ss_pred CCcchhhhCCcccccCC---CCCcCCcCCccccCccCCcCCCCCCEEChhh
Confidence 56799999988854322 24689999999999999983 3444455444
No 145
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.52 E-value=8.1 Score=38.67 Aligned_cols=35 Identities=29% Similarity=0.844 Sum_probs=25.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
..|| |-+++.+ ..|.||.|...||.-- -.||.|..
T Consensus 243 a~Cf-Ch~k~v~------~GyvCs~Clsi~C~~p--------~~C~~Cgt 277 (279)
T TIGR00627 243 ASCF-CHHQLVS------IGFVCSVCLSVLCQYT--------PICKTCKT 277 (279)
T ss_pred ceee-ecCcccc------ceEECCCccCCcCCCC--------CCCCCCCC
Confidence 4798 5545432 3599999999999654 38999975
No 146
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=57.52 E-value=8 Score=25.92 Aligned_cols=41 Identities=27% Similarity=0.510 Sum_probs=27.7
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhcc-CCCCCCCCC
Q 015282 351 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCES 398 (410)
Q Consensus 351 C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~-Lh~CPgC~~ 398 (410)
|..|...+. ..+.-+.|+..||.+|-.-.-+. --.||.|..
T Consensus 2 C~iC~~~~~-------~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFR-------EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43 (45)
T ss_pred CCcCchhhh-------CceEecCCCChhcHHHHHHHHHhCcCCCCCCCC
Confidence 667775552 13556779999999996544443 456999964
No 147
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=57.46 E-value=7 Score=28.67 Aligned_cols=30 Identities=27% Similarity=0.770 Sum_probs=22.4
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccch
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECDI 384 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~FC~dCD~ 384 (410)
.|.+|.+.+.. +.+|+|..| .-..|.+|=.
T Consensus 2 ~Cd~C~~~~~~-----g~r~~C~~C~d~dLC~~Cf~ 32 (49)
T cd02335 2 HCDYCSKDITG-----TIRIKCAECPDFDLCLECFS 32 (49)
T ss_pred CCCCcCCCCCC-----CcEEECCCCCCcchhHHhhh
Confidence 59999877642 358999999 5567887753
No 148
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=57.45 E-value=5.6 Score=40.39 Aligned_cols=40 Identities=33% Similarity=0.708 Sum_probs=30.5
Q ss_pred CccccccccccCCCCCCCcee-eCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
.+|--|..++. .| +=--|+.+||+||-. -|+...||+|--
T Consensus 91 HfCd~Cd~PI~--------IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d 131 (389)
T KOG2932|consen 91 HFCDRCDFPIA--------IYGRMIPCKHVFCLECAR--SDSDKICPLCDD 131 (389)
T ss_pred EeecccCCcce--------eeecccccchhhhhhhhh--cCccccCcCccc
Confidence 47999987764 33 344699999999976 355889999964
No 149
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=57.10 E-value=1.6e+02 Score=31.16 Aligned_cols=96 Identities=9% Similarity=0.052 Sum_probs=62.4
Q ss_pred CCcchHHHHHHHHHHHHhCC-C-----CCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch----hHHHHH
Q 015282 151 SGDSSLQNALDLVQGLLSQI-P-----SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICK 220 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~-p-----~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a----E~~iLk 220 (410)
.+..++...+...+..|..+ | ....++|++|+|..++--..-+.+.+..+.+.+.+|-+|.... .+.-|+
T Consensus 175 ~~~~~~~~v~~~~~~~L~~~l~~~~~~~~~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk 254 (407)
T PRK12726 175 VETAHLDDITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQ 254 (407)
T ss_pred cccccHHHHHHHHHHHhcCcEeeCCCceecCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHH
Confidence 33345677777777777653 1 1233578888884332111123344556667788898888854 366889
Q ss_pred HHHHhhCCeeEEeCCHHHHHHHHHhc
Q 015282 221 HLCQDTGGSYSVALDESHFKELIMEH 246 (410)
Q Consensus 221 ~la~~TgG~Y~va~d~~hl~~lL~~~ 246 (410)
..++..|=-++++.++..|.+.+..+
T Consensus 255 ~yae~lgvpv~~~~dp~dL~~al~~l 280 (407)
T PRK12726 255 GYADKLDVELIVATSPAELEEAVQYM 280 (407)
T ss_pred HHhhcCCCCEEecCCHHHHHHHHHHH
Confidence 99998886677888988888766543
No 150
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=56.86 E-value=10 Score=27.40 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=16.8
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
+|-.|..-+.........+|.||.|+.++
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~ 30 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEE 30 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeE
Confidence 57777655543322112378888888665
No 151
>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=56.81 E-value=17 Score=30.78 Aligned_cols=56 Identities=13% Similarity=0.156 Sum_probs=36.9
Q ss_pred eEEEEEe-CCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHH
Q 015282 177 EVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESH 238 (410)
Q Consensus 177 eILVi~~-S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~h 238 (410)
-++|++| |..+ .++.++++.+++.+++|=+|- +.. -+.++++..|+.-++..+..+
T Consensus 45 dl~I~iS~SG~t---~e~i~~~~~a~~~g~~iI~IT--~~~-~l~~~~~~~~~~~~~~p~~~~ 101 (119)
T cd05017 45 TLVIAVSYSGNT---EETLSAVEQAKERGAKIVAIT--SGG-KLLEMAREHGVPVIIIPKGLQ 101 (119)
T ss_pred CEEEEEECCCCC---HHHHHHHHHHHHCCCEEEEEe--CCc-hHHHHHHHcCCcEEECCCCCC
Confidence 3566655 3332 467789999999998665544 333 388899988877766555443
No 152
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=56.45 E-value=1.2e+02 Score=33.23 Aligned_cols=91 Identities=15% Similarity=0.162 Sum_probs=62.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH----HH---------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----FI--------- 218 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~----~i--------- 218 (410)
|--+++.||-.|+.+=-..| .|.|+.|.|...- . .++ .-+.++++.+++|-+|-+.... ..
T Consensus 432 ~~g~mG~glpaAiGA~lA~p---~r~Vv~i~GDG~f-~-m~~-~eL~Ta~r~~lpvi~vV~NN~~~g~i~~~q~~~~~~~ 505 (616)
T PRK07418 432 GLGTMGFGMPAAMGVKVALP---DEEVICIAGDASF-L-MNI-QELGTLAQYGINVKTVIINNGWQGMVRQWQESFYGER 505 (616)
T ss_pred CccccccHHHHHHHHHHhCC---CCcEEEEEcchHh-h-hhH-HHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCC
Confidence 33567777777776544333 4678888873221 1 111 4477889999999999886541 11
Q ss_pred ------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 219 ------------CKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 219 ------------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
+-++|+.-|+.++.+.+.+.|++.|.....
T Consensus 506 ~~~~~~~~~~~d~~~~A~a~G~~g~~V~~~~el~~al~~a~~ 547 (616)
T PRK07418 506 YSASNMEPGMPDFVKLAEAFGVKGMVISERDQLKDAIAEALA 547 (616)
T ss_pred ceeecCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 346788888999999999999999987763
No 153
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=56.45 E-value=7.5 Score=27.39 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=17.1
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCC
Q 015282 368 YVACPKCKKHFCLECDIYIHESLHNCPG 395 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe~Lh~CPg 395 (410)
.+.|..|++.||.+ =-+-..|.|++
T Consensus 12 ~f~C~~C~~~FC~~---HR~~e~H~C~~ 36 (39)
T smart00154 12 GFKCRHCGNLFCGE---HRLPEDHDCPG 36 (39)
T ss_pred CeECCccCCccccc---cCCccccCCcc
Confidence 58999999999975 11224556653
No 154
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=55.28 E-value=3.6 Score=43.31 Aligned_cols=26 Identities=42% Similarity=1.041 Sum_probs=22.8
Q ss_pred eeEcCCCCcccccCC-----------CCCCCCCceec
Q 015282 289 GYTCPRCKARVCELP-----------TDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-----------~~C~~Cgl~Lv 314 (410)
||.||.|+++|-.|- -.|..|+.-||
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelv 164 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELV 164 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCchh
Confidence 999999999988663 37999999998
No 155
>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=54.90 E-value=1.3e+02 Score=27.42 Aligned_cols=91 Identities=13% Similarity=0.057 Sum_probs=64.0
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H------
Q 015282 150 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F------ 217 (410)
Q Consensus 150 ~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~------ 217 (410)
..|--+++-||-.|+.+=-..| .++|+.|.|.. . -.| ..+.++++.+++|-+|-+...- .
T Consensus 44 ~~~~g~mG~~lp~aiGa~la~~---~~~vv~i~GDG-~----f~m~~~eL~ta~~~~l~vi~vV~NN~~~g~~~~~~~~~ 115 (177)
T cd02010 44 SNGLATMGVALPGAIGAKLVYP---DRKVVAVSGDG-G----FMMNSQELETAVRLKIPLVVLIWNDNGYGLIKWKQEKE 115 (177)
T ss_pred CCCChhhhhHHHHHHHHHHhCC---CCcEEEEEcch-H----HHhHHHHHHHHHHHCCCeEEEEEECCcchHHHHHHHHh
Confidence 3455688888888877543332 46788888822 2 122 4467789999999999776431 1
Q ss_pred ------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 ------------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 ------------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+.-|+.+..+.+.+.|++.|.+...
T Consensus 116 ~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~~ 158 (177)
T cd02010 116 YGRDSGVDFGNPDFVKYAESFGAKGYRIESADDLLPVLERALA 158 (177)
T ss_pred cCCcccCcCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 1346888889999999999999999988764
No 156
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=54.79 E-value=69 Score=35.49 Aligned_cols=80 Identities=18% Similarity=0.291 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHhCCCCCCCceEEEEEeCCCCC-------CcccHH-----HHHHHHHHc-CeEEEEEEcchhHHHHHHHH
Q 015282 157 QNALDLVQGLLSQIPSYGHREVLILYSALSTC-------DPGDIM-----ETIQKCKES-KIRCSVIGLSAEMFICKHLC 223 (410)
Q Consensus 157 qnaL~~A~~~L~~~p~~~sreILVi~~S~~t~-------DpgdI~-----~ti~~akk~-~IrV~vIgL~aE~~iLk~la 223 (410)
+-||..|...|...| ..|+||+++|...-. +++++. .+|+...+. +|.+=.||+|..|.
T Consensus 499 GeAl~wa~~rL~~R~--e~rKiL~ViSDG~P~D~~TlsvN~~~~l~~hLr~vi~~~e~~~~vel~aigIg~Dv~------ 570 (600)
T TIGR01651 499 GEALMWAHQRLIARP--EQRRILMMISDGAPVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGHDVT------ 570 (600)
T ss_pred hHHHHHHHHHHhcCc--ccceEEEEEeCCCcCCccccccCchhHHHHHHHHHHHHHhccCCceEEEeeccccHH------
Confidence 678999999999875 467899999833323 344433 567777774 89999999997742
Q ss_pred HhhCCeeEEeCCHHHHHHHHHh
Q 015282 224 QDTGGSYSVALDESHFKELIME 245 (410)
Q Consensus 224 ~~TgG~Y~va~d~~hl~~lL~~ 245 (410)
... ..+..+.|-+.|-..+.+
T Consensus 571 r~Y-~~~v~i~~~~eL~~~~~~ 591 (600)
T TIGR01651 571 RYY-RRAVTIVDAEELAGAMTE 591 (600)
T ss_pred HHc-cccceecCHHHHHHHHHH
Confidence 111 455567776666554443
No 157
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=52.88 E-value=9.4 Score=29.26 Aligned_cols=25 Identities=28% Similarity=0.739 Sum_probs=20.1
Q ss_pred eEcCCCCcccccCCCCCCCCCceecCc
Q 015282 290 YTCPRCKARVCELPTDCRICGLQLVSS 316 (410)
Q Consensus 290 Y~Cp~C~s~~C~lP~~C~~Cgl~Lvss 316 (410)
-.||.|+.. .|-..||.||..+.++
T Consensus 6 r~C~~CgvY--TLk~~CP~CG~~t~~~ 30 (56)
T PRK13130 6 RKCPKCGVY--TLKEICPVCGGKTKNP 30 (56)
T ss_pred eECCCCCCE--EccccCcCCCCCCCCC
Confidence 579999988 4578999999886554
No 158
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=52.80 E-value=6.3 Score=27.36 Aligned_cols=34 Identities=24% Similarity=0.610 Sum_probs=25.7
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 389 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~ 389 (410)
...|.-|..+. ..|-|..|+..+|.+|....|..
T Consensus 3 ~~~C~~H~~~~--------~~~~C~~C~~~~C~~C~~~~H~~ 36 (42)
T PF00643_consen 3 EPKCPEHPEEP--------LSLFCEDCNEPLCSECTVSGHKG 36 (42)
T ss_dssp SSB-SSTTTSB--------EEEEETTTTEEEEHHHHHTSTTT
T ss_pred CccCccCCccc--------eEEEecCCCCccCccCCCCCCCC
Confidence 34677776432 35789999999999999998865
No 159
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=52.59 E-value=8.8 Score=27.63 Aligned_cols=29 Identities=24% Similarity=0.768 Sum_probs=21.4
Q ss_pred ccccccccccCCCCCCCceeeCCCCC-cccccccch
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCK-KHFCLECDI 384 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~-~~FC~dCD~ 384 (410)
.|.+|.+++.. .+|+|..|. -..|.+|=.
T Consensus 2 ~C~~C~~~i~g------~r~~C~~C~d~dLC~~Cf~ 31 (46)
T cd02249 2 SCDGCLKPIVG------VRYHCLVCEDFDLCSSCYA 31 (46)
T ss_pred CCcCCCCCCcC------CEEECCCCCCCcCHHHHHC
Confidence 59999986642 589999998 556777643
No 160
>PTZ00062 glutaredoxin; Provisional
Probab=52.08 E-value=2.2e+02 Score=27.15 Aligned_cols=103 Identities=6% Similarity=0.029 Sum_probs=61.8
Q ss_pred CCce-EEEEeeCCeeEEeecC-CCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeC-CCCCCc
Q 015282 114 LSQI-GLVTVKDGVANCLTDL-GGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSA-LSTCDP 190 (410)
Q Consensus 114 isql-GII~~~~g~Ae~ls~l-tgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S-~~t~Dp 190 (410)
++.+ .+|.++||+. +-.+ +.|+.++.+.|+......+ -+. +...++.+ -.+..|+|++-+ .+...-
T Consensus 60 V~~vPtfv~~~~g~~--i~r~~G~~~~~~~~~~~~~~~~~~---~~~----~~~~v~~l--i~~~~Vvvf~Kg~~~~p~C 128 (204)
T PTZ00062 60 NNEYGVFEFYQNSQL--INSLEGCNTSTLVSFIRGWAQKGS---SED----TVEKIERL--IRNHKILLFMKGSKTFPFC 128 (204)
T ss_pred cccceEEEEEECCEE--EeeeeCCCHHHHHHHHHHHcCCCC---HHH----HHHHHHHH--HhcCCEEEEEccCCCCCCC
Confidence 4445 3677788753 4455 4499999999987643222 112 22333322 123357777643 332223
Q ss_pred ccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhC
Q 015282 191 GDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 227 (410)
Q Consensus 191 gdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~Tg 227 (410)
+.-..+.+.|++.+|....+-+.....+-+.+-+.||
T Consensus 129 ~~C~~~k~~L~~~~i~y~~~DI~~d~~~~~~l~~~sg 165 (204)
T PTZ00062 129 RFSNAVVNMLNSSGVKYETYNIFEDPDLREELKVYSN 165 (204)
T ss_pred hhHHHHHHHHHHcCCCEEEEEcCCCHHHHHHHHHHhC
Confidence 3445788999999999999888766555555555554
No 161
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=52.01 E-value=14 Score=37.18 Aligned_cols=51 Identities=18% Similarity=0.458 Sum_probs=38.3
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCCc
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 405 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~ 405 (410)
....|..|+..-.. -.|.-|++.||..|=.=--..---||=|-..-.++.|
T Consensus 238 a~~kC~LCLe~~~~--------pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN--------PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCCC--------CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 45789999844322 2388999999999988777777889999765555444
No 162
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=51.16 E-value=96 Score=36.89 Aligned_cols=143 Identities=13% Similarity=0.165 Sum_probs=89.9
Q ss_pred CCCCHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecC---------CCCHHHHHHHHhhhcCCCCcchHHHH
Q 015282 89 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL---------GGSPESHIKALMGKLGCSGDSSLQNA 159 (410)
Q Consensus 89 ~~P~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~l---------tgn~~~~i~~L~~~~~~~G~~SLqna 159 (410)
+.+-||..++..+..-+.. .-+.+-+-|+++. ..+..++|- ..|.+.+.+++..+ +.+|..-+.-|
T Consensus 238 m~g~~~~lak~tv~~iLdt---Ls~~Dfvni~tf~-~~~~~v~pc~~~~lvqAt~~nk~~~~~~i~~l-~~k~~a~~~~~ 312 (1104)
T KOG2353|consen 238 MSGLRLDLAKQTVNEILDT---LSDNDFVNILTFN-SEVNPVSPCFNGTLVQATMRNKKVFKEAIETL-DAKGIANYTAA 312 (1104)
T ss_pred ccchhhHHHHHHHHHHHHh---cccCCeEEEEeec-cccCcccccccCceeecchHHHHHHHHHHhhh-ccccccchhhh
Confidence 5788999999888888776 4567778888884 555555543 23444555555554 58899999999
Q ss_pred HHHHHHHHhCCCC--CCC-----ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHH---HHHHHHhhCCe
Q 015282 160 LDLVQGLLSQIPS--YGH-----REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFI---CKHLCQDTGGS 229 (410)
Q Consensus 160 L~~A~~~L~~~p~--~~s-----reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~i---Lk~la~~TgG~ 229 (410)
|+.|...|..... .++ -.+|++++-....++..|.+--..= ...|||.+..+|.++.. +|-.|=.-.|.
T Consensus 313 ~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~~~~~~If~~yn~~-~~~Vrvftflig~~~~~~~~~~wmac~n~gy 391 (1104)
T KOG2353|consen 313 LEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGVDENAKEIFEKYNWP-DKKVRVFTFLIGDEVYDLDEIQWMACANKGY 391 (1104)
T ss_pred HHHHHHHHHHhccccccccccccceeeEEeecCCcccHHHHHHhhccC-CCceEEEEEEecccccccccchhhhhhCCCc
Confidence 9999999985311 111 1255566622224444444322111 57899999999988643 44444444566
Q ss_pred eEEeCCHH
Q 015282 230 YSVALDES 237 (410)
Q Consensus 230 Y~va~d~~ 237 (410)
|.-+.+-+
T Consensus 392 y~~I~~~~ 399 (1104)
T KOG2353|consen 392 YVHIISIA 399 (1104)
T ss_pred eEeccchh
Confidence 66554443
No 163
>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=51.15 E-value=6.5 Score=29.77 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=16.4
Q ss_pred cCCCCCCCCCceecCchhHHhhhc
Q 015282 301 ELPTDCRICGLQLVSSPHLARSYH 324 (410)
Q Consensus 301 ~lP~~C~~Cgl~LvssphLarsyh 324 (410)
+-|..||+|+.++-++=.|.|-.+
T Consensus 22 ~~PatCP~C~a~~~~srnLrRHle 45 (54)
T PF09237_consen 22 EQPATCPICGAVIRQSRNLRRHLE 45 (54)
T ss_dssp S--EE-TTT--EESSHHHHHHHHH
T ss_pred CCCCCCCcchhhccchhhHHHHHH
Confidence 567899999999999999999753
No 164
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=50.82 E-value=1.6e+02 Score=32.42 Aligned_cols=115 Identities=17% Similarity=0.101 Sum_probs=68.3
Q ss_pred CCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCc
Q 015282 111 QNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP 190 (410)
Q Consensus 111 qNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~Dp 190 (410)
.+|..++|-|..- ..|..+..+.++..+...+. ....+++....|.||+||. +|-
T Consensus 369 ~r~~rkmGhV~~~----------g~~~~e~~~~~~~~~~~~~~-------------~~~~~~~~~~~v~i~~gs~--sd~ 423 (577)
T PLN02948 369 MRKQRKMGHITVV----------GPSAAEVEARLDQLLAEESA-------------DPDALPKGTPLVGIIMGSD--SDL 423 (577)
T ss_pred CCCCCeeEEEEEe----------cCCHHHHHHHHHHHHhhhcc-------------CCCCCCCCCCeEEEEECch--hhH
Confidence 4556666666653 33566666666554321110 0133345566799999876 455
Q ss_pred ccHHHHHHHHHHcCeEEEEEEcchh--H----HHHHHHHHhhC-CeeE-EeCCHHHHHHHHHhcCCCCc
Q 015282 191 GDIMETIQKCKESKIRCSVIGLSAE--M----FICKHLCQDTG-GSYS-VALDESHFKELIMEHAPPPP 251 (410)
Q Consensus 191 gdI~~ti~~akk~~IrV~vIgL~aE--~----~iLk~la~~Tg-G~Y~-va~d~~hl~~lL~~~~~Pp~ 251 (410)
.-..++++.|++.||..++--.++. . .+.+++-. -| -.+. +|--..||--++..+++-|.
T Consensus 424 ~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~-~~~~v~i~~ag~~~~l~~~~a~~t~~pv 491 (577)
T PLN02948 424 PTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHS-RGLQVIIAGAGGAAHLPGMVASMTPLPV 491 (577)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHH-CCCCEEEEEcCccccchHHHhhccCCCE
Confidence 5555889999999999886666654 1 22333222 23 2333 44556889888888886554
No 165
>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=50.13 E-value=1.5e+02 Score=26.47 Aligned_cols=91 Identities=14% Similarity=0.113 Sum_probs=58.8
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-HHH----------
Q 015282 150 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFI---------- 218 (410)
Q Consensus 150 ~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-~~i---------- 218 (410)
..| .+++.+|-.|+.+--..| .++|++|.| +.+-.- .+ ..+..+.+.++++-+|-+... ..+
T Consensus 46 ~~~-g~mG~~lp~aiGaala~~---~~~vv~i~G-DG~f~~-~~-~el~ta~~~~~p~~~iV~nN~~~~~~~~~~~~~~~ 118 (178)
T cd02002 46 LRG-GGLGWGLPAAVGAALANP---DRKVVAIIG-DGSFMY-TI-QALWTAARYGLPVTVVILNNRGYGALRSFLKRVGP 118 (178)
T ss_pred cCC-ccccchHHHHHHHHhcCC---CCeEEEEEc-Cchhhc-cH-HHHHHHHHhCCCeEEEEEcCccHHHHHHHHHHHcC
Confidence 445 788888888887654433 467888887 333222 12 567778888999988877654 222
Q ss_pred -------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 -------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 -------------------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++++.-|..|..+.+.+.|.+.+.+..
T Consensus 119 ~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 166 (178)
T cd02002 119 EGPGENAPDGLDLLDPGIDFAAIAKAFGVEAERVETPEELDEALREAL 166 (178)
T ss_pred CCcccccccccccCCCCCCHHHHHHHcCCceEEeCCHHHHHHHHHHHH
Confidence 23455556677777777777777776654
No 166
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=49.90 E-value=5.4 Score=42.28 Aligned_cols=64 Identities=23% Similarity=0.417 Sum_probs=35.8
Q ss_pred cCCCCCCCCC------ceecCchhHHhhhccc---------CCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCC
Q 015282 301 ELPTDCRICG------LQLVSSPHLARSYHHL---------FPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKP 365 (410)
Q Consensus 301 ~lP~~C~~Cg------l~LvssphLarsyhHl---------fPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~ 365 (410)
|||+ ||||= ++-|.+.|--.||||- +||--|-..+ ....+..|..|...+
T Consensus 174 ELPT-CpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~p-------~~ve~~~c~~c~~~~------- 238 (493)
T KOG0804|consen 174 ELPT-CPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQSP-------SVVESSLCLACGCTE------- 238 (493)
T ss_pred cCCC-cchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcCc-------chhhhhhhhhhcccc-------
Confidence 4443 66663 4445566777788883 3433333221 011244566665433
Q ss_pred CceeeCCCCCccccc
Q 015282 366 GLYVACPKCKKHFCL 380 (410)
Q Consensus 366 ~~~~~C~~C~~~FC~ 380 (410)
..|.|=.|+++-|.
T Consensus 239 -~LwicliCg~vgcg 252 (493)
T KOG0804|consen 239 -DLWICLICGNVGCG 252 (493)
T ss_pred -cEEEEEEccceecc
Confidence 36888888887774
No 167
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=49.21 E-value=9.4 Score=28.53 Aligned_cols=26 Identities=38% Similarity=0.951 Sum_probs=20.9
Q ss_pred eeEcCCCCcccccCC-----CCCCCCCceecC
Q 015282 289 GYTCPRCKARVCELP-----TDCRICGLQLVS 315 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-----~~C~~Cgl~Lvs 315 (410)
.|.|.+|+.++ ++. ..||-||--++.
T Consensus 6 ~Y~C~~Cg~~~-~~~~~~~~irCp~Cg~rIl~ 36 (49)
T COG1996 6 EYKCARCGREV-ELDQETRGIRCPYCGSRILV 36 (49)
T ss_pred EEEhhhcCCee-ehhhccCceeCCCCCcEEEE
Confidence 79999999999 533 689999976643
No 168
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=48.28 E-value=7.3 Score=23.35 Aligned_cols=16 Identities=31% Similarity=0.837 Sum_probs=11.0
Q ss_pred eeCCCCCcccccccch
Q 015282 369 VACPKCKKHFCLECDI 384 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~ 384 (410)
|+|+.|+..|=.-=++
T Consensus 1 y~C~~C~~~f~~~~~l 16 (23)
T PF00096_consen 1 YKCPICGKSFSSKSNL 16 (23)
T ss_dssp EEETTTTEEESSHHHH
T ss_pred CCCCCCCCccCCHHHH
Confidence 6899998887443333
No 169
>cd00568 TPP_enzymes Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and the branched chain alpha-keto acid dehydrogenase complexes.
Probab=47.45 E-value=1.6e+02 Score=25.70 Aligned_cols=91 Identities=12% Similarity=0.087 Sum_probs=60.8
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHH------------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFI------------ 218 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~i------------ 218 (410)
.+..+|+.++..|+..=...| .+.|+++.| +..... . .+.+..+.+.++.+-+|-+....+.
T Consensus 43 ~~~g~~G~~~~~a~Gaa~a~~---~~~vv~~~G-DG~~~~-~-~~~l~ta~~~~~~~~~iv~nN~~~~~~~~~~~~~~~~ 116 (168)
T cd00568 43 TGFGAMGYGLPAAIGAALAAP---DRPVVCIAG-DGGFMM-T-GQELATAVRYGLPVIVVVFNNGGYGTIRMHQEAFYGG 116 (168)
T ss_pred CCchhhhhhHHHHHHHHHhCC---CCcEEEEEc-CcHHhc-c-HHHHHHHHHcCCCcEEEEEECCccHHHHHHHHHHcCC
Confidence 355688888888887654443 456777777 333222 2 3667778888999999888765211
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 -----------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++++.-|..|..+.+.+.|++.+.+..
T Consensus 117 ~~~~~~~~~~d~~~~a~~~G~~~~~v~~~~~l~~a~~~a~ 156 (168)
T cd00568 117 RVSGTDLSNPDFAALAEAYGAKGVRVEDPEDLEAALAEAL 156 (168)
T ss_pred CcccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 34566666777777777778877776654
No 170
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=47.03 E-value=83 Score=31.75 Aligned_cols=110 Identities=18% Similarity=0.273 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC-CCcc----cHH-HHHHHHHHcCeEEEEEEcch----hHHHHHHHHHh
Q 015282 156 LQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPG----DIM-ETIQKCKESKIRCSVIGLSA----EMFICKHLCQD 225 (410)
Q Consensus 156 LqnaL~~A~~~L~~~p~~~sreILVi~~S~~t-~Dpg----dI~-~ti~~akk~~IrV~vIgL~a----E~~iLk~la~~ 225 (410)
-.|.++.+-..|... ..+..+|.+|+.+. -+|. -++ ..++.+.+.+.+|.+.==++ ++.+|.+++..
T Consensus 65 k~n~~e~l~~el~~~---~~k~~~i~is~~TDpyqp~E~~~~ltR~ilei~~~~~~~v~I~TKS~lv~RDld~l~~~~~~ 141 (297)
T COG1533 65 KENLLELLERELRKP---GPKRTVIAISSVTDPYQPIEKEYRLTRKILEILLKYGFPVSIVTKSALVLRDLDLLLELAER 141 (297)
T ss_pred chhHHHHHHHHHhhc---cCCceEEEEecCCCCCCcchHHHHHHHHHHHHHHHcCCcEEEEECCcchhhhHHHHHhhhhc
Confidence 356777777777642 34456666665532 2332 223 55788899999999887777 78999999999
Q ss_pred --hCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 015282 226 --TGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 269 (410)
Q Consensus 226 --TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~ 269 (410)
+.-.+.+..++..+...|.-.+++|..+ -..-..|..-|.|..
T Consensus 142 ~~v~V~~Sitt~d~~l~k~~EP~apsp~~R-i~al~~l~eaGi~~~ 186 (297)
T COG1533 142 GKVRVAVSITTLDEELAKILEPRAPSPEER-LEALKELSEAGIPVG 186 (297)
T ss_pred cceEEEEEeecCcHHHHHhcCCCCcCHHHH-HHHHHHHHHCCCeEE
Confidence 7778888888777888888888777655 222334445555544
No 171
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=46.86 E-value=14 Score=26.46 Aligned_cols=29 Identities=24% Similarity=0.773 Sum_probs=19.9
Q ss_pred CCccccccccccCCCCCCCceeeCCCCC-ccccccc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCK-KHFCLEC 382 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~-~~FC~dC 382 (410)
...|.+|..++. +.+|.|..|. -..|.+|
T Consensus 4 ~~~C~~C~~~i~------g~ry~C~~C~d~dlC~~C 33 (44)
T smart00291 4 SYSCDTCGKPIV------GVRYHCLVCPDYDLCQSC 33 (44)
T ss_pred CcCCCCCCCCCc------CCEEECCCCCCccchHHH
Confidence 457999998654 2589999983 3445555
No 172
>PHA00733 hypothetical protein
Probab=46.83 E-value=20 Score=31.59 Aligned_cols=33 Identities=24% Similarity=0.612 Sum_probs=26.5
Q ss_pred eeEcCCCCcccc------------cCCCCCCCCCceecCchhHHh
Q 015282 289 GYTCPRCKARVC------------ELPTDCRICGLQLVSSPHLAR 321 (410)
Q Consensus 289 GY~Cp~C~s~~C------------~lP~~C~~Cgl~LvssphLar 321 (410)
-|.|++|+..|- +-|-.|++|+-.+....+|.+
T Consensus 73 Py~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~CgK~F~~~~sL~~ 117 (128)
T PHA00733 73 PYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPVCGKEFRNTDSTLD 117 (128)
T ss_pred CccCCCCCCcCCCHHHHHHHHhcCCcCccCCCCCCccCCHHHHHH
Confidence 799999986554 335699999999999888865
No 173
>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=46.44 E-value=75 Score=27.87 Aligned_cols=89 Identities=16% Similarity=0.101 Sum_probs=64.6
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH------------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM------------ 216 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~------------ 216 (410)
.+..+++.|+..|+..=...| .|+|++|.|.. +-.| ..+..+.+.+++|-+|-+..+.
T Consensus 25 ~~~g~mG~~~~~aiGa~~a~p---~~~vv~i~GDG-----~f~~~~~el~ta~~~~~~v~~vv~nN~~~~~~~~~~~~~~ 96 (153)
T PF02775_consen 25 GGFGSMGYALPAAIGAALARP---DRPVVAITGDG-----SFLMSLQELATAVRYGLPVVIVVLNNGGYGMTGGQQTPFG 96 (153)
T ss_dssp TTTT-TTTHHHHHHHHHHHST---TSEEEEEEEHH-----HHHHHGGGHHHHHHTTSSEEEEEEESSBSHHHHHHHHHTT
T ss_pred CCccccCCHHHhhhHHHhhcC---cceeEEecCCc-----ceeeccchhHHHhhccceEEEEEEeCCcceEeccccccCc
Confidence 455677777777776555443 57899998822 2222 5588899999999999996531
Q ss_pred -------H-------HHHHHHHhhCCeeEEeCCH--HHHHHHHHhcC
Q 015282 217 -------F-------ICKHLCQDTGGSYSVALDE--SHFKELIMEHA 247 (410)
Q Consensus 217 -------~-------iLk~la~~TgG~Y~va~d~--~hl~~lL~~~~ 247 (410)
. =+.++|+.-|+.+..+.+. +.|++.|.+.+
T Consensus 97 ~~~~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~~~el~~al~~a~ 143 (153)
T PF02775_consen 97 GGRFSGVDGKTFPNPDFAALAEAFGIKGARVTTPDPEELEEALREAL 143 (153)
T ss_dssp STCHHSTBTTTSTTCGHHHHHHHTTSEEEEESCHSHHHHHHHHHHHH
T ss_pred CcccccccccccccCCHHHHHHHcCCcEEEEccCCHHHHHHHHHHHH
Confidence 0 2678899999998888888 99999998876
No 174
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=46.43 E-value=40 Score=28.68 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=30.8
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch----hHHHHHHHHHhhC
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTG 227 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a----E~~iLk~la~~Tg 227 (410)
+|+||-.+.. -....++++.|++.||++.+|.+-. +...+.++...++
T Consensus 11 di~iia~G~~---~~~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~ 62 (124)
T PF02780_consen 11 DITIIAYGSM---VEEALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTG 62 (124)
T ss_dssp SEEEEEETTH---HHHHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHH
T ss_pred CEEEEeehHH---HHHHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhc
Confidence 4666643222 2355689999999999999999853 2344455444444
No 175
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=46.26 E-value=1.5e+02 Score=26.40 Aligned_cols=61 Identities=15% Similarity=0.249 Sum_probs=44.2
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHHcC--eEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHH
Q 015282 179 LILYSALSTCDPGDIM-ETIQKCKESK--IRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIM 244 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~-~ti~~akk~~--IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~ 244 (410)
|+|+||- |+|- +|++-++++. .+|..++-+.....|.+.+++.+=.|.+..|++.+..+-.
T Consensus 1 i~ILGsT-----GSIG~qtLdVi~~~~d~f~v~~Lsa~~n~~~L~~q~~~f~p~~v~i~~~~~~~~l~~ 64 (129)
T PF02670_consen 1 IAILGST-----GSIGTQTLDVIRKHPDKFEVVALSAGSNIEKLAEQAREFKPKYVVIADEEAYEELKK 64 (129)
T ss_dssp EEEESTT-----SHHHHHHHHHHHHCTTTEEEEEEEESSTHHHHHHHHHHHT-SEEEESSHHHHHHHHH
T ss_pred CEEEcCC-----cHHHHHHHHHHHhCCCceEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHHHH
Confidence 4566654 5677 7788888887 5555555555688999999999999999999876555443
No 176
>PRK00420 hypothetical protein; Validated
Probab=46.14 E-value=11 Score=32.75 Aligned_cols=26 Identities=27% Similarity=0.603 Sum_probs=19.7
Q ss_pred eeEcCCCCcccccCC---CCCCCCCceec
Q 015282 289 GYTCPRCKARVCELP---TDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP---~~C~~Cgl~Lv 314 (410)
+..||.|++..=.+. ..||.||-.++
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVYI 51 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCeee
Confidence 567999998766543 68999998654
No 177
>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=46.13 E-value=63 Score=29.41 Aligned_cols=90 Identities=13% Similarity=0.141 Sum_probs=58.5
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH----------------
Q 015282 153 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---------------- 216 (410)
Q Consensus 153 ~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~---------------- 216 (410)
-.+++.+|..|+.+=...| .++|+.|.|...-.. +..+.+..+.+.++.+-+|-+....
T Consensus 50 ~g~mG~gl~~AiGa~la~p---~~~Vv~i~GDG~f~~--~g~~eL~ta~~~~l~i~vvV~nN~~~g~~~~~~~~~~~~~~ 124 (178)
T cd02008 50 CTCMGASIGVAIGMAKASE---DKKVVAVIGDSTFFH--SGILGLINAVYNKANITVVILDNRTTAMTGGQPHPGTGKTL 124 (178)
T ss_pred cccCccHHHHHhhHHhhCC---CCCEEEEecChHHhh--ccHHHHHHHHHcCCCEEEEEECCcceeccCCCCCCCCcccc
Confidence 3466666666665433333 467988888332211 1135567788899999888886531
Q ss_pred ------HHHHHHHHhhCCeeEEeCCHHHHH---HHHHhcC
Q 015282 217 ------FICKHLCQDTGGSYSVALDESHFK---ELIMEHA 247 (410)
Q Consensus 217 ------~iLk~la~~TgG~Y~va~d~~hl~---~lL~~~~ 247 (410)
.=+.++++.-|..|..+.+.+.|+ +.|.+..
T Consensus 125 ~~~~~~~d~~~~a~a~G~~~~~v~~~~~l~~~~~al~~a~ 164 (178)
T cd02008 125 TEPTTVIDIEALVRAIGVKRVVVVDPYDLKAIREELKEAL 164 (178)
T ss_pred cCCCCccCHHHHHHHCCCCEEEecCccCHHHHHHHHHHHH
Confidence 126788888899999998888887 4445543
No 178
>PTZ00260 dolichyl-phosphate beta-glucosyltransferase; Provisional
Probab=45.87 E-value=2.4e+02 Score=28.42 Aligned_cols=96 Identities=13% Similarity=0.128 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhh----------cCCCCcchHHHHHHH
Q 015282 93 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----------LGCSGDSSLQNALDL 162 (410)
Q Consensus 93 Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~----------~~~~G~~SLqnaL~~ 162 (410)
++..+++.+.....+.+.++|....=||+.-||. +-+-.++++.+... .....+...+.|+..
T Consensus 84 ~i~~~L~~l~~~~~~~~~~~~~~~~EIIVVDDgS-------tD~T~~i~~~~~~~~~~~~~~i~vi~~~~N~G~~~A~~~ 156 (333)
T PTZ00260 84 RLPKMLKETIKYLESRSRKDPKFKYEIIIVNDGS-------KDKTLKVAKDFWRQNINPNIDIRLLSLLRNKGKGGAVRI 156 (333)
T ss_pred HHHHHHHHHHHHHHhhhccCCCCCEEEEEEeCCC-------CCchHHHHHHHHHhcCCCCCcEEEEEcCCCCChHHHHHH
Confidence 6777777777777777778888788889888884 22233444444321 111222335566666
Q ss_pred HHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHH
Q 015282 163 VQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 202 (410)
Q Consensus 163 A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk 202 (410)
++.. ++.++|+++-++...+|.++.+.++.+.+
T Consensus 157 Gi~~-------a~gd~I~~~DaD~~~~~~~l~~l~~~l~~ 189 (333)
T PTZ00260 157 GMLA-------SRGKYILMVDADGATDIDDFDKLEDIMLK 189 (333)
T ss_pred HHHH-------ccCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 5542 23478999998988999998888877764
No 179
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=45.85 E-value=8.7 Score=34.34 Aligned_cols=24 Identities=25% Similarity=0.797 Sum_probs=18.6
Q ss_pred eeEcCCCCcccccCC--CCCCCCCce
Q 015282 289 GYTCPRCKARVCELP--TDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP--~~C~~Cgl~ 312 (410)
++.||.|++..=+-- +.||+||.+
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~~ 53 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGYR 53 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCce
Confidence 899999998655532 689999954
No 180
>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=45.64 E-value=16 Score=32.63 Aligned_cols=34 Identities=12% Similarity=0.138 Sum_probs=24.5
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccc
Q 015282 345 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 381 (410)
Q Consensus 345 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~d 381 (410)
.+.++.|..|.++|..-.. ..-.||+|+..|=.+
T Consensus 6 lGtKr~Cp~cg~kFYDLnk---~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 6 LGTKRICPNTGSKFYDLNR---RPAVSPYTGEQFPPE 39 (129)
T ss_pred hCccccCCCcCccccccCC---CCccCCCcCCccCcc
Confidence 3467899999999976532 235699999887443
No 181
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=45.53 E-value=5.2 Score=39.65 Aligned_cols=32 Identities=34% Similarity=0.810 Sum_probs=21.9
Q ss_pred CCCCCCCceecCc-hhHHhhh---cccCCCCCCc-cc
Q 015282 304 TDCRICGLQLVSS-PHLARSY---HHLFPIAPFD-EV 335 (410)
Q Consensus 304 ~~C~~Cgl~Lvss-phLarsy---hHlfPl~~f~-~v 335 (410)
+.|.+|+..|.-. =.++|-| ||..|+..|+ +.
T Consensus 196 ~vC~vC~fdF~k~YGe~gKgyIeVHH~~piae~e~~~ 232 (272)
T COG3183 196 TVCDVCEFDFQKKYGEIGKGYIEVHHKIPIAEFEGEY 232 (272)
T ss_pred ceeeecCccHHHHhhhhccCeEEEeeccchhhhcCcc
Confidence 4566777776532 3356665 8999999998 44
No 182
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=45.39 E-value=33 Score=29.96 Aligned_cols=13 Identities=38% Similarity=0.989 Sum_probs=12.1
Q ss_pred CeeEcCCCCcccc
Q 015282 288 VGYTCPRCKARVC 300 (410)
Q Consensus 288 ~GY~Cp~C~s~~C 300 (410)
+.|.|++|+..||
T Consensus 80 ~~y~C~~C~~~FC 92 (112)
T TIGR00622 80 HRYVCAVCKNVFC 92 (112)
T ss_pred cceeCCCCCCccc
Confidence 3899999999999
No 183
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=45.26 E-value=13 Score=27.57 Aligned_cols=44 Identities=30% Similarity=0.650 Sum_probs=21.9
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhc-cCCCCCCCCC
Q 015282 351 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHE-SLHNCPGCES 398 (410)
Q Consensus 351 C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe-~Lh~CPgC~~ 398 (410)
|-+|..++.. .+...+-| .|+-..|.+|-.-|-+ .-..||||..
T Consensus 1 cp~C~e~~d~---~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~ 45 (48)
T PF14570_consen 1 CPLCDEELDE---TDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCRE 45 (48)
T ss_dssp -TTTS-B--C---CCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--
T ss_pred CCCccccccc---CCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCC
Confidence 4567766622 23346778 7999999999877776 5789999953
No 184
>PRK06260 threonine synthase; Validated
Probab=44.86 E-value=14 Score=38.28 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=30.1
Q ss_pred eeEcCCCCccccc--CCCCCCCCCceecCchhHH-----------hhhcccCCCC
Q 015282 289 GYTCPRCKARVCE--LPTDCRICGLQLVSSPHLA-----------RSYHHLFPIA 330 (410)
Q Consensus 289 GY~Cp~C~s~~C~--lP~~C~~Cgl~LvssphLa-----------rsyhHlfPl~ 330 (410)
.|.|++|+..|=. ++..||-||-.|-....+. +.|++++|+.
T Consensus 3 ~~~C~~cg~~~~~~~~~~~Cp~cg~~l~~~y~~~~~~~~~~~~~~wry~~~lp~~ 57 (397)
T PRK06260 3 WLKCIECGKEYDPDEIIYTCPECGGLLEVIYDLDKIFDKLRGRGVWRYKELLPVK 57 (397)
T ss_pred EEEECCCCCCCCCCCccccCCCCCCeEEEEecchhhhhccCCcceeeehhhcCCC
Confidence 5899999998743 4467999987766554433 2378888884
No 185
>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=44.84 E-value=1.5e+02 Score=26.54 Aligned_cols=91 Identities=9% Similarity=0.043 Sum_probs=62.7
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-H------------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------ 217 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~------------ 217 (410)
.|.-+++.||-+|+..-...| .|+|++|.|.... .. + .+.+.++.+.++++-+|-+.... .
T Consensus 45 ~~~g~mG~~lp~AiGa~la~~---~~~vv~i~GDG~f-~~-~-~~el~ta~~~~lpv~ivv~NN~~~~~~~~~~~~~~~~ 118 (172)
T cd02004 45 GTFGTLGVGLGYAIAAALARP---DKRVVLVEGDGAF-GF-S-GMELETAVRYNLPIVVVVGNNGGWYQGLDGQQLSYGL 118 (172)
T ss_pred CCCCcccchHHHHHHHHHhCC---CCeEEEEEcchhh-cC-C-HHHHHHHHHcCCCEEEEEEECcccccchhhhhhhccC
Confidence 344578888888876544433 4678888874332 21 2 25567888999998888876421 0
Q ss_pred -----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 -----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 -----------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
=+.++++.-|..+..+.+.+.|++.|.+..
T Consensus 119 ~~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 159 (172)
T cd02004 119 GLPVTTLLPDTRYDLVAEAFGGKGELVTTPEELKPALKRAL 159 (172)
T ss_pred CCceeccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145678888888888888888988888765
No 186
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=44.76 E-value=13 Score=27.39 Aligned_cols=28 Identities=25% Similarity=0.762 Sum_probs=21.3
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCC---cccccccc
Q 015282 350 TCFGCQQ-SLLSSGNKPGLYVACPKCK---KHFCLECD 383 (410)
Q Consensus 350 ~C~~C~~-~~~~~~~~~~~~~~C~~C~---~~FC~dCD 383 (410)
.|-+|.. ++. +.||.|..|. -.+|.+|-
T Consensus 2 ~Cd~C~~~pI~------G~R~~C~~C~~~d~DlC~~C~ 33 (48)
T cd02341 2 KCDSCGIEPIP------GTRYHCSECDDGDFDLCQDCV 33 (48)
T ss_pred CCCCCCCCccc------cceEECCCCCCCCCccCHHHH
Confidence 4889986 543 2589999998 67888883
No 187
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=44.50 E-value=71 Score=30.60 Aligned_cols=57 Identities=21% Similarity=0.246 Sum_probs=45.0
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
|..+|...++..|.-..++|+|+-|+. ++.||=+-++..|+..+..|.|+-++.+..
T Consensus 33 G~aVa~~i~~~~~~~~~~~v~vlcG~G--nNGGDG~VaAR~L~~~G~~V~v~~~~~~~~ 89 (203)
T COG0062 33 GLAVARAILREYPLGRARRVLVLCGPG--NNGGDGLVAARHLKAAGYAVTVLLLGDPKK 89 (203)
T ss_pred HHHHHHHHHHHcCcccCCEEEEEECCC--CccHHHHHHHHHHHhCCCceEEEEeCCCCC
Confidence 456666777776643367799998865 568899999999999999999999997653
No 188
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.40 E-value=11 Score=37.41 Aligned_cols=51 Identities=24% Similarity=0.615 Sum_probs=36.8
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchh--hhccCCCCCCCCCCCCCCCc
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--IHESLHNCPGCESLRHSNPI 405 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~f--iHe~Lh~CPgC~~~~~~~~~ 405 (410)
....|+-|.-... ...|.-|+++||.-|=+- --+.-..||=|-....+..|
T Consensus 214 ~d~kC~lC~e~~~--------~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPE--------VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccC--------CcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 4678999984433 356999999999999654 24556679999875555443
No 189
>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=44.23 E-value=18 Score=24.54 Aligned_cols=25 Identities=36% Similarity=0.816 Sum_probs=17.4
Q ss_pred eEcCCCCccccc---CCCCCCCCCceec
Q 015282 290 YTCPRCKARVCE---LPTDCRICGLQLV 314 (410)
Q Consensus 290 Y~Cp~C~s~~C~---lP~~C~~Cgl~Lv 314 (410)
|+|..|++.+=- -|+.|+-||-..+
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 889999997762 2368999996543
No 190
>PRK05978 hypothetical protein; Provisional
Probab=44.01 E-value=13 Score=33.89 Aligned_cols=23 Identities=26% Similarity=0.761 Sum_probs=19.3
Q ss_pred EcCCCCc-----ccccCCCCCCCCCcee
Q 015282 291 TCPRCKA-----RVCELPTDCRICGLQL 313 (410)
Q Consensus 291 ~Cp~C~s-----~~C~lP~~C~~Cgl~L 313 (410)
.||+|+. .|=.+...|+.||+.+
T Consensus 35 rCP~CG~G~LF~g~Lkv~~~C~~CG~~~ 62 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPVDHCAACGEDF 62 (148)
T ss_pred cCCCCCCCcccccccccCCCccccCCcc
Confidence 6999986 4558889999999986
No 191
>cd07041 STAS_RsbR_RsbS_like Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.
Probab=43.80 E-value=92 Score=25.51 Aligned_cols=43 Identities=16% Similarity=0.238 Sum_probs=31.6
Q ss_pred CceEEEEEeCCCCCCccc---HHHHHHHHHHcCeEEEEEEcchhHH
Q 015282 175 HREVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 175 sreILVi~~S~~t~Dpgd---I~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
.+.||+=++.....|..- +.+.++.+++.|+++.++|+..++.
T Consensus 41 ~~~vvlDls~v~~iDssg~~~l~~~~~~~~~~g~~l~l~g~~~~v~ 86 (109)
T cd07041 41 ARGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTGIRPEVA 86 (109)
T ss_pred CCEEEEECCCCchhcHHHHHHHHHHHHHHHHcCCeEEEEeCCHHHH
Confidence 344555566666666543 4477889999999999999998763
No 192
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=43.79 E-value=16 Score=26.98 Aligned_cols=10 Identities=40% Similarity=0.999 Sum_probs=5.3
Q ss_pred eEcCCCCccc
Q 015282 290 YTCPRCKARV 299 (410)
Q Consensus 290 Y~Cp~C~s~~ 299 (410)
|.|+.|+.+|
T Consensus 2 y~C~~CgyvY 11 (47)
T PF00301_consen 2 YQCPVCGYVY 11 (47)
T ss_dssp EEETTTSBEE
T ss_pred cCCCCCCEEE
Confidence 5555555543
No 193
>KOG3217 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=43.49 E-value=34 Score=31.34 Aligned_cols=52 Identities=19% Similarity=0.364 Sum_probs=37.2
Q ss_pred HHHHHHHHHcCeEEEEEEcchhHHHHHHHHHh--hCCeeEEeCCHHHHHHHHHhcCCCCccc
Q 015282 194 METIQKCKESKIRCSVIGLSAEMFICKHLCQD--TGGSYSVALDESHFKELIMEHAPPPPAI 253 (410)
Q Consensus 194 ~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~--TgG~Y~va~d~~hl~~lL~~~~~Pp~~~ 253 (410)
..+...||+.||+++ +..|++... -.=-|.+++|+..+++|+.....+|+.+
T Consensus 58 ~R~~s~lK~hGI~~~--------H~aRqit~~DF~~FDYI~~MDesN~~dL~~~a~~~~~~~ 111 (159)
T KOG3217|consen 58 PRTLSILKKHGIKID--------HLARQITTSDFREFDYILAMDESNLRDLLRKASNQPKGS 111 (159)
T ss_pred hHHHHHHHHcCCcch--------hhcccccHhHhhhcceeEEecHHHHHHHHHHhccCCCCc
Confidence 378889999999865 444555422 2247889999999999998765566544
No 194
>smart00355 ZnF_C2H2 zinc finger.
Probab=43.24 E-value=7.5 Score=23.00 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=18.1
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 015282 369 VACPKCKKHFCLECDIYIHESLH 391 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~fiHe~Lh 391 (410)
|+|+.|...|-..-+...|...|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57889999888888888776644
No 195
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=43.13 E-value=12 Score=38.13 Aligned_cols=26 Identities=23% Similarity=0.764 Sum_probs=12.9
Q ss_pred CCCcccccccchhhh-ccCCCCCCCCC
Q 015282 373 KCKKHFCLECDIYIH-ESLHNCPGCES 398 (410)
Q Consensus 373 ~C~~~FC~dCD~fiH-e~Lh~CPgC~~ 398 (410)
.|++.||..|=.-+. ..-..||.|..
T Consensus 25 ~CGH~~C~sCv~~l~~~~~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRGSGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCCCCCCCCCCC
Confidence 466666666643222 12235666654
No 196
>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=42.84 E-value=13 Score=37.06 Aligned_cols=36 Identities=28% Similarity=0.614 Sum_probs=27.1
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 397 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~ 397 (410)
..||-..+.+. ..|.|+.|.++||.-++. ..||.|.
T Consensus 241 a~Cfch~k~vd-------~g~vCsvCLsIfc~~p~~------~~C~tC~ 276 (276)
T PF03850_consen 241 ASCFCHRKVVD-------IGYVCSVCLSIFCEFPDG------GICPTCG 276 (276)
T ss_pred eeeeecCCccc-------ceeEchhhhhhhhCCCCC------CCCCCCC
Confidence 47998876663 469999999999987652 1298884
No 197
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.77 E-value=57 Score=24.08 Aligned_cols=36 Identities=14% Similarity=0.081 Sum_probs=28.6
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 178 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 178 ILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
+|-++|+....+++-..+.++.+.+.+|+|+.|+-+
T Consensus 3 ~isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~ 38 (66)
T cd04919 3 ILSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQG 38 (66)
T ss_pred EEEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEec
Confidence 455667666667777779999999999999999764
No 198
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=42.60 E-value=19 Score=26.13 Aligned_cols=26 Identities=27% Similarity=0.626 Sum_probs=19.6
Q ss_pred eeEcCCCCcccccC---CCCCCCCCceec
Q 015282 289 GYTCPRCKARVCEL---PTDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~l---P~~C~~Cgl~Lv 314 (410)
-|+|..|+..+=.- +..||-||--++
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rIl 30 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRIL 30 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceEE
Confidence 49999999876533 578999996653
No 199
>PF02635 DrsE: DsrE/DsrF-like family; InterPro: IPR003787 Four small, soluble proteins (DsrE, DsrF, DsrH and DsrC) are encoded in the dsr gene region of the phototrophic sulphur bacterium Chromatium vinosum D. The dsrAB genes encoding dissimilatory sulphite reductase are part of the gene cluster, dsrABEFHCMK. The remaining proteins that are encoded are a transmembrane protein (DsrM) with similarity to haem-b-binding polypeptides and a soluble protein (DsrK) resembling [4Fe-4S]-cluster-containing heterodisulphide reductase from methanogenic archaea. DsrE is a small soluble protein involved in intracellular sulphur reduction [].; PDB: 1L1S_A 2HYB_B 2HY5_B 2PD2_B 3MC3_A 2D1P_H 1JX7_B 2FB6_A.
Probab=42.47 E-value=46 Score=27.23 Aligned_cols=92 Identities=15% Similarity=0.094 Sum_probs=50.4
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC----C-------CcccHHHHHHHHHHcC-eEEEEEEcchhHH
Q 015282 150 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST----C-------DPGDIMETIQKCKESK-IRCSVIGLSAEMF 217 (410)
Q Consensus 150 ~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t----~-------DpgdI~~ti~~akk~~-IrV~vIgL~aE~~ 217 (410)
+.++..-..++.+|...+..-. + .-+|-|++-+... . +..++.+.++.|++.+ |+|.+|..+.+.+
T Consensus 11 p~~~~~~~~~~~~~~~~~~~~~-~-~~~v~v~~~g~gv~~~~~~~~~~~~~~~~~~~~l~~l~~~g~v~i~~C~~~~~~~ 88 (122)
T PF02635_consen 11 PYDDERAKIALRLANAAAAMGD-Y-GHDVVVFFHGDGVKLALKDQKPNPEGDPPLQELLKELKEAGGVKIYVCETCLKAR 88 (122)
T ss_dssp TTTBSHHHHHHHHHHHHHHTTH-T-TSEEEEEE-GGGGGGGBTTCHCGGCTSHCHHHHHHHHHHTTT-EEEEEHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHHHcCC-C-CCcEEEEEEchHHHHHHhcccccccccccHHHHHHHHHhcCCcEEEEcHHHHHHc
Confidence 4565656777777775555321 1 2356666543332 1 1345789999999997 9999999876554
Q ss_pred HHHHHHHhhCCeeEEeCCHHHHHHHHH
Q 015282 218 ICKHLCQDTGGSYSVALDESHFKELIM 244 (410)
Q Consensus 218 iLk~la~~TgG~Y~va~d~~hl~~lL~ 244 (410)
=+.+-.... |.-.++.....|.++..
T Consensus 89 g~~~~~~l~-~~~~~~~g~~~l~~l~~ 114 (122)
T PF02635_consen 89 GLDEKEDLI-GVGVVPSGMDELAELQA 114 (122)
T ss_dssp T-CCGGGBH-TSTEEEEHHHHHHHHHH
T ss_pred CCCcHHhcC-cCCEEECCHHHHHHHHH
Confidence 332111222 33334444445555443
No 200
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=42.43 E-value=7 Score=43.72 Aligned_cols=42 Identities=29% Similarity=0.646 Sum_probs=30.8
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc-CCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCES 398 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~-Lh~CPgC~~ 398 (410)
-+|..|+....+. .=++|.+.||.+|-----|+ -.-||+|..
T Consensus 644 LkCs~Cn~R~Kd~--------vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~ 686 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA--------VITKCGHVFCEECVQTRYETRQRKCPKCNA 686 (698)
T ss_pred eeCCCccCchhhH--------HHHhcchHHHHHHHHHHHHHhcCCCCCCCC
Confidence 4799999665432 24589999999997544444 458999975
No 201
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=41.91 E-value=75 Score=29.47 Aligned_cols=64 Identities=17% Similarity=0.291 Sum_probs=45.9
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-HHHHHHH
Q 015282 150 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FICKHLC 223 (410)
Q Consensus 150 ~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~iLk~la 223 (410)
.+|+.....|+++.....+.. - -.+|++|++ +|+.-+++.|+..|.+|.++++..-. .=|+..|
T Consensus 90 ~k~~vDv~la~D~~~l~~~~~----~-D~ivl~SgD-----~DF~p~v~~~~~~G~rv~v~~~~~~~s~~L~~~a 154 (181)
T COG1432 90 TKGDVDVELAVDAMELADKKN----V-DTIVLFSGD-----GDFIPLVEAARDKGKRVEVAGIEPMTSSDLRNAA 154 (181)
T ss_pred cccCcchhhHHHHHHhhcccC----C-CEEEEEcCC-----ccHHHHHHHHHHcCCEEEEEecCCcCHHHHHHhh
Confidence 467888888888777766542 2 356666655 47778899999999999999998732 2344444
No 202
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=41.42 E-value=10 Score=26.91 Aligned_cols=10 Identities=40% Similarity=1.271 Sum_probs=5.3
Q ss_pred CCCccccccc
Q 015282 373 KCKKHFCLEC 382 (410)
Q Consensus 373 ~C~~~FC~dC 382 (410)
.|+..||..|
T Consensus 15 ~CGH~FC~~C 24 (42)
T PF15227_consen 15 PCGHSFCRSC 24 (42)
T ss_dssp SSSSEEEHHH
T ss_pred CCcCHHHHHH
Confidence 4555555555
No 203
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=41.12 E-value=11 Score=29.88 Aligned_cols=27 Identities=30% Similarity=0.754 Sum_probs=21.1
Q ss_pred EcCCCCcccccC-----CCCCCCCCceecCch
Q 015282 291 TCPRCKARVCEL-----PTDCRICGLQLVSSP 317 (410)
Q Consensus 291 ~Cp~C~s~~C~l-----P~~C~~Cgl~Lvssp 317 (410)
.||-|+-..+=+ .+.|.+||.+|+-++
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 599999877644 368999999997553
No 204
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=40.83 E-value=42 Score=38.09 Aligned_cols=131 Identities=16% Similarity=0.318 Sum_probs=72.9
Q ss_pred HHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeec--CCCCC--
Q 015282 195 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMG--FPQRA-- 270 (410)
Q Consensus 195 ~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mG--FP~~~-- 270 (410)
-++..+++.++.| .||+...-|......-.|.|... .|.+=.. ...||...-..+......-| |+...
T Consensus 340 vA~~Ra~~~~~pv---vLgSATPSLES~~~~~~g~y~~~----~L~~R~~-~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~ 411 (730)
T COG1198 340 VAVLRAKKENAPV---VLGSATPSLESYANAESGKYKLL----RLTNRAG-RARLPRVEIIDMRKEPLETGRSLSPALLE 411 (730)
T ss_pred HHHHHHHHhCCCE---EEecCCCCHHHHHhhhcCceEEE----Ecccccc-ccCCCcceEEeccccccccCccCCHHHHH
Confidence 4578889999875 56666677777777788877644 2332222 23233322112222222222 33221
Q ss_pred ------CCCCcceeeeccCccccCeeE----cCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCC
Q 015282 271 ------GEGSISICSCHKEVKVGVGYT----CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCL 340 (410)
Q Consensus 271 ------~~~~~a~C~CH~~~~~~~GY~----Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~ 340 (410)
..+.+++=|=.++ ||. |..|+.+ .+||-|.-.|+ ||--
T Consensus 412 ~i~~~l~~geQ~llflnRR-----Gys~~l~C~~Cg~v-----~~Cp~Cd~~lt--------~H~~-------------- 459 (730)
T COG1198 412 AIRKTLERGEQVLLFLNRR-----GYAPLLLCRDCGYI-----AECPNCDSPLT--------LHKA-------------- 459 (730)
T ss_pred HHHHHHhcCCeEEEEEccC-----CccceeecccCCCc-----ccCCCCCcceE--------EecC--------------
Confidence 1233444343332 554 9988877 56999998863 3311
Q ss_pred CCCCCCCCCccccccccccCCCCCCCceeeCCCCCcc
Q 015282 341 NDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH 377 (410)
Q Consensus 341 ~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 377 (410)
.+.-.|--|..+-+ ....||.|++.
T Consensus 460 -----~~~L~CH~Cg~~~~-------~p~~Cp~Cgs~ 484 (730)
T COG1198 460 -----TGQLRCHYCGYQEP-------IPQSCPECGSE 484 (730)
T ss_pred -----CCeeEeCCCCCCCC-------CCCCCCCCCCC
Confidence 13457999975532 23679999875
No 205
>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=40.78 E-value=15 Score=26.13 Aligned_cols=26 Identities=38% Similarity=0.768 Sum_probs=15.6
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCC
Q 015282 367 LYVACPKCKKHFCLECDIYIHESLHNCPG 395 (410)
Q Consensus 367 ~~~~C~~C~~~FC~dCD~fiHe~Lh~CPg 395 (410)
..+.|+.|+..||.+- .+-.-|.|++
T Consensus 12 ~~~~C~~C~~~FC~~H---r~~e~H~C~~ 37 (43)
T PF01428_consen 12 LPFKCKHCGKSFCLKH---RLPEDHNCSK 37 (43)
T ss_dssp SHEE-TTTS-EE-TTT---HSTTTCT-SS
T ss_pred CCeECCCCCcccCccc---cCccccCCcc
Confidence 3589999999999864 3455667664
No 206
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=40.70 E-value=12 Score=41.43 Aligned_cols=45 Identities=22% Similarity=0.655 Sum_probs=34.3
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchh--------hhccCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--------IHESLHNCPGC 396 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~f--------iHe~Lh~CPgC 396 (410)
+..|..|...|..-. .-+-|-.|+.+||..|-.+ |-+-...|-.|
T Consensus 165 ~~~C~rCr~~F~~~~----rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTN----RKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccceeeeeeeecc----ccccccccchhhccCccccccCcccccccccceehhhh
Confidence 468999999996432 2367999999999999743 43445788888
No 207
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=40.52 E-value=2.6e+02 Score=29.33 Aligned_cols=80 Identities=13% Similarity=0.011 Sum_probs=46.0
Q ss_pred cHHHHHHHHHH-cCeEEEEEEcchhH--HHHHHHHHhhCCeeEEe-CCHHHHHHHHHhcCCCCccch-hhhhhceeeecC
Q 015282 192 DIMETIQKCKE-SKIRCSVIGLSAEM--FICKHLCQDTGGSYSVA-LDESHFKELIMEHAPPPPAIA-EFAIANLIKMGF 266 (410)
Q Consensus 192 dI~~ti~~akk-~~IrV~vIgL~aE~--~iLk~la~~TgG~Y~va-~d~~hl~~lL~~~~~Pp~~~~-~~~~~~Li~mGF 266 (410)
-....+..|.+ .|+.|-.++.+... ..-+.+....+|.-.+. .|..++.+++... .|.-.-. +.....|++|||
T Consensus 301 ~~~~la~~L~eelGm~~v~v~t~~~~~~~~~~~~~~l~~~~~v~~~~D~~~l~~~i~~~-~pDllig~~~~~~pl~r~Gf 379 (427)
T PRK02842 301 LEIPLARFLSRECGMELVEVGTPYLNRRFLAAELALLPDGVRIVEGQDVERQLDRIRAL-RPDLVVCGLGLANPLEAEGI 379 (427)
T ss_pred hHHHHHHHHHHhCCCEEEEeCCCCCCHHHHHHHHHhccCCCEEEECCCHHHHHHHHHHc-CCCEEEccCccCCchhhcCC
Confidence 34566778887 99999888765432 22233444444543322 3555666666553 3333321 233458999999
Q ss_pred CCCCCC
Q 015282 267 PQRAGE 272 (410)
Q Consensus 267 P~~~~~ 272 (410)
|.....
T Consensus 380 P~~dr~ 385 (427)
T PRK02842 380 TTKWSI 385 (427)
T ss_pred ceeEEE
Confidence 997543
No 208
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=40.44 E-value=19 Score=26.24 Aligned_cols=29 Identities=24% Similarity=0.834 Sum_probs=21.4
Q ss_pred ccccccc-cccCCCCCCCceeeCCCC-Ccccccccch
Q 015282 350 TCFGCQQ-SLLSSGNKPGLYVACPKC-KKHFCLECDI 384 (410)
Q Consensus 350 ~C~~C~~-~~~~~~~~~~~~~~C~~C-~~~FC~dCD~ 384 (410)
.|-+|.. ++. +.+|+|..| .-.+|.+|-.
T Consensus 2 ~Cd~C~~~~i~------G~RykC~~C~dyDLC~~C~~ 32 (45)
T cd02339 2 ICDTCRKQGII------GIRWKCAECPNYDLCTTCYH 32 (45)
T ss_pred CCCCCCCCCcc------cCeEECCCCCCccchHHHhC
Confidence 5889984 332 358999999 5678888854
No 209
>cd02001 TPP_ComE_PpyrDC Thiamine pyrophosphate (TPP) family, ComE and PpyrDC subfamily, TPP-binding module; composed of proteins similar to sulfopyruvate decarboxylase beta subunit (ComE) and phosphonopyruvate decarboxylase (Ppyr decarboxylase). Methanococcus jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits which, catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. Ppyr decarboxylase is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus. Ppyr decarboxylase and ComDE require TPP and divalent metal cation cofactors.
Probab=40.03 E-value=1.6e+02 Score=26.32 Aligned_cols=87 Identities=15% Similarity=0.073 Sum_probs=56.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCC-CCcccHHHHHHHHHHc-CeEEEEEEcchhH-------------HH
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPGDIMETIQKCKES-KIRCSVIGLSAEM-------------FI 218 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t-~DpgdI~~ti~~akk~-~IrV~vIgL~aE~-------------~i 218 (410)
.+++.||-.|+..=...| |+|++|.|...- -+.+ .+.++.+. +++|-+|-+.... .=
T Consensus 42 gsmG~~lp~AiGa~~a~~----~~Vv~i~GDG~f~m~~~----el~t~~~~~~~~i~~vV~nN~~~g~~~~~~~~~~~~d 113 (157)
T cd02001 42 GSMGLAGSIGLGLALGLS----RKVIVVDGDGSLLMNPG----VLLTAGEFTPLNLILVVLDNRAYGSTGGQPTPSSNVN 113 (157)
T ss_pred cchhhHHHHHHHHHhcCC----CcEEEEECchHHHhccc----HHHHHHHhcCCCEEEEEEeCccccccCCcCCCCCCCC
Confidence 466666666665543322 678888873321 1222 23445555 4777777665431 12
Q ss_pred HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 219 CKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 219 Lk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
+.++|+.-|..+..+.+.+.|.+.|.+...
T Consensus 114 ~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 143 (157)
T cd02001 114 LEAWAAACGYLVLSAPLLGGLGSEFAGLLA 143 (157)
T ss_pred HHHHHHHCCCceEEcCCHHHHHHHHHHHHh
Confidence 678899999999999999999999988764
No 210
>PHA02768 hypothetical protein; Provisional
Probab=39.99 E-value=23 Score=27.09 Aligned_cols=19 Identities=21% Similarity=0.606 Sum_probs=15.0
Q ss_pred CCCCCCceecCchhHHhhh
Q 015282 305 DCRICGLQLVSSPHLARSY 323 (410)
Q Consensus 305 ~C~~Cgl~LvssphLarsy 323 (410)
+|+.||..+..+.||.+..
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~ 25 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHL 25 (55)
T ss_pred CcchhCCeeccHHHHHHHH
Confidence 5667889999999997653
No 211
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=39.93 E-value=28 Score=27.40 Aligned_cols=27 Identities=33% Similarity=0.476 Sum_probs=21.1
Q ss_pred CCCHHHHHHHHHHHHHHhhhcCCCCCc
Q 015282 90 RPSRMAVVAKQVEAFVREFFDQNPLSQ 116 (410)
Q Consensus 90 ~P~Rl~~~~~~l~~FV~~ffdqNPisq 116 (410)
+|+.......--..||+.||+.+|+.|
T Consensus 4 ~~~~~~k~~kK~i~~v~~FF~~DPlGq 30 (64)
T PF05596_consen 4 KPEDDKKSVKKWIEEVRNFFYEDPLGQ 30 (64)
T ss_pred chhhhHHhHHHHHHHHHHHhccCchHH
Confidence 466666666666789999999999876
No 212
>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=39.68 E-value=2.3e+02 Score=26.15 Aligned_cols=91 Identities=10% Similarity=0.100 Sum_probs=61.2
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH--------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-------------- 217 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~-------------- 217 (410)
|-.+|+-||-.|+.+=...| .|+|++|.| +..-.. ++ ..+.++++.+++|-+|-+....+
T Consensus 51 ~~g~mG~~lpaaiGa~la~p---~r~vv~i~G-DG~f~m-~~-~eL~Ta~~~~lpvi~vV~NN~~yg~~~~~q~~~~~~~ 124 (196)
T cd02013 51 SFGNCGYALPAIIGAKAAAP---DRPVVAIAG-DGAWGM-SM-MEIMTAVRHKLPVTAVVFRNRQWGAEKKNQVDFYNNR 124 (196)
T ss_pred CCcccccHHHHHHHHHHhCC---CCcEEEEEc-chHHhc-cH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHHcCCC
Confidence 44577778888777643333 467888888 322111 12 44667888899998888754311
Q ss_pred ---------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 ---------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 ---------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+..|..+..+.+.+.|...|.+.+.
T Consensus 125 ~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 164 (196)
T cd02013 125 FVGTELESESFAKIAEACGAKGITVDKPEDVGPALQKAIA 164 (196)
T ss_pred cccccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 1345778888888899899999888887763
No 213
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=39.62 E-value=13 Score=26.85 Aligned_cols=44 Identities=25% Similarity=0.517 Sum_probs=32.4
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc-cccccchhhhccCCCCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKH-FCLECDIYIHESLHNCPGCESLR 400 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-FC~dCD~fiHe~Lh~CPgC~~~~ 400 (410)
..|.-|...... ..--.|++. ||.+|-.-+...-..||.|....
T Consensus 3 ~~C~iC~~~~~~--------~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 3 EECPICFENPRD--------VVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp SB-TTTSSSBSS--------EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred CCCccCCccCCc--------eEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 468888855432 223368999 99999999999999999997644
No 214
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.55 E-value=16 Score=36.58 Aligned_cols=48 Identities=23% Similarity=0.521 Sum_probs=0.0
Q ss_pred cCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCc
Q 015282 301 ELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKK 376 (410)
Q Consensus 301 ~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 376 (410)
+.-++|++||-. |.-|+.-.+= +..+||-|. ...-.-...|.||.|+.
T Consensus 237 t~~~~C~~Cg~~---------------PtiP~~~~~C---------~HiyCY~Ci----~ts~~~~asf~Cp~Cg~ 284 (298)
T KOG2879|consen 237 TSDTECPVCGEP---------------PTIPHVIGKC---------GHIYCYYCI----ATSRLWDASFTCPLCGE 284 (298)
T ss_pred cCCceeeccCCC---------------CCCCeeeccc---------cceeehhhh----hhhhcchhhcccCccCC
No 215
>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=39.45 E-value=62 Score=23.24 Aligned_cols=42 Identities=14% Similarity=0.132 Sum_probs=30.4
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchhH------------HHHHHHHHhhCCe
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAEM------------FICKHLCQDTGGS 229 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE~------------~iLk~la~~TgG~ 229 (410)
+++..+...-..+.+.++.|.=..++..+ .+.++|++.|+|+
T Consensus 3 ~~Y~~~~~v~~~l~~~~~~i~~~~y~~~V~~~v~v~~~~~~~f~~~l~~~t~G~ 56 (56)
T PF09186_consen 3 CDYSQYGKVERLLEQNGIEIVDEDYTDDVTLTVAVPEEEVEEFKAQLTDLTSGR 56 (56)
T ss_dssp E-CCCHHHHHHHHHHTTTEEEEEEECTTEEEEEEEECCCHHHHHHHHHHHTTT-
T ss_pred echhhHHHHHHHHHHCCCEEEcceecceEEEEEEECHHHHHHHHHHHHHHcCCC
Confidence 45566666667777888888766666652 7899999999995
No 216
>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=39.44 E-value=3.1e+02 Score=25.51 Aligned_cols=91 Identities=12% Similarity=0.049 Sum_probs=60.7
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-HH-----------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI----------- 218 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~i----------- 218 (410)
.|--+++-||-.|+.+=-..| .|+|+.|.| +.+-.. .+ ..+.++++.+++|-+|-+.... .+
T Consensus 45 ~~~gsmG~~lpaAiGa~la~p---~~~vv~i~G-DGsf~m-~~-~eL~Ta~~~~lpv~ivV~NN~~~g~~~~~q~~~~~~ 118 (205)
T cd02003 45 YGYSCMGYEIAAGLGAKLAKP---DREVYVLVG-DGSYLM-LH-SEIVTAVQEGLKIIIVLFDNHGFGCINNLQESTGSG 118 (205)
T ss_pred CCcchhhhHHHHHHHHHHhCC---CCeEEEEEc-cchhhc-cH-HHHHHHHHcCCCCEEEEEECCccHHHHHHHHHhcCc
Confidence 455688888888887654433 467888877 332111 11 4567788999999999887542 11
Q ss_pred ------------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 ------------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 ------------------------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 119 ~~~~~~~~~~~~~~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 171 (205)
T cd02003 119 SFGTEFRDRDQESGQLDGALLPVDFAANARSLGARVEKVKTIEELKAALAKAK 171 (205)
T ss_pred cccchhcccccccccccCCCCCCCHHHHHHhCCCEEEEECCHHHHHHHHHHHH
Confidence 23455666677777888888888887765
No 217
>cd01840 SGNH_hydrolase_yrhL_like yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Most members of this sub-family appear to co-occur with N-terminal acyltransferase domains. Might be involved in lipid metabolism.
Probab=39.23 E-value=2.1e+02 Score=24.95 Aligned_cols=75 Identities=9% Similarity=0.034 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh-------HHHHHHHHHhhCCe
Q 015282 157 QNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQDTGGS 229 (410)
Q Consensus 157 qnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-------~~iLk~la~~TgG~ 229 (410)
..++......+.. ....+-|+|.+|+.+.....++.+.++.++ .+.+|..++.... -.+++++|+...+.
T Consensus 35 ~~~~~~l~~~~~~--~~~~d~vvi~lGtNd~~~~~nl~~ii~~~~-~~~~ivlv~~~~~~~~~~~~n~~~~~~a~~~~~v 111 (150)
T cd01840 35 SEAPDLIRQLKDS--GKLRKTVVIGLGTNGPFTKDQLDELLDALG-PDRQVYLVNPHVPRPWEPDVNAYLLDAAKKYKNV 111 (150)
T ss_pred HHHHHHHHHHHHc--CCCCCeEEEEecCCCCCCHHHHHHHHHHcC-CCCEEEEEECCCCcchHHHHHHHHHHHHHHCCCc
Confidence 4555554444431 122334555567666555677878888875 4688888887632 16788888888777
Q ss_pred eEEeC
Q 015282 230 YSVAL 234 (410)
Q Consensus 230 Y~va~ 234 (410)
.++..
T Consensus 112 ~~id~ 116 (150)
T cd01840 112 TIIDW 116 (150)
T ss_pred EEecH
Confidence 77653
No 218
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=38.94 E-value=15 Score=31.64 Aligned_cols=8 Identities=25% Similarity=0.559 Sum_probs=3.6
Q ss_pred eeeCCCCC
Q 015282 368 YVACPKCK 375 (410)
Q Consensus 368 ~~~C~~C~ 375 (410)
+.+|+.|+
T Consensus 70 ~~~C~~Cg 77 (113)
T PRK12380 70 QAWCWDCS 77 (113)
T ss_pred EEEcccCC
Confidence 34444444
No 219
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=38.85 E-value=2e+02 Score=31.78 Aligned_cols=90 Identities=18% Similarity=0.142 Sum_probs=61.4
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcc------cHH---HHHHHHHHcCeEEEEEEcchhHHHH
Q 015282 149 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------DIM---ETIQKCKESKIRCSVIGLSAEMFIC 219 (410)
Q Consensus 149 ~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~Dpg------dI~---~ti~~akk~~IrV~vIgL~aE~~iL 219 (410)
+|.-.+-.+-||..|-..|.+.|. .|+.||+++...-+|-+ -|. +++..+.|.||-|--|-|..|-.
T Consensus 528 ePg~ytR~G~AIR~As~kL~~rpq--~qklLivlSDGkPnd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld~ea~-- 603 (637)
T COG4548 528 EPGYYTRDGAAIRHASAKLMERPQ--RQKLLIVLSDGKPNDFDHYEGRFGIEDTREAVIEARKSGIEVFNVTLDREAI-- 603 (637)
T ss_pred CccccccccHHHHHHHHHHhcCcc--cceEEEEecCCCcccccccccccchhhHHHHHHHHHhcCceEEEEEecchhh--
Confidence 344457789999999999999864 56899998855444432 233 67888999999998888876643
Q ss_pred HHHHHhhC-CeeEEeCCHHHHHHH
Q 015282 220 KHLCQDTG-GSYSVALDESHFKEL 242 (410)
Q Consensus 220 k~la~~Tg-G~Y~va~d~~hl~~l 242 (410)
..+-.+|| +.|..+.+-++|-..
T Consensus 604 ~y~p~~fgqngYa~V~~v~~LP~~ 627 (637)
T COG4548 604 SYLPALFGQNGYAFVERVAQLPGA 627 (637)
T ss_pred hhhHHHhccCceEEccchhhcchh
Confidence 33344455 456666666555433
No 220
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=38.78 E-value=70 Score=23.40 Aligned_cols=36 Identities=14% Similarity=0.160 Sum_probs=27.3
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 178 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 178 ILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
++=+.|.....+++-+.+..+.+.+.+|+|+.|+-+
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~ 38 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQG 38 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 344556555566777778899999999999999764
No 221
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=38.53 E-value=1.3e+02 Score=20.64 Aligned_cols=34 Identities=18% Similarity=0.183 Sum_probs=25.9
Q ss_pred EEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 181 LYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 181 i~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
+++.....+++-+.+.++.+.+.+|+|+.++-++
T Consensus 5 v~g~~~~~~~~~~~~i~~~l~~~~i~i~~i~~~~ 38 (60)
T cd04868 5 IVGVGMRGTPGVAAKIFSALAEAGINVDMISQSE 38 (60)
T ss_pred EECCCCCCCCCHHHHHHHHHHHCCCcEEEEEcCC
Confidence 4454433467767788999999999999998764
No 222
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=38.12 E-value=22 Score=27.22 Aligned_cols=23 Identities=30% Similarity=0.759 Sum_probs=16.5
Q ss_pred EcCCCCcccccC-CCCCCCCCcee
Q 015282 291 TCPRCKARVCEL-PTDCRICGLQL 313 (410)
Q Consensus 291 ~Cp~C~s~~C~l-P~~C~~Cgl~L 313 (410)
.||.|+++.|.- .-+||-||+..
T Consensus 1 ~Cpv~~~~~~~~v~~~Cp~cGipt 24 (55)
T PF13824_consen 1 LCPVCKKDLPAHVNFECPDCGIPT 24 (55)
T ss_pred CCCCCccccccccCCcCCCCCCcC
Confidence 388888877643 35888888864
No 223
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=38.07 E-value=76 Score=23.14 Aligned_cols=36 Identities=14% Similarity=0.109 Sum_probs=27.8
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 178 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 178 ILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
++=++|..-..+++-+.+.++.+.+.+|+|+.|+-+
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~ 38 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQG 38 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 445567665566766778899999999999999865
No 224
>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=37.94 E-value=16 Score=31.52 Aligned_cols=10 Identities=20% Similarity=0.697 Sum_probs=5.2
Q ss_pred cccccccccc
Q 015282 350 TCFGCQQSLL 359 (410)
Q Consensus 350 ~C~~C~~~~~ 359 (410)
+|..|...++
T Consensus 72 ~C~~Cg~~~~ 81 (115)
T TIGR00100 72 ECEDCSEEVS 81 (115)
T ss_pred EcccCCCEEe
Confidence 4555554443
No 225
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=37.31 E-value=15 Score=24.02 Aligned_cols=27 Identities=22% Similarity=0.641 Sum_probs=8.8
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 381 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~d 381 (410)
.|.+|..+... ...|.|+.|+-.+..+
T Consensus 2 ~C~~C~~~~~~-----~~~Y~C~~Cdf~lH~~ 28 (30)
T PF07649_consen 2 RCDACGKPIDG-----GWFYRCSECDFDLHEE 28 (30)
T ss_dssp --TTTS----S-------EEE-TTT-----HH
T ss_pred cCCcCCCcCCC-----CceEECccCCCccChh
Confidence 58889866642 2468776665444433
No 226
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=37.27 E-value=13 Score=26.06 Aligned_cols=14 Identities=36% Similarity=0.994 Sum_probs=6.0
Q ss_pred cccccccchhh-hcc
Q 015282 376 KHFCLECDIYI-HES 389 (410)
Q Consensus 376 ~~FC~dCD~fi-He~ 389 (410)
..||.-||+|+ |++
T Consensus 3 ryyCdyC~~~~~~d~ 17 (38)
T PF06220_consen 3 RYYCDYCKKYLTHDS 17 (38)
T ss_dssp S-B-TTT--B-S--S
T ss_pred CeecccccceecCCC
Confidence 57999999999 876
No 227
>PRK08611 pyruvate oxidase; Provisional
Probab=37.21 E-value=2e+02 Score=31.34 Aligned_cols=87 Identities=13% Similarity=0.106 Sum_probs=62.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H----------
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 217 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~---------- 217 (410)
-+++.||-.|+.+=-..| .|+||+|.|.. +-.| +.+.++++.++++-+|-+.... .
T Consensus 408 g~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----sf~m~~~eL~Ta~r~~l~~iivV~NN~~~g~i~~~q~~~~~~~ 479 (576)
T PRK08611 408 GTMGCGLPGAIAAKIAFP---DRQAIAICGDG-----GFSMVMQDFVTAVKYKLPIVVVVLNNQQLAFIKYEQQAAGELE 479 (576)
T ss_pred hhhhhhHHHHHHHHHhCC---CCcEEEEEccc-----HHhhhHHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCc
Confidence 577777777776543332 46788888832 2222 4567899999999998886421 1
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 --------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 --------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+..|+.|..+.+.+.|++.|.+...
T Consensus 480 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 518 (576)
T PRK08611 480 YAIDLSDMDYAKFAEACGGKGYRVEKAEELDPAFEEALA 518 (576)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 1466888889999999999999999987763
No 228
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=36.95 E-value=23 Score=40.28 Aligned_cols=37 Identities=19% Similarity=0.507 Sum_probs=26.0
Q ss_pred CCccccccccccCCCCC-CCceeeCCCCCcccccccch
Q 015282 348 RSTCFGCQQSLLSSGNK-PGLYVACPKCKKHFCLECDI 384 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~-~~~~~~C~~C~~~FC~dCD~ 384 (410)
+..|..|.++|..-... ..-++-|-+|+.+||..|--
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSS 497 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCIT 497 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCccccCccccC
Confidence 35799999999531000 01246799999999999973
No 229
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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 C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=36.72 E-value=18 Score=24.70 Aligned_cols=26 Identities=31% Similarity=0.662 Sum_probs=19.0
Q ss_pred CCCCCcccccccchhhhc--cCCCCCCC
Q 015282 371 CPKCKKHFCLECDIYIHE--SLHNCPGC 396 (410)
Q Consensus 371 C~~C~~~FC~dCD~fiHe--~Lh~CPgC 396 (410)
=..|+..||.+|=.-.-+ .-..||.|
T Consensus 14 ~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 14 LLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred EecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 458999999999765554 55667766
No 230
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=36.05 E-value=12 Score=31.16 Aligned_cols=37 Identities=30% Similarity=0.645 Sum_probs=26.0
Q ss_pred CCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccccccc
Q 015282 303 PTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLL 359 (410)
Q Consensus 303 P~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~ 359 (410)
++.|+.|+.+| ++.+|.|+-.|.-. .+.|.-|..+++
T Consensus 33 rS~C~~C~~~L--------~~~~lIPi~S~l~l------------rGrCr~C~~~I~ 69 (92)
T PF06750_consen 33 RSHCPHCGHPL--------SWWDLIPILSYLLL------------RGRCRYCGAPIP 69 (92)
T ss_pred CCcCcCCCCcC--------cccccchHHHHHHh------------CCCCcccCCCCC
Confidence 47788888876 45566676655532 567999988775
No 231
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=35.94 E-value=3.6e+02 Score=30.15 Aligned_cols=160 Identities=17% Similarity=0.101 Sum_probs=97.4
Q ss_pred HhcCCC-CCCHHHHHHHHHHHHHHhhhcCC-CCCceEEEEee---------CCee----EEeecC-CCCHHHHHHHHhhh
Q 015282 84 AAEMDF-RPSRMAVVAKQVEAFVREFFDQN-PLSQIGLVTVK---------DGVA----NCLTDL-GGSPESHIKALMGK 147 (410)
Q Consensus 84 M~~~D~-~P~Rl~~~~~~l~~FV~~ffdqN-PisqlGII~~~---------~g~A----e~ls~l-tgn~~~~i~~L~~~ 147 (410)
|...+= --+-++.+++++..|+-..+-.+ --+-+|++.+. +|.+ ..+.|+ |..--.|++.+.+.
T Consensus 17 Ms~~~~~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~ten~legg~~fqnisvl~p~~tpaf~~l~k~~~~~ 96 (669)
T KOG2326|consen 17 MSKNNETGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTENSLEGGNVFQNISVLAPVTTPAFIGLIKRLKQY 96 (669)
T ss_pred ccccCCCccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCccCccccccccceeEEeecccchhhHHHHHHHHHh
Confidence 655551 12578999999999986655444 77789999872 1211 122332 33334455555543
Q ss_pred cC-CCCcchHHHHHHHHHHHHhC---CCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh--------
Q 015282 148 LG-CSGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------- 215 (410)
Q Consensus 148 ~~-~~G~~SLqnaL~~A~~~L~~---~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE-------- 215 (410)
.. .+-+.++-+||.+....+-. .+....+++|++...+.+.-..++. .++.+.+.+|-.-++||.-.
T Consensus 97 ~qqns~q~Df~gal~vs~dL~~qhe~~~k~~~kr~Il~~~~l~~dfsd~~~-ive~l~~~didL~~~gldf~~e~id~s~ 175 (669)
T KOG2326|consen 97 CQQNSHQSDFEGALSVSQDLLVQHEDIKKQFQKRKILKQIVLFTDFSDDLF-IVEDLTDEDIDLLTEGLDFRIELIDCSK 175 (669)
T ss_pred cCCCccccchhhhHHHHHHHHHHHHhccchhhceEEEEeecccccchhhHH-HHHHHhhcCcceeEeeccCCccccccCc
Confidence 32 23344688888888885543 3444555666666656554444455 89999999999999998632
Q ss_pred ---------HHH-HHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCC
Q 015282 216 ---------MFI-CKHLCQDTGGSYSVALDESHFKELIMEHAPPP 250 (410)
Q Consensus 216 ---------~~i-Lk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp 250 (410)
-++ +|+.-..-.|+|.- +.++|..+..|-
T Consensus 176 dl~e~~kk~n~~~~q~~e~l~~~q~~~------~~eiYn~i~spa 214 (669)
T KOG2326|consen 176 DLQEERKKSNYTWLQLVEALPNSQIYN------MNEIYNEITSPA 214 (669)
T ss_pred cccccccccchHHHHHHHhcchhhHHh------HHHHHHhhcCcc
Confidence 133 34444444555553 478888877653
No 232
>COG0743 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]
Probab=35.88 E-value=1.5e+02 Score=31.22 Aligned_cols=59 Identities=25% Similarity=0.331 Sum_probs=45.7
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhhCCeeEEeCCHHHHHHH
Q 015282 179 LILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFKEL 242 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~-~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~TgG~Y~va~d~~hl~~l 242 (410)
|+|+||- |+|- +|.+.++++.-+..+++|++ .+..+.+.+++.+=.|.+..|+..++.+
T Consensus 4 i~iLGST-----GSIG~qtLdVi~~~p~~f~vval~ag~n~~~l~~q~~~f~P~~v~~~d~~~~~~l 65 (385)
T COG0743 4 LTILGST-----GSIGTQTLDVIRRNPDKFEVVALAAGKNVELLAEQIREFKPKYVVIADESAAKEL 65 (385)
T ss_pred EEEEecC-----CchhHHHHHHHHhCCCcEEEEEEecCCcHHHHHHHHHHhCCceEEecChHHHHHH
Confidence 5556654 5676 88999999999988887765 5788999999999999777777655443
No 233
>COG3958 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]
Probab=35.65 E-value=1.7e+02 Score=29.88 Aligned_cols=67 Identities=22% Similarity=0.403 Sum_probs=48.2
Q ss_pred cHHHHHHHHHHcCeEEEEEEcch----hHHHHHHHHHhhCCeeEEeCCH-------HHHHHHHHhcCCCCccchhhhhhc
Q 015282 192 DIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDE-------SHFKELIMEHAPPPPAIAEFAIAN 260 (410)
Q Consensus 192 dI~~ti~~akk~~IrV~vIgL~a----E~~iLk~la~~TgG~Y~va~d~-------~hl~~lL~~~~~Pp~~~~~~~~~~ 260 (410)
...++++.|+++||.+-||.+.. +..+..++|++| |.-..+.+- +..-++|.+.-+ +|
T Consensus 206 ~al~AA~~L~~~GIsa~Vi~m~tIKPiD~~~i~~~A~~t-~~IvT~EeHsi~GGlGsaVAEvlse~~p-~~--------- 274 (312)
T COG3958 206 EALEAAEILKKEGISAAVINMFTIKPIDEQAILKAARET-GRIVTAEEHSIIGGLGSAVAEVLSENGP-TP--------- 274 (312)
T ss_pred HHHHHHHHHHhcCCCEEEEecCccCCCCHHHHHHHHhhc-CcEEEEecceeecchhHHHHHHHHhcCC-cc---------
Confidence 34488999999999999999985 467888999999 544444332 236777877775 33
Q ss_pred eeeecCCCC
Q 015282 261 LIKMGFPQR 269 (410)
Q Consensus 261 Li~mGFP~~ 269 (410)
+.+||-|..
T Consensus 275 ~~riGvp~~ 283 (312)
T COG3958 275 MRRIGVPDT 283 (312)
T ss_pred eEEecCCch
Confidence 357888744
No 234
>PRK06450 threonine synthase; Validated
Probab=35.59 E-value=24 Score=36.00 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=28.5
Q ss_pred eeEcCCCCcccccC-CCCCCCCCceecCchhHHh---hhcccCCCC
Q 015282 289 GYTCPRCKARVCEL-PTDCRICGLQLVSSPHLAR---SYHHLFPIA 330 (410)
Q Consensus 289 GY~Cp~C~s~~C~l-P~~C~~Cgl~LvssphLar---syhHlfPl~ 330 (410)
+|.|++|+..|=.. +..|+-||-.|.....+.+ -.+.++|+.
T Consensus 3 ~~~C~~Cg~~~~~~~~~~C~~cg~~l~~~~d~~~~~~~~~~~lp~~ 48 (338)
T PRK06450 3 KEVCMKCGKERESIYEIRCKKCGGPFEILIDFEFDKNLERKNFPYI 48 (338)
T ss_pred eeEECCcCCcCCCcccccCCcCCCEeEEeecccccchhhHhhCCCC
Confidence 79999999988432 2469999988877655431 113566664
No 235
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=35.56 E-value=1.6e+02 Score=28.85 Aligned_cols=29 Identities=10% Similarity=0.085 Sum_probs=14.4
Q ss_pred HHHHHHHHhhCCeeE--------EeCCHHHHHHHHHh
Q 015282 217 FICKHLCQDTGGSYS--------VALDESHFKELIME 245 (410)
Q Consensus 217 ~iLk~la~~TgG~Y~--------va~d~~hl~~lL~~ 245 (410)
..++.+++..|=.|. ...|....+.+|..
T Consensus 69 ~~~~~~le~~gip~~G~~~~a~~i~~DK~~~k~~l~~ 105 (299)
T PRK14571 69 GTLQAILDFLGIRYTGSDAFSSMICFDKLLTYRFLKG 105 (299)
T ss_pred cHHHHHHHHcCCCccCCCHHHHHHHcCHHHHHHHHhc
Confidence 445566665553332 33355555555554
No 236
>PRK05580 primosome assembly protein PriA; Validated
Probab=35.29 E-value=35 Score=38.15 Aligned_cols=63 Identities=21% Similarity=0.426 Sum_probs=39.4
Q ss_pred cceeeeccCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccc
Q 015282 275 ISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGC 354 (410)
Q Consensus 275 ~a~C~CH~~~~~~~GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C 354 (410)
+++-+..++.-.. ...|..|+.. ..||-|+..| +||.- ...-.|.-|
T Consensus 368 qvll~~nrrGy~~-~~~C~~Cg~~-----~~C~~C~~~l--------~~h~~-------------------~~~l~Ch~C 414 (679)
T PRK05580 368 QVLLFLNRRGYAP-FLLCRDCGWV-----AECPHCDASL--------TLHRF-------------------QRRLRCHHC 414 (679)
T ss_pred eEEEEEcCCCCCC-ceEhhhCcCc-----cCCCCCCCce--------eEECC-------------------CCeEECCCC
Confidence 4455555443333 4579888765 7899999987 34421 023369999
Q ss_pred cccccCCCCCCCceeeCCCCCcc
Q 015282 355 QQSLLSSGNKPGLYVACPKCKKH 377 (410)
Q Consensus 355 ~~~~~~~~~~~~~~~~C~~C~~~ 377 (410)
....+. ...||.|++.
T Consensus 415 g~~~~~-------~~~Cp~Cg~~ 430 (679)
T PRK05580 415 GYQEPI-------PKACPECGST 430 (679)
T ss_pred cCCCCC-------CCCCCCCcCC
Confidence 755432 3579999875
No 237
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=35.26 E-value=18 Score=44.03 Aligned_cols=24 Identities=46% Similarity=1.043 Sum_probs=18.9
Q ss_pred eeEcCCCCcccccCC-------------CCCCCCCceec
Q 015282 289 GYTCPRCKARVCELP-------------TDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-------------~~C~~Cgl~Lv 314 (410)
.|+||.|+ +.++. -.||.||..|.
T Consensus 908 hy~C~~C~--~~ef~~~~~~~sG~Dlpdk~Cp~Cg~~~~ 944 (1437)
T PRK00448 908 HYVCPNCK--YSEFFTDGSVGSGFDLPDKDCPKCGTKLK 944 (1437)
T ss_pred cccCcccc--cccccccccccccccCccccCcccccccc
Confidence 89999994 66654 36999999854
No 238
>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=35.18 E-value=14 Score=29.59 Aligned_cols=33 Identities=27% Similarity=0.611 Sum_probs=19.3
Q ss_pred eccCccccC-eeEcCCCCcccccCCCCCCCCCcee
Q 015282 280 CHKEVKVGV-GYTCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 280 CH~~~~~~~-GY~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
||..+...+ .|.|+.|..-|=.. ..||.|+-.|
T Consensus 7 C~~~L~~~~~~~~C~~C~~~~~~~-a~CPdC~~~L 40 (70)
T PF07191_consen 7 CQQELEWQGGHYHCEACQKDYKKE-AFCPDCGQPL 40 (70)
T ss_dssp S-SBEEEETTEEEETTT--EEEEE-EE-TTT-SB-
T ss_pred CCCccEEeCCEEECccccccceec-ccCCCcccHH
Confidence 666665543 89999999976433 6799998754
No 239
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=35.11 E-value=20 Score=31.43 Aligned_cols=26 Identities=31% Similarity=0.638 Sum_probs=16.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH 377 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 377 (410)
.-.|--|+..+.. +...|.||+|+++
T Consensus 70 ~~~C~~C~~~~~~----e~~~~~CP~C~s~ 95 (115)
T COG0375 70 ECWCLDCGQEVEL----EELDYRCPKCGSI 95 (115)
T ss_pred EEEeccCCCeecc----hhheeECCCCCCC
Confidence 4467778766642 2345668888764
No 240
>PRK13981 NAD synthetase; Provisional
Probab=34.81 E-value=3.2e+02 Score=29.54 Aligned_cols=91 Identities=14% Similarity=0.200 Sum_probs=54.4
Q ss_pred CHHHHHHHHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCC
Q 015282 92 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIP 171 (410)
Q Consensus 92 ~Rl~~~~~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p 171 (410)
++...+.+++..|+++|+.+.....+ ||++.+|. ++++.-+| |...|.
T Consensus 258 ~~~~~~~~~l~~~l~~~~~~~~~~~~-vvglSGGi--------------------------DSa~~a~l--a~~a~g--- 305 (540)
T PRK13981 258 EGEAEDYRALVLGLRDYVRKNGFPGV-VLGLSGGI--------------------------DSALVAAI--AVDALG--- 305 (540)
T ss_pred ChHHHHHHHHHHHHHHHHHHcCCCeE-EEECCCCH--------------------------HHHHHHHH--HHHHhC---
Confidence 55677788888888888777655554 34443331 12222222 333332
Q ss_pred CCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH
Q 015282 172 SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 172 ~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
..+|+.++-.....++.++..+-+.+++.||...+|.+...+.
T Consensus 306 ---~~~v~~~~~p~~~~~~~~~~~a~~~a~~lgi~~~~i~i~~~~~ 348 (540)
T PRK13981 306 ---AERVRAVMMPSRYTSEESLDDAAALAKNLGVRYDIIPIEPAFE 348 (540)
T ss_pred ---cCcEEEEECCCCCCCHHHHHHHHHHHHHcCCeEEEEECHHHHH
Confidence 1245544432222445677788889999999999999986553
No 241
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=34.70 E-value=26 Score=24.76 Aligned_cols=42 Identities=21% Similarity=0.478 Sum_probs=28.9
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 015282 351 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 397 (410)
Q Consensus 351 C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~ 397 (410)
|..|..++... ..+.=..|+..||..|=.-....-..||.|.
T Consensus 2 C~~C~~~~~~~-----~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~ 43 (44)
T PF14634_consen 2 CNICFEKYSEE-----RRPRLTSCGHIFCEKCLKKLKGKSVKCPICR 43 (44)
T ss_pred CcCcCccccCC-----CCeEEcccCCHHHHHHHHhhcCCCCCCcCCC
Confidence 66777777211 1244457999999999776666677898884
No 242
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=34.50 E-value=26 Score=33.35 Aligned_cols=51 Identities=20% Similarity=0.411 Sum_probs=33.8
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchh-hhc---------------cCCCCCCCCCCCCCCCc
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY-IHE---------------SLHNCPGCESLRHSNPI 405 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~f-iHe---------------~Lh~CPgC~~~~~~~~~ 405 (410)
+...|.-|...+.++ .-..|++.||..|=.- .+- .-..||-|........+
T Consensus 17 ~~~~CpICld~~~dP--------VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 17 GDFDCNICLDQVRDP--------VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CccCCccCCCcCCCc--------EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 456899998766432 2367999999999742 221 13489999875554433
No 243
>cd02525 Succinoglycan_BP_ExoA ExoA is involved in the biosynthesis of succinoglycan. Succinoglycan Biosynthesis Protein ExoA catalyzes the formation of a beta-1,3 linkage of the second sugar (glucose) of the succinoglycan with the galactose on the lipid carrie. Succinoglycan is an acidic exopolysaccharide that is important for invasion of the nodules. Succinoglycan is a high-molecular-weight polymer composed of repeating octasaccharide units. These units are synthesized on membrane-bound isoprenoid lipid carriers, beginning with galactose followed by seven glucose molecules, and modified by the addition of acetate, succinate, and pyruvate. ExoA is a membrane protein with a transmembrance domain at c-terminus.
Probab=34.36 E-value=3.4e+02 Score=24.61 Aligned_cols=91 Identities=13% Similarity=0.184 Sum_probs=53.8
Q ss_pred HHHHHHhhhcCCCC-CceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc------CCCCcchHHHHHHHHHHHHhCCCCC
Q 015282 101 VEAFVREFFDQNPL-SQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL------GCSGDSSLQNALDLVQGLLSQIPSY 173 (410)
Q Consensus 101 l~~FV~~ffdqNPi-sqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~------~~~G~~SLqnaL~~A~~~L~~~p~~ 173 (410)
+.+.+.....|..- ...-||+.-|+. +.+..++++.+.... ... +..+..|+..|+...
T Consensus 15 l~~~l~sl~~q~~~~~~~evivvd~~s-------~d~~~~~~~~~~~~~~~v~~i~~~-~~~~~~a~N~g~~~a------ 80 (249)
T cd02525 15 IEELLESLLNQSYPKDLIEIIVVDGGS-------TDGTREIVQEYAAKDPRIRLIDNP-KRIQSAGLNIGIRNS------ 80 (249)
T ss_pred HHHHHHHHHhccCCCCccEEEEEeCCC-------CccHHHHHHHHHhcCCeEEEEeCC-CCCchHHHHHHHHHh------
Confidence 44455555556432 556677766664 223455666665311 112 223556666666553
Q ss_pred CCceEEEEEeCCCCCCcccHHHHHHHHHHcCeE
Q 015282 174 GHREVLILYSALSTCDPGDIMETIQKCKESKIR 206 (410)
Q Consensus 174 ~sreILVi~~S~~t~DpgdI~~ti~~akk~~Ir 206 (410)
+-++|+++.++...+|+-+.+.+..+.+.++.
T Consensus 81 -~~d~v~~lD~D~~~~~~~l~~~~~~~~~~~~~ 112 (249)
T cd02525 81 -RGDIIIRVDAHAVYPKDYILELVEALKRTGAD 112 (249)
T ss_pred -CCCEEEEECCCccCCHHHHHHHHHHHhcCCCC
Confidence 23789999888888888888888777666543
No 244
>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=34.29 E-value=11 Score=32.44 Aligned_cols=10 Identities=20% Similarity=0.644 Sum_probs=4.6
Q ss_pred cccccccccc
Q 015282 350 TCFGCQQSLL 359 (410)
Q Consensus 350 ~C~~C~~~~~ 359 (410)
.|..|...|+
T Consensus 72 ~C~~Cg~~~~ 81 (113)
T PF01155_consen 72 RCRDCGHEFE 81 (113)
T ss_dssp EETTTS-EEE
T ss_pred ECCCCCCEEe
Confidence 4555555543
No 245
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=34.26 E-value=34 Score=33.05 Aligned_cols=40 Identities=25% Similarity=0.646 Sum_probs=27.5
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCCcccCC
Q 015282 368 YVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVANE 409 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~~~~~ 409 (410)
.++|..|+..+-. +-++...+..||.|....+++++.-+|
T Consensus 122 ~~~C~~C~~~~~~--~~~~~~~~p~C~~Cgg~lrP~Vv~fge 161 (242)
T PRK00481 122 RARCTKCGQTYDL--DEYLKPEPPRCPKCGGILRPDVVLFGE 161 (242)
T ss_pred ceeeCCCCCCcCh--hhhccCCCCCCCCCCCccCCCeEECCC
Confidence 3567777776543 344555677799999888888775544
No 246
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=34.23 E-value=1.2e+02 Score=24.57 Aligned_cols=43 Identities=12% Similarity=0.165 Sum_probs=31.4
Q ss_pred CceEEEEEeCCCCCCcccH---HHHHHHHHHcCeEEEEEEcchhHH
Q 015282 175 HREVLILYSALSTCDPGDI---METIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI---~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
.+.|++=++...-.|..-+ ...++.+++.|+++.++++...+.
T Consensus 39 ~~~vilDls~v~~iDssgi~~L~~~~~~~~~~g~~l~l~~~~~~v~ 84 (106)
T TIGR02886 39 IKHLILNLKNVTFMDSSGLGVILGRYKKIKNEGGEVIVCNVSPAVK 84 (106)
T ss_pred CCEEEEECCCCcEecchHHHHHHHHHHHHHHcCCEEEEEeCCHHHH
Confidence 4556665666655666433 377999999999999999987653
No 247
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=34.09 E-value=20 Score=25.14 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=15.5
Q ss_pred cccccccccCCCCCCCceeeCCCCCccc
Q 015282 351 CFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 351 C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
|-.|...+..........+.|++|+-++
T Consensus 2 CP~C~~~l~~~~~~~~~id~C~~C~G~W 29 (41)
T PF13453_consen 2 CPRCGTELEPVRLGDVEIDVCPSCGGIW 29 (41)
T ss_pred cCCCCcccceEEECCEEEEECCCCCeEE
Confidence 6667655543222223457788887654
No 248
>cd02522 GT_2_like_a GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function. Glycosyltransferase family 2 (GT-2) subfamily of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=34.08 E-value=3.4e+02 Score=24.22 Aligned_cols=93 Identities=10% Similarity=0.087 Sum_probs=51.4
Q ss_pred HHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCCCCceEEE
Q 015282 101 VEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLI 180 (410)
Q Consensus 101 l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~~sreILV 180 (410)
+...+.+...|.. ...-||+.-|+. +.+..++++... ..-...+...+.|+.+|+...+ .++++
T Consensus 14 l~~~l~sl~~q~~-~~~evivvdd~s-------~d~~~~~~~~~~-~~~~~~~~g~~~a~n~g~~~a~-------~~~i~ 77 (221)
T cd02522 14 LPRLLASLRRLNP-LPLEIIVVDGGS-------TDGTVAIARSAG-VVVISSPKGRARQMNAGAAAAR-------GDWLL 77 (221)
T ss_pred HHHHHHHHHhccC-CCcEEEEEeCCC-------CccHHHHHhcCC-eEEEeCCcCHHHHHHHHHHhcc-------CCEEE
Confidence 4455555555654 445566665552 223333333311 1111223445667766665432 37888
Q ss_pred EEeCCCCCCcccHHHHHHHHHHcCeEEEE
Q 015282 181 LYSALSTCDPGDIMETIQKCKESKIRCSV 209 (410)
Q Consensus 181 i~~S~~t~DpgdI~~ti~~akk~~IrV~v 209 (410)
++-++..-+|+.+.+.+....+.+..+..
T Consensus 78 ~~D~D~~~~~~~l~~l~~~~~~~~~~~~~ 106 (221)
T cd02522 78 FLHADTRLPPDWDAAIIETLRADGAVAGA 106 (221)
T ss_pred EEcCCCCCChhHHHHHHHHhhcCCcEEEE
Confidence 88878777887777776666666654444
No 249
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.69 E-value=95 Score=22.65 Aligned_cols=36 Identities=8% Similarity=0.067 Sum_probs=27.7
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 178 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 178 ILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
+|-++|.....+++-+.+....+.+.+|.|+.|+-+
T Consensus 3 lisivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~~ 38 (66)
T cd04916 3 LIMVVGEGMKNTVGVSARATAALAKAGINIRMINQG 38 (66)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 344566555566777778899999999999999875
No 250
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.12 E-value=22 Score=30.83 Aligned_cols=6 Identities=50% Similarity=1.331 Sum_probs=3.0
Q ss_pred CCCCCC
Q 015282 393 CPGCES 398 (410)
Q Consensus 393 CPgC~~ 398 (410)
||.|.+
T Consensus 91 CP~Cgs 96 (117)
T PRK00564 91 CEKCHS 96 (117)
T ss_pred CcCCCC
Confidence 555543
No 251
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=33.12 E-value=15 Score=37.98 Aligned_cols=16 Identities=56% Similarity=1.259 Sum_probs=14.5
Q ss_pred CeeEcCCCCcccccCC
Q 015282 288 VGYTCPRCKARVCELP 303 (410)
Q Consensus 288 ~GY~Cp~C~s~~C~lP 303 (410)
.+|.||||.+.+|+|-
T Consensus 28 ~KYkCPRCl~rtCsLe 43 (390)
T KOG2858|consen 28 PKYKCPRCLARTCSLE 43 (390)
T ss_pred ccccCcchhhhheecc
Confidence 3899999999999985
No 252
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=33.11 E-value=1.8e+02 Score=31.64 Aligned_cols=91 Identities=8% Similarity=0.044 Sum_probs=64.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH--------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-------------- 217 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~-------------- 217 (410)
|.-+++.||-.|+.+--..| .|+|++|.|.. .... ++ +.+.++++.+++|-+|-+....+
T Consensus 433 ~~g~mG~glp~aiGa~la~p---~r~vv~i~GDG-~f~~-~~-~el~Ta~~~~lpv~ivV~NN~~y~~~~~~~~~~~~~~ 506 (588)
T PRK07525 433 SFGNCGYAFPAIIGAKIACP---DRPVVGFAGDG-AWGI-SM-NEVMTAVRHNWPVTAVVFRNYQWGAEKKNQVDFYNNR 506 (588)
T ss_pred cccccccHHHHHHHHHHhCC---CCcEEEEEcCc-hHhc-cH-HHHHHHHHhCCCeEEEEEeCchhHHHHHHHHHHhCCC
Confidence 44678888888887654433 46788888833 2111 12 44668999999999998865321
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 ----------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+..|+.+..+.+.+.|+..|...+.
T Consensus 507 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 547 (588)
T PRK07525 507 FVGTELDNNVSYAGIAEAMGAEGVVVDTQEELGPALKRAID 547 (588)
T ss_pred cccccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 1355888889999999999999988877764
No 253
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=33.11 E-value=1.7e+02 Score=29.37 Aligned_cols=44 Identities=11% Similarity=0.095 Sum_probs=37.1
Q ss_pred CcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEE
Q 015282 189 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 232 (410)
Q Consensus 189 DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~v 232 (410)
.+.+|.++++.+|+.+|++=+.-=...-...+.|+++||....+
T Consensus 237 s~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ 280 (311)
T PRK09545 237 GAQRLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGT 280 (311)
T ss_pred CHHHHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEE
Confidence 35788899999999999987777666678999999999987654
No 254
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=32.90 E-value=11 Score=25.24 Aligned_cols=8 Identities=38% Similarity=1.356 Sum_probs=4.0
Q ss_pred eeeCCCCC
Q 015282 368 YVACPKCK 375 (410)
Q Consensus 368 ~~~C~~C~ 375 (410)
.|.||.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 45555554
No 255
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=32.78 E-value=19 Score=30.78 Aligned_cols=25 Identities=40% Similarity=1.077 Sum_probs=18.1
Q ss_pred eeEcCCCCccc---ccCC-------CCCCCCCcee
Q 015282 289 GYTCPRCKARV---CELP-------TDCRICGLQL 313 (410)
Q Consensus 289 GY~Cp~C~s~~---C~lP-------~~C~~Cgl~L 313 (410)
-|.||+|++-- |.+- ..|.+|||..
T Consensus 22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~ 56 (104)
T COG4888 22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSF 56 (104)
T ss_pred eEecCccCCeeeeEEEEEecCceeEEEcccCcceE
Confidence 79999998743 3232 5899999863
No 256
>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=32.66 E-value=20 Score=42.76 Aligned_cols=24 Identities=50% Similarity=1.161 Sum_probs=18.4
Q ss_pred eeEcCCCCcccccC------------C-CCCCCCCceec
Q 015282 289 GYTCPRCKARVCEL------------P-TDCRICGLQLV 314 (410)
Q Consensus 289 GY~Cp~C~s~~C~l------------P-~~C~~Cgl~Lv 314 (410)
.|+||.|+ +.++ | -.||.||..|.
T Consensus 683 hy~c~~c~--~~ef~~~~~~~sg~dlp~k~cp~c~~~~~ 719 (1213)
T TIGR01405 683 HYLCPNCK--YSEFITDGSVGSGFDLPDKDCPKCGAPLK 719 (1213)
T ss_pred cccCcccc--cccccccccccccccCccccCcccccccc
Confidence 89999994 6544 4 36999998864
No 257
>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=32.62 E-value=20 Score=22.25 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=19.2
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 015282 369 VACPKCKKHFCLECDIYIHESLH 391 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~fiHe~Lh 391 (410)
|+|..|++.|-..=+..-|-..|
T Consensus 2 ~~C~~C~~~F~~~~~l~~H~~~h 24 (27)
T PF13912_consen 2 FECDECGKTFSSLSALREHKRSH 24 (27)
T ss_dssp EEETTTTEEESSHHHHHHHHCTT
T ss_pred CCCCccCCccCChhHHHHHhHHh
Confidence 78999999998888888887655
No 258
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=32.50 E-value=2.3e+02 Score=29.56 Aligned_cols=79 Identities=15% Similarity=0.057 Sum_probs=43.8
Q ss_pred ccHHHHHHHHHHcCeEEEEEEcchhH--HHHHHHHHhhCCeeEEe--CCHHHHHHHHHhcCCCCccch-hhhhhceeeec
Q 015282 191 GDIMETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSVA--LDESHFKELIMEHAPPPPAIA-EFAIANLIKMG 265 (410)
Q Consensus 191 gdI~~ti~~akk~~IrV~vIgL~aE~--~iLk~la~~TgG~Y~va--~d~~hl~~lL~~~~~Pp~~~~-~~~~~~Li~mG 265 (410)
.-..-.++.|...|+.+-.++-+... ..-+.+....++. .+. .|..++.+++.+. .|.-... +.....|++||
T Consensus 284 ~~~~~l~~~L~elGm~~v~~~t~~~~~~~~~~~~~~l~~~~-~v~~~~d~~~l~~~i~~~-~pDllig~~~~~~pl~r~G 361 (407)
T TIGR01279 284 LLELPLARFLKRCGMEVVECGTPYIHRRFHAAELALLEGGV-RIVEQPDFHRQLQRIRAT-RPDLVVTGLGTANPLEAQG 361 (407)
T ss_pred hHHHHHHHHHHHCCCEEEEecCCCCChHHHHHHHhhcCCCC-eEEeCCCHHHHHHHHHhc-CCCEEecCccCCCcHhhCC
Confidence 34456788889999999777765431 1122222233332 222 3445555655442 3333321 23356899999
Q ss_pred CCCCCC
Q 015282 266 FPQRAG 271 (410)
Q Consensus 266 FP~~~~ 271 (410)
||.+..
T Consensus 362 fP~~dr 367 (407)
T TIGR01279 362 FTTKWS 367 (407)
T ss_pred cceeEe
Confidence 998754
No 259
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=32.49 E-value=17 Score=35.62 Aligned_cols=55 Identities=25% Similarity=0.385 Sum_probs=33.1
Q ss_pred CchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCC----CCCCceeeCCCCCcc
Q 015282 315 SSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 377 (410)
Q Consensus 315 ssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 377 (410)
..|+|.--|+++- ..++-+-. -......|.||...+|... ......-.||.|+.+
T Consensus 172 l~~ell~~yeri~--~~~kg~gv------vpl~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRI 230 (239)
T COG1579 172 LDPELLSEYERIR--KNKKGVGV------VPLEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRI 230 (239)
T ss_pred cCHHHHHHHHHHH--hcCCCceE------EeecCCcccCCeeeecHHHHHHHhcCCCCccCCccchH
Confidence 4688999999873 33322110 1123568999999998653 112234458888764
No 260
>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=32.43 E-value=4.1e+02 Score=24.56 Aligned_cols=90 Identities=11% Similarity=0.077 Sum_probs=59.8
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-HH------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI------------ 218 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~i------------ 218 (410)
|--+++-+|-.|+.+=-..| .|+|+.|.|...- . .++ ..+.++++.+++|-+|-+.... .+
T Consensus 55 ~~GsmG~~lpaaiGa~la~p---~~~vv~i~GDG~f-~-m~~-~eL~Ta~~~~lpviivV~NN~~yg~~~~~q~~~~~~~ 128 (202)
T cd02006 55 QAGPLGWTVPAALGVAAADP---DRQVVALSGDYDF-Q-FMI-EELAVGAQHRIPYIHVLVNNAYLGLIRQAQRAFDMDY 128 (202)
T ss_pred CccchhhhhHHHHhHHhhCC---CCeEEEEEeChHh-h-ccH-HHHHHHHHhCCCeEEEEEeCchHHHHHHHHHHhcCcc
Confidence 33567777777776533323 5678888883221 1 111 4466799999999999987542 11
Q ss_pred --------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 --------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 --------------------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++|+.-|..+..+.+.+.|.+.|.+..
T Consensus 129 ~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 177 (202)
T cd02006 129 QVNLAFENINSSELGGYGVDHVKVAEGLGCKAIRVTKPEELAAAFEQAK 177 (202)
T ss_pred ccccccccccccccCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 23466677788888888888888888765
No 261
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=32.30 E-value=20 Score=24.62 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=14.9
Q ss_pred ccccccccccCC--CCCCCceeeCCCCCcc
Q 015282 350 TCFGCQQSLLSS--GNKPGLYVACPKCKKH 377 (410)
Q Consensus 350 ~C~~C~~~~~~~--~~~~~~~~~C~~C~~~ 377 (410)
+|..|..++... .+.+..|+.|+.|+.+
T Consensus 2 fC~~CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 2 FCPQCGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp B-TTT--B-EEE--TT-SS-EEEETTTTEE
T ss_pred ccccccChhhhhcCCCCCccceECCCCCCE
Confidence 688887665431 2234568999999865
No 262
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.25 E-value=9.3 Score=38.56 Aligned_cols=44 Identities=30% Similarity=0.788 Sum_probs=37.5
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 397 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~ 397 (410)
.+|-+|...|.... ....|..|++.||.-|- -+-++|..|-.|.
T Consensus 45 p~ckacg~~f~~~~----~k~~c~dckk~fc~tcs-~v~~~lr~c~~c~ 88 (350)
T KOG4275|consen 45 PHCKACGEEFEDAQ----SKSDCEDCKKEFCATCS-RVSISLRTCTSCR 88 (350)
T ss_pred chhhhhchhHhhhh----hhhhhhhhhHHHHHHHH-HhcccchhhhHHH
Confidence 48999998886432 23579999999999999 8999999999996
No 263
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=32.21 E-value=23 Score=30.58 Aligned_cols=9 Identities=22% Similarity=0.715 Sum_probs=4.8
Q ss_pred eeeCCCCCc
Q 015282 368 YVACPKCKK 376 (410)
Q Consensus 368 ~~~C~~C~~ 376 (410)
+..|+.|+.
T Consensus 70 ~~~C~~Cg~ 78 (114)
T PRK03681 70 ECWCETCQQ 78 (114)
T ss_pred EEEcccCCC
Confidence 455555554
No 264
>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=32.11 E-value=90 Score=27.05 Aligned_cols=39 Identities=15% Similarity=0.274 Sum_probs=27.7
Q ss_pred eEEEEEeCCCC-CCcccHH-HHHHHHHHcCeEEEEEEcchh
Q 015282 177 EVLILYSALST-CDPGDIM-ETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 177 eILVi~~S~~t-~DpgdI~-~ti~~akk~~IrV~vIgL~aE 215 (410)
+||+|.||+.. ..-..+. .+.+.+++.++.+.+|-|..-
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~~~ 42 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLADY 42 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECTTS
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEecccc
Confidence 69999999863 2222333 346677778999999999853
No 265
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=31.77 E-value=2e+02 Score=20.84 Aligned_cols=46 Identities=13% Similarity=0.196 Sum_probs=33.9
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhC
Q 015282 179 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 227 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~Tg 227 (410)
|+++++.+ | ..=..+.+.|++.+|+..++-+.......+.+.+.+|
T Consensus 1 V~vy~~~~-C--~~C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g 46 (60)
T PF00462_consen 1 VVVYTKPG-C--PYCKKAKEFLDEKGIPYEEVDVDEDEEAREELKELSG 46 (60)
T ss_dssp EEEEESTT-S--HHHHHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHS
T ss_pred cEEEEcCC-C--cCHHHHHHHHHHcCCeeeEcccccchhHHHHHHHHcC
Confidence 45666533 2 2344788899999999999999988777777777763
No 266
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.60 E-value=29 Score=37.46 Aligned_cols=40 Identities=33% Similarity=0.820 Sum_probs=29.3
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhccCCCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
....|..|.. ..+||.|. ...|.-|. |....-..||.|.+
T Consensus 212 ~~~~C~~Cg~-----------~~~C~~C~~~l~~h~~~~~l~Ch~Cg-~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 212 KNLLCRSCGY-----------ILCCPNCDVSLTYHKKEGKLRCHYCG-YQEPIPKTCPQCGS 261 (505)
T ss_pred CeeEhhhCcC-----------ccCCCCCCCceEEecCCCeEEcCCCc-CcCCCCCCCCCCCC
Confidence 3457999973 34599998 45688888 55566789999986
No 267
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=31.58 E-value=20 Score=31.33 Aligned_cols=22 Identities=27% Similarity=0.839 Sum_probs=10.0
Q ss_pred cCCCCcccccCCCCCCCCCcee
Q 015282 292 CPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 292 Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
||+|+...=---..|+.|++++
T Consensus 1 CPvCg~~l~vt~l~C~~C~t~i 22 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGTEI 22 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCEE
Confidence 4555543332233455555553
No 268
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=31.55 E-value=1.1e+02 Score=27.99 Aligned_cols=94 Identities=13% Similarity=0.051 Sum_probs=50.3
Q ss_pred HHHHHhhhcCCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHH
Q 015282 140 HIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFIC 219 (410)
Q Consensus 140 ~i~~L~~~~~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iL 219 (410)
..+.+.....|.|-.----+.+-|...|+. . +...+|+||+.++. ++..+.+.|+.+.-|.+|.= +.-
T Consensus 43 ~~k~~l~ma~P~gvk~~i~sv~~a~~~l~~-~-~~~~~v~il~k~~~---------d~~~l~~~g~~i~~iNvG~~-~~~ 110 (157)
T PRK11425 43 VQQNLMEMVLAEGIAVRFWTLQKVIDNIHR-A-ADRQKILLVCKTPA---------DFLTLVKGGVPVNRINVGNM-HYA 110 (157)
T ss_pred HHHHHHHhhCCCCCeEEEEEHHHHHHHHhc-c-CCCceEEEEECCHH---------HHHHHHHcCCCCCEEEECCc-ccC
Confidence 344444433466533222245567777776 2 55668999998542 35566778888888888842 000
Q ss_pred HHHHHhhCCeeEEeCCHHHHHHHHHh
Q 015282 220 KHLCQDTGGSYSVALDESHFKELIME 245 (410)
Q Consensus 220 k~la~~TgG~Y~va~d~~hl~~lL~~ 245 (410)
..--..++..|.-..+.+.|+++...
T Consensus 111 ~g~~~i~~~v~l~~~e~~~lk~l~~~ 136 (157)
T PRK11425 111 NGKQQIAKTVSVDAGDIAAFNDLKAA 136 (157)
T ss_pred CCCEEEecceeeCHHHHHHHHHHHHc
Confidence 00001223344444444556665544
No 269
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=31.48 E-value=22 Score=40.55 Aligned_cols=31 Identities=32% Similarity=0.869 Sum_probs=25.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccch
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDI 384 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~ 384 (410)
...|.-|.+.+- ...|+|++|+..+|.+|--
T Consensus 229 ~~mC~~C~~tlf------n~hw~C~~C~~~~Cl~C~r 259 (889)
T KOG1356|consen 229 REMCDRCETTLF------NIHWRCPRCGFGVCLDCYR 259 (889)
T ss_pred chhhhhhccccc------ceeEEccccCCeeeecchh
Confidence 457999986553 1479999999999999964
No 270
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=31.44 E-value=20 Score=26.83 Aligned_cols=30 Identities=33% Similarity=0.678 Sum_probs=19.9
Q ss_pred CCccccccccccCCC----CCCCceeeCCCCCcc
Q 015282 348 RSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 377 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 377 (410)
...|.||...++... ........||.|+.+
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcCCCeEECcCCCcc
Confidence 458999998887542 111235679988764
No 271
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=31.16 E-value=29 Score=25.83 Aligned_cols=25 Identities=32% Similarity=0.691 Sum_probs=14.9
Q ss_pred eeEcCCCCcc-ccc--CCCCCCCCCcee
Q 015282 289 GYTCPRCKAR-VCE--LPTDCRICGLQL 313 (410)
Q Consensus 289 GY~Cp~C~s~-~C~--lP~~C~~Cgl~L 313 (410)
.=+||+|++- .=. ---.|..||.+.
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred cCcCcCCCcchheccCCcEECCCcCCEE
Confidence 3478888872 111 123688888764
No 272
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=31.09 E-value=1.9e+02 Score=23.31 Aligned_cols=50 Identities=8% Similarity=0.084 Sum_probs=35.2
Q ss_pred eEEEEEeCCCCCCcccH--HHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhC
Q 015282 177 EVLILYSALSTCDPGDI--METIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 227 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI--~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~Tg 227 (410)
.|+|+.-|. ...|+-. .++.+.|.+.+|....|-+.....+.+.+.+.||
T Consensus 9 ~vvvf~k~~-~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g 60 (90)
T cd03028 9 PVVLFMKGT-PEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSN 60 (90)
T ss_pred CEEEEEcCC-CCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhC
Confidence 466664322 1223333 3788899999999999999877777777777776
No 273
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=30.96 E-value=22 Score=42.11 Aligned_cols=39 Identities=38% Similarity=0.773 Sum_probs=26.4
Q ss_pred eeEcCCCCcccc----------cCC-CCCCCCCceecCchhHHhhhcccCCCCCCcc
Q 015282 289 GYTCPRCKARVC----------ELP-TDCRICGLQLVSSPHLARSYHHLFPIAPFDE 334 (410)
Q Consensus 289 GY~Cp~C~s~~C----------~lP-~~C~~Cgl~LvssphLarsyhHlfPl~~f~~ 334 (410)
.|+||.|+---+ +|| -.||.||..|. ---|-.|-..|--
T Consensus 914 HY~Cp~Cky~Ef~~d~svgsGfDLpdK~CPkCg~pl~-------kDG~dIPFETFlG 963 (1444)
T COG2176 914 HYLCPECKYSEFIDDGSVGSGFDLPDKDCPKCGTPLK-------KDGHDIPFETFLG 963 (1444)
T ss_pred cccCCCCceeeeecCCCcCCCCCCCCCCCCcCCCccc-------cCCCCCChhhhcC
Confidence 899999963211 244 38999999863 3346777777743
No 274
>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=30.92 E-value=25 Score=20.50 Aligned_cols=20 Identities=30% Similarity=0.668 Sum_probs=11.5
Q ss_pred eeCCCCCcccccccchhhhc
Q 015282 369 VACPKCKKHFCLECDIYIHE 388 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~fiHe 388 (410)
|.|+.|+..|=.--++--|.
T Consensus 1 ~~C~~C~~~~~~~~~l~~H~ 20 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELRQHM 20 (24)
T ss_dssp EE-SSTS-EESSHHHHHHHH
T ss_pred CCCcCCCCcCCcHHHHHHHH
Confidence 67888888775555544443
No 275
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.85 E-value=24 Score=35.62 Aligned_cols=50 Identities=26% Similarity=0.527 Sum_probs=41.2
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCCccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVA 407 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~~~ 407 (410)
.|+-|...|-.+. =.+|+.+||--|-+--+-.---|+-|..+++++.-+|
T Consensus 243 ~c~icr~~f~~pV--------vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~a 292 (313)
T KOG1813|consen 243 KCFICRKYFYRPV--------VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVA 292 (313)
T ss_pred cccccccccccch--------hhcCCceeehhhhccccccCCcceecccccccccchH
Confidence 5999999987653 3489999999999988888889999998888775544
No 276
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=30.73 E-value=2.4e+02 Score=30.44 Aligned_cols=90 Identities=12% Similarity=0.010 Sum_probs=63.5
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H--------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F-------- 217 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~-------- 217 (410)
+--+++-||-.|+.+=-..| ..|+|++|.|.. + -.| +.+.++++.+++|-+|-+.... .
T Consensus 394 ~~g~mG~glpaaiGa~la~p--~~~~Vv~i~GDG-s----f~~~~~eL~Ta~~~~lpi~ivV~NN~~~g~i~~~q~~~~~ 466 (549)
T PRK06457 394 WLGSMGIGVPGSVGASFAVE--NKRQVISFVGDG-G----FTMTMMELITAKKYDLPVKIIIYNNSKLGMIKFEQEVMGY 466 (549)
T ss_pred CcchhhhhHHHHHHHHhcCC--CCCeEEEEEccc-H----HhhhHHHHHHHHHHCCCeEEEEEECCccchHHHHHHHhcC
Confidence 33577777777776544332 147788888832 2 222 4567899999999888886431 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 ----------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+..|+.|..+.+.+.|+..|...+.
T Consensus 467 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 507 (549)
T PRK06457 467 PEWGVDLYNPDFTKIAESIGFKGFRLEEPKEAEEIIEEFLN 507 (549)
T ss_pred CcccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 1567888899999999999999999888763
No 277
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=30.72 E-value=49 Score=25.30 Aligned_cols=21 Identities=38% Similarity=0.950 Sum_probs=13.6
Q ss_pred eeEcCCCCcccccCC-CCCCCCCc
Q 015282 289 GYTCPRCKARVCELP-TDCRICGL 311 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP-~~C~~Cgl 311 (410)
-..||.|++. .+| ..|+.||.
T Consensus 27 l~~C~~CG~~--~~~H~vC~~CG~ 48 (57)
T PRK12286 27 LVECPNCGEP--KLPHRVCPSCGY 48 (57)
T ss_pred ceECCCCCCc--cCCeEECCCCCc
Confidence 4578888876 344 46777774
No 278
>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=30.50 E-value=30 Score=30.00 Aligned_cols=23 Identities=30% Similarity=0.886 Sum_probs=16.4
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCC
Q 015282 371 CPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 371 C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
||+|.+.|-.+ ...+..||-|.+
T Consensus 5 CP~C~seytY~-----dg~~~iCpeC~~ 27 (109)
T TIGR00686 5 CPKCNSEYTYH-----DGTQLICPSCLY 27 (109)
T ss_pred CCcCCCcceEe-----cCCeeECccccc
Confidence 78888777543 566778888875
No 279
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=30.47 E-value=36 Score=25.15 Aligned_cols=44 Identities=7% Similarity=-0.154 Sum_probs=30.0
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCC
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRH 401 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~ 401 (410)
.|.-|...+..+ ....|+..||.+|=.-.-+.-..||-|.....
T Consensus 3 ~Cpi~~~~~~~P--------v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 3 LCPISLEVMKDP--------VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred CCcCCCCcCCCC--------EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 477777666543 13467899999997644444678999976543
No 280
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=30.37 E-value=3.6e+02 Score=28.47 Aligned_cols=85 Identities=14% Similarity=0.085 Sum_probs=54.1
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccch-
Q 015282 176 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIA- 254 (410)
Q Consensus 176 reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~- 254 (410)
++|.|..+ +....-.++.+...|+.|..+........++++ -.+.. +..|..++.+++... .|+..-.
T Consensus 312 krvai~~~------~~~~~~l~~~l~elGm~v~~~~~~~~~~~~~~~---~~~~~-~~~D~~~l~~~i~~~-~~dliig~ 380 (432)
T TIGR01285 312 KKVAIAAE------PDLLAAWATFFTSMGAQIVAAVTTTGSPLLQKL---PVETV-VIGDLEDLEDLACAA-GADLLITN 380 (432)
T ss_pred CEEEEEcC------HHHHHHHHHHHHHCCCEEEEEEeCCCCHHHHhC---CcCcE-EeCCHHHHHHHHhhc-CCCEEEEC
Confidence 45655432 334567788899999999999998765554442 33333 446777888877554 2333221
Q ss_pred -------hhhhhceeeecCCCCCC
Q 015282 255 -------EFAIANLIKMGFPQRAG 271 (410)
Q Consensus 255 -------~~~~~~Li~mGFP~~~~ 271 (410)
....-.|+++|||....
T Consensus 381 s~~k~~A~~l~ip~ir~g~Pi~dr 404 (432)
T TIGR01285 381 SHGRALAQRLALPLVRAGFPLFDQ 404 (432)
T ss_pred cchHHHHHHcCCCEEEecCCcccc
Confidence 12345899999998653
No 281
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=30.28 E-value=23 Score=35.45 Aligned_cols=115 Identities=23% Similarity=0.374 Sum_probs=64.2
Q ss_pred eeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcccc--------cCCCCCCCCCcee-----cCchhHHhhhcccC
Q 015282 261 LIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVC--------ELPTDCRICGLQL-----VSSPHLARSYHHLF 327 (410)
Q Consensus 261 Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~~C--------~lP~~C~~Cgl~L-----vssphLarsyhHlf 327 (410)
-..+|+|+.... |.-+....+. -|.|=.|+.... ..+..|..|.+.+ -+..|..=+.|+.-
T Consensus 30 ~~~~~c~hy~r~-----~~~~a~ccd~-~~~C~hCH~~s~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~c~~~~g~~~c~ 103 (276)
T KOG1940|consen 30 AFPYGCPHYRRN-----CKSRAPCCDR-EITCRHCHNESEDHDLDRKTVYELLCMKCRKIQPVGQICSNCHVELGEYYCL 103 (276)
T ss_pred ccccCCchhhhc-----cccccccccc-eeeeEEecChhhhcccchhhhhhhhhhhHHhhhhhhhccccchhhhhhhcCc
Confidence 345688877533 1112222233 677888887777 6677888888776 35566666677766
Q ss_pred CCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCc---------ccccccchhhhccCCCCCCCCC
Q 015282 328 PIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKK---------HFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 328 Pl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---------~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
.-..|.--+ . ...+|-+|..-= .+... ..|.|-.|+. ++|.++-. -+|||.|.-
T Consensus 104 ~C~l~dd~~--------~-~~~hC~~C~icr--~g~~~-~~fhc~~c~~c~~~~~~~~H~c~e~~~-----~~ncPic~e 166 (276)
T KOG1940|consen 104 ICKLFDDDP--------S-KQYHCDLCGICR--EGLGL-DFFHCKKCKACLSAYLSNWHKCVERSS-----EFNCPICKE 166 (276)
T ss_pred ccccccccc--------c-ceeccccccccc--ccccc-chhHHhhhHhHHhhhcccccchhhhcc-----cCCCchhHH
Confidence 666665321 1 344566654211 11111 3455555542 66666543 356888864
No 282
>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=30.05 E-value=4.1e+02 Score=23.92 Aligned_cols=91 Identities=10% Similarity=-0.029 Sum_probs=59.1
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-H------------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------ 217 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~------------ 217 (410)
.+--+++.||-.|+.+=... ..|++|+|.|.... .. ++ ..+..+.+.++.+-+|-+.... .
T Consensus 48 ~~~g~mG~~~~~aiGa~~a~---~~~~vv~i~GDG~f-~~-~~-~el~t~~~~~lp~~~iv~NN~~~~~~~~~~~~~~~~ 121 (178)
T cd02014 48 GLLATMGNGLPGAIAAKLAY---PDRQVIALSGDGGF-AM-LM-GDLITAVKYNLPVIVVVFNNSDLGFIKWEQEVMGQP 121 (178)
T ss_pred CCCchhhhHHHHHHHHHHhC---CCCcEEEEEcchHH-Hh-hH-HHHHHHHHhCCCcEEEEEECCchhHHHHHHHHhcCC
Confidence 34467888888887643322 24678888883322 11 12 3356678888888887775431 1
Q ss_pred ---------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 ---------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 ---------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
=+.++++..|+.|..+.+.+.+++.|.+..
T Consensus 122 ~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~~l~~a~ 160 (178)
T cd02014 122 EFGVDLPNPDFAKIAEAMGIKGIRVEDPDELEAALDEAL 160 (178)
T ss_pred ceeccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 145788888888888888888888777655
No 283
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.96 E-value=58 Score=35.12 Aligned_cols=50 Identities=24% Similarity=0.577 Sum_probs=33.3
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLY 368 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~ 368 (410)
...|..|+.. ..||-|+..|+ ||.- ...-.|.-|....+- .
T Consensus 213 ~~~C~~Cg~~-----~~C~~C~~~l~--------~h~~-------------------~~~l~Ch~Cg~~~~~-------~ 253 (505)
T TIGR00595 213 NLLCRSCGYI-----LCCPNCDVSLT--------YHKK-------------------EGKLRCHYCGYQEPI-------P 253 (505)
T ss_pred eeEhhhCcCc-----cCCCCCCCceE--------EecC-------------------CCeEEcCCCcCcCCC-------C
Confidence 3479988765 78999998774 4421 123469999755432 3
Q ss_pred eeCCCCCcc
Q 015282 369 VACPKCKKH 377 (410)
Q Consensus 369 ~~C~~C~~~ 377 (410)
..||.|++.
T Consensus 254 ~~Cp~C~s~ 262 (505)
T TIGR00595 254 KTCPQCGSE 262 (505)
T ss_pred CCCCCCCCC
Confidence 579999874
No 284
>cd04914 ACT_AKi-DapG-BS_1 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria, bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive aspartokinase isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The B. subtilis AKI is tetrameric consisting of two alpha and
Probab=29.92 E-value=1.7e+02 Score=22.44 Aligned_cols=26 Identities=12% Similarity=0.120 Sum_probs=21.7
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
.+|+-+.+....+.+.+|.|++|+..
T Consensus 11 ~~~~~~a~if~~La~~~InvDmI~~~ 36 (67)
T cd04914 11 NENDLQQRVFKALANAGISVDLINVS 36 (67)
T ss_pred CCccHHHHHHHHHHHcCCcEEEEEec
Confidence 34777778899999999999999765
No 285
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=29.87 E-value=29 Score=41.62 Aligned_cols=63 Identities=25% Similarity=0.466 Sum_probs=45.4
Q ss_pred CeeEEeCCHHHH-HHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcccccCC--C
Q 015282 228 GSYSVALDESHF-KELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELP--T 304 (410)
Q Consensus 228 G~Y~va~d~~hl-~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~~C~lP--~ 304 (410)
..-.+|.|+.+. ..++.+|+.|.-.- .| +++ ..- .|-| .|++||=..| -
T Consensus 1507 a~kiRAvde~dVae~vi~sHf~PDl~G------NL-------------RaF-------srQ-~~RC-kC~~kyRR~PL~G 1558 (1627)
T PRK14715 1507 AEKIRATDERDVAEKVIQSHFVPDLIG------NL-------------RAF-------SRQ-EFRC-KCGAKYRRVPLKG 1558 (1627)
T ss_pred HHHHhhcchHHHHHHHHHhccchhhhh------hh-------------hhh-------hcc-ceee-cCCCccccCCCCC
Confidence 345577888665 55889999876532 22 221 112 7999 9999999998 4
Q ss_pred CCCCCCceecCchh
Q 015282 305 DCRICGLQLVSSPH 318 (410)
Q Consensus 305 ~C~~Cgl~Lvssph 318 (410)
.|+-||-.||++-|
T Consensus 1559 ~C~kCGg~~ilTV~ 1572 (1627)
T PRK14715 1559 KCPKCGSKLILTVS 1572 (1627)
T ss_pred cCcccCCeEEEEEe
Confidence 89999999998766
No 286
>cd06427 CESA_like_2 CESA_like_2 is a member of the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, Glucan Biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis prot
Probab=29.78 E-value=4.5e+02 Score=24.29 Aligned_cols=49 Identities=12% Similarity=0.264 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEE
Q 015282 155 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVI 210 (410)
Q Consensus 155 SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vI 210 (410)
....|+..++.. ++-++|+++.++...+|+.+.+.+..+.+.+..|-++
T Consensus 71 G~~~a~n~g~~~-------a~gd~i~~~DaD~~~~~~~l~~~~~~~~~~~~~v~~~ 119 (241)
T cd06427 71 TKPKACNYALAF-------ARGEYVVIYDAEDAPDPDQLKKAVAAFARLDDKLACV 119 (241)
T ss_pred chHHHHHHHHHh-------cCCCEEEEEcCCCCCChHHHHHHHHHHHhcCCCEEEE
Confidence 445566655543 2337999999998899999999998887654444333
No 287
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=29.78 E-value=38 Score=33.55 Aligned_cols=54 Identities=24% Similarity=0.385 Sum_probs=32.9
Q ss_pred CccccccccccCCCC-C--CCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCCc
Q 015282 349 STCFGCQQSLLSSGN-K--PGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 405 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~-~--~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~ 405 (410)
..|.+|.+.+...+. + ...-|.||+|++.|=.-+- -++---|-||.+..-+.-|
T Consensus 133 SRCr~C~~rYDPVP~dkmwG~aef~C~~C~h~F~G~~q---m~v~sPCy~C~~~v~P~~I 189 (278)
T PF15135_consen 133 SRCRKCRKRYDPVPCDKMWGIAEFHCPKCRHNFRGFAQ---MGVPSPCYGCGNPVYPSRI 189 (278)
T ss_pred ccccccccccCCCccccccceeeeecccccccchhhhh---cCCCCCccCCCCccCcccc
Confidence 369999988854432 1 1235999999999943221 2344456666654444433
No 288
>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=29.68 E-value=2.5e+02 Score=30.53 Aligned_cols=88 Identities=9% Similarity=-0.029 Sum_probs=61.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH-HH----------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI---------- 218 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~-~i---------- 218 (410)
+.-+|+-||-.|+.+=-..| .|+|++|.|.. . -.| ..+.++.+.+++|-+|-+.... .+
T Consensus 406 ~~gsmG~glpaAiGa~la~p---~r~Vv~i~GDG-s----f~m~~~eL~Tavr~~lpi~~VV~NN~~yg~i~~~~~~~~~ 477 (575)
T TIGR02720 406 LFATMGVGVPGAIAAKLNYP---DRQVFNLAGDG-A----FSMTMQDLLTQVQYHLPVINIVFSNCTYGFIKDEQEDTNQ 477 (575)
T ss_pred CcchhhchHHHHHHHHHhCC---CCcEEEEEccc-H----HHhhHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhCC
Confidence 34578888877776433322 46788888832 2 222 4578899999999999775431 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 -----------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++|+..|+.+..+.+.+.|++.|.+.+
T Consensus 478 ~~~~~~~~~~df~~iA~a~G~~~~~v~~~~el~~al~~a~ 517 (575)
T TIGR02720 478 PLIGVDFNDADFAKIAEGVGAVGFRVNKIEQLPAVFEQAK 517 (575)
T ss_pred CcccccCCCCCHHHHHHHCCCEEEEeCCHHHHHHHHHHHH
Confidence 45677888888888888888888887776
No 289
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.28 E-value=1.2e+02 Score=22.93 Aligned_cols=37 Identities=8% Similarity=0.053 Sum_probs=28.7
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
-++-++|. ...+++-.-+.+..|.+.+|+|..|+-|+
T Consensus 2 a~VsvVG~-~~~~~~~~~~i~~aL~~~~I~v~~i~~g~ 38 (65)
T cd04918 2 SIISLIGN-VQRSSLILERAFHVLYTKGVNVQMISQGA 38 (65)
T ss_pred cEEEEECC-CCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 36777887 45567755588999999999999888764
No 290
>cd03376 TPP_PFOR_porB_like Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea and some hyperthermophilic bacteria. PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea, anaerobic bacteria and eukaryotes that lack mitochondria (and therefore pyruvate dehydrogenase) use PFOR to oxidatively decarboxylate pyruvate, with ferredoxin or flavodoxin as the electron acceptor. The 36-kDa porB subunit contains the binding sites for the cofactors, TPP and a divalent metal cation, which are required for activity.
Probab=29.09 E-value=4.1e+02 Score=25.60 Aligned_cols=88 Identities=9% Similarity=0.063 Sum_probs=58.2
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccH-HHHHHHHHHcCeEEEEEEcchhHH---------------
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEMF--------------- 217 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI-~~ti~~akk~~IrV~vIgL~aE~~--------------- 217 (410)
.+++-||-.|+.+....| .|.||.|.| +.+- ..+ ...+..+.+.+++|-+|-+....+
T Consensus 62 gsmG~GlpaAiGa~~a~p---~r~VV~i~G-DG~~--~~m~~~eL~ta~~~~~pv~~vVlNN~~yg~tg~q~~~~~~~~~ 135 (235)
T cd03376 62 AAVASGIEAALKALGRGK---DITVVAFAG-DGGT--ADIGFQALSGAAERGHDILYICYDNEAYMNTGIQRSGSTPYGA 135 (235)
T ss_pred HHHHHHHHHHHHHhccCC---CCeEEEEEc-CchH--HhhHHHHHHHHHHcCCCeEEEEECCcccccCCCCCCCCCCCCC
Confidence 488999999988754433 466888877 3221 011 255678899999999998865421
Q ss_pred -------------------HHHHHHHhhCCeeE---EeCCHHHHHHHHHhcC
Q 015282 218 -------------------ICKHLCQDTGGSYS---VALDESHFKELIMEHA 247 (410)
Q Consensus 218 -------------------iLk~la~~TgG~Y~---va~d~~hl~~lL~~~~ 247 (410)
=+.++|+..|..|. .+.+.++|.+.|.+.+
T Consensus 136 ~~~~~~~g~~~~~~~~~~~d~~~iA~a~G~~~~~~~~v~~~~el~~al~~a~ 187 (235)
T cd03376 136 WTTTTPVGKVSFGKKQPKKDLPLIMAAHNIPYVATASVAYPEDLYKKVKKAL 187 (235)
T ss_pred EeecCCCCccccccccccCCHHHHHHHcCCcEEEEEcCCCHHHHHHHHHHHH
Confidence 14457777776664 3667777777777665
No 291
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=29.05 E-value=29 Score=34.43 Aligned_cols=91 Identities=29% Similarity=0.629 Sum_probs=60.1
Q ss_pred Ccceee-eccCccc--cCeeEcCCCCcccccCC------------CCCCCCCceecCchhHHhhhc-ccCCCCCCcccCc
Q 015282 274 SISICS-CHKEVKV--GVGYTCPRCKARVCELP------------TDCRICGLQLVSSPHLARSYH-HLFPIAPFDEVTP 337 (410)
Q Consensus 274 ~~a~C~-CH~~~~~--~~GY~Cp~C~s~~C~lP------------~~C~~Cgl~LvssphLarsyh-HlfPl~~f~~v~~ 337 (410)
.+++|. ||.+.+. .|-|+|-.|++.+=+=| -.|.+||..|-|. ||..- -||=|+=+...
T Consensus 119 gr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sd---aRevk~eLyClrChD~m-- 193 (332)
T KOG2272|consen 119 GRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSD---AREVKGELYCLRCHDKM-- 193 (332)
T ss_pred chHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccch---hhhhccceecccccccc--
Confidence 356654 6665432 34799999999877655 3799999999886 44444 57777766654
Q ss_pred cCCCCCCCCCCCccccccccccCCC----CC--CCceeeCCCCCccc
Q 015282 338 LCLNDPRNRSRSTCFGCQQSLLSSG----NK--PGLYVACPKCKKHF 378 (410)
Q Consensus 338 ~~~~~~~~~~~~~C~~C~~~~~~~~----~~--~~~~~~C~~C~~~F 378 (410)
+-..|++|.+++.... ++ -.-.|+|.+|.+.|
T Consensus 194 ---------gipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPF 231 (332)
T KOG2272|consen 194 ---------GIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPF 231 (332)
T ss_pred ---------CCcccccccCchHHHHHHHhccccchhheeehhcCCcc
Confidence 3447999988875321 00 01248888888876
No 292
>PRK11468 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=28.96 E-value=1.1e+02 Score=31.81 Aligned_cols=41 Identities=12% Similarity=0.178 Sum_probs=33.0
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 216 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~ 216 (410)
.+-||+|+. ..|=|-.|+.-+++.|+..+|+|.+|-++-++
T Consensus 96 ~~GvLlivk-NYtGDvlNF~mAaE~a~~eGi~v~~V~V~DDv 136 (356)
T PRK11468 96 GEGVLLIIK-NYTGDVLNFETATELLHDSGVKVTTVLIDDDV 136 (356)
T ss_pred CCCEEEEec-ccHHhhccHHHHHHHHHhCCCcEEEEEeCCcc
Confidence 356999988 55656667778899999999999999997654
No 293
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=28.79 E-value=20 Score=35.73 Aligned_cols=42 Identities=29% Similarity=0.816 Sum_probs=29.2
Q ss_pred ccccccccccCCCCCCCceeeCCCCC----cccccccchhhhccCCCCCCCCC
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCK----KHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~----~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
+|+.|-+.+.. +--.|..|+ .+||.-||-|+|+- -.||.|.+
T Consensus 237 H~~~~~~~~~~------~~i~C~~~~~~A~~~~C~iC~~~~~~R-~~C~~~kA 282 (325)
T KOG4399|consen 237 HCFLCKKCVKP------SWIHCSICNHCAVKHGCFICGELDHKR-STCPNIKA 282 (325)
T ss_pred HhHHhhhhccc------ceeeeecccchhhhcceeecccccccc-ccCccHHH
Confidence 46666544421 113465555 57999999999999 88999975
No 294
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=28.66 E-value=1.9e+02 Score=26.12 Aligned_cols=51 Identities=12% Similarity=0.053 Sum_probs=36.9
Q ss_pred EEEEEeCCCC--CCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCC
Q 015282 178 VLILYSALST--CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGG 228 (410)
Q Consensus 178 ILVi~~S~~t--~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG 228 (410)
|+|.++|+.. ....+=..+-..|++.+|.+..+-+.....+.++|-+.+|.
T Consensus 2 VvlYttsl~giR~t~~~C~~ak~iL~~~~V~~~e~DVs~~~~~~~EL~~~~g~ 54 (147)
T cd03031 2 VVLYTTSLRGVRKTFEDCNNVRAILESFRVKFDERDVSMDSGFREELRELLGA 54 (147)
T ss_pred EEEEEcCCcCCCCcChhHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCC
Confidence 6666666543 23445567888999999999999998776666777666654
No 295
>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=28.59 E-value=41 Score=31.84 Aligned_cols=40 Identities=28% Similarity=0.593 Sum_probs=26.8
Q ss_pred eeCCCCCcccccccc---hhhhccCCCCCCCCCCCCCCCcccCC
Q 015282 369 VACPKCKKHFCLECD---IYIHESLHNCPGCESLRHSNPIVANE 409 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD---~fiHe~Lh~CPgC~~~~~~~~~~~~~ 409 (410)
.+|..|+..+-.+ + .+-+..+..||.|....+++++.-+|
T Consensus 110 ~~C~~C~~~~~~~-~~~~~~~~~~~p~C~~Cg~~lrP~Vv~fgE 152 (218)
T cd01407 110 VRCTKCGKEYPRD-ELQADIDREEVPRCPKCGGLLRPDVVFFGE 152 (218)
T ss_pred ceeCCCcCCCcHH-HHhHhhccCCCCcCCCCCCccCCCeEECCC
Confidence 4577777665433 1 12355678999999988888775554
No 296
>TIGR00197 yjeF_nterm yjeF N-terminal region. This model is built on yeast protein YNL200C and the N-terminal regions of E. coli yjeF and its orthologs in various species. The C-terminal region of yjeF and its orthologs shows similarity to hydroxyethylthiazole kinase (thiM) and other enzymes involved in thiamine biosynthesis. Yeast YKL151C and B. subtilis yxkO match the yjeF C-terminal domain but lack this region.
Probab=28.54 E-value=3.3e+02 Score=25.63 Aligned_cols=50 Identities=16% Similarity=0.197 Sum_probs=35.0
Q ss_pred HHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 161 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 161 ~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
.+|...++..|. .++|+|+-|+. ++.||=.-++..|...++.|.+++...
T Consensus 33 ~va~~i~~~~~~--~~~v~vl~G~G--NNGGDGlv~AR~L~~~~v~V~~~~~~~ 82 (205)
T TIGR00197 33 AVAQAVLQAFPL--AGHVIIFCGPG--NNGGDGFVVARHLKGFGVEVFLLKKEK 82 (205)
T ss_pred HHHHHHHHHcCC--CCeEEEEECCC--CCccHHHHHHHHHHhCCCEEEEEccCC
Confidence 334444444442 35688888865 567888888999988999999987644
No 297
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=28.37 E-value=2.9e+02 Score=29.25 Aligned_cols=89 Identities=10% Similarity=0.091 Sum_probs=43.6
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCC---CCCCcccHH-HHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeC
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSAL---STCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVAL 234 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~---~t~DpgdI~-~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~ 234 (410)
++..|+..|+..+....+++++++|+. .+ ....++ +.++.+.+.++. .||.+|.....+.+-. ..+.......
T Consensus 352 s~~aaL~~l~~~~~~~~~r~i~V~G~m~elg~-~~~~~h~~~~~~~~~~~~d-~v~~~G~~~~~~~~~~-~~~~~~~~~~ 428 (479)
T PRK14093 352 SMAAALGVLGRAPVGPQGRRIAVLGDMLELGP-RGPELHRGLAEAIRANAID-LVFCCGPLMRNLWDAL-SSGKRGGYAE 428 (479)
T ss_pred HHHHHHHHHHhhhccCCCCEEEEECChHHcCc-HHHHHHHHHHHHHHHcCCC-EEEEEchhHHHHHHhh-cccccceeeC
Confidence 566666667665321223566666652 22 223455 556666666543 2333344333222210 0121111236
Q ss_pred CHHHHHHHHHhcCCCC
Q 015282 235 DESHFKELIMEHAPPP 250 (410)
Q Consensus 235 d~~hl~~lL~~~~~Pp 250 (410)
|.+.+.+.|...+.|-
T Consensus 429 ~~~~~~~~l~~~~~~g 444 (479)
T PRK14093 429 DAAALESQVVAAIRAG 444 (479)
T ss_pred CHHHHHHHHHHhcCCC
Confidence 7777777777777553
No 298
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=28.37 E-value=33 Score=32.22 Aligned_cols=25 Identities=36% Similarity=0.667 Sum_probs=0.0
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 015282 368 YVACPKCKKHFCLECDIYIHESLHNCPGCESLR 400 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~ 400 (410)
+|+|..|+..|= +-.+.||-|.+++
T Consensus 139 ~~rC~GC~~~f~--------~~~~~Cp~CG~~~ 163 (177)
T COG1439 139 RLRCHGCKRIFP--------EPKDFCPICGSPL 163 (177)
T ss_pred eEEEecCceecC--------CCCCcCCCCCCce
No 299
>PF14353 CpXC: CpXC protein
Probab=28.34 E-value=36 Score=29.42 Aligned_cols=21 Identities=33% Similarity=0.819 Sum_probs=14.3
Q ss_pred eeeCCCCCcccccccchhhhc
Q 015282 368 YVACPKCKKHFCLECDIYIHE 388 (410)
Q Consensus 368 ~~~C~~C~~~FC~dCD~fiHe 388 (410)
.|.||.|+..|=++=....|+
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred EEECCCCCCceecCCCEEEEc
Confidence 689999998875544444444
No 300
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=28.25 E-value=1.3e+02 Score=32.35 Aligned_cols=54 Identities=15% Similarity=0.094 Sum_probs=38.4
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
|.++|...++..|....++|+||.|.. ++.||=.-++..|...|..|+|+-++.
T Consensus 43 G~ava~~i~~~~~~~~~~~VlVlcG~G--NNGGDGlv~AR~L~~~G~~V~v~~~~~ 96 (462)
T PLN03049 43 GLSVASAIAEVYSPSEYRRVLALCGPG--NNGGDGLVAARHLHHFGYKPSICYPKR 96 (462)
T ss_pred HHHHHHHHHHhcccccCCEEEEEECCC--CCHHHHHHHHHHHHHCCCceEEEEECC
Confidence 344554444554432225688888855 568888899999999999999998764
No 301
>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=28.18 E-value=4.6e+02 Score=23.79 Aligned_cols=90 Identities=12% Similarity=0.099 Sum_probs=58.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-HH------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI------------ 218 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~i------------ 218 (410)
|-.+++-||-.|+.+=-..| .|+|++|.|...- . .++ +.+.++.+.++++-+|-+...- .+
T Consensus 48 ~~g~mG~~lp~aiGa~la~~---~~~vv~i~GDG~f-~-~~~-~eL~ta~~~~lpi~ivV~nN~~~~~~~~~~~~~~~~~ 121 (186)
T cd02015 48 GLGTMGFGLPAAIGAKVARP---DKTVICIDGDGSF-Q-MNI-QELATAAQYNLPVKIVILNNGSLGMVRQWQELFYEGR 121 (186)
T ss_pred CccchhchHHHHHHHHHhCC---CCeEEEEEcccHH-h-ccH-HHHHHHHHhCCCeEEEEEECCccHHHHHHHHHHcCCc
Confidence 33577778887776543322 4678888773321 1 122 4477788889999888886442 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 -----------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++|+.-|+.+..+.+.+.|++.|....
T Consensus 122 ~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 161 (186)
T cd02015 122 YSHTTLDSNPDFVKLAEAYGIKGLRVEKPEELEAALKEAL 161 (186)
T ss_pred eeeccCCCCCCHHHHHHHCCCceEEeCCHHHHHHHHHHHH
Confidence 34466667777888888888887776654
No 302
>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=27.76 E-value=30 Score=22.96 Aligned_cols=22 Identities=36% Similarity=0.798 Sum_probs=9.8
Q ss_pred EcCCCCcccccCCC----CCCCCCce
Q 015282 291 TCPRCKARVCELPT----DCRICGLQ 312 (410)
Q Consensus 291 ~Cp~C~s~~C~lP~----~C~~Cgl~ 312 (410)
+||+|++..=..+. .|+.||..
T Consensus 5 fC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 5 FCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp B-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred ccCcCCccccCCCCcCEeECCCCcCE
Confidence 57777776544443 56666654
No 303
>PHA00616 hypothetical protein
Probab=27.70 E-value=18 Score=26.45 Aligned_cols=19 Identities=21% Similarity=0.478 Sum_probs=14.0
Q ss_pred eeCCCCCcccccccchhhh
Q 015282 369 VACPKCKKHFCLECDIYIH 387 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~fiH 387 (410)
|+|+.|+..|..-=++--|
T Consensus 2 YqC~~CG~~F~~~s~l~~H 20 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEH 20 (44)
T ss_pred CccchhhHHHhhHHHHHHH
Confidence 8999999999765444333
No 304
>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=27.68 E-value=2.4e+02 Score=25.48 Aligned_cols=89 Identities=12% Similarity=0.202 Sum_probs=59.0
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH-----------
Q 015282 150 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----------- 216 (410)
Q Consensus 150 ~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----------- 216 (410)
..|-..++.+|-.|+.+=... .|+|+.|.|.. +-.| ..+.++.+.+++|-+|-|....
T Consensus 47 ~~g~g~mG~~l~~aiGa~la~----~~~Vv~i~GDG-----sf~m~~~eL~ta~~~~l~v~ivVlNN~~~g~~~~~~~~~ 117 (175)
T cd02009 47 NRGASGIDGTLSTALGIALAT----DKPTVLLTGDL-----SFLHDLNGLLLGKQEPLNLTIVVINNNGGGIFSLLPQAS 117 (175)
T ss_pred cCCccchhhHHHHHHHHHhcC----CCCEEEEEehH-----HHHHhHHHHHhccccCCCeEEEEEECCCCchheeccCCc
Confidence 344455667777666643221 46788888722 2222 4566778888888888775431
Q ss_pred -------H-------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 217 -------F-------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 217 -------~-------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
. =+.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 118 ~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 162 (175)
T cd02009 118 FEDEFERLFGTPQGLDFEHLAKAYGLEYRRVSSLDELEQALESAL 162 (175)
T ss_pred ccchhhhhhcCCCCCCHHHHHHHcCCCeeeCCCHHHHHHHHHHHH
Confidence 0 145688888888888889999988888776
No 305
>TIGR03111 glyc2_xrt_Gpos1 putative glycosyltransferase TIGR03111. Members of this protein family probable glycosyltransferases of family 2, whose genes are near those for Gram-positive proteins (TIGR03110) related to the proposed exosortase (TIGR02602).
Probab=27.66 E-value=6.5e+02 Score=26.26 Aligned_cols=89 Identities=10% Similarity=0.118 Sum_probs=52.1
Q ss_pred HHHHHHhhhcCC-CCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhh---c---CCCCcchHHHHHHHHHHHHhCCCCC
Q 015282 101 VEAFVREFFDQN-PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK---L---GCSGDSSLQNALDLVQGLLSQIPSY 173 (410)
Q Consensus 101 l~~FV~~ffdqN-PisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~---~---~~~G~~SLqnaL~~A~~~L~~~p~~ 173 (410)
+.+-++....|+ |.+.+-||+..||. +.+..++++.+.+. . ....+-..+.||..|+...
T Consensus 64 l~~~l~sl~~q~yp~~~~eIiVVDd~S-------tD~T~~il~~~~~~~~~v~v~~~~~~~Gka~AlN~gl~~s------ 130 (439)
T TIGR03111 64 LFNCIESIYNQTYPIELIDIILANNQS-------TDDSFQVFCRAQNEFPGLSLRYMNSDQGKAKALNAAIYNS------ 130 (439)
T ss_pred HHHHHHHHHhcCCCCCCeEEEEEECCC-------ChhHHHHHHHHHHhCCCeEEEEeCCCCCHHHHHHHHHHHc------
Confidence 344444444454 66667788877773 22233444444321 0 0111234667777776542
Q ss_pred CCceEEEEEeCCCCCCcccHHHHHHHHHHc
Q 015282 174 GHREVLILYSALSTCDPGDIMETIQKCKES 203 (410)
Q Consensus 174 ~sreILVi~~S~~t~DpgdI~~ti~~akk~ 203 (410)
+.++++++.++...+|.-+.+.++.+.++
T Consensus 131 -~g~~v~~~DaD~~~~~d~L~~l~~~f~~~ 159 (439)
T TIGR03111 131 -IGKYIIHIDSDGKLHKDAIKNMVTRFENN 159 (439)
T ss_pred -cCCEEEEECCCCCcChHHHHHHHHHHHhC
Confidence 23688888888888888888888888643
No 306
>PF11181 YflT: Heat induced stress protein YflT
Probab=27.56 E-value=88 Score=26.14 Aligned_cols=75 Identities=16% Similarity=0.161 Sum_probs=47.7
Q ss_pred ccHHHHHHHHHHcCeEEEEEEcch-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 015282 191 GDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 269 (410)
Q Consensus 191 gdI~~ti~~akk~~IrV~vIgL~a-E~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~ 269 (410)
.....+|+.|+++|..=+=|.+=+ +-.-...|++.| +...+-..+..|-+-+..+++. ........|..||||..
T Consensus 10 ~E~~~~I~~L~~~Gy~~ddI~Vva~d~~~~~~l~~~t-~~~~~~~~~~~~~d~~~~~f~~---~~d~~~~~l~~lGl~~~ 85 (103)
T PF11181_consen 10 EEALSAIEELKAQGYSEDDIYVVAKDKDRTERLADQT-DTNTVGASEESFWDKIKNFFTS---GGDELRSKLESLGLSED 85 (103)
T ss_pred HHHHHHHHHHHHcCCCcccEEEEEcCchHHHHHHHhc-CCceeccccccHHHHHHHhccC---CcHHHHHHHHHcCCCHH
Confidence 456677888888887755444433 345567777777 3334444556676767666651 22345578889999864
No 307
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=27.51 E-value=3e+02 Score=29.80 Aligned_cols=90 Identities=14% Similarity=0.171 Sum_probs=62.1
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH--------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-------------- 217 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~-------------- 217 (410)
|--+++.||-.|+.+--..| .|+|++|.|...- .. ++ +.+.++.+.+++|-+|-+....+
T Consensus 419 ~~g~mG~~lp~aiGa~la~p---~~~vv~i~GDG~f-~~-~~-~eL~ta~~~~lpv~~vV~NN~~~~~i~~~q~~~~~~~ 492 (574)
T PRK06882 419 GAGTMGFGLPAAIGVKFAHP---EATVVCVTGDGSI-QM-NI-QELSTAKQYDIPVVIVSLNNRFLGMVKQWQDLIYSGR 492 (574)
T ss_pred CcccccchhHHHHHHHhhcC---CCcEEEEEcchhh-hc-cH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHhcCCc
Confidence 33567777777776543333 4678888873322 11 12 55778899999999888865410
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 ----------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
=+.++|+.-|+.++.+.+.+.|+..|...+
T Consensus 493 ~~~~~~~~~~d~~~la~a~G~~~~~v~~~~eL~~al~~a~ 532 (574)
T PRK06882 493 HSQVYMNSLPDFAKLAEAYGHVGIQIDTPDELEEKLTQAF 532 (574)
T ss_pred ccccCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 045688888999999999999999888775
No 308
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=27.47 E-value=30 Score=24.94 Aligned_cols=30 Identities=30% Similarity=0.823 Sum_probs=20.0
Q ss_pred CCccccccc-cccCCCCCCCceeeCCCCCc-ccccccc
Q 015282 348 RSTCFGCQQ-SLLSSGNKPGLYVACPKCKK-HFCLECD 383 (410)
Q Consensus 348 ~~~C~~C~~-~~~~~~~~~~~~~~C~~C~~-~FC~dCD 383 (410)
...|-+|.. ++. +.+|.|..|.. .+|.+|-
T Consensus 4 ~~~C~~C~~~~i~------g~Ry~C~~C~d~dLC~~C~ 35 (46)
T PF00569_consen 4 GYTCDGCGTDPII------GVRYHCLVCPDYDLCEDCF 35 (46)
T ss_dssp SCE-SSS-SSSEE------SSEEEESSSSS-EEEHHHH
T ss_pred CeECcCCCCCcCc------CCeEECCCCCCCchhhHHH
Confidence 457999987 443 25899999983 5677774
No 309
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=27.42 E-value=35 Score=25.06 Aligned_cols=29 Identities=28% Similarity=0.756 Sum_probs=20.5
Q ss_pred cccccc-ccccCCCCCCCceeeCCCCCc-ccccccch
Q 015282 350 TCFGCQ-QSLLSSGNKPGLYVACPKCKK-HFCLECDI 384 (410)
Q Consensus 350 ~C~~C~-~~~~~~~~~~~~~~~C~~C~~-~FC~dCD~ 384 (410)
.|.+|. .++. +.+|+|..|.. ..|.+|-.
T Consensus 2 ~C~~C~~~~i~------g~R~~C~~C~d~dlC~~Cf~ 32 (49)
T cd02338 2 SCDGCGKSNFT------GRRYKCLICYDYDLCADCYD 32 (49)
T ss_pred CCCCCcCCCcE------EeeEEeCCCCCCccchhHHh
Confidence 589998 5554 25899999965 45777743
No 310
>TIGR02363 dhaK1 dihydroxyacetone kinase, DhaK subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form (EC 2.7.1.-) with a phosphoprotein donor related to PTS transport proteins. This family represents the DhaK subunit of the latter type of dihydroxyacetone kinase, but it specifically excludes the DhaK paralog DhaK2 (TIGR02362) found in the same operon as DhaK and DhaK in the Firmicutes.
Probab=27.41 E-value=1.1e+02 Score=31.45 Aligned_cols=42 Identities=12% Similarity=0.151 Sum_probs=33.4
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
.+-||+|+. ..|=|-.|+.-+++.|+..+|+|.+|-++-++.
T Consensus 97 ~~GvL~iv~-NYtGD~lnF~mA~E~a~~eGi~v~~V~V~DDva 138 (329)
T TIGR02363 97 GAGVLLIVK-NYTGDVMNFEMAAELAEDEGIKVATVVVDDDIA 138 (329)
T ss_pred CCCEEEEeC-CcHHHhccHHHHHHHHHHcCCcEEEEEECCccc
Confidence 356999988 555566666688999999999999999986643
No 311
>PRK14483 DhaKLM operon coactivator DhaQ; Provisional
Probab=27.38 E-value=1.1e+02 Score=31.54 Aligned_cols=43 Identities=12% Similarity=0.172 Sum_probs=33.5
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFI 218 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~i 218 (410)
.+-||+|+. ..|=|-.|+.-+++.++..+|+|.+|-++-++.+
T Consensus 95 ~~GvL~ivk-NYtGDvlnF~mA~E~a~~eGi~v~~VvV~DDva~ 137 (329)
T PRK14483 95 GKGVFFIIK-NFEADVAEFSAAIQIARQEGRQIKYIIVHDDISV 137 (329)
T ss_pred CCCEEEEec-ccHHHhhhHHHHHHHHHhCCCcEEEEEeCCcccC
Confidence 356999988 5555555666789999999999999999876653
No 312
>PRK04155 chaperone protein HchA; Provisional
Probab=27.23 E-value=1.2e+02 Score=30.52 Aligned_cols=44 Identities=16% Similarity=0.268 Sum_probs=31.6
Q ss_pred CCCCCceEEEEEeCCCC------------CCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 171 PSYGHREVLILYSALST------------CDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 171 p~~~sreILVi~~S~~t------------~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
|-.+.++||||+++-.. ..+..+...+..|++.|+.|++++...
T Consensus 45 ~~~~~kkiL~v~t~~~~~~~~~g~~~~tG~~~~E~~~P~~~L~~AG~eVdiAS~~G 100 (287)
T PRK04155 45 PYRGGKKILMIAADERYLPMDNGKLFSTGNHPVETLLPMYHLHKAGFEFDVATLSG 100 (287)
T ss_pred cCCCCCeEEEEEcCcccccCCCCCcCCCCccHHHHHHHHHHHHHCCCEEEEEecCC
Confidence 34567799999985542 112233455889999999999999965
No 313
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.14 E-value=2.3e+02 Score=20.09 Aligned_cols=32 Identities=19% Similarity=0.224 Sum_probs=23.9
Q ss_pred EEeCCCCCCcccHHHHHHHHHHcCeEEEEEEc
Q 015282 181 LYSALSTCDPGDIMETIQKCKESKIRCSVIGL 212 (410)
Q Consensus 181 i~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL 212 (410)
+.|.....+++-+.+....+.+.+|+|+.|+.
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04923 5 IVGAGMRSHPGVAAKMFKALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEEc
Confidence 34444445566677889999999999999983
No 314
>cd06349 PBP1_ABC_ligand_binding_like_14 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=27.12 E-value=2.3e+02 Score=27.64 Aligned_cols=13 Identities=23% Similarity=0.353 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHh
Q 015282 156 LQNALDLVQGLLS 168 (410)
Q Consensus 156 LqnaL~~A~~~L~ 168 (410)
..+|+++|...++
T Consensus 19 ~~~g~~~a~~~iN 31 (340)
T cd06349 19 WKRAFDLALDEIN 31 (340)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444444
No 315
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=27.03 E-value=1.9e+02 Score=26.38 Aligned_cols=70 Identities=16% Similarity=0.142 Sum_probs=50.5
Q ss_pred CceEEEEEeCCCCCCcccHH-HHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 175 HREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~-~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
-.+|+|+ ......|| +. .+++.++-.+|++++.++......++. ...+.-.+.+..+...+.+++..-+.
T Consensus 28 ~~~IvVv-dD~~A~D~--~~k~~l~ma~P~gvk~~i~sv~~a~~~l~~-~~~~~~v~il~k~~~d~~~l~~~g~~ 98 (157)
T PRK11425 28 ANLVLVA-NDEVAEDP--VQQNLMEMVLAEGIAVRFWTLQKVIDNIHR-AADRQKILLVCKTPADFLTLVKGGVP 98 (157)
T ss_pred CCEEEEE-cchhcCCH--HHHHHHHhhCCCCCeEEEEEHHHHHHHHhc-cCCCceEEEEECCHHHHHHHHHcCCC
Confidence 3456665 22223555 66 557777779999999999988888887 33334577788899999999886664
No 316
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=26.89 E-value=35 Score=33.97 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=21.1
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~ 312 (410)
.|+|+.|+.+.=+.-..||.||..
T Consensus 354 ~~~c~~cg~~~~~~~~~c~~c~~~ 377 (389)
T PRK11788 354 RYRCRNCGFTARTLYWHCPSCKAW 377 (389)
T ss_pred CEECCCCCCCCccceeECcCCCCc
Confidence 799999999999999999999853
No 317
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=26.79 E-value=48 Score=33.79 Aligned_cols=41 Identities=20% Similarity=0.535 Sum_probs=24.3
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchh-h-----hccCCCCCCCCC
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY-I-----HESLHNCPGCES 398 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~f-i-----He~Lh~CPgC~~ 398 (410)
+|..|...-.- .|-.|+.|++.-=+ +.| + +..+..|-.|.+
T Consensus 214 ~CslC~teW~~------~R~~C~~Cg~~~~l--~y~~~~~~~~~~r~e~C~~C~~ 260 (309)
T PRK03564 214 HCNLCESEWHV------VRVKCSNCEQSGKL--HYWSLDSEQAAVKAESCGDCGT 260 (309)
T ss_pred EcCCCCCcccc------cCccCCCCCCCCce--eeeeecCCCcceEeeecccccc
Confidence 78888755532 25678888875211 112 1 234578888875
No 318
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=26.78 E-value=2.7e+02 Score=29.94 Aligned_cols=89 Identities=13% Similarity=0.097 Sum_probs=63.2
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H-------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F------- 217 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~------- 217 (410)
.|--+|+.||-.|+.+=-..| .|.|++|.|... -.| +.+.++++.+++|-+|-+.... .
T Consensus 398 ~~~g~mG~glpaAiGa~la~p---~~~vv~i~GDG~-----f~~~~~eL~ta~~~~l~v~ivV~NN~~~~~~~~~~~~~~ 469 (548)
T PRK08978 398 SGLGTMGFGLPAAIGAQVARP---DDTVICVSGDGS-----FMMNVQELGTIKRKQLPVKIVLLDNQRLGMVRQWQQLFF 469 (548)
T ss_pred CchhhhhchHHHHHHHHHhCC---CCcEEEEEccch-----hhccHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHh
Confidence 344577888888877543333 467988888332 222 5577888999999998886421 0
Q ss_pred ------H-------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 ------I-------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 ------i-------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+ +.++|+.-|+.|..+.+.+.|++.|....
T Consensus 470 ~~~~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (548)
T PRK08978 470 DERYSETDLSDNPDFVMLASAFGIPGQTITRKDQVEAALDTLL 512 (548)
T ss_pred CCcceecCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1 46678888899999999999999888775
No 319
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.74 E-value=28 Score=32.29 Aligned_cols=30 Identities=30% Similarity=0.645 Sum_probs=21.1
Q ss_pred CccccccccccCCCCC-------------CCceeeCCCCCccc
Q 015282 349 STCFGCQQSLLSSGNK-------------PGLYVACPKCKKHF 378 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~-------------~~~~~~C~~C~~~F 378 (410)
..|--|+.++...... ....|+||+|++.|
T Consensus 98 ~RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiY 140 (165)
T COG1656 98 SRCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIY 140 (165)
T ss_pred ccCcccCCEeccCcHHHHhhccchhhhhcccceeECCCCcccc
Confidence 3699999888654311 12368999999876
No 320
>PRK12361 hypothetical protein; Provisional
Probab=26.70 E-value=5.9e+02 Score=27.53 Aligned_cols=47 Identities=15% Similarity=0.159 Sum_probs=34.3
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
+-++|......- -.+||+.|+++ .+++++..+...++++-+|-+|..
T Consensus 286 a~~la~~~~~~~-----~d~Viv~GGDG-----Tl~ev~~~l~~~~~~lgiiP~GTg 332 (547)
T PRK12361 286 AEALAKQARKAG-----ADIVIACGGDG-----TVTEVASELVNTDITLGIIPLGTA 332 (547)
T ss_pred HHHHHHHHHhcC-----CCEEEEECCCc-----HHHHHHHHHhcCCCCEEEecCCch
Confidence 556666655331 24777888775 488999999888999999998865
No 321
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=26.59 E-value=27 Score=31.71 Aligned_cols=15 Identities=47% Similarity=1.367 Sum_probs=14.4
Q ss_pred eeEcCCCCcccccCC
Q 015282 289 GYTCPRCKARVCELP 303 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP 303 (410)
-|.||.|..-||++|
T Consensus 17 KYKCpkC~vPYCSl~ 31 (157)
T KOG2857|consen 17 KYKCPKCSVPYCSLP 31 (157)
T ss_pred hccCCCCCCccccch
Confidence 699999999999998
No 322
>PLN00209 ribosomal protein S27; Provisional
Probab=26.54 E-value=28 Score=28.93 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=20.3
Q ss_pred EcCCCCcccc-----cCCCCCCCCCceecCc
Q 015282 291 TCPRCKARVC-----ELPTDCRICGLQLVSS 316 (410)
Q Consensus 291 ~Cp~C~s~~C-----~lP~~C~~Cgl~Lvss 316 (410)
.||.|..+.. ..++.|.+||.+|+-+
T Consensus 38 kCp~C~n~q~VFShA~t~V~C~~Cg~~L~~P 68 (86)
T PLN00209 38 KCQGCFNITTVFSHSQTVVVCGSCQTVLCQP 68 (86)
T ss_pred ECCCCCCeeEEEecCceEEEccccCCEeecc
Confidence 5999988765 3457999999998654
No 323
>PF12773 DZR: Double zinc ribbon
Probab=26.50 E-value=51 Score=23.65 Aligned_cols=39 Identities=23% Similarity=0.514 Sum_probs=24.7
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 396 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC 396 (410)
...+|..|..++... ....+.|+.|+. -+...-..||.|
T Consensus 11 ~~~fC~~CG~~l~~~---~~~~~~C~~Cg~--------~~~~~~~fC~~C 49 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPP---DQSKKICPNCGA--------ENPPNAKFCPNC 49 (50)
T ss_pred cccCChhhcCChhhc---cCCCCCCcCCcC--------CCcCCcCccCcc
Confidence 466888888887611 112355776665 466677777776
No 324
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=26.31 E-value=29 Score=28.80 Aligned_cols=27 Identities=26% Similarity=0.506 Sum_probs=20.7
Q ss_pred EcCCCCccccc-----CCCCCCCCCceecCch
Q 015282 291 TCPRCKARVCE-----LPTDCRICGLQLVSSP 317 (410)
Q Consensus 291 ~Cp~C~s~~C~-----lP~~C~~Cgl~Lvssp 317 (410)
.||.|..+..= -++.|.+||.+|+-++
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 59999887653 3479999999987543
No 325
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=26.29 E-value=5.7e+02 Score=27.50 Aligned_cols=90 Identities=16% Similarity=0.098 Sum_probs=51.5
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh--------HHHHHHHHHhhC--CeeEE-eCCHHHHHHHHH
Q 015282 176 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--------MFICKHLCQDTG--GSYSV-ALDESHFKELIM 244 (410)
Q Consensus 176 reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE--------~~iLk~la~~Tg--G~Y~v-a~d~~hl~~lL~ 244 (410)
|++. ++| ||.-..-.++.|...|+.|-.|+-... ...++++++..| |...+ -.|..+|.+++.
T Consensus 315 Krva-i~G-----dp~~~i~LarfL~elGmevV~vgt~~~~~~~~~~d~~~l~~~~~~~~~~~~vive~~D~~el~~~i~ 388 (457)
T CHL00073 315 KSVF-FMG-----DNLLEISLARFLIRCGMIVYEIGIPYMDKRYQAAELALLEDTCRKMNVPMPRIVEKPDNYNQIQRIR 388 (457)
T ss_pred CEEE-EEC-----CCcHHHHHHHHHHHCCCEEEEEEeCCCChhhhHHHHHHHHHHhhhcCCCCcEEEeCCCHHHHHHHHh
Confidence 4565 666 344566789999999999999877631 233444333322 34332 245555555554
Q ss_pred hcCCCCccchh-hhhhceeeecCCCCCCC
Q 015282 245 EHAPPPPAIAE-FAIANLIKMGFPQRAGE 272 (410)
Q Consensus 245 ~~~~Pp~~~~~-~~~~~Li~mGFP~~~~~ 272 (410)
+. .|.-.... ...-.|++.|||.+...
T Consensus 389 ~~-~pDLlIgG~~~~~Pl~~~G~p~~d~~ 416 (457)
T CHL00073 389 EL-QPDLAITGMAHANPLEARGINTKWSV 416 (457)
T ss_pred hC-CCCEEEccccccCchhhcCCcceEec
Confidence 32 23332211 23458999999998643
No 326
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=26.28 E-value=20 Score=37.40 Aligned_cols=10 Identities=40% Similarity=0.869 Sum_probs=8.2
Q ss_pred HhhhcccCCC
Q 015282 320 ARSYHHLFPI 329 (410)
Q Consensus 320 arsyhHlfPl 329 (410)
+--|+|+.||
T Consensus 290 rppy~~~iPL 299 (374)
T TIGR00375 290 RPPYVHLIPL 299 (374)
T ss_pred CCCeeeeCCH
Confidence 5569999998
No 327
>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=26.21 E-value=3.1e+02 Score=30.00 Aligned_cols=88 Identities=10% Similarity=0.107 Sum_probs=62.7
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhHH-H----------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEMF-I---------- 218 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~~-i---------- 218 (410)
|--+|+-||-.|+.+--..| .|+|+.|.|.. +-.| .-+.++++.|++|-+|-+....+ +
T Consensus 416 ~~gsmG~glpaaiGa~lA~p---dr~Vv~i~GDG-----~f~m~~~EL~Ta~r~~lpvv~iV~NN~~yg~i~~~q~~~~~ 487 (588)
T TIGR01504 416 QAGPLGWTIPAALGVCAADP---KRNVVALSGDY-----DFQFMIEELAVGAQHNIPYIHVLVNNAYLGLIRQAQRAFDM 487 (588)
T ss_pred ccccccchHhHHHhhhhhCC---CCcEEEEEcch-----HhhccHHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcc
Confidence 33578888888877654433 56788888822 2222 55789999999999998865311 1
Q ss_pred ----------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 219 ----------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 219 ----------------------Lk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
+.++|+.-|+.+.++.+.+.|++.|.+.+
T Consensus 488 ~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 538 (588)
T TIGR01504 488 DYCVQLAFENINSSEVNGYGVDHVKVAEGLGCKAIRVFKPEEIAPAFEQAK 538 (588)
T ss_pred cccceeeccccccccccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 34577777888888999999988888775
No 328
>cd02012 TPP_TK Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.
Probab=26.00 E-value=3.8e+02 Score=25.87 Aligned_cols=72 Identities=11% Similarity=0.004 Sum_probs=48.9
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc-hh------------HHHHHHHHHhhCCeeEEeC--CHHHH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AE------------MFICKHLCQDTGGSYSVAL--DESHF 239 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~-aE------------~~iLk~la~~TgG~Y~va~--d~~hl 239 (410)
.++|++|+| +...+.|...+++..+...++..=++-+. .. ..-+.++++.-|..+..+. |.+.+
T Consensus 127 ~~~v~~i~G-DG~~~~G~~~eal~~a~~~~l~~li~vvdnN~~~~~~~~~~~~~~~~~~~~~~a~G~~~~~v~G~d~~~l 205 (255)
T cd02012 127 DYRVYVLLG-DGELQEGSVWEAASFAGHYKLDNLIAIVDSNRIQIDGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEI 205 (255)
T ss_pred CCEEEEEEC-cccccccHHHHHHHHHHHcCCCcEEEEEECCCccccCcHhhccCchhHHHHHHHcCCeEEEECCCCHHHH
Confidence 467887777 77778888888888898888753233322 11 1235677777788888777 77777
Q ss_pred HHHHHhcC
Q 015282 240 KELIMEHA 247 (410)
Q Consensus 240 ~~lL~~~~ 247 (410)
.+.|.+..
T Consensus 206 ~~al~~a~ 213 (255)
T cd02012 206 LAALEEAK 213 (255)
T ss_pred HHHHHHHH
Confidence 77776543
No 329
>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=25.80 E-value=47 Score=30.14 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=22.7
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCCC
Q 015282 367 LYVACPKCKKHFCLECDIYIHESLHNCPGCESL 399 (410)
Q Consensus 367 ~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~ 399 (410)
+.|+|.+|+....+. . =+.|.-||.|.+.
T Consensus 111 G~l~C~~Cg~~~~~~---~-~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 111 GTLVCENCGHEVELT---H-PERLPPCPKCGHT 139 (146)
T ss_pred ceEecccCCCEEEec---C-CCcCCCCCCCCCC
Confidence 468999999988886 1 3679999999763
No 330
>PRK08617 acetolactate synthase; Reviewed
Probab=25.80 E-value=2.4e+02 Score=30.33 Aligned_cols=86 Identities=10% Similarity=0.015 Sum_probs=60.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H----------
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 217 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~---------- 217 (410)
-+++.||-.|+.+=-..| .|+|++|.|... -.| +.+.++++.|++|-+|-+.... +
T Consensus 414 g~mG~~lpaaiGa~la~p---~~~vv~i~GDGs-----f~m~~~eL~Ta~~~~lpv~~vV~NN~~~~~~~~~~~~~~~~~ 485 (552)
T PRK08617 414 QTLGVALPWAIAAALVRP---GKKVVSVSGDGG-----FLFSAMELETAVRLKLNIVHIIWNDGHYNMVEFQEEMKYGRS 485 (552)
T ss_pred ccccccccHHHhhHhhcC---CCcEEEEEechH-----HhhhHHHHHHHHHhCCCeEEEEEECCccchHHHHHHhhcCCc
Confidence 366666666665433322 467888888332 222 4567899999999888876431 0
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 --------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
=+.++|+..|+.|..+.+.+.|++.|....
T Consensus 486 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 523 (552)
T PRK08617 486 SGVDFGPVDFVKYAESFGAKGLRVTSPDELEPVLREAL 523 (552)
T ss_pred ccCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145788999999999999999999998876
No 331
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=25.78 E-value=38 Score=34.64 Aligned_cols=25 Identities=24% Similarity=0.579 Sum_probs=20.1
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccccc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 380 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~ 380 (410)
-..|-.|.+++. .|.||+|+-.+|-
T Consensus 7 ~~~C~ic~vq~~--------~YtCPRCn~~YCs 31 (383)
T KOG4317|consen 7 FLACGICGVQKR--------EYTCPRCNLLYCS 31 (383)
T ss_pred eeeccccccccc--------cccCCCCCcccee
Confidence 347888987763 5999999999994
No 332
>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=25.65 E-value=30 Score=21.86 Aligned_cols=11 Identities=45% Similarity=0.993 Sum_probs=9.3
Q ss_pred eeeCCCCCccc
Q 015282 368 YVACPKCKKHF 378 (410)
Q Consensus 368 ~~~C~~C~~~F 378 (410)
.|.|+.|++.|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 59999998876
No 333
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the Firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex.
Probab=25.48 E-value=1.2e+02 Score=31.15 Aligned_cols=42 Identities=12% Similarity=0.205 Sum_probs=32.9
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
.+-||+|+. ..|=|-.|+.-+++.|+..+|+|.+|-++-++.
T Consensus 93 ~~GvL~ivk-NYtGD~lNF~mA~E~a~~eGi~v~~V~V~DDvA 134 (326)
T TIGR02362 93 GKGVFVIIK-NFEADLSEFSQAIQQARQEGRQIKYIIVHDDIS 134 (326)
T ss_pred CCCEEEEec-cCHHHHhhHHHHHHHHHHcCCcEEEEEECCccc
Confidence 356899888 555555666678999999999999999987654
No 334
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.47 E-value=37 Score=29.76 Aligned_cols=8 Identities=25% Similarity=0.634 Sum_probs=3.8
Q ss_pred ccccccccc
Q 015282 350 TCFGCQQSL 358 (410)
Q Consensus 350 ~C~~C~~~~ 358 (410)
+| .|...|
T Consensus 72 ~C-~Cg~~~ 79 (124)
T PRK00762 72 EC-ECGYEG 79 (124)
T ss_pred Ee-eCcCcc
Confidence 45 554443
No 335
>PF14949 ARF7EP_C: ARF7 effector protein C-terminus
Probab=25.35 E-value=39 Score=29.06 Aligned_cols=19 Identities=42% Similarity=1.114 Sum_probs=15.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccccc
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 380 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~ 380 (410)
..|-||- |-||+|++..|.
T Consensus 68 ~~C~GC~-------------~PC~~C~S~KCG 86 (103)
T PF14949_consen 68 EDCPGCH-------------YPCPKCGSRKCG 86 (103)
T ss_pred CCCCCcc-------------ccCCCCCCCccC
Confidence 3588885 789999999995
No 336
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=25.31 E-value=2e+02 Score=28.13 Aligned_cols=45 Identities=22% Similarity=0.318 Sum_probs=37.2
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEE
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 232 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~v 232 (410)
-.+.+|.++++.+|+.+|++=++.-.......+.|++.||.....
T Consensus 204 ps~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ 248 (282)
T cd01017 204 PSPKQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLLV 248 (282)
T ss_pred CCHHHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEEE
Confidence 345688899999999999987777777778999999999987643
No 337
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pat
Probab=25.25 E-value=1.6e+02 Score=22.63 Aligned_cols=35 Identities=11% Similarity=0.065 Sum_probs=26.8
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 179 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
|-++|.....+++-..+..+.+.+.+|.|+.|+.+
T Consensus 4 I~vvg~~~~~~~~~~~~i~~~L~~~~I~v~~i~~~ 38 (80)
T cd04921 4 INIEGTGMVGVPGIAARIFSALARAGINVILISQA 38 (80)
T ss_pred EEEEcCCCCCCccHHHHHHHHHHHCCCcEEEEEec
Confidence 33445555566776778899999999999999875
No 338
>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=25.22 E-value=33 Score=26.25 Aligned_cols=26 Identities=27% Similarity=0.700 Sum_probs=16.6
Q ss_pred EcCCCCcccc-----cCCCCCCCCCceecCc
Q 015282 291 TCPRCKARVC-----ELPTDCRICGLQLVSS 316 (410)
Q Consensus 291 ~Cp~C~s~~C-----~lP~~C~~Cgl~Lvss 316 (410)
.||.|..+.- ..++.|..||.+|.-+
T Consensus 9 kCp~C~~~q~vFSha~t~V~C~~Cg~~L~~P 39 (55)
T PF01667_consen 9 KCPGCYNIQTVFSHAQTVVKCVVCGTVLAQP 39 (55)
T ss_dssp E-TTT-SEEEEETT-SS-EE-SSSTSEEEEE
T ss_pred ECCCCCCeeEEEecCCeEEEcccCCCEecCC
Confidence 5888887654 4457999999998754
No 339
>TIGR01556 rhamnosyltran L-rhamnosyltransferase. Rhamnolipids are glycolipids containing mono- or di- L-rhamnose molecules. Rhamnolipid synthesis occurs by sequential glycosyltransferase reactions involving two distinct rhamnosyltransferase enzymes. In P.aeruginosa, the synthesis of mono-rhamnolipids is catalyzed by rhamnosyltransferase 1, and proceeds by a glycosyltransfer reaction catalyzed by rhamnosyltransferase 2 to yield di-rhamnolipids.
Probab=25.17 E-value=4.7e+02 Score=24.86 Aligned_cols=55 Identities=7% Similarity=-0.023 Sum_probs=36.6
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEE
Q 015282 153 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIG 211 (410)
Q Consensus 153 ~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIg 211 (410)
+.-++.|+..++...... .-+.|+++-+++.-+++-+...++.+.+.+..+.+++
T Consensus 55 N~G~a~a~N~Gi~~a~~~----~~d~i~~lD~D~~~~~~~l~~l~~~~~~~~~~~~~~~ 109 (281)
T TIGR01556 55 NQGIAGAQNQGLDASFRR----GVQGVLLLDQDSRPGNAFLAAQWKLLSAENGQACALG 109 (281)
T ss_pred CcchHHHHHHHHHHHHHC----CCCEEEEECCCCCCCHHHHHHHHHHHHhcCCceEEEC
Confidence 344666666666555421 2378999988888888888888887776654455443
No 340
>PF02875 Mur_ligase_C: Mur ligase family, glutamate ligase domain This Prosite entry is a subset of the Pfam family.; InterPro: IPR004101 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) [], MurD (6.3.2.9 from EC) [], MurE (6.3.2.13 from EC) [] and MurF (6.3.2.10 from EC) []. These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales []. This entry represents the C-terminal domain from all four stage 2 Mur enzymes: UDP-N-acetylmuramate-L-alanine ligase (MurC), UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD), UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (MurE), and UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF). This entry also includes the C-terminal domain of folylpolyglutamate synthase that transfers glutamate to folylpolyglutamate and cyanophycin synthetase that catalyses the biosynthesis of the cyanobacterial reserve material multi-L-arginyl-poly-L-aspartate (cyanophycin) []. The C-terminal domain is almost always associated with the cytoplasmic peptidoglycan synthetases, N-terminal domain (see IPR000713 from INTERPRO).; GO: 0005524 ATP binding, 0016874 ligase activity, 0009058 biosynthetic process; PDB: 2Y68_A 3UAG_A 4UAG_A 2UAG_A 1E0D_A 2XPC_A 2WJP_A 2VTE_A 2Y67_A 1EEH_A ....
Probab=25.16 E-value=1e+02 Score=24.56 Aligned_cols=49 Identities=10% Similarity=0.123 Sum_probs=24.3
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCC---CCcccHHHHHHHHHHcCeEEEE
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALST---CDPGDIMETIQKCKESKIRCSV 209 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t---~DpgdI~~ti~~akk~~IrV~v 209 (410)
|+..++..|+.. +..+++++++|.... .+........+.+.+....|-+
T Consensus 26 s~~a~l~~l~~~--~~~~~~i~V~G~~~d~g~~~~~~~~~~~~~~~~~~d~vi~ 77 (91)
T PF02875_consen 26 SIRALLEALKEL--YPKGRIIAVFGAMGDLGSKDKDFHEEIGELAAQLADVVIL 77 (91)
T ss_dssp HHHHHHHHHHHH--CTTSEEEEEEEEBTT-HTSHHHCHHHHHHHHTTCSSEEEE
T ss_pred HHHHHHHHHHHh--ccCCcEEEEEccccccccccHHHHHHHHHHHHhcCCEEEE
Confidence 444455555544 225677777775332 3332223445555554555433
No 341
>PRK14481 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=25.16 E-value=1.3e+02 Score=30.96 Aligned_cols=41 Identities=10% Similarity=0.093 Sum_probs=33.3
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 216 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~ 216 (410)
.+-||+|+. ..|=|-.|+.-+++.++..+|+|.+|-++-++
T Consensus 96 ~~GvL~iv~-NYtGD~lnF~lA~E~a~~eGi~v~~V~v~DDv 136 (331)
T PRK14481 96 GAGVLLIVK-NYSGDVMNFEMAAELAEMEGIEVASVVVDDDV 136 (331)
T ss_pred CCCEEEEeC-CcHHHhccHHHHHHHHHhCCCCEEEEEeCCcc
Confidence 356999988 55556667778899999999999999987654
No 342
>PF02540 NAD_synthase: NAD synthase; InterPro: IPR022310 NAD+ synthase (6.3.5.1 from EC) catalyzes the last step in the biosynthesis of nicotinamide adenine dinucleotide and is induced by stress factors such as heat shock and glucose limitation. The three-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its free form and in complex with ATP shows that the enzyme consists of a tight homodimer with alpha/beta subunit topology []. Catalyzes the synthesis of GMP from XMP. The protein is a homodimer, but in the archaea it is a heterodimer composed of a glutamine amidotransferase subunit (A) and a GMP-binding subunit (B). This entry contains the GMP-binding subunit (B). ; PDB: 2VXO_A 3UOW_B 3N05_A 2DPL_B 3A4I_A 3SEQ_D 3SZG_A 3SYT_A 3SDB_A 3SEZ_C ....
Probab=25.12 E-value=5e+02 Score=25.17 Aligned_cols=41 Identities=17% Similarity=0.180 Sum_probs=30.7
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH
Q 015282 176 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 216 (410)
Q Consensus 176 reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~ 216 (410)
.+|+.++-.....++.++.++.+.+++.||+..+|-+..-.
T Consensus 45 ~~v~~v~mp~~~~~~~~~~~A~~la~~lgi~~~~i~i~~~~ 85 (242)
T PF02540_consen 45 DNVLAVIMPSGFSSEEDIEDAKELAEKLGIEYIVIDIDPIF 85 (242)
T ss_dssp GEEEEEEEESSTSTHHHHHHHHHHHHHHTSEEEEEESHHHH
T ss_pred ccccccccccccCChHHHHHHHHHHHHhCCCeeccchHHHH
Confidence 45766655333356778889999999999999999997543
No 343
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=25.00 E-value=1.8e+02 Score=28.63 Aligned_cols=43 Identities=16% Similarity=0.174 Sum_probs=35.9
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCee
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 230 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y 230 (410)
-.|.+|.++++.+|+.+|++=+.--...-.+.+.|++.||..-
T Consensus 212 ps~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v 254 (286)
T cd01019 212 PGAKRLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKV 254 (286)
T ss_pred CCHHHHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceE
Confidence 4577888999999999999877666667789999999998743
No 344
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=24.70 E-value=5.1e+02 Score=26.37 Aligned_cols=56 Identities=13% Similarity=0.099 Sum_probs=33.7
Q ss_pred chHHHHHHHHHHHHhCCCCC-CCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEE
Q 015282 154 SSLQNALDLVQGLLSQIPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIG 211 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~-~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIg 211 (410)
....+|+++|+..++..+.- ..++|-+++- ++.+||..-.+++..+...+|.. +||
T Consensus 19 ~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~-D~~~~~~~a~~~~~~li~~~v~a-iiG 75 (404)
T cd06370 19 LPISGALTLAVEDVNADPNLLPGYKLQFEWV-DTHGDEVLSIRAVSDWWKRGVVA-FIG 75 (404)
T ss_pred ccHHHHHHHHHHHHhCCCCCCCCCEEEEEEE-ecCCChHHHHHHHHHHHhcCceE-EEC
Confidence 55678999999999875432 2345555554 44466665555555555555433 444
No 345
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=24.65 E-value=2.1e+02 Score=29.81 Aligned_cols=62 Identities=16% Similarity=0.311 Sum_probs=43.2
Q ss_pred HHHHHHHHhhhcCCCCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHHHHHHHHHhCC
Q 015282 99 KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQI 170 (410)
Q Consensus 99 ~~l~~FV~~ffdqNPisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~---~~~G~~SLqnaL~~A~~~L~~~ 170 (410)
.++...+. ..++.|.|+| ||.....-.++||.++++..+.--+ -..|. |.||.-|.-+...+
T Consensus 130 e~l~~Ll~------sd~kfgfivm-Dg~~tlfgtl~gntrevLhkftVdlPkkhgrgg---qSalrfarlR~ekR 194 (431)
T KOG0688|consen 130 EALKELLE------SDNKFGFIVM-DGNGTLFGTLQGNTREVLHKFTVDLPKKHGRGG---QSALRFARLRMEKR 194 (431)
T ss_pred HHHHHHHh------hcccccEEEE-cCCceeEEEeccchHhhhheeeecCccccCccc---hhHHhhhhhhhhhh
Confidence 44555554 3789999999 7999999999999999988776322 12333 44666676666433
No 346
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=24.58 E-value=55 Score=25.06 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=17.8
Q ss_pred eEcCCCCccc----------ccCCCCCCCCCce
Q 015282 290 YTCPRCKARV----------CELPTDCRICGLQ 312 (410)
Q Consensus 290 Y~Cp~C~s~~----------C~lP~~C~~Cgl~ 312 (410)
..||.|+.|- =.+|.-||-|...
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCKQE 37 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCCce
Confidence 5799999653 4788999999753
No 347
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.57 E-value=47 Score=34.67 Aligned_cols=90 Identities=19% Similarity=0.471 Sum_probs=50.3
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCcc-CCCCC----CCCCCCccccccccccCCCC
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPL-CLNDP----RNRSRSTCFGCQQSLLSSGN 363 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~-~~~~~----~~~~~~~C~~C~~~~~~~~~ 363 (410)
--.|+.|+..+ |--|++. ||-..-...|++.... .++.. .+..-+.|.-|...+....
T Consensus 258 ~~~C~~C~~~f------Cv~C~~~----------wh~~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~~- 320 (384)
T KOG1812|consen 258 RRPCVKCHELF------CVKCKVP----------WHANLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELSE- 320 (384)
T ss_pred ccccccCCCce------eecCCCc----------CCCCCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeecC-
Confidence 34688888877 4556665 5543334444443221 00000 0123457988976554322
Q ss_pred CCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 015282 364 KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 397 (410)
Q Consensus 364 ~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~ 397 (410)
.=....|. |+..||..|-.=.+.--+.|..|.
T Consensus 321 -GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 321 -GCNHMTCR-CGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred -CcceEEee-ccccchhhcCcchhhCCccccCcc
Confidence 13467999 999999999854444445555544
No 348
>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=24.47 E-value=37 Score=29.19 Aligned_cols=27 Identities=26% Similarity=0.545 Sum_probs=18.0
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCCC
Q 015282 367 LYVACPKCKKHFCLECDIYIHESLHNCPGCESL 399 (410)
Q Consensus 367 ~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~ 399 (410)
.+.+|..|+..|=.+=..|. ||.|.+.
T Consensus 69 ~~~~C~~Cg~~~~~~~~~~~------CP~Cgs~ 95 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDEFDFS------CPRCGSP 95 (113)
T ss_dssp -EEEETTTS-EEECHHCCHH-------SSSSSS
T ss_pred CcEECCCCCCEEecCCCCCC------CcCCcCC
Confidence 46889999999876655443 9999764
No 349
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=24.46 E-value=72 Score=32.85 Aligned_cols=69 Identities=26% Similarity=0.661 Sum_probs=43.7
Q ss_pred eeeeccCccccCeeEcCCCCcccc-----cCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcc
Q 015282 277 ICSCHKEVKVGVGYTCPRCKARVC-----ELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTC 351 (410)
Q Consensus 277 ~C~CH~~~~~~~GY~Cp~C~s~~C-----~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C 351 (410)
.=+||.-+..+ .|+||-|..-=- .-|..|+.|-= .+| -..+.+..|
T Consensus 187 v~~ch~c~gRG-~~vc~gc~g~G~~~y~~~~~m~c~sc~G---~~~-------------------------~k~gt~~~C 237 (406)
T KOG2813|consen 187 VTFCHACLGRG-AMVCHGCSGSGSNSYGIGTPMHCMSCTG---VPP-------------------------PKIGTHDLC 237 (406)
T ss_pred hhhhhcccCCC-ceeccCcCCCCccccccCcceecccccC---CCC-------------------------CCCCccchh
Confidence 35688777777 999999976432 23677877632 011 113356789
Q ss_pred ccccccccCCCCCCCceeeCCCCC---cccccccc
Q 015282 352 FGCQQSLLSSGNKPGLYVACPKCK---KHFCLECD 383 (410)
Q Consensus 352 ~~C~~~~~~~~~~~~~~~~C~~C~---~~FC~dCD 383 (410)
+-|... +.-.|+.|+ +.-|-.||
T Consensus 238 ~~C~G~---------G~~~C~tC~grG~k~C~TC~ 263 (406)
T KOG2813|consen 238 YMCHGR---------GIKECHTCKGRGKKPCTTCS 263 (406)
T ss_pred hhccCC---------CcccCCcccCCCCccccccc
Confidence 999721 345688886 45677776
No 350
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=24.42 E-value=3e+02 Score=25.04 Aligned_cols=77 Identities=16% Similarity=0.230 Sum_probs=46.0
Q ss_pred CCcccHH-HHHHHHHHcCeEEEEEEcchhH--HHHHHHHHhhCCeeEEe-----CCHHHHHHHHHhcCCCCccchhhhhh
Q 015282 188 CDPGDIM-ETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSVA-----LDESHFKELIMEHAPPPPAIAEFAIA 259 (410)
Q Consensus 188 ~DpgdI~-~ti~~akk~~IrV~vIgL~aE~--~iLk~la~~TgG~Y~va-----~d~~hl~~lL~~~~~Pp~~~~~~~~~ 259 (410)
.+..|++ ..++.+.+++.+|.++|=..++ .+-+.+.+.-.|.-.+- .+.+...+++..+..-.| .-
T Consensus 29 ~~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~p------di 102 (171)
T cd06533 29 VTGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGA------DI 102 (171)
T ss_pred cCcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCC------CE
Confidence 4455666 6688888889999998776654 33445666655554443 223333444444443222 24
Q ss_pred ceeeecCCCCC
Q 015282 260 NLIKMGFPQRA 270 (410)
Q Consensus 260 ~Li~mGFP~~~ 270 (410)
-++-||.|.+.
T Consensus 103 v~vglG~PkQE 113 (171)
T cd06533 103 LFVGLGAPKQE 113 (171)
T ss_pred EEEECCCCHHH
Confidence 68889999874
No 351
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=24.37 E-value=2.1e+02 Score=25.82 Aligned_cols=56 Identities=16% Similarity=0.360 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch-------------------hHHHHH
Q 015282 160 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-------------------EMFICK 220 (410)
Q Consensus 160 L~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a-------------------E~~iLk 220 (410)
++-|...|+. +.+...+|+||+.++ .++..+.+.++.+.-|.+|. |+..|+
T Consensus 60 ve~a~~~l~~-~~~~~~~v~il~k~~---------~~~~~l~~~g~~i~~vnvG~~~~~~~~~~v~~~v~l~~~e~~~lk 129 (151)
T cd00001 60 VEKAIEAINS-PKYDKQRVFLLFKNP---------QDVLRLVEGGVPIKTINVGNMAFRPGKVQITKAVSLDEEDVAAFK 129 (151)
T ss_pred HHHHHHHHhC-cCCCCceEEEEECCH---------HHHHHHHHcCCCCCEEEECCCcCCCCCEEEecceecCHHHHHHHH
Q ss_pred HHHHh
Q 015282 221 HLCQD 225 (410)
Q Consensus 221 ~la~~ 225 (410)
+|.+.
T Consensus 130 ~l~~~ 134 (151)
T cd00001 130 ELAQK 134 (151)
T ss_pred HHHHc
No 352
>PRK08266 hypothetical protein; Provisional
Probab=24.37 E-value=3.2e+02 Score=29.25 Aligned_cols=90 Identities=9% Similarity=0.023 Sum_probs=62.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhH-H-------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------- 217 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~-~------------- 217 (410)
+.-+++.||-.|+.+-...| .+.|++|.|.. .-.. ++ +.+.++.+.+++|-+|-+.... .
T Consensus 400 ~~GsmG~~lp~aiGa~la~p---~~~vv~v~GDG-~f~~-~~-~eL~ta~~~~lpv~ivv~NN~~y~~~~~~~~~~~~~~ 473 (542)
T PRK08266 400 YQGTLGYGFPTALGAKVANP---DRPVVSITGDG-GFMF-GV-QELATAVQHNIGVVTVVFNNNAYGNVRRDQKRRFGGR 473 (542)
T ss_pred CCcccccHHHHHHHHHHhCC---CCcEEEEEcch-hhhc-cH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCC
Confidence 34578888888887644433 45688888733 3222 22 4567788999999888775431 1
Q ss_pred ---------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 015282 218 ---------ICKHLCQDTGGSYSVALDESHFKELIMEHA 247 (410)
Q Consensus 218 ---------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~ 247 (410)
=+.++|+.-|..|+.+.+.+.|++.|.+..
T Consensus 474 ~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (542)
T PRK08266 474 VVASDLVNPDFVKLAESFGVAAFRVDSPEELRAALEAAL 512 (542)
T ss_pred cccCCCCCCCHHHHHHHcCCeEEEeCCHHHHHHHHHHHH
Confidence 145677888888999999999999887765
No 353
>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=24.28 E-value=44 Score=35.46 Aligned_cols=160 Identities=20% Similarity=0.315 Sum_probs=74.4
Q ss_pred CHHHHHHHHhhhc--CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 136 SPESHIKALMGKL--GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 136 n~~~~i~~L~~~~--~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
+...+.+.|+.-. -..| -|+.|+..=+..|..+| |+++.+ ..+-..+.+.|..++. |++||.
T Consensus 200 ~l~~L~~~Lk~gyk~~t~g--KF~eA~~~Fr~iL~~i~-------l~vv~~--~~E~~e~~eli~icrE-----Yilgl~ 263 (422)
T PF06957_consen 200 SLSSLEERLKEGYKLFTAG--KFEEAIEIFRSILHSIP-------LLVVES--REEEDEAKELIEICRE-----YILGLS 263 (422)
T ss_dssp -HHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHH-------C--BSS--CHHHHHHHHHHHHHHH-----HHHHHH
T ss_pred CHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHHhh-------eeeecC--HHHHHHHHHHHHHHHH-----HHHHHH
Confidence 4555666665422 1233 36777777777777643 222221 1233455567777766 666765
Q ss_pred hhH--------------HHHHHHHHhhC----------------CeeEEeCCH---HHHHHHHHhcCCCCccchhhhhh-
Q 015282 214 AEM--------------FICKHLCQDTG----------------GSYSVALDE---SHFKELIMEHAPPPPAIAEFAIA- 259 (410)
Q Consensus 214 aE~--------------~iLk~la~~Tg----------------G~Y~va~d~---~hl~~lL~~~~~Pp~~~~~~~~~- 259 (410)
-|+ +.|.-+|--|. +.++...|. ..|-.-|.++.++|+.. ...+.
T Consensus 264 iEl~Rr~l~~~~~~~~kR~lELAAYFThc~LQp~H~~LaLr~AM~~~~K~KNf~tAa~FArRLLel~p~~~~a-~qArKi 342 (422)
T PF06957_consen 264 IELERRELPKDPVEDQKRNLELAAYFTHCKLQPSHLILALRSAMSQAFKLKNFITAASFARRLLELNPSPEVA-EQARKI 342 (422)
T ss_dssp HHHHHCTS-TTTHHHHHHHHHHHHHHCCS---HHHHHHHHHHHHHHCCCTTBHHHHHHHHHHHHCT--SCHHH-HHHHHH
T ss_pred HHHHHHhccccchhhHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHcCCCHHHH-HHHHHH
Confidence 542 23344444444 344444444 23544455555444432 11111
Q ss_pred ---------ceeeecCCCCCCCCCcceeeeccCccc--c-C-eeEcCCCCccccc--CCCCCCCCCceecCch
Q 015282 260 ---------NLIKMGFPQRAGEGSISICSCHKEVKV--G-V-GYTCPRCKARVCE--LPTDCRICGLQLVSSP 317 (410)
Q Consensus 260 ---------~Li~mGFP~~~~~~~~a~C~CH~~~~~--~-~-GY~Cp~C~s~~C~--lP~~C~~Cgl~Lvssp 317 (410)
.=+.+.|- .+..+-.|-...+. . . .-.||-|+|+|.. --..|++|++.-|-.+
T Consensus 343 l~~~e~~~tDa~~i~yD-----~~npF~ICa~s~tPIY~G~~~v~CP~cgA~y~~~~kG~lC~vC~l~~IG~~ 410 (422)
T PF06957_consen 343 LQACERNPTDAHEIDYD-----ERNPFDICAASYTPIYRGSPSVKCPYCGAKYHPEYKGQLCPVCELSEIGAD 410 (422)
T ss_dssp HHHHCCS--BSS--S-------TTS-EEEBTTT--EEETTS-EEE-TTT--EEEGGGTTSB-TTTTTBBTT--
T ss_pred HHHHhcCCCCceecCCC-----CCCCceeeecccccccCCCCCeeCCCCCCccChhhCCCCCCCCcceeeCCc
Confidence 11222221 23345666665443 2 1 3469999999983 3479999999887554
No 354
>PLN02470 acetolactate synthase
Probab=24.15 E-value=3.1e+02 Score=29.86 Aligned_cols=89 Identities=12% Similarity=0.078 Sum_probs=62.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH-------------
Q 015282 152 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM------------- 216 (410)
Q Consensus 152 G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~------------- 216 (410)
|--+|+.||-.|+.+=-..| .|+|++|.|.. +=.| +.+.++.+.+++|-+|-+....
T Consensus 424 ~~g~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~l~v~ivV~NN~~yg~i~~~~~~~~~ 495 (585)
T PLN02470 424 GLGAMGFGLPAAIGAAAANP---DAIVVDIDGDG-----SFIMNIQELATIHVENLPVKIMVLNNQHLGMVVQWEDRFYK 495 (585)
T ss_pred ccccccchHHHHHHHHHhCC---CCcEEEEEccc-----hhhccHHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHHhC
Confidence 33467777777776544433 46788888822 2222 5688899999999988885431
Q ss_pred ------------------HHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 217 ------------------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 217 ------------------~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
.=+.++|+..|+.+..+.+.+.|++.|.....
T Consensus 496 ~~~~~~~~~~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~el~~al~~a~~ 545 (585)
T PLN02470 496 ANRAHTYLGDPDAEAEIFPDFLKFAEGCKIPAARVTRKSDLREAIQKMLD 545 (585)
T ss_pred CceeeeecCccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 01466888888999999999999988877753
No 355
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=24.11 E-value=2e+02 Score=20.10 Aligned_cols=35 Identities=17% Similarity=0.134 Sum_probs=25.5
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 179 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
|=++|.....+++-+.+..+.+.+.+|+|..|+-+
T Consensus 3 i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~ 37 (65)
T cd04892 3 VSVVGAGMRGTPGVAARIFSALAEAGINIIMISQG 37 (65)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcC
Confidence 34455444455666668899999999999999875
No 356
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.09 E-value=71 Score=24.44 Aligned_cols=32 Identities=22% Similarity=0.532 Sum_probs=22.3
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCccc
Q 015282 345 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 345 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
...+..|..|....... .....|.||.|+..+
T Consensus 25 ~~TSq~C~~CG~~~~~~--~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 25 AYTSQTCPRCGHRNKKR--RSGRVFTCPNCGFEM 56 (69)
T ss_pred CCCccCccCcccccccc--cccceEEcCCCCCEE
Confidence 34678999998766541 223469999998763
No 357
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=23.83 E-value=56 Score=23.88 Aligned_cols=29 Identities=38% Similarity=0.896 Sum_probs=20.0
Q ss_pred ccccccccccCCCCCCCceeeCCCCCc-ccccccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKK-HFCLECD 383 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~-~FC~dCD 383 (410)
.|-+|...... +.||.|..|.. ..|.+|-
T Consensus 2 ~Cd~C~~~pI~-----G~RykC~~C~dyDLC~~Cf 31 (45)
T cd02344 2 TCDGCQMFPIN-----GPRFKCRNCDDFDFCENCF 31 (45)
T ss_pred CCCCCCCCCCc-----cCeEECCCCCCccchHHhh
Confidence 58999853221 25899999984 4677774
No 358
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.56 E-value=31 Score=36.01 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=26.1
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 389 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~ 389 (410)
.|..|.....-.....+.+..|+.|+..||++|.+-=|..
T Consensus 240 ~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~ 279 (384)
T KOG1812|consen 240 RCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHAN 279 (384)
T ss_pred CchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCC
Confidence 4666654332111122345679999999999999877764
No 359
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.53 E-value=42 Score=29.37 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=21.6
Q ss_pred eeEcCCCCcccccC---CCCCCCCCcee
Q 015282 289 GYTCPRCKARVCEL---PTDCRICGLQL 313 (410)
Q Consensus 289 GY~Cp~C~s~~C~l---P~~C~~Cgl~L 313 (410)
--+||-|++||=.| |..||-||.+.
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred cccCccccchhhccCCCccccCcccccc
Confidence 46899999999988 68999999874
No 360
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=23.49 E-value=44 Score=20.75 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=17.1
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~ 312 (410)
.+.|+.|....=.--..|..|++.
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 467888877665666788888763
No 361
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=23.49 E-value=3.4e+02 Score=29.80 Aligned_cols=90 Identities=16% Similarity=0.086 Sum_probs=64.0
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H-------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F------- 217 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~------- 217 (410)
.|--+++.||-.|+.+--..| .|.|+.|.|.. +-.| +.+.++.+.+++|-+|-+.... .
T Consensus 444 ~~~G~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~q~~~~ 515 (612)
T PRK07789 444 GGLGTMGYAVPAAMGAKVGRP---DKEVWAIDGDG-----CFQMTNQELATCAIEGIPIKVALINNGNLGMVRQWQTLFY 515 (612)
T ss_pred CCcccccchhhhHHhhhccCC---CCcEEEEEcch-----hhhccHHHHHHHHHcCCCeEEEEEECCchHHHHHHHHHhh
Confidence 343578888888886554433 46788887722 2222 5578889999999998886431 0
Q ss_pred -----------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 -----------------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 -----------------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+.-|+.|..+.+.+.|...|.+.+.
T Consensus 516 ~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~~ 563 (612)
T PRK07789 516 EERYSNTDLHTHSHRIPDFVKLAEAYGCVGLRCEREEDVDAVIEKARA 563 (612)
T ss_pred CCCcceeecCcCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 1566888899999999999999998877763
No 362
>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=23.34 E-value=23 Score=26.42 Aligned_cols=25 Identities=32% Similarity=0.733 Sum_probs=20.9
Q ss_pred eeEcCCCCcccccCCCCCCCCCcee
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQL 313 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~L 313 (410)
.|.|=.|++..=.....|++|+..|
T Consensus 21 HYLCl~CLt~ml~~s~~C~iC~~~L 45 (50)
T PF03854_consen 21 HYLCLNCLTLMLSRSDRCPICGKPL 45 (50)
T ss_dssp -EEEHHHHHHT-SSSSEETTTTEE-
T ss_pred hhHHHHHHHHHhccccCCCcccCcC
Confidence 8999999999999999999999876
No 363
>PRK03815 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=23.26 E-value=7.1e+02 Score=25.90 Aligned_cols=66 Identities=11% Similarity=0.036 Sum_probs=32.6
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHh
Q 015282 176 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIME 245 (410)
Q Consensus 176 reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~ 245 (410)
++|++|+|+... ..+.++.++.+++..+. ++-+|.....+++.....|.......+.+.+.+.+..
T Consensus 299 ~~ii~IlGG~~k--~~~~~~l~~~~~~~~~~--v~~~G~~~~~~~~~~~~~~~~~~~~~~~e~av~~~~~ 364 (401)
T PRK03815 299 KKIHLILGGDDK--GVDLTPLFEFMKNLNIE--LYAIGSNTEKIQALAKEFNIKAFVCEFLEKAVEEIKK 364 (401)
T ss_pred CCEEEEECCCCC--CCCHHHHHHHHHhhCcE--EEEECCCHHHHHHHHhcCCCeEEEeCCHHHHHHHHHH
Confidence 467777774321 33556777777777664 4555554433444433223223333344444343443
No 364
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=23.13 E-value=40 Score=25.45 Aligned_cols=31 Identities=29% Similarity=0.609 Sum_probs=20.4
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
...|-.|++-|-..+.....--.||+|+..+
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN 34 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTIN 34 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccc
Confidence 4479999888866432223346799998754
No 365
>cd04936 ACT_AKii-LysC-BS-like_2 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis strain 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive AK isoenzymes. The B. subtilis strain 168 AKII is induced by methionine and repressed and inhibited by lysine. Although C. glutamicum is known to contain a single AK, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is feedback regu
Probab=22.99 E-value=2e+02 Score=20.45 Aligned_cols=32 Identities=19% Similarity=0.226 Sum_probs=23.8
Q ss_pred EEeCCCCCCcccHHHHHHHHHHcCeEEEEEEc
Q 015282 181 LYSALSTCDPGDIMETIQKCKESKIRCSVIGL 212 (410)
Q Consensus 181 i~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL 212 (410)
+.|.....+++-+-+....+.+.+|+|+.|+.
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04936 5 IVGAGMRSHPGVAAKMFEALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 44444445566666889999999999999984
No 366
>PRK12496 hypothetical protein; Provisional
Probab=22.93 E-value=44 Score=30.70 Aligned_cols=25 Identities=20% Similarity=0.458 Sum_probs=16.5
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc
Q 015282 349 STCFGCQQSLLSSGNKPGLYVACPKCKKH 377 (410)
Q Consensus 349 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 377 (410)
..|.||.+.|+... ..-.||.|++.
T Consensus 128 ~~C~gC~~~~~~~~----~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPEDY----PDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCCC----CCCcCCCCCCh
Confidence 46999998886321 12359999864
No 367
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=22.84 E-value=49 Score=30.22 Aligned_cols=76 Identities=11% Similarity=0.165 Sum_probs=0.0
Q ss_pred HHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeeccCccccCeeEcCCCCcc
Q 015282 219 CKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKAR 298 (410)
Q Consensus 219 Lk~la~~TgG~Y~va~d~~hl~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~GY~Cp~C~s~ 298 (410)
.+++-...++.|+...-...|+.+|.+... +-++..-..-..-.+..--.+.+|+-=+ ..+ -|.|-.|+++
T Consensus 68 kr~~~~~~~~~~~~~~~RKnf~~~Ldea~~------~~~k~~~Y~~~~a~p~~KP~r~fCaVCG--~~S-~ysC~~CG~k 138 (156)
T KOG3362|consen 68 KRKKQKSYKSEKFKLRFRKNFQALLDEALL------NLMKNPNYHTAYAKPSFKPLRKFCAVCG--YDS-KYSCVNCGTK 138 (156)
T ss_pred hhhhccccccchhhhhHHHHHHHHHHccch------hhhhccchhhcccCCCCCCcchhhhhcC--CCc-hhHHHhcCCc
Q ss_pred cccCC
Q 015282 299 VCELP 303 (410)
Q Consensus 299 ~C~lP 303 (410)
||+++
T Consensus 139 yCsv~ 143 (156)
T KOG3362|consen 139 YCSVR 143 (156)
T ss_pred eeech
No 368
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.79 E-value=56 Score=29.23 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=21.7
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~ 312 (410)
|=.|+.|++++.-.-..|+-|+-.
T Consensus 29 g~kC~~CG~v~~PPr~~Cp~C~~~ 52 (140)
T COG1545 29 GTKCKKCGRVYFPPRAYCPKCGSE 52 (140)
T ss_pred EEEcCCCCeEEcCCcccCCCCCCC
Confidence 778999999998888899999976
No 369
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=22.66 E-value=5.5e+02 Score=26.49 Aligned_cols=79 Identities=11% Similarity=-0.020 Sum_probs=41.8
Q ss_pred cHHHHHHHHHHcCeEEEEEEcch--hHHHHHHHHHhhCCeeEEeC--CHHHHHHHHHhcCCCCccchh-hhhhceeeecC
Q 015282 192 DIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVAL--DESHFKELIMEHAPPPPAIAE-FAIANLIKMGF 266 (410)
Q Consensus 192 dI~~ti~~akk~~IrV~vIgL~a--E~~iLk~la~~TgG~Y~va~--d~~hl~~lL~~~~~Pp~~~~~-~~~~~Li~mGF 266 (410)
-....++.|...|+.|-.++-.. .-..-+.+....++. .+.. |...+.+++.+ ..|.-.-.. ...-.|+++||
T Consensus 287 ~~~~la~~L~elGm~vv~~~t~~~~~~~~~~~~~~l~~~~-~v~~~~d~~~l~~~i~~-~~pDlli~~~~~a~pl~r~G~ 364 (396)
T cd01979 287 LEIPLARFLTRCGMIVVEVGTPYLDKRFQAAELELLPPMV-RIVEKPDNYRQLDRIRE-LRPDLVVTGLGLANPLEARGI 364 (396)
T ss_pred HHHHHHHHHHHCCCEEEeeCCCcCChHHHHHHHHhcCCCC-eEEECCCHHHHHHHHHh-cCCCEEEecccccCcHHhCCC
Confidence 35577888999999988876421 111111222222343 3332 33444444433 234333211 23348999999
Q ss_pred CCCCCC
Q 015282 267 PQRAGE 272 (410)
Q Consensus 267 P~~~~~ 272 (410)
|.+...
T Consensus 365 P~~dr~ 370 (396)
T cd01979 365 TTKWSI 370 (396)
T ss_pred cceeec
Confidence 998654
No 370
>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=22.61 E-value=92 Score=31.95 Aligned_cols=69 Identities=12% Similarity=0.158 Sum_probs=42.8
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHHc--------CeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 177 EVLILYSALSTCDPGDIMETIQKCKES--------KIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 177 eILVi~~S~~t~DpgdI~~ti~~akk~--------~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
.|+++-++.-..++..+.++++.+++. +|.|++.|+... ++++++..-..+ ++.|-.+..+-+...++
T Consensus 151 gvV~mggGEPLln~d~v~~~l~~l~~~~gi~~~~r~itvsTsG~~p~---i~~l~~~~~~~~-laisLka~d~e~r~~l~ 226 (342)
T PRK14454 151 NIVLMGSGEPLDNYENVMKFLKIVNSPYGLNIGQRHITLSTCGIVPK---IYELADENLQIT-LAISLHAPNDELRKKMM 226 (342)
T ss_pred CEEEECCchhhcCHHHHHHHHHHHhcccccCcCCCceEEECcCChhH---HHHHHhhcccce-EEEecCCCCHHHHHHhc
Confidence 354444444457888888999999974 459999999764 477777754444 34444443333333333
Q ss_pred C
Q 015282 249 P 249 (410)
Q Consensus 249 P 249 (410)
|
T Consensus 227 p 227 (342)
T PRK14454 227 P 227 (342)
T ss_pred C
Confidence 4
No 371
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=22.54 E-value=56 Score=29.07 Aligned_cols=12 Identities=17% Similarity=0.437 Sum_probs=8.1
Q ss_pred eeEcCCCCcccc
Q 015282 289 GYTCPRCKARVC 300 (410)
Q Consensus 289 GY~Cp~C~s~~C 300 (410)
-|.|+.|+..+=
T Consensus 70 ~~~C~~CG~~~~ 81 (135)
T PRK03824 70 VLKCRNCGNEWS 81 (135)
T ss_pred EEECCCCCCEEe
Confidence 577888876553
No 372
>COG5399 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.49 E-value=2.4e+02 Score=25.20 Aligned_cols=55 Identities=15% Similarity=0.222 Sum_probs=37.2
Q ss_pred HHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHHc-----------CeEEEEEEcchhH
Q 015282 161 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKES-----------KIRCSVIGLSAEM 216 (410)
Q Consensus 161 ~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~-~ti~~akk~-----------~IrV~vIgL~aE~ 216 (410)
++|+.+|....+.+ +-.||+=--....-|+++. +..+.+++. .|+||.|+..+|.
T Consensus 28 ~vA~eaLeeWdp~a-SDFiVlRD~~eV~~p~pl~~evle~v~~~~~~~~e~e~~i~~PVY~Is~~new 94 (139)
T COG5399 28 EVAIEALEEWDPTA-SDFIVLRDFYEVSYPAPLSREVLEKVRKYSPKRVENEVEIALPVYEISHSNEW 94 (139)
T ss_pred HHHHHHHHhcCCCc-CceEEEecceeEEeeCCCCHHHHHHHHHhCccccCCeeEEEeeEEEEEecccc
Confidence 58999999875444 4466664433334566666 566666664 4789999999885
No 373
>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=22.47 E-value=39 Score=22.10 Aligned_cols=14 Identities=36% Similarity=0.873 Sum_probs=6.8
Q ss_pred CCCCCCceecCchh
Q 015282 305 DCRICGLQLVSSPH 318 (410)
Q Consensus 305 ~C~~Cgl~Lvssph 318 (410)
.||+||..|+-.+.
T Consensus 1 ~CP~C~s~l~~~~~ 14 (28)
T PF03119_consen 1 TCPVCGSKLVREEG 14 (28)
T ss_dssp B-TTT--BEEE-CC
T ss_pred CcCCCCCEeEcCCC
Confidence 48888888875443
No 374
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=22.46 E-value=86 Score=24.84 Aligned_cols=41 Identities=27% Similarity=0.717 Sum_probs=17.1
Q ss_pred ccccccccccCCCCCCCceeeC-CCCCcccccccchhhhccC-CCCCCCCCCCC
Q 015282 350 TCFGCQQSLLSSGNKPGLYVAC-PKCKKHFCLECDIYIHESL-HNCPGCESLRH 401 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C-~~C~~~FC~dCD~fiHe~L-h~CPgC~~~~~ 401 (410)
.|.-|..-+..+ .| ..|.+.||..|-- +.+ -.||-|.....
T Consensus 9 rCs~C~~~l~~p--------v~l~~CeH~fCs~Ci~---~~~~~~CPvC~~Paw 51 (65)
T PF14835_consen 9 RCSICFDILKEP--------VCLGGCEHIFCSSCIR---DCIGSECPVCHTPAW 51 (65)
T ss_dssp S-SSS-S--SS---------B---SSS--B-TTTGG---GGTTTB-SSS--B-S
T ss_pred CCcHHHHHhcCC--------ceeccCccHHHHHHhH---HhcCCCCCCcCChHH
Confidence 588887666543 24 5799999999953 221 24999976543
No 375
>PF02733 Dak1: Dak1 domain; InterPro: IPR004006 Dihydroxyacetone kinase (glycerone kinase) 2.7.1.29 from EC catalyses the phosphorylation of glycerone in the presence of ATP to glycerone phosphate in the glycerol utilization pathway. This is the kinase domain of the dihydroxyacetone kinase family.; GO: 0004371 glycerone kinase activity, 0006071 glycerol metabolic process; PDB: 1UN8_A 1UN9_B 3PNM_A 1UOD_B 3PNO_D 3PNK_A 3PNQ_B 1OI2_B 1OI3_A 3PNL_A ....
Probab=22.41 E-value=1.1e+02 Score=31.41 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=26.6
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcchh
Q 015282 175 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 215 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~aE 215 (410)
.+-||+|+. ..|=|-.|+.-+++.|+..+|+|.+|-++-+
T Consensus 80 ~~Gvl~iv~-NYtGD~lNF~~A~E~a~~~Gi~v~~v~v~DD 119 (325)
T PF02733_consen 80 GKGVLLIVK-NYTGDVLNFGMAAEKARAEGIKVEMVIVGDD 119 (325)
T ss_dssp SS-EEEEEE-SSHHHHHHHHHHHHHHHHTT--EEEEEE--B
T ss_pred CCCEEEEEe-cchHHHhhHHHHHHHHHhCCCCEEEEEecCc
Confidence 456999988 4443444455779999999999999998754
No 376
>PRK08329 threonine synthase; Validated
Probab=22.28 E-value=47 Score=33.83 Aligned_cols=41 Identities=22% Similarity=0.565 Sum_probs=26.2
Q ss_pred eEcCCCCcccc-cCCCCCCCCCceecCchhHH-----------hhhcccCCCCC
Q 015282 290 YTCPRCKARVC-ELPTDCRICGLQLVSSPHLA-----------RSYHHLFPIAP 331 (410)
Q Consensus 290 Y~Cp~C~s~~C-~lP~~C~~Cgl~LvssphLa-----------rsyhHlfPl~~ 331 (410)
|.|++|+..|= +.+..| .||-.|....++. +-|+.++|+..
T Consensus 2 l~C~~Cg~~~~~~~~~~C-~c~~~l~~~~~~~~~~~~~~~~~~wry~~~lP~~~ 54 (347)
T PRK08329 2 LRCTKCGRTYEEKFKLRC-DCGGTLLVEREYGSFDSPREYLDMRRYIDYLPVDE 54 (347)
T ss_pred cCcCCCCCCcCCCCceec-CCCCcEEEEeccccccccccccchhhhHHhCCCCC
Confidence 67999998773 233468 5876665553322 24888888754
No 377
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=22.23 E-value=30 Score=33.04 Aligned_cols=42 Identities=31% Similarity=0.514 Sum_probs=28.9
Q ss_pred CCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCC
Q 015282 304 TDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSS 361 (410)
Q Consensus 304 ~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~ 361 (410)
.+||+||-+|... -++.-+|-|.+|-. .+..|-.|..++.+.
T Consensus 15 ~~CPvCg~~l~~~-------~~~~~IPyFG~V~i---------~t~~C~~CgYR~~DV 56 (201)
T COG1779 15 IDCPVCGGTLKAH-------MYLYDIPYFGEVLI---------STGVCERCGYRSTDV 56 (201)
T ss_pred ecCCcccceeeEE-------EeeecCCccceEEE---------EEEEccccCCcccce
Confidence 4677777766432 25677888998842 366899998777643
No 378
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=22.21 E-value=57 Score=37.05 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=27.9
Q ss_pred CcccHH-HHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeE
Q 015282 189 DPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 231 (410)
Q Consensus 189 DpgdI~-~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~ 231 (410)
...+++ ++|+.+-+.| -.|+-|-.|....-++.++-.+.|.
T Consensus 229 GKTEvYl~~i~~~L~~G--kqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 229 GKTEVYLEAIAKVLAQG--KQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred cHHHHHHHHHHHHHHcC--CEEEEEeccccchHHHHHHHHHHhC
Confidence 333555 7777776666 4677777887777777777766665
No 379
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=22.17 E-value=74 Score=36.18 Aligned_cols=59 Identities=27% Similarity=0.787 Sum_probs=0.0
Q ss_pred cCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeC
Q 015282 292 CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVAC 371 (410)
Q Consensus 292 Cp~C~s~~C~lP~~C~~Cgl~LvssphLarsyhHlfPl~~f~~v~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C 371 (410)
|..|+.++=.....|+-|...| |+ |-+=.+++.+. ..|-|
T Consensus 1120 c~~cg~~i~~~~~~c~ec~~kf--------------P~---------------------CiasG~pIt~~-----~fWlC 1159 (1189)
T KOG2041|consen 1120 CSVCGAKIDPYDLQCSECQTKF--------------PV---------------------CIASGRPITDN-----IFWLC 1159 (1189)
T ss_pred eeecCCcCCccCCCChhhcCcC--------------ce---------------------eeccCCccccc-----eEEEc
Q ss_pred CCCCcccccccchhhhccCC--CCCCC
Q 015282 372 PKCKKHFCLECDIYIHESLH--NCPGC 396 (410)
Q Consensus 372 ~~C~~~FC~dCD~fiHe~Lh--~CPgC 396 (410)
|.|++ -+.-||--| +||-|
T Consensus 1160 ~~CkH------~a~~~EIs~y~~CPLC 1180 (1189)
T KOG2041|consen 1160 PRCKH------RAHQHEISKYNCCPLC 1180 (1189)
T ss_pred ccccc------ccccccccccccCccc
No 380
>PF02089 Palm_thioest: Palmitoyl protein thioesterase; InterPro: IPR002472 Neuronal ceroid lipofuscinoses (NCL) represent a group of encephalopathies that occur in 1 in 12,500 children. Mutations in the palmitoyl protein thioesterase gene causing infantile neuronal ceroid lipofuscinosis []. The most common mutation results in intracellular accumulation of the polypeptide and undetectable enzyme activity in the brain. Direct sequencing of cDNAs derived from brain RNA of INCL patients has shown a mis-sense transversion of A to T at nucleotide position 364, which results in substitution of Trp for Arg at position 122 in the protein - Arg 122 is immediately adjacent to a lipase consensus sequence that contains the putative active site Ser of PPT. The occurrence of this and two other independent mutations in the PPT gene strongly suggests that defects in this gene cause INCL.; GO: 0008474 palmitoyl-(protein) hydrolase activity, 0006464 protein modification process; PDB: 3GRO_B 1PJA_A 1EXW_A 1EH5_A 1EI9_A.
Probab=22.15 E-value=7e+02 Score=25.10 Aligned_cols=90 Identities=20% Similarity=0.378 Sum_probs=44.2
Q ss_pred ceEEEEEeCCCC-CCcccHHHHHHHHHH--cCeEEEEEEcchh-----------------HHHHHHHHHhh---CCeeEE
Q 015282 176 REVLILYSALST-CDPGDIMETIQKCKE--SKIRCSVIGLSAE-----------------MFICKHLCQDT---GGSYSV 232 (410)
Q Consensus 176 reILVi~~S~~t-~DpgdI~~ti~~akk--~~IrV~vIgL~aE-----------------~~iLk~la~~T---gG~Y~v 232 (410)
+-|+|.=|=.++ +++..+....+.+++ -||-|+.|-++.. ..+|++++..+ +|...+
T Consensus 6 ~PvViwHGmGD~~~~~~~m~~i~~~i~~~~PG~yV~si~ig~~~~~D~~~s~f~~v~~Qv~~vc~~l~~~p~L~~G~~~I 85 (279)
T PF02089_consen 6 LPVVIWHGMGDSCCNPSSMGSIKELIEEQHPGTYVHSIEIGNDPSEDVENSFFGNVNDQVEQVCEQLANDPELANGFNAI 85 (279)
T ss_dssp --EEEE--TT--S--TTTHHHHHHHHHHHSTT--EEE--SSSSHHHHHHHHHHSHHHHHHHHHHHHHHH-GGGTT-EEEE
T ss_pred CcEEEEEcCccccCChhHHHHHHHHHHHhCCCceEEEEEECCCcchhhhhhHHHHHHHHHHHHHHHHhhChhhhcceeee
Confidence 345555553333 467666554444444 3789999999863 14677777655 898888
Q ss_pred eCCHHH-HHHHHHhcCCCCccchhhhhhceeeecCCCCCC
Q 015282 233 ALDESH-FKELIMEHAPPPPAIAEFAIANLIKMGFPQRAG 271 (410)
Q Consensus 233 a~d~~h-l~~lL~~~~~Pp~~~~~~~~~~Li~mGFP~~~~ 271 (410)
--..+. |...+.+.+.-|+. ..||-+|=|+.-.
T Consensus 86 GfSQGgl~lRa~vq~c~~~~V------~nlISlggph~Gv 119 (279)
T PF02089_consen 86 GFSQGGLFLRAYVQRCNDPPV------HNLISLGGPHMGV 119 (279)
T ss_dssp EETCHHHHHHHHHHH-TSS-E------EEEEEES--TT-B
T ss_pred eeccccHHHHHHHHHCCCCCc------eeEEEecCccccc
Confidence 888844 44455555533333 4799999887644
No 381
>TIGR02803 ExbD_1 TonB system transport protein ExbD, group 1. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=22.10 E-value=3e+02 Score=23.49 Aligned_cols=33 Identities=27% Similarity=0.545 Sum_probs=26.5
Q ss_pred EEEeCCCCCCcccHHHHHHHHHHcCe-EEEEEEc
Q 015282 180 ILYSALSTCDPGDIMETIQKCKESKI-RCSVIGL 212 (410)
Q Consensus 180 Vi~~S~~t~DpgdI~~ti~~akk~~I-rV~vIgL 212 (410)
|++.++....++.+.++++.+++.|+ +|+++.+
T Consensus 88 v~I~aD~~~~~~~vv~v~d~~~~aG~~~v~l~t~ 121 (122)
T TIGR02803 88 IFFRADKTVDYGDLMKVMNLLRQAGYLKIGLVGL 121 (122)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHcCCCEEEEEec
Confidence 44445777899999999999999999 4777654
No 382
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=22.09 E-value=34 Score=31.25 Aligned_cols=22 Identities=27% Similarity=0.638 Sum_probs=14.6
Q ss_pred CCCCCCCce----ecCchhHHhhhcc
Q 015282 304 TDCRICGLQ----LVSSPHLARSYHH 325 (410)
Q Consensus 304 ~~C~~Cgl~----LvssphLarsyhH 325 (410)
+.||+||.+ .+++|+|+++=..
T Consensus 33 v~CP~Cgs~~V~K~lmAP~v~~~~~~ 58 (148)
T PF06676_consen 33 VSCPVCGSTEVSKALMAPAVATSRSK 58 (148)
T ss_pred ccCCCCCCCeEeeecCCCeecCCCCC
Confidence 345555544 5689999888664
No 383
>PLN02918 pyridoxine (pyridoxamine) 5'-phosphate oxidase
Probab=22.00 E-value=1.8e+02 Score=31.99 Aligned_cols=53 Identities=11% Similarity=0.009 Sum_probs=37.4
Q ss_pred HHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc
Q 015282 159 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 213 (410)
Q Consensus 159 aL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~ 213 (410)
|+++|....+..+....++|+||.|.. ++.||=.-++..|+..|..|.|+-..
T Consensus 119 G~avA~~I~~~~~~~~~~~VlVlcGpG--NNGGDGLVaAR~L~~~G~~V~V~~~~ 171 (544)
T PLN02918 119 GLSVAASIAEVYKPGEYSRVLAICGPG--NNGGDGLVAARHLHHFGYKPFVCYPK 171 (544)
T ss_pred HHHHHHHHHHhcccccCCEEEEEECCC--cCHHHHHHHHHHHHHCCCceEEEEcC
Confidence 345555444544432235688888865 56888889999999999999998654
No 384
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=21.99 E-value=2.6e+02 Score=22.47 Aligned_cols=43 Identities=9% Similarity=0.196 Sum_probs=30.6
Q ss_pred CceEEEEEeCCCCCCcccH---HHHHHHHHHcCeEEEEEEcchhHH
Q 015282 175 HREVLILYSALSTCDPGDI---METIQKCKESKIRCSVIGLSAEMF 217 (410)
Q Consensus 175 sreILVi~~S~~t~DpgdI---~~ti~~akk~~IrV~vIgL~aE~~ 217 (410)
.+.|++=++.....|..-+ ...++.+++.++++.++++..++.
T Consensus 43 ~~~vvidls~v~~iDssgl~~L~~~~~~~~~~~~~~~l~~~~~~~~ 88 (108)
T TIGR00377 43 PRPIVLDLEDLEFMDSSGLGVLLGRYKQVRRVGGQLVLVSVSPRVA 88 (108)
T ss_pred CCeEEEECCCCeEEccccHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence 4556666666655555433 366788899999999999987753
No 385
>TIGR03844 cysteate_syn cysteate synthase. Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.
Probab=21.90 E-value=58 Score=34.06 Aligned_cols=22 Identities=18% Similarity=0.483 Sum_probs=15.6
Q ss_pred eeEcCCCCcccc-cCCCCCCCCC
Q 015282 289 GYTCPRCKARVC-ELPTDCRICG 310 (410)
Q Consensus 289 GY~Cp~C~s~~C-~lP~~C~~Cg 310 (410)
-|.|++|+..|= +....||-|+
T Consensus 2 ~l~C~~Cg~~~~~~~~~~C~~c~ 24 (398)
T TIGR03844 2 TLRCPGCGEVLPDHYTLSCPLDC 24 (398)
T ss_pred EEEeCCCCCccCCccccCCCCCC
Confidence 378999998884 2235798655
No 386
>PF12675 DUF3795: Protein of unknown function (DUF3795); InterPro: IPR024227 This family of proteins is functionally uncharacterised and is found in bacteria and archaea. Proteins in this family are typically between 99 and 171 amino acids in length. These proteins are likely to be zinc binding given the conserved cysteines.
Probab=21.85 E-value=51 Score=26.38 Aligned_cols=24 Identities=33% Similarity=0.729 Sum_probs=17.4
Q ss_pred ccccccchhhhccCC--------------CCCCCCCCC
Q 015282 377 HFCLECDIYIHESLH--------------NCPGCESLR 400 (410)
Q Consensus 377 ~FC~dCD~fiHe~Lh--------------~CPgC~~~~ 400 (410)
.+|..|..|...... .||||....
T Consensus 7 l~C~~C~~y~~~~~~~~~~~~~~~~~~~~~C~GCr~~~ 44 (78)
T PF12675_consen 7 LDCGNCPAYEAGKISDASLRLKEASPEKIRCPGCRSGG 44 (78)
T ss_pred CccccchhhhcCCccHHHHHHhhccCCCCcCcCCcCCC
Confidence 467888888777655 699997643
No 387
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=21.83 E-value=56 Score=26.71 Aligned_cols=21 Identities=33% Similarity=0.709 Sum_probs=13.9
Q ss_pred eEcCCCCcccccCCC-----CCCCCC
Q 015282 290 YTCPRCKARVCELPT-----DCRICG 310 (410)
Q Consensus 290 Y~Cp~C~s~~C~lP~-----~C~~Cg 310 (410)
|.||-|+...=+-.. +|+||+
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~ 27 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCF 27 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCC
Confidence 678888877553332 688886
No 388
>cd06844 STAS Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain is found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors, like anti-anti-sigma factors and "stressosome" components. The sigma factor regulators are involved in protein-protein interaction which is regulated by phosphorylation.
Probab=21.82 E-value=1.9e+02 Score=23.40 Aligned_cols=42 Identities=19% Similarity=0.238 Sum_probs=29.8
Q ss_pred CceEEEEEeCCCCCCcc---cHHHHHHHHHHcCeEEEEEEcchhH
Q 015282 175 HREVLILYSALSTCDPG---DIMETIQKCKESKIRCSVIGLSAEM 216 (410)
Q Consensus 175 sreILVi~~S~~t~Dpg---dI~~ti~~akk~~IrV~vIgL~aE~ 216 (410)
.+.|++=++.....|.. -+...++.+++.|+++.++++..++
T Consensus 39 ~~~vilDls~v~~iDssgl~~L~~l~~~~~~~g~~l~l~~~~~~v 83 (100)
T cd06844 39 GKTIVIDISALEFMDSSGTGVLLERSRLAEAVGGQFVLTGISPAV 83 (100)
T ss_pred CCEEEEECCCCcEEcHHHHHHHHHHHHHHHHcCCEEEEECCCHHH
Confidence 34455545555545654 4447789999999999999998765
No 389
>KOG1680 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]
Probab=21.55 E-value=61 Score=32.65 Aligned_cols=14 Identities=29% Similarity=0.368 Sum_probs=11.3
Q ss_pred CCcchHHHHHHHHHH
Q 015282 151 SGDSSLQNALDLVQG 165 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~ 165 (410)
.| .+|++|+++|+-
T Consensus 135 nG-~AlgGG~ELalm 148 (290)
T KOG1680|consen 135 NG-FALGGGLELALM 148 (290)
T ss_pred ec-eeeccchhhhhh
Confidence 35 899999999873
No 390
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=21.55 E-value=1.9e+02 Score=22.73 Aligned_cols=30 Identities=10% Similarity=0.124 Sum_probs=24.7
Q ss_pred eCCCCCCcccHHHHHHHHHHcCeEEEEEEc
Q 015282 183 SALSTCDPGDIMETIQKCKESKIRCSVIGL 212 (410)
Q Consensus 183 ~S~~t~DpgdI~~ti~~akk~~IrV~vIgL 212 (410)
+.....+||-+-+.++.+.+.+|.|+.|.-
T Consensus 8 ~~~m~~~~g~~~~If~~la~~~I~vd~I~~ 37 (73)
T cd04934 8 SNKKSLSHGFLARIFAILDKYRLSVDLIST 37 (73)
T ss_pred cccCccccCHHHHHHHHHHHcCCcEEEEEe
Confidence 444457788888999999999999999964
No 391
>TIGR00243 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase. 1-deoxy-D-xylulose 5-phosphate is converted to 2-C-methyl-D-erythritol 4-phosphate in the presence of NADPH. It is involved in the synthesis of isopentenyl diphosphate (IPP), a basic building block in isoprenoid, thiamin, and pyridoxal biosynthesis.
Probab=21.47 E-value=4.1e+02 Score=28.06 Aligned_cols=58 Identities=10% Similarity=0.232 Sum_probs=40.4
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHH--cCeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 015282 179 LILYSALSTCDPGDIM-ETIQKCKE--SKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKE 241 (410)
Q Consensus 179 LVi~~S~~t~DpgdI~-~ti~~akk--~~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~ 241 (410)
|+|+||- |+|- +|++.+++ ++.+|..++.+..+..|.+.+++-+=.|.+..|+....+
T Consensus 4 i~IlGsT-----GSIG~qtL~Vi~~~~~~f~v~~Laa~~n~~~L~~q~~~f~p~~v~i~d~~~~~~ 64 (389)
T TIGR00243 4 IVILGST-----GSIGKSTLDVVRHNPDHFQVVALSAGKNVALMVEQILEFRPKFVAIDDEASLKD 64 (389)
T ss_pred EEEEecC-----hHHHHHHHHHHHhCccccEEEEEEcCCCHHHHHHHHHHcCCCEEEEcCHHHHHH
Confidence 4455544 4566 66766655 446666666666788999999999999999988765443
No 392
>PRK07591 threonine synthase; Validated
Probab=21.45 E-value=79 Score=33.20 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=20.2
Q ss_pred eeEcCCCCcccc-cCCCCCCCCCceecCc
Q 015282 289 GYTCPRCKARVC-ELPTDCRICGLQLVSS 316 (410)
Q Consensus 289 GY~Cp~C~s~~C-~lP~~C~~Cgl~Lvss 316 (410)
+|.|++|+..|= +....||-||-.|-..
T Consensus 18 ~l~C~~Cg~~~~~~~~~~C~~cg~~l~~~ 46 (421)
T PRK07591 18 ALKCRECGAEYPLGPIHVCEECFGPLEVA 46 (421)
T ss_pred EEEeCCCCCcCCCCCCccCCCCCCeEEEE
Confidence 799999998773 2235799998666544
No 393
>cd03372 TPP_ComE Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits, which catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. ComDE requires TPP and divalent metal cation cofactors.
Probab=21.39 E-value=6.3e+02 Score=23.02 Aligned_cols=87 Identities=14% Similarity=0.143 Sum_probs=54.2
Q ss_pred chHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCe-EEEEEEcchhH--------------HH
Q 015282 154 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKI-RCSVIGLSAEM--------------FI 218 (410)
Q Consensus 154 ~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~I-rV~vIgL~aE~--------------~i 218 (410)
-+++.||-.|+.+=-..| +.|++|.|.. ... .++ ..+..+.+.++ ++-+|-+.... .=
T Consensus 42 g~mG~~lp~AiGaala~~----~~vv~i~GDG-~f~-m~~-~el~ta~~~~~~~l~vvV~NN~~~~~~~~~~~~~~~~~d 114 (179)
T cd03372 42 GSMGLASSIGLGLALAQP----RKVIVIDGDG-SLL-MNL-GALATIAAEKPKNLIIVVLDNGAYGSTGNQPTHAGKKTD 114 (179)
T ss_pred cchhhHHHHHHHHHhcCC----CcEEEEECCc-HHH-hCH-HHHHHHHHcCCCCEEEEEEcCccccccCCCCCCCCCCCC
Confidence 467777777776543333 6788888733 221 112 34445556654 45444433210 12
Q ss_pred HHHHHHhhCCeeEEeC-CHHHHHHHHHhcC
Q 015282 219 CKHLCQDTGGSYSVAL-DESHFKELIMEHA 247 (410)
Q Consensus 219 Lk~la~~TgG~Y~va~-d~~hl~~lL~~~~ 247 (410)
+..+|+.-|..|..+. +.+.|.+.|.+..
T Consensus 115 ~~~lA~a~G~~~~~v~~~~~el~~al~~a~ 144 (179)
T cd03372 115 LEAVAKACGLDNVATVASEEAFEKAVEQAL 144 (179)
T ss_pred HHHHHHHcCCCeEEecCCHHHHHHHHHHhc
Confidence 5678899999999888 8999999998876
No 394
>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=21.37 E-value=68 Score=24.67 Aligned_cols=45 Identities=27% Similarity=0.597 Sum_probs=31.4
Q ss_pred ceeeeccCccccC--eeEcCCCCcccccCC---CCCCCCCceecCchhHH
Q 015282 276 SICSCHKEVKVGV--GYTCPRCKARVCELP---TDCRICGLQLVSSPHLA 320 (410)
Q Consensus 276 a~C~CH~~~~~~~--GY~Cp~C~s~~C~lP---~~C~~Cgl~LvssphLa 320 (410)
..|.|..+.-... .=.|-.|+-++|+.- ..|+-||..|+++....
T Consensus 3 ~~C~C~a~~H~L~~~~~NCl~CGkIiC~~Eg~~~pC~fCg~~l~~~~~~~ 52 (57)
T PF06221_consen 3 RKCNCQARRHPLFPYAPNCLNCGKIICEQEGPLGPCPFCGTPLLSSEERQ 52 (57)
T ss_pred cccccccccCCCccccccccccChhhcccccCcCcCCCCCCcccCHHHHH
Confidence 4577776432221 236999999999764 57999998888765543
No 395
>PLN03050 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=21.32 E-value=2.5e+02 Score=27.40 Aligned_cols=53 Identities=15% Similarity=0.114 Sum_probs=36.9
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcc---hhH-HHHHHHHHhhCCee
Q 015282 176 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS---AEM-FICKHLCQDTGGSY 230 (410)
Q Consensus 176 reILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~---aE~-~iLk~la~~TgG~Y 230 (410)
++|+||.|+. ++.||=.-++..|...|++|.|+-.. .+. ....+.++..|+.+
T Consensus 61 ~~V~VlcG~G--NNGGDGlv~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~g~~~ 117 (246)
T PLN03050 61 PRVLLVCGPG--NNGGDGLVAARHLAHFGYEVTVCYPKQSSKPHYENLVTQCEDLGIPF 117 (246)
T ss_pred CeEEEEECCC--CCchhHHHHHHHHHHCCCeEEEEEcCCCChHHHHHHHHHHHHcCCCE
Confidence 5788888865 56888889999999999999998732 122 23334455556654
No 396
>PRK14873 primosome assembly protein PriA; Provisional
Probab=21.26 E-value=62 Score=36.31 Aligned_cols=39 Identities=26% Similarity=0.606 Sum_probs=28.3
Q ss_pred CCccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhccCCCCCCCCCC
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCESL 399 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~FC~dCD~fiHe~Lh~CPgC~~~ 399 (410)
...|..|.. ..+||.|. ...|.-|.. +..-..||.|.+.
T Consensus 383 ~l~C~~Cg~-----------~~~C~~C~~~L~~h~~~~~l~Ch~CG~--~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 383 SLACARCRT-----------PARCRHCTGPLGLPSAGGTPRCRWCGR--AAPDWRCPRCGSD 431 (665)
T ss_pred eeEhhhCcC-----------eeECCCCCCceeEecCCCeeECCCCcC--CCcCccCCCCcCC
Confidence 447888862 35688887 356999986 3467899999863
No 397
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=21.13 E-value=47 Score=34.47 Aligned_cols=41 Identities=32% Similarity=0.681 Sum_probs=33.1
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccc-cccchhhhccCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFC-LECDIYIHESLHNCPGC 396 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC-~dCD~fiHe~Lh~CPgC 396 (410)
....|--|++.= ..|.||+|..-|| ++|.. .|..+.+|-|=
T Consensus 16 ~~vlCgVClknE--------~KYkCPRCl~rtCsLeCsk-kHK~~dnCsG~ 57 (390)
T KOG2858|consen 16 HSVLCGVCLKNE--------PKYKCPRCLARTCSLECSK-KHKIGDNCSGS 57 (390)
T ss_pred chhhhhhcccCc--------ccccCcchhhhheeccccc-cccccCCCcCC
Confidence 356899998432 3699999999997 68875 79999999885
No 398
>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=21.11 E-value=97 Score=32.12 Aligned_cols=44 Identities=16% Similarity=0.145 Sum_probs=32.1
Q ss_pred EEEEe-CCCCCCcccHHHHHHHHHHc-C-------eEEEEEEcchhHHHHHHHHHh
Q 015282 179 LILYS-ALSTCDPGDIMETIQKCKES-K-------IRCSVIGLSAEMFICKHLCQD 225 (410)
Q Consensus 179 LVi~~-S~~t~DpgdI~~ti~~akk~-~-------IrV~vIgL~aE~~iLk~la~~ 225 (410)
+|++| +.-..++..+.++++.++.. + |.||++|+. ..++++++.
T Consensus 164 vVfmGmGEPL~N~d~v~~~l~~l~~~~Gl~~~~r~itVsTsG~~---~~i~~L~~~ 216 (356)
T PRK14462 164 IVYMGMGEPLDNLDNVSKAIKIFSENDGLAISPRRQTISTSGLA---SKIKKLGEM 216 (356)
T ss_pred eEEeCCcccccCHHHHHHHHHHhcCccCCCcCCCceEEECCCCh---HHHHHHHhc
Confidence 45553 34347888888999999985 4 499999987 356668766
No 399
>cd04476 RPA1_DBD_C RPA1_DBD_C: A subfamily of OB folds corresponding to the C-terminal OB fold, the ssDNA-binding domain (DBD)-C, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-C, RPA1 contains three other OB folds: DBD-A, DBD-B, and RPA1N. The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B. RPA1 DBD-C is involved in DNA binding and trimerization. It contains two structural insertions not found to date in other OB-folds: a zinc ribbon and a three-helix bundle. RPA1 DBD-C also contains a Cys4-type zinc-binding motif, which plays a role in the ssDNA binding fun
Probab=21.10 E-value=58 Score=29.35 Aligned_cols=26 Identities=31% Similarity=0.786 Sum_probs=19.0
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 378 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~F 378 (410)
.|..|.+.+...+ ...|.|++|++.+
T Consensus 36 aC~~C~kkv~~~~---~~~~~C~~C~~~~ 61 (166)
T cd04476 36 ACPGCNKKVVEEG---NGTYRCEKCNKSV 61 (166)
T ss_pred cccccCcccEeCC---CCcEECCCCCCcC
Confidence 5889998886432 1479999998863
No 400
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=21.04 E-value=26 Score=37.31 Aligned_cols=43 Identities=21% Similarity=0.418 Sum_probs=33.4
Q ss_pred CCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchhhh
Q 015282 341 NDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIH 387 (410)
Q Consensus 341 ~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiH 387 (410)
+|.....-..|-.|..+|.-. --+.-|--|+.+.|.||..||-
T Consensus 173 pW~DDs~V~~CP~Ca~~F~l~----rRrHHCRLCG~VmC~~C~k~iS 215 (505)
T KOG1842|consen 173 PWLDDSSVQFCPECANSFGLT----RRRHHCRLCGRVMCRDCSKFIS 215 (505)
T ss_pred cccCCCcccccccccchhhhH----HHhhhhhhcchHHHHHHHHhcC
Confidence 455555667999999998532 1256799999999999999975
No 401
>PRK00420 hypothetical protein; Validated
Probab=20.93 E-value=66 Score=28.03 Aligned_cols=27 Identities=26% Similarity=0.365 Sum_probs=18.2
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH 377 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 377 (410)
+.+|.-|..+|-.- ..+...||.|+..
T Consensus 23 ~~~CP~Cg~pLf~l---k~g~~~Cp~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPLFEL---KDGEVVCPVHGKV 49 (112)
T ss_pred cCCCCCCCCcceec---CCCceECCCCCCe
Confidence 46898998877641 1235678888875
No 402
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.93 E-value=3.1e+02 Score=26.57 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=37.0
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeEE
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 232 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~v 232 (410)
-.+.+|.++++.+|+.+|++=++--.......+.+++.||-....
T Consensus 201 ps~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ 245 (266)
T cd01018 201 PSPADLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVT 245 (266)
T ss_pred CCHHHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEE
Confidence 345688999999999999987777666778999999999976543
No 403
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=20.91 E-value=5.5e+02 Score=27.97 Aligned_cols=90 Identities=14% Similarity=0.152 Sum_probs=64.8
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHHcCeEEEEEEcchhH----H-------
Q 015282 151 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F------- 217 (410)
Q Consensus 151 ~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~--~ti~~akk~~IrV~vIgL~aE~----~------- 217 (410)
.|--+++.||-.|+.+--..| .|+|+.|.|.. . -.| .-+.++.+.+++|-+|-+.... .
T Consensus 434 ~~~gsmG~glpaaiGa~lA~p---~r~Vv~i~GDG-s----f~m~~~eL~Ta~r~~lpviivV~NN~~~~~i~~~q~~~~ 505 (587)
T PRK06965 434 GGLGTMGVGLPYAMGIKMAHP---DDDVVCITGEG-S----IQMCIQELSTCLQYDTPVKIISLNNRYLGMVRQWQEIEY 505 (587)
T ss_pred CCcccccchHHHHHHHHHhCC---CCcEEEEEcch-h----hhcCHHHHHHHHHcCCCeEEEEEECCcchHHHHHHHHhc
Confidence 343588888888887655433 46788888822 2 222 4578889999999999886431 0
Q ss_pred -------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 015282 218 -------------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 248 (410)
Q Consensus 218 -------------iLk~la~~TgG~Y~va~d~~hl~~lL~~~~~ 248 (410)
=+.++|+..|+.+..+.+.+.|.+.|.+.+.
T Consensus 506 ~~~~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~eL~~al~~a~~ 549 (587)
T PRK06965 506 SKRYSHSYMDALPDFVKLAEAYGHVGMRIEKTSDVEPALREALR 549 (587)
T ss_pred CCCccccCCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 1356888999999999999999988887763
No 404
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=20.88 E-value=43 Score=28.92 Aligned_cols=26 Identities=27% Similarity=0.493 Sum_probs=15.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCc
Q 015282 348 RSTCFGCQQSLLSSGNKPGLYVACPKCKK 376 (410)
Q Consensus 348 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 376 (410)
..+|..|...|+... ...+.||.|++
T Consensus 70 ~~~C~~Cg~~~~~~~---~~~~~CP~Cgs 95 (114)
T PRK03681 70 ECWCETCQQYVTLLT---QRVRRCPQCHG 95 (114)
T ss_pred EEEcccCCCeeecCC---ccCCcCcCcCC
Confidence 457888887775421 11255777763
No 405
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.81 E-value=31 Score=39.27 Aligned_cols=47 Identities=19% Similarity=0.276 Sum_probs=36.5
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 398 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~ 398 (410)
....|+.|.+.+.+.- +-.=-.|.++||..|-.-+--.-..||-|..
T Consensus 122 ~~~~CP~Ci~s~~DqL-----~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~ 168 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQL-----EESEKHTAHYFCEECVGSWSRCAQTCPVDRG 168 (1134)
T ss_pred hhhhhhHHHHHHHHHh-----hccccccccccHHHHhhhhhhhcccCchhhh
Confidence 4568999988876431 1112379999999999999999999999963
No 406
>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=20.80 E-value=75 Score=20.58 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=17.7
Q ss_pred eeEcCCCCcccccCCCCCCCCCc
Q 015282 289 GYTCPRCKARVCELPTDCRICGL 311 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl 311 (410)
.+.|+.|.-.-=.-...|..|+.
T Consensus 4 ~W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 4 DWKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp SEEETTTTEEEESSSSB-TTT--
T ss_pred CccCCCCcCCchHHhhhhhCcCC
Confidence 67899999988888889999986
No 407
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=20.77 E-value=6.1e+02 Score=25.52 Aligned_cols=52 Identities=10% Similarity=0.025 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHHcCeEE
Q 015282 155 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRC 207 (410)
Q Consensus 155 SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~DpgdI~~ti~~akk~~IrV 207 (410)
...+|.++|+..++..-.-..|+|=+++. ++..||..--+.++.|.+.+|.+
T Consensus 44 ~~~~g~~~av~~iNa~GGi~G~~ielv~~-D~~~~p~~a~~~~~~Li~~~V~~ 95 (369)
T PRK15404 44 MEFTGARQAIEDINAKGGIKGDKLEGVEY-DDACDPKQAVAVANKVVNDGIKY 95 (369)
T ss_pred hHHHHHHHHHHHHHhcCCCCCeEEEEEee-cCCCCHHHHHHHHHHHHhCCceE
Confidence 34555666666655432222334444333 33344444444455555554433
No 408
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; 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. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=20.74 E-value=84 Score=29.80 Aligned_cols=40 Identities=25% Similarity=0.409 Sum_probs=24.2
Q ss_pred eeCCCCCcccccccchhhhccCCCCCCCCCCCCCCCcccCC
Q 015282 369 VACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVANE 409 (410)
Q Consensus 369 ~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~~~~~ 409 (410)
.+|..|+..+ ..=+..-++.+..||.|....+++++.-+|
T Consensus 110 ~~C~~C~~~~-~~~~~~~~~~~p~C~~Cgg~lrp~Vv~fge 149 (224)
T cd01412 110 VRCSSCGYVG-ENNEEIPEEELPRCPKCGGLLRPGVVWFGE 149 (224)
T ss_pred cccCCCCCCC-CcchhhhccCCCCCCCCCCccCCceEECCC
Confidence 4455555443 111233456678899998888887765544
No 409
>PF10906 DUF2697: Protein of unknown function (DUF2697); InterPro: IPR020301 This entry contains proteins with no known function.
Probab=20.74 E-value=1.7e+02 Score=23.44 Aligned_cols=25 Identities=20% Similarity=0.337 Sum_probs=21.0
Q ss_pred HhcCCCCCCHHHHHHHHHHHHHHhh
Q 015282 84 AAEMDFRPSRMAVVAKQVEAFVREF 108 (410)
Q Consensus 84 M~~~D~~P~Rl~~~~~~l~~FV~~f 108 (410)
+.+.+|+|||++.....-..|++|.
T Consensus 40 ~~~~~y~Pt~~~k~~AFr~lf~DE~ 64 (68)
T PF10906_consen 40 QSEFLYKPTRLQKFNAFRILFWDEL 64 (68)
T ss_pred ccccccCCchHHHHHHHHHHHHHHH
Confidence 3467799999999999888898875
No 410
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=20.67 E-value=92 Score=20.97 Aligned_cols=25 Identities=28% Similarity=0.663 Sum_probs=17.7
Q ss_pred ccccccccccCCCCCCCceeeCCCCCc
Q 015282 350 TCFGCQQSLLSSGNKPGLYVACPKCKK 376 (410)
Q Consensus 350 ~C~~C~~~~~~~~~~~~~~~~C~~C~~ 376 (410)
.|.+|...|.-+.+. ..++|..|+-
T Consensus 3 ~C~~C~t~L~yP~gA--~~vrCs~C~~ 27 (31)
T TIGR01053 3 VCGGCRTLLMYPRGA--SSVRCALCQT 27 (31)
T ss_pred CcCCCCcEeecCCCC--CeEECCCCCe
Confidence 699998877655322 3588999864
No 411
>PRK11823 DNA repair protein RadA; Provisional
Probab=20.56 E-value=56 Score=34.66 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=22.2
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 015282 289 GYTCPRCKARVCELPTDCRICGLQ 312 (410)
Q Consensus 289 GY~Cp~C~s~~C~lP~~C~~Cgl~ 312 (410)
.|+|..|+...=..--.||.|+-+
T Consensus 7 ~y~C~~Cg~~~~~~~g~Cp~C~~w 30 (446)
T PRK11823 7 AYVCQECGAESPKWLGRCPECGAW 30 (446)
T ss_pred eEECCcCCCCCcccCeeCcCCCCc
Confidence 799999999999999999999964
No 412
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.47 E-value=41 Score=31.28 Aligned_cols=43 Identities=26% Similarity=0.539 Sum_probs=34.4
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 015282 347 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 397 (410)
Q Consensus 347 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~FC~dCD~fiHe~Lh~CPgC~ 397 (410)
....|.-|...|..+ ..-.|+..||..|..-+-.....||.|.
T Consensus 12 ~~~~C~iC~~~~~~p--------~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREP--------VLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccccChhhHHHhhcC--------ccccccchHhHHHHHHhcCCCcCCcccC
Confidence 456899999888643 3557999999999977777778999998
No 413
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=20.43 E-value=94 Score=20.91 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=12.3
Q ss_pred ceeeCCCCCcccccc
Q 015282 367 LYVACPKCKKHFCLE 381 (410)
Q Consensus 367 ~~~~C~~C~~~FC~d 381 (410)
..|.|..|+-..|.+
T Consensus 15 T~~~C~~C~v~lC~~ 29 (32)
T PF13842_consen 15 TRYMCSKCDVPLCVE 29 (32)
T ss_pred eEEEccCCCCcccCC
Confidence 579999998877765
No 414
>PF10825 DUF2752: Protein of unknown function (DUF2752); InterPro: IPR021215 This family is conserved in bacteria. Many members are annotated as being putative membrane proteins.
Probab=20.40 E-value=33 Score=25.57 Aligned_cols=15 Identities=33% Similarity=0.893 Sum_probs=9.9
Q ss_pred CCCCCCceecCchhHHhhhcccC
Q 015282 305 DCRICGLQLVSSPHLARSYHHLF 327 (410)
Q Consensus 305 ~C~~Cgl~LvssphLarsyhHlf 327 (410)
.||.||.| ||+++|.
T Consensus 11 ~CPgCG~t--------Ra~~~ll 25 (52)
T PF10825_consen 11 PCPGCGMT--------RAFIALL 25 (52)
T ss_pred CCCCCcHH--------HHHHHHH
Confidence 47788866 6666553
No 415
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.31 E-value=40 Score=30.19 Aligned_cols=29 Identities=24% Similarity=0.643 Sum_probs=20.1
Q ss_pred CcccccccchhhhccCCCCCCCCCCCCCCCcc
Q 015282 375 KKHFCLECDIYIHESLHNCPGCESLRHSNPIV 406 (410)
Q Consensus 375 ~~~FC~dCD~fiHe~Lh~CPgC~~~~~~~~~~ 406 (410)
...||..|.. +++-+||.|...++++.-|
T Consensus 27 ~eafcskcge---ati~qcp~csasirgd~~v 55 (160)
T COG4306 27 MEAFCSKCGE---ATITQCPICSASIRGDYYV 55 (160)
T ss_pred HHHHHhhhch---HHHhcCCccCCccccccee
Confidence 3456666654 6788899988877776554
No 416
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=20.26 E-value=2e+02 Score=21.83 Aligned_cols=36 Identities=14% Similarity=0.125 Sum_probs=28.0
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHHcCeEEEEEEcch
Q 015282 178 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 214 (410)
Q Consensus 178 ILVi~~S~~t~DpgdI~~ti~~akk~~IrV~vIgL~a 214 (410)
+|-++|..-. +++-..+....|.+.+|+|..|+-++
T Consensus 4 ~VsvVG~gm~-~~gv~~ki~~~L~~~~I~v~~i~~~~ 39 (66)
T cd04915 4 IVSVIGRDLS-TPGVLARGLAALAEAGIEPIAAHQSM 39 (66)
T ss_pred EEEEECCCCC-cchHHHHHHHHHHHCCCCEEEEEecC
Confidence 5667775554 77755588999999999998888875
No 417
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=20.22 E-value=1.1e+02 Score=31.39 Aligned_cols=47 Identities=11% Similarity=0.234 Sum_probs=33.0
Q ss_pred eEEEEEe-CCCCCCcccHHHHHHHHHHc------CeEEEEEEcchhHHHHHHHHHhh
Q 015282 177 EVLILYS-ALSTCDPGDIMETIQKCKES------KIRCSVIGLSAEMFICKHLCQDT 226 (410)
Q Consensus 177 eILVi~~-S~~t~DpgdI~~ti~~akk~------~IrV~vIgL~aE~~iLk~la~~T 226 (410)
.-|+|+| +.-..++.++.++++.+++. +|.||++|+. ...+++++..
T Consensus 150 ~~IvfmGmGEPlln~~~v~~~i~~l~~~~~i~~r~itvST~G~~---~~i~~L~~~~ 203 (345)
T PRK14457 150 SHVVFMGMGEPLLNIDEVLAAIRCLNQDLGIGQRRITVSTVGVP---KTIPQLAELA 203 (345)
T ss_pred CEEEEEecCccccCHHHHHHHHHHHhcccCCccCceEEECCCch---hhHHHHHhhh
Confidence 3677777 44457788888999888764 6778887765 4467777654
No 418
>PRK05447 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional
Probab=20.20 E-value=4.4e+02 Score=27.79 Aligned_cols=52 Identities=21% Similarity=0.321 Sum_probs=37.0
Q ss_pred ccHH-HHHHHHHHc--CeEEEEEEcchhHHHHHHHHHhhCCeeEEeCCHHHHHHH
Q 015282 191 GDIM-ETIQKCKES--KIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKEL 242 (410)
Q Consensus 191 gdI~-~ti~~akk~--~IrV~vIgL~aE~~iLk~la~~TgG~Y~va~d~~hl~~l 242 (410)
|+|- .+++.+++. +.+|..++.+..+..|.+.++..+=.|.+..|+....++
T Consensus 11 GSIG~~tL~vi~~~p~~f~VvaLaa~~n~~~l~~q~~~f~p~~v~i~~~~~~~~l 65 (385)
T PRK05447 11 GSIGTQTLDVIRRNPDRFRVVALSAGKNVELLAEQAREFRPKYVVVADEEAAKEL 65 (385)
T ss_pred hHHHHHHHHHHHhCccccEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHH
Confidence 4565 567776655 444444444566889999999999999999998765553
No 419
>cd06438 EpsO_like EpsO protein participates in the methanolan synthesis. The Methylobacillus sp EpsO protein is predicted to participate in the methanolan synthesis. Methanolan is an exopolysaccharide (EPS), composed of glucose, mannose and galactose. A 21 genes cluster was predicted to participate in the methanolan synthesis. Gene disruption analysis revealed that EpsO is one of the glycosyltransferase enzymes involved in the synthesis of repeating sugar units onto the lipid carrier.
Probab=20.09 E-value=6e+02 Score=22.28 Aligned_cols=81 Identities=15% Similarity=0.164 Sum_probs=48.8
Q ss_pred CCCceEEEEeeCCeeEEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHHHHHHHHHhCCCCCCCceEEEEEeCCCCCC
Q 015282 113 PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCD 189 (410)
Q Consensus 113 PisqlGII~~~~g~Ae~ls~ltgn~~~~i~~L~~~~---~~~G~~SLqnaL~~A~~~L~~~p~~~sreILVi~~S~~t~D 189 (410)
|...+=||+.-||.. -+..++++.+.... ....+...+.||..++..+... .+.-++|+++-++..-+
T Consensus 25 p~~~~eiivvdd~s~-------D~t~~~~~~~~~~~~~~~~~~~~gk~~aln~g~~~a~~~--~~~~d~v~~~DaD~~~~ 95 (183)
T cd06438 25 PRELYRIFVVADNCT-------DDTAQVARAAGATVLERHDPERRGKGYALDFGFRHLLNL--ADDPDAVVVFDADNLVD 95 (183)
T ss_pred CCcccEEEEEeCCCC-------chHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHhc--CCCCCEEEEEcCCCCCC
Confidence 555666777766632 12233444443211 1122345677777777766532 22457999999888888
Q ss_pred cccHHHHHHHHHH
Q 015282 190 PGDIMETIQKCKE 202 (410)
Q Consensus 190 pgdI~~ti~~akk 202 (410)
|.-+......+++
T Consensus 96 p~~l~~l~~~~~~ 108 (183)
T cd06438 96 PNALEELNARFAA 108 (183)
T ss_pred hhHHHHHHHHHhh
Confidence 8888888877765
No 420
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=20.04 E-value=2.8e+02 Score=26.51 Aligned_cols=44 Identities=25% Similarity=0.363 Sum_probs=33.4
Q ss_pred CCcccHHHHHHHHHHcCeEEEEEEcchhHHHHHHHHHhhCCeeE
Q 015282 188 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 231 (410)
Q Consensus 188 ~DpgdI~~ti~~akk~~IrV~vIgL~aE~~iLk~la~~TgG~Y~ 231 (410)
-.+.++.+.++.+++.+|++=+.--...-.+.+.|++.||....
T Consensus 183 ps~~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~vv 226 (256)
T PF01297_consen 183 PSPKDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKVV 226 (256)
T ss_dssp S-HHHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EEE
T ss_pred CCHHHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcEE
Confidence 45667889999999999998877776677899999999998763
Done!