Query 014401
Match_columns 425
No_of_seqs 260 out of 1181
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:46:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014401.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014401hhsearch_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 4E-122 1E-126 890.9 28.1 371 25-415 7-377 (378)
2 COG5151 SSL1 RNA polymerase II 100.0 1E-106 3E-111 778.2 22.7 377 24-415 34-420 (421)
3 PF04056 Ssl1: Ssl1-like; Int 100.0 2.7E-54 5.8E-59 402.2 21.6 191 92-282 1-193 (193)
4 TIGR00622 ssl1 transcription f 100.0 5.2E-49 1.1E-53 333.9 7.7 105 304-413 1-111 (112)
5 cd01453 vWA_transcription_fact 100.0 2.7E-40 5.9E-45 306.9 23.5 183 84-266 1-183 (183)
6 TIGR00627 tfb4 transcription f 100.0 4E-40 8.6E-45 322.9 23.4 233 88-328 4-279 (279)
7 PF03850 Tfb4: Transcription f 100.0 6.4E-35 1.4E-39 286.6 21.9 229 88-325 3-276 (276)
8 KOG2487 RNA polymerase II tran 100.0 4.2E-33 9E-38 265.8 15.5 234 87-329 24-298 (314)
9 cd01452 VWA_26S_proteasome_sub 100.0 1.3E-31 2.8E-36 249.6 21.7 156 87-243 4-163 (187)
10 COG5242 TFB4 RNA polymerase II 100.0 7.7E-27 1.7E-31 218.0 20.0 233 88-329 22-285 (296)
11 PRK13685 hypothetical protein; 99.9 7.1E-24 1.5E-28 213.3 21.8 170 88-262 90-287 (326)
12 cd01455 vWA_F11C1-5a_type Von 99.9 9.9E-21 2.1E-25 176.5 17.8 167 88-263 2-187 (191)
13 cd01467 vWA_BatA_type VWA BatA 99.9 5.2E-20 1.1E-24 167.9 20.0 159 88-253 4-179 (180)
14 PF13519 VWA_2: von Willebrand 99.9 3.8E-20 8.3E-25 164.7 18.5 165 88-261 1-172 (172)
15 PF07975 C1_4: TFIIH C1-like d 99.8 2.8E-22 6E-27 148.1 1.2 49 365-413 1-51 (51)
16 TIGR03436 acidobact_VWFA VWFA- 99.8 1.1E-17 2.4E-22 165.4 18.2 166 88-263 55-252 (296)
17 cd01466 vWA_C3HC4_type VWA C3H 99.8 9.5E-18 2.1E-22 151.1 15.7 147 88-248 2-154 (155)
18 cd01451 vWA_Magnesium_chelatas 99.8 3.3E-17 7.1E-22 150.7 19.0 157 89-252 3-168 (178)
19 cd01456 vWA_ywmD_type VWA ywmD 99.8 2.3E-17 4.9E-22 155.0 17.6 155 88-250 22-202 (206)
20 TIGR00868 hCaCC calcium-activa 99.8 2.9E-17 6.3E-22 181.6 20.8 161 87-258 305-470 (863)
21 cd01465 vWA_subgroup VWA subgr 99.7 1.5E-16 3.3E-21 143.2 19.5 161 88-258 2-170 (170)
22 cd01461 vWA_interalpha_trypsin 99.7 1.2E-16 2.7E-21 143.7 17.7 160 87-258 3-169 (171)
23 cd01472 vWA_collagen von Wille 99.7 1.7E-16 3.7E-21 143.3 18.0 154 88-249 2-161 (164)
24 cd01470 vWA_complement_factors 99.7 2.3E-16 5.1E-21 147.1 17.5 165 88-258 2-197 (198)
25 cd01480 vWA_collagen_alpha_1-V 99.7 2.4E-16 5.3E-21 146.0 16.7 166 88-263 4-181 (186)
26 cd01474 vWA_ATR ATR (Anthrax T 99.7 9.4E-16 2E-20 141.7 19.7 166 88-262 6-178 (185)
27 cd01463 vWA_VGCC_like VWA Volt 99.7 2.3E-16 5.1E-21 146.3 15.4 152 87-251 14-189 (190)
28 KOG2884 26S proteasome regulat 99.7 8.5E-16 1.9E-20 143.7 17.7 157 87-244 4-164 (259)
29 smart00327 VWA von Willebrand 99.7 2E-15 4.3E-20 134.9 19.6 155 87-247 2-164 (177)
30 cd01477 vWA_F09G8-8_type VWA F 99.7 1.9E-15 4.1E-20 141.8 18.5 157 83-247 18-191 (193)
31 cd01469 vWA_integrins_alpha_su 99.7 2.8E-15 6.1E-20 138.0 18.1 162 88-255 2-175 (177)
32 cd01450 vWFA_subfamily_ECM Von 99.7 2.5E-15 5.4E-20 132.7 17.0 152 88-245 2-159 (161)
33 cd01460 vWA_midasin VWA_Midasi 99.6 3E-15 6.6E-20 146.8 15.2 145 77-230 53-205 (266)
34 cd00198 vWFA Von Willebrand fa 99.6 1.6E-14 3.4E-19 125.3 17.4 152 88-245 2-160 (161)
35 cd01475 vWA_Matrilin VWA_Matri 99.6 1.8E-14 3.9E-19 137.4 19.3 169 88-264 4-182 (224)
36 cd01471 vWA_micronemal_protein 99.6 3E-14 6.4E-19 131.3 18.7 167 88-259 2-183 (186)
37 PRK13406 bchD magnesium chelat 99.6 3.7E-14 8.1E-19 152.8 20.3 165 87-259 402-580 (584)
38 cd01482 vWA_collagen_alphaI-XI 99.6 6.2E-14 1.4E-18 127.0 17.8 151 88-246 2-158 (164)
39 COG5148 RPN10 26S proteasome r 99.6 8.8E-14 1.9E-18 127.8 16.7 156 87-243 4-162 (243)
40 PTZ00441 sporozoite surface pr 99.6 1.1E-13 2.4E-18 146.9 19.8 176 79-261 37-226 (576)
41 cd01473 vWA_CTRP CTRP for CS 99.6 1.3E-13 2.9E-18 129.0 16.6 167 88-259 2-184 (192)
42 PF00092 VWA: von Willebrand f 99.6 1.5E-13 3.3E-18 123.5 16.2 167 88-260 1-177 (178)
43 TIGR03788 marine_srt_targ mari 99.5 5.8E-13 1.3E-17 144.4 18.4 162 87-260 272-440 (596)
44 cd01458 vWA_ku Ku70/Ku80 N-ter 99.5 3.8E-13 8.3E-18 127.8 14.8 144 88-231 3-174 (218)
45 cd01476 VWA_integrin_invertebr 99.5 1.5E-12 3.4E-17 116.9 18.0 145 88-241 2-157 (163)
46 TIGR02442 Cob-chelat-sub cobal 99.5 9.1E-13 2E-17 143.8 18.9 154 88-248 467-632 (633)
47 PF13768 VWA_3: von Willebrand 99.5 7.9E-13 1.7E-17 118.2 15.1 143 88-246 2-154 (155)
48 cd01464 vWA_subfamily VWA subf 99.5 3.8E-13 8.3E-18 123.2 12.5 142 88-239 5-159 (176)
49 TIGR02031 BchD-ChlD magnesium 99.5 1.6E-12 3.4E-17 140.8 18.8 155 88-250 409-582 (589)
50 COG1240 ChlD Mg-chelatase subu 99.5 1.8E-12 3.9E-17 125.2 17.1 160 82-250 76-246 (261)
51 cd01454 vWA_norD_type norD typ 99.4 6.5E-12 1.4E-16 114.7 17.3 135 88-231 2-154 (174)
52 cd01481 vWA_collagen_alpha3-VI 99.4 3.4E-11 7.3E-16 110.1 17.3 147 87-241 1-156 (165)
53 cd01462 VWA_YIEM_type VWA YIEM 99.4 3.7E-11 8E-16 107.0 16.9 133 88-230 2-135 (152)
54 cd01457 vWA_ORF176_type VWA OR 99.4 1.9E-11 4.2E-16 114.4 15.6 149 87-240 3-165 (199)
55 COG4245 TerY Uncharacterized p 98.7 2.5E-07 5.3E-12 85.9 13.2 159 88-262 5-181 (207)
56 PF10138 vWA-TerF-like: vWA fo 98.6 1.3E-06 2.8E-11 82.5 15.3 150 88-242 3-157 (200)
57 PF03731 Ku_N: Ku70/Ku80 N-ter 98.6 9.3E-07 2E-11 84.0 14.2 139 89-227 2-172 (224)
58 cd01479 Sec24-like Sec24-like: 98.5 1.4E-05 3E-10 77.8 18.7 152 88-249 5-219 (244)
59 PF05762 VWA_CoxE: VWA domain 98.4 3.2E-06 6.8E-11 81.1 12.9 125 87-226 58-186 (222)
60 cd01468 trunk_domain trunk dom 98.4 2.6E-05 5.6E-10 75.4 18.5 154 88-250 5-223 (239)
61 PRK10997 yieM hypothetical pro 98.4 9.3E-06 2E-10 86.1 15.8 139 88-239 325-468 (487)
62 PF04811 Sec23_trunk: Sec23/Se 98.4 1.2E-05 2.7E-10 77.6 15.4 154 88-250 5-225 (243)
63 COG2425 Uncharacterized protei 98.2 8.9E-06 1.9E-10 85.0 12.0 155 88-258 274-432 (437)
64 TIGR00578 ku70 ATP-dependent D 98.1 6.2E-05 1.3E-09 82.0 16.5 142 88-229 12-183 (584)
65 PF06707 DUF1194: Protein of u 98.1 3.6E-05 7.8E-10 73.1 11.5 142 88-231 5-158 (205)
66 smart00187 INB Integrin beta s 98.0 0.00023 5E-09 74.1 17.2 165 88-262 101-335 (423)
67 COG4867 Uncharacterized protei 98.0 0.00014 3E-09 75.0 15.0 145 88-250 465-635 (652)
68 cd01478 Sec23-like Sec23-like: 97.9 0.00063 1.4E-08 67.3 16.5 91 167-257 139-264 (267)
69 PLN00162 transport protein sec 97.6 0.0051 1.1E-07 69.2 20.1 97 168-264 261-392 (761)
70 PTZ00395 Sec24-related protein 97.3 0.0043 9.3E-08 72.0 14.8 158 80-246 946-1176(1560)
71 PF11265 Med25_VWA: Mediator c 97.3 0.026 5.6E-07 54.6 17.9 165 81-246 8-203 (226)
72 KOG2353 L-type voltage-depende 97.2 0.003 6.6E-08 72.9 12.3 153 87-253 226-400 (1104)
73 KOG1984 Vesicle coat complex C 96.9 0.026 5.6E-07 63.1 15.5 152 88-248 419-634 (1007)
74 PF00362 Integrin_beta: Integr 96.8 0.045 9.8E-07 57.7 16.2 160 88-258 104-334 (426)
75 COG2304 Uncharacterized protei 96.8 0.024 5.3E-07 57.7 13.7 153 87-248 38-198 (399)
76 cd01459 vWA_copine_like VWA Co 96.6 0.067 1.4E-06 52.7 14.5 155 82-239 27-206 (254)
77 KOG3768 DEAD box RNA helicase 96.4 0.066 1.4E-06 57.8 14.2 186 88-282 3-259 (888)
78 COG5028 Vesicle coat complex C 96.4 0.082 1.8E-06 58.6 14.8 149 88-246 278-482 (861)
79 PF09967 DUF2201: VWA-like dom 96.3 0.015 3.2E-07 51.1 7.6 78 89-181 1-79 (126)
80 KOG1985 Vesicle coat complex C 96.1 0.099 2.1E-06 58.3 13.9 148 88-246 296-506 (887)
81 KOG1986 Vesicle coat complex C 95.8 0.52 1.1E-05 52.0 17.3 162 90-263 125-378 (745)
82 COG4548 NorD Nitric oxide redu 95.3 0.085 1.9E-06 56.4 9.1 91 164-258 528-628 (637)
83 KOG2326 DNA-binding subunit of 95.2 0.48 1E-05 51.4 14.5 170 89-265 7-214 (669)
84 PF07002 Copine: Copine; Inte 95.1 0.39 8.4E-06 43.4 11.8 121 105-228 9-146 (146)
85 TIGR01651 CobT cobaltochelatas 95.1 0.51 1.1E-05 51.5 14.5 78 172-258 499-589 (600)
86 PF11775 CobT_C: Cobalamin bio 95.0 0.81 1.8E-05 44.1 14.2 58 172-231 119-189 (219)
87 COG1721 Uncharacterized conser 94.7 0.55 1.2E-05 49.2 13.4 61 88-150 226-286 (416)
88 COG3552 CoxE Protein containin 94.5 0.27 5.9E-06 50.6 10.2 118 87-218 219-340 (395)
89 KOG2462 C2H2-type Zn-finger pr 94.1 0.057 1.2E-06 53.3 4.3 40 304-343 130-187 (279)
90 KOG2462 C2H2-type Zn-finger pr 91.4 0.15 3.3E-06 50.3 2.9 75 304-395 161-255 (279)
91 KOG1327 Copine [Signal transdu 91.2 2.6 5.7E-05 45.5 12.1 153 87-242 286-466 (529)
92 PF01363 FYVE: FYVE zinc finge 90.7 0.13 2.9E-06 39.9 1.5 36 361-400 7-42 (69)
93 PRK04023 DNA polymerase II lar 90.4 0.18 3.9E-06 57.6 2.7 69 339-417 595-675 (1121)
94 smart00064 FYVE Protein presen 90.1 0.21 4.5E-06 38.7 2.1 36 361-400 8-43 (68)
95 TIGR00373 conserved hypothetic 89.9 0.21 4.5E-06 45.7 2.2 26 304-329 109-139 (158)
96 KOG1226 Integrin beta subunit 89.1 3.4 7.4E-05 46.3 11.1 164 88-260 134-365 (783)
97 PRK06266 transcription initiat 88.7 0.27 5.9E-06 45.9 2.1 27 304-330 117-148 (178)
98 cd00729 rubredoxin_SM Rubredox 88.1 0.39 8.6E-06 32.7 2.1 24 304-327 2-27 (34)
99 cd00065 FYVE FYVE domain; Zinc 86.4 0.41 8.9E-06 35.6 1.6 34 364-401 3-36 (57)
100 PF09538 FYDLN_acid: Protein o 84.6 0.46 9.9E-06 41.0 1.2 28 304-331 9-39 (108)
101 COG3864 Uncharacterized protei 84.5 3.2 7E-05 42.1 7.2 79 88-182 263-341 (396)
102 cd00350 rubredoxin_like Rubred 83.6 0.95 2.1E-05 30.5 2.2 22 305-326 2-25 (33)
103 PF11443 DUF2828: Domain of un 83.1 18 0.0004 39.4 12.8 134 83-227 337-482 (534)
104 TIGR02300 FYDLN_acid conserved 82.8 0.69 1.5E-05 40.9 1.6 32 304-335 9-43 (129)
105 PF09723 Zn-ribbon_8: Zinc rib 82.6 0.89 1.9E-05 32.3 1.8 30 383-413 5-34 (42)
106 smart00531 TFIIE Transcription 82.5 0.71 1.5E-05 41.6 1.6 27 304-330 99-135 (147)
107 COG1592 Rubrerythrin [Energy p 82.4 0.89 1.9E-05 42.1 2.2 24 304-327 134-158 (166)
108 PF03833 PolC_DP2: DNA polymer 81.9 0.44 9.5E-06 53.7 0.0 68 338-415 622-702 (900)
109 PRK00398 rpoP DNA-directed RNA 81.8 1.1 2.3E-05 32.4 2.0 26 304-329 3-32 (46)
110 PF07754 DUF1610: Domain of un 81.5 1.1 2.4E-05 28.3 1.7 24 366-391 1-24 (24)
111 TIGR02877 spore_yhbH sporulati 80.7 12 0.00027 38.9 9.9 110 89-217 205-317 (371)
112 PRK14890 putative Zn-ribbon RN 80.2 1.9 4.1E-05 33.2 2.9 47 363-413 7-56 (59)
113 PF01485 IBR: IBR domain; Int 80.2 1.2 2.7E-05 33.3 2.0 42 364-405 19-62 (64)
114 TIGR02605 CxxC_CxxC_SSSS putat 79.9 1 2.2E-05 33.0 1.4 30 304-333 5-45 (52)
115 PF09538 FYDLN_acid: Protein o 79.7 1.5 3.3E-05 37.8 2.6 34 360-396 6-39 (108)
116 PRK05325 hypothetical protein; 79.4 11 0.00025 39.6 9.3 109 89-216 225-336 (401)
117 PF04285 DUF444: Protein of un 78.8 19 0.00041 38.2 10.8 107 89-216 249-360 (421)
118 PF13639 zf-RING_2: Ring finge 78.8 0.88 1.9E-05 32.1 0.7 42 365-411 2-43 (44)
119 cd06167 LabA_like LabA_like pr 78.7 6.1 0.00013 34.6 6.3 63 167-239 81-144 (149)
120 PRK14714 DNA polymerase II lar 78.5 1.9 4.2E-05 50.7 3.7 23 304-328 667-689 (1337)
121 TIGR01384 TFS_arch transcripti 78.4 2.2 4.8E-05 35.8 3.2 31 363-393 62-100 (104)
122 PF04438 zf-HIT: HIT zinc fing 78.2 0.9 1.9E-05 30.2 0.6 14 304-317 13-26 (30)
123 PF10571 UPF0547: Uncharacteri 77.8 1.4 3E-05 28.4 1.3 23 306-328 2-24 (26)
124 PF12760 Zn_Tnp_IS1595: Transp 77.2 1.2 2.5E-05 32.2 1.0 23 304-326 18-45 (46)
125 TIGR00599 rad18 DNA repair pro 76.9 2.1 4.6E-05 44.8 3.2 46 363-416 26-71 (397)
126 PF08271 TF_Zn_Ribbon: TFIIB z 76.8 0.94 2E-05 32.2 0.4 24 305-328 1-29 (43)
127 PF01936 NYN: NYN domain; Int 76.6 3.6 7.9E-05 35.6 4.2 61 169-239 79-140 (146)
128 PF13240 zinc_ribbon_2: zinc-r 76.2 1.4 3.1E-05 27.4 1.0 22 307-328 2-23 (23)
129 PRK14559 putative protein seri 75.9 2.2 4.9E-05 47.4 3.2 6 307-312 4-9 (645)
130 TIGR01206 lysW lysine biosynth 75.8 1.7 3.7E-05 32.9 1.5 24 304-328 2-32 (54)
131 COG5271 MDN1 AAA ATPase contai 75.8 37 0.00079 42.6 12.6 174 78-262 4386-4590(4600)
132 PF13923 zf-C3HC4_2: Zinc fing 75.2 1.3 2.8E-05 30.6 0.7 39 366-411 1-39 (39)
133 PF05191 ADK_lid: Adenylate ki 74.6 2.9 6.2E-05 28.9 2.3 26 305-330 2-33 (36)
134 cd02340 ZZ_NBR1_like Zinc fing 74.5 2 4.3E-05 30.8 1.6 28 365-398 2-30 (43)
135 PRK14714 DNA polymerase II lar 73.8 2 4.4E-05 50.5 2.2 45 364-416 668-720 (1337)
136 smart00834 CxxC_CXXC_SSSS Puta 73.1 2.7 5.8E-05 29.0 1.9 30 383-413 5-34 (41)
137 cd05017 SIS_PGI_PMI_1 The memb 72.8 6.5 0.00014 33.5 4.7 55 192-252 45-100 (119)
138 COG2888 Predicted Zn-ribbon RN 72.6 3 6.6E-05 32.1 2.2 47 363-413 9-58 (61)
139 PF13719 zinc_ribbon_5: zinc-r 72.5 1.9 4.2E-05 29.8 1.1 29 365-393 4-35 (37)
140 PLN03086 PRLI-interacting fact 72.0 5.1 0.00011 43.9 4.7 18 133-150 177-194 (567)
141 PRK12496 hypothetical protein; 71.7 2.7 5.9E-05 38.7 2.2 95 207-330 59-155 (164)
142 COG0528 PyrH Uridylate kinase 71.7 26 0.00057 34.3 9.0 45 86-136 3-51 (238)
143 PF01927 Mut7-C: Mut7-C RNAse 70.6 3.9 8.4E-05 36.8 2.9 11 383-393 124-134 (147)
144 PF03853 YjeF_N: YjeF-related 69.9 17 0.00038 33.2 7.1 65 188-254 23-93 (169)
145 PF01882 DUF58: Protein of unk 69.5 8.9 0.00019 30.6 4.6 41 87-127 41-81 (86)
146 COG1675 TFA1 Transcription ini 69.3 2.7 5.9E-05 39.3 1.6 28 304-331 113-145 (176)
147 smart00647 IBR In Between Ring 69.0 4.8 0.0001 30.0 2.7 43 363-405 18-62 (64)
148 KOG2932 E3 ubiquitin ligase in 68.8 2.6 5.6E-05 42.6 1.4 40 364-413 91-131 (389)
149 KOG4317 Predicted Zn-finger pr 68.6 2.2 4.9E-05 43.1 1.0 28 291-318 6-33 (383)
150 PRK04023 DNA polymerase II lar 68.3 3.8 8.3E-05 47.3 2.8 23 303-327 625-647 (1121)
151 KOG0320 Predicted E3 ubiquitin 67.3 4.1 8.9E-05 38.1 2.3 29 386-414 148-176 (187)
152 TIGR02098 MJ0042_CXXC MJ0042 f 66.7 3.1 6.6E-05 28.5 1.1 25 305-329 3-36 (38)
153 KOG1819 FYVE finger-containing 66.6 1.9 4.1E-05 46.1 0.0 33 362-398 900-932 (990)
154 TIGR02300 FYDLN_acid conserved 65.9 4.7 0.0001 35.7 2.3 34 360-396 6-39 (129)
155 PHA02929 N1R/p28-like protein; 65.7 5.9 0.00013 38.8 3.2 51 363-413 174-224 (238)
156 PRK14892 putative transcriptio 65.6 3.3 7.1E-05 35.2 1.3 24 304-327 21-51 (99)
157 cd00730 rubredoxin Rubredoxin; 65.1 4.2 9E-05 30.2 1.6 22 305-326 2-42 (50)
158 PRK00415 rps27e 30S ribosomal 64.3 3.2 7E-05 32.0 0.9 27 306-332 13-44 (59)
159 PF13717 zinc_ribbon_4: zinc-r 63.9 4.7 0.0001 27.7 1.6 29 365-393 4-35 (36)
160 TIGR00288 conserved hypothetic 63.1 26 0.00057 32.3 6.8 76 154-239 70-150 (160)
161 PRK07418 acetolactate synthase 62.5 84 0.0018 34.6 11.9 89 169-263 434-547 (616)
162 cd02335 ZZ_ADA2 Zinc finger, Z 62.4 4.8 0.0001 29.5 1.5 30 365-399 2-32 (49)
163 KOG2660 Locus-specific chromos 62.4 2.1 4.6E-05 43.5 -0.5 22 391-412 50-73 (331)
164 cd00162 RING RING-finger (Real 61.3 5.8 0.00013 26.7 1.7 41 366-413 2-43 (45)
165 cd02010 TPP_ALS Thiamine pyrop 61.0 1E+02 0.0022 28.3 10.4 92 166-263 45-158 (177)
166 KOG4465 Uncharacterized conser 60.7 53 0.0011 34.3 9.0 125 88-229 429-563 (598)
167 cd02004 TPP_BZL_OCoD_HPCL Thia 59.8 60 0.0013 29.3 8.6 88 169-262 48-159 (172)
168 PRK02842 light-independent pro 59.6 63 0.0014 34.0 9.9 79 208-287 302-385 (427)
169 smart00154 ZnF_AN1 AN1-like Zi 59.2 6.3 0.00014 27.6 1.6 25 383-410 12-36 (39)
170 PRK13130 H/ACA RNA-protein com 59.2 6.4 0.00014 30.0 1.7 25 305-331 6-30 (56)
171 cd02249 ZZ Zinc finger, ZZ typ 59.0 5.7 0.00012 28.6 1.4 29 365-399 2-31 (46)
172 smart00661 RPOL9 RNA polymeras 58.2 9.2 0.0002 27.7 2.4 29 365-393 2-30 (52)
173 PRK14559 putative protein seri 58.0 10 0.00022 42.3 3.8 21 394-414 30-50 (645)
174 PF14369 zf-RING_3: zinc-finge 57.9 7.1 0.00015 26.8 1.6 28 365-393 4-31 (35)
175 KOG0317 Predicted E3 ubiquitin 57.8 6.8 0.00015 39.2 2.1 52 362-421 238-289 (293)
176 KOG2593 Transcription initiati 56.6 3.3 7.3E-05 43.5 -0.3 27 304-330 128-165 (436)
177 PF02318 FYVE_2: FYVE-type zin 56.4 3.2 7E-05 35.9 -0.4 47 362-411 53-100 (118)
178 TIGR00627 tfb4 transcription f 55.6 14 0.00029 37.1 3.9 35 364-413 243-277 (279)
179 PF00643 zf-B_box: B-box zinc 54.1 5.8 0.00013 27.5 0.7 34 363-404 3-36 (42)
180 COG3958 Transketolase, C-termi 54.0 59 0.0013 33.0 7.9 67 207-284 206-283 (312)
181 TIGR01279 DPOR_bchN light-inde 53.9 63 0.0014 33.8 8.7 79 208-287 286-368 (407)
182 PF02775 TPP_enzyme_C: Thiamin 53.7 47 0.001 29.3 6.7 70 190-262 46-143 (153)
183 COG3183 Predicted restriction 53.6 3.2 7E-05 41.0 -0.9 32 319-350 196-232 (272)
184 PLN02948 phosphoribosylaminoim 53.1 1.5E+02 0.0033 32.7 11.8 78 187-266 407-491 (577)
185 PF09237 GAGA: GAGA factor; I 52.6 5.9 0.00013 29.7 0.6 24 316-339 22-45 (54)
186 KOG0978 E3 ubiquitin ligase in 52.4 3.7 8E-05 45.8 -0.8 43 364-414 644-687 (698)
187 cd02008 TPP_IOR_alpha Thiamine 52.4 49 0.0011 30.2 6.8 66 190-257 69-156 (178)
188 cd02341 ZZ_ZZZ3 Zinc finger, Z 52.1 8.4 0.00018 28.3 1.3 28 365-398 2-33 (48)
189 COG1432 Uncharacterized conser 52.1 37 0.0008 31.6 5.9 65 165-239 90-155 (181)
190 PF00096 zf-C2H2: Zinc finger, 51.8 6.2 0.00013 23.6 0.5 13 384-396 1-13 (23)
191 PTZ00260 dolichyl-phosphate be 51.8 1.5E+02 0.0032 30.1 10.7 96 108-217 84-189 (333)
192 cd02339 ZZ_Mind_bomb Zinc fing 51.6 9.1 0.0002 27.7 1.4 29 365-399 2-32 (45)
193 COG2718 Uncharacterized conser 51.5 38 0.00082 35.5 6.3 91 89-198 249-342 (423)
194 smart00291 ZnF_ZZ Zinc-binding 50.9 10 0.00022 27.0 1.6 30 363-398 4-34 (44)
195 cd02003 TPP_IolD Thiamine pyro 50.9 2.1E+02 0.0045 26.8 10.9 91 166-262 45-171 (205)
196 PF15227 zf-C3HC4_4: zinc fing 50.1 6.1 0.00013 28.0 0.3 11 388-398 15-25 (42)
197 PF14570 zf-RING_4: RING/Ubox 50.0 10 0.00022 28.0 1.5 44 366-413 1-45 (48)
198 cd02013 TPP_Xsc_like Thiamine 49.8 1.6E+02 0.0034 27.4 9.9 89 169-263 53-164 (196)
199 COG4547 CobT Cobalamin biosynt 49.5 1.2E+02 0.0025 32.8 9.6 58 172-231 520-590 (620)
200 TIGR00622 ssl1 transcription f 49.3 27 0.00058 30.4 4.1 69 250-325 27-110 (112)
201 PRK12726 flagellar biosynthesi 49.2 2.5E+02 0.0055 29.8 12.0 94 167-261 176-280 (407)
202 COG5574 PEX10 RING-finger-cont 49.0 8.3 0.00018 38.2 1.1 51 362-420 214-266 (271)
203 PRK06260 threonine synthase; V 48.4 12 0.00026 39.0 2.3 42 304-345 3-57 (397)
204 PRK08611 pyruvate oxidase; Pro 47.6 93 0.002 34.0 9.1 89 169-263 408-518 (576)
205 PF13248 zf-ribbon_3: zinc-rib 47.4 9.7 0.00021 24.2 0.9 20 393-412 4-23 (26)
206 PRK00420 hypothetical protein; 47.0 11 0.00023 32.8 1.4 26 304-329 23-51 (112)
207 cd02006 TPP_Gcl Thiamine pyrop 46.9 2.2E+02 0.0048 26.4 10.5 88 169-262 57-177 (202)
208 KOG1818 Membrane trafficking a 46.5 8.5 0.00018 42.6 0.8 45 363-411 165-217 (634)
209 PRK05978 hypothetical protein; 46.1 12 0.00025 34.2 1.6 23 306-328 35-62 (148)
210 PF13920 zf-C3HC4_3: Zinc fing 45.8 9.2 0.0002 27.6 0.7 44 364-415 3-47 (50)
211 PF00301 Rubredoxin: Rubredoxi 45.7 15 0.00033 26.9 1.8 10 305-314 2-11 (47)
212 PF06220 zf-U1: U1 zinc finger 45.4 8.5 0.00018 26.9 0.4 14 391-404 3-17 (38)
213 smart00355 ZnF_C2H2 zinc finge 45.1 6 0.00013 23.4 -0.3 23 384-406 1-23 (26)
214 PF07649 C1_3: C1-like domain; 44.8 9.2 0.0002 24.9 0.5 28 365-397 2-29 (30)
215 PF05290 Baculo_IE-1: Baculovi 44.7 14 0.00031 33.0 1.8 29 304-332 103-135 (140)
216 COG0062 Uncharacterized conser 44.4 81 0.0017 30.2 7.0 56 174-231 33-88 (203)
217 KOG2879 Predicted E3 ubiquitin 44.1 13 0.00027 37.2 1.5 31 384-414 253-285 (298)
218 COG1533 SplB DNA repair photol 43.6 1E+02 0.0022 31.2 8.0 108 171-284 65-186 (297)
219 PF10221 DUF2151: Cell cycle a 43.5 3.5E+02 0.0075 30.8 12.6 112 88-200 7-163 (695)
220 PF00097 zf-C3HC4: Zinc finger 43.5 12 0.00026 25.6 0.9 26 386-411 14-41 (41)
221 TIGR00570 cdk7 CDK-activating 43.0 12 0.00025 38.1 1.2 26 388-413 25-51 (309)
222 cd02001 TPP_ComE_PpyrDC Thiami 42.9 1.2E+02 0.0027 27.2 7.8 70 191-263 60-143 (157)
223 TIGR03472 HpnI hopanoid biosyn 42.9 1.5E+02 0.0033 30.2 9.4 69 190-262 70-152 (373)
224 PF01428 zf-AN1: AN1-like Zinc 42.7 14 0.00031 26.2 1.3 26 382-410 12-37 (43)
225 cd02012 TPP_TK Thiamine pyroph 42.3 2.7E+02 0.0058 27.0 10.6 72 190-262 127-213 (255)
226 COG2051 RPS27A Ribosomal prote 42.0 11 0.00023 29.8 0.5 27 306-332 21-52 (67)
227 PLN03208 E3 ubiquitin-protein 41.8 16 0.00035 34.7 1.8 51 362-420 17-83 (193)
228 cd04192 GT_2_like_e Subfamily 41.5 2.4E+02 0.0053 25.3 9.7 69 191-263 29-109 (229)
229 smart00659 RPOLCX RNA polymera 41.5 20 0.00044 25.8 1.9 25 304-328 2-29 (44)
230 PF03604 DNA_RNApol_7kD: DNA d 41.5 21 0.00046 24.1 1.9 24 305-328 1-27 (32)
231 cd02014 TPP_POX Thiamine pyrop 41.0 1.8E+02 0.0038 26.4 8.6 90 167-262 49-160 (178)
232 PF13824 zf-Mss51: Zinc-finger 41.0 19 0.0004 27.4 1.7 23 306-328 1-24 (55)
233 cd00568 TPP_enzymes Thiamine p 40.9 2.5E+02 0.0054 24.6 9.7 90 167-262 44-156 (168)
234 cd02015 TPP_AHAS Thiamine pyro 40.8 2.8E+02 0.006 25.3 10.0 88 169-262 50-161 (186)
235 PF06906 DUF1272: Protein of u 40.7 26 0.00056 26.8 2.4 45 364-415 6-51 (57)
236 PRK12380 hydrogenase nickel in 40.6 14 0.0003 31.9 1.1 9 365-373 72-80 (113)
237 smart00504 Ubox Modified RING 40.6 19 0.00041 26.8 1.7 45 365-417 3-47 (63)
238 PF14634 zf-RING_5: zinc-RING 40.1 19 0.00042 25.4 1.6 42 366-412 2-43 (44)
239 PHA02768 hypothetical protein; 40.0 21 0.00045 27.2 1.8 19 320-338 7-25 (55)
240 PRK07525 sulfoacetaldehyde ace 39.9 1.5E+02 0.0032 32.5 9.2 91 167-263 433-547 (588)
241 COG1645 Uncharacterized Zn-fin 39.6 12 0.00027 33.3 0.6 23 304-326 28-52 (131)
242 TIGR00100 hypA hydrogenase nic 39.4 15 0.00033 31.8 1.1 24 364-391 71-94 (115)
243 PTZ00303 phosphatidylinositol 39.3 23 0.0005 40.2 2.7 37 363-399 460-497 (1374)
244 COG1198 PriA Primosomal protei 38.9 36 0.00077 38.7 4.2 131 210-392 340-484 (730)
245 PF03850 Tfb4: Transcription f 38.9 23 0.0005 35.4 2.5 36 364-412 241-276 (276)
246 PF06750 DiS_P_DiS: Bacterial 38.9 10 0.00023 31.5 0.1 37 318-374 33-69 (92)
247 TIGR00595 priA primosomal prot 38.7 20 0.00043 38.8 2.2 40 362-413 212-261 (505)
248 cd01407 SIR2-fam SIR2 family o 38.6 69 0.0015 30.4 5.6 33 292-327 100-142 (218)
249 cd02005 TPP_PDC_IPDC Thiamine 38.4 1.9E+02 0.004 26.6 8.4 91 167-263 48-161 (183)
250 PF00535 Glycos_transf_2: Glyc 38.4 1.1E+02 0.0024 25.6 6.5 73 190-266 27-108 (169)
251 PHA00733 hypothetical protein 38.3 25 0.00054 31.0 2.4 33 304-336 73-117 (128)
252 COG0375 HybF Zn finger protein 38.0 16 0.00035 31.9 1.1 26 363-392 70-95 (115)
253 KOG2327 DNA-binding subunit of 37.9 5.2E+02 0.011 28.8 12.5 51 88-138 20-73 (602)
254 COG1996 RPC10 DNA-directed RNA 37.8 15 0.00033 27.2 0.8 27 383-413 6-32 (49)
255 PRK06450 threonine synthase; V 37.6 21 0.00046 36.5 2.1 42 304-345 3-48 (338)
256 cd02009 TPP_SHCHC_synthase Thi 37.0 1.4E+02 0.0031 27.0 7.4 69 191-262 69-162 (175)
257 cd02002 TPP_BFDC Thiamine pyro 36.6 3.1E+02 0.0068 24.5 9.8 88 169-262 49-166 (178)
258 KOG2858 Uncharacterized conser 36.5 12 0.00026 38.5 0.1 15 304-318 29-43 (390)
259 PRK05580 primosome assembly pr 36.5 32 0.0007 38.6 3.5 63 290-392 368-430 (679)
260 KOG4317 Predicted Zn-finger pr 36.4 19 0.00042 36.6 1.5 25 363-395 7-31 (383)
261 TIGR00595 priA primosomal prot 36.3 24 0.00051 38.2 2.3 49 305-392 214-262 (505)
262 cd06326 PBP1_STKc_like Type I 36.3 2.4E+02 0.0053 27.4 9.4 60 169-229 18-78 (336)
263 PF08274 PhnA_Zn_Ribbon: PhnA 36.2 9.8 0.00021 25.4 -0.4 8 383-390 19-26 (30)
264 TIGR02720 pyruv_oxi_spxB pyruv 36.0 2.2E+02 0.0047 31.1 9.7 88 169-262 408-517 (575)
265 PF01155 HypA: Hydrogenase exp 36.0 9.8 0.00021 32.8 -0.6 10 365-374 72-81 (113)
266 TIGR01504 glyox_carbo_lig glyo 35.9 2E+02 0.0044 31.5 9.5 88 169-262 418-538 (588)
267 PTZ00062 glutaredoxin; Provisi 35.6 4E+02 0.0086 25.4 12.5 96 134-242 66-165 (204)
268 PRK00481 NAD-dependent deacety 35.5 32 0.00069 33.3 2.9 40 383-424 122-161 (242)
269 PRK00448 polC DNA polymerase I 35.3 17 0.00038 44.2 1.2 24 304-329 908-944 (1437)
270 PRK06457 pyruvate dehydrogenas 35.3 2.3E+02 0.005 30.7 9.7 90 169-263 396-507 (549)
271 PF07191 zinc-ribbons_6: zinc- 35.2 12 0.00027 29.8 -0.0 33 295-328 7-40 (70)
272 TIGR00686 phnA alkylphosphonat 35.1 23 0.0005 30.5 1.6 24 386-414 5-28 (109)
273 PF11181 YflT: Heat induced st 35.0 66 0.0014 26.9 4.4 75 206-284 10-85 (103)
274 KOG1356 Putative transcription 35.0 18 0.00038 41.3 1.1 44 363-412 229-278 (889)
275 PF02670 DXP_reductoisom: 1-de 34.9 3.1E+02 0.0068 24.3 8.8 63 194-261 1-66 (129)
276 COG2176 PolC DNA polymerase II 34.7 18 0.00039 42.9 1.1 40 304-350 914-964 (1444)
277 PF13912 zf-C2H2_6: C2H2-type 34.7 18 0.00038 22.5 0.6 23 384-406 2-24 (27)
278 PRK00564 hypA hydrogenase nick 34.6 21 0.00045 31.0 1.3 9 365-373 73-81 (117)
279 PF13453 zf-TFIIB: Transcripti 34.6 18 0.00039 25.3 0.7 28 366-393 2-29 (41)
280 COG1182 AcpD Acyl carrier prot 34.6 3.6E+02 0.0078 25.9 9.6 117 90-223 4-121 (202)
281 PLN02470 acetolactate synthase 34.5 1.7E+02 0.0037 32.0 8.6 87 170-262 427-544 (585)
282 KOG1813 Predicted E3 ubiquitin 34.1 16 0.00035 36.8 0.6 50 365-422 243-292 (313)
283 PF09862 DUF2089: Protein of u 33.8 17 0.00037 31.6 0.6 22 307-328 1-22 (113)
284 PRK03681 hypA hydrogenase nick 33.7 21 0.00046 30.8 1.1 6 408-413 90-95 (114)
285 CHL00073 chlN photochlorophyll 33.7 3.9E+02 0.0085 28.8 10.9 91 190-287 314-416 (457)
286 PRK08978 acetolactate synthase 33.7 2E+02 0.0044 31.1 8.9 88 169-262 401-512 (548)
287 PF13894 zf-C2H2_4: C2H2-type 33.7 21 0.00045 20.8 0.8 20 384-403 1-20 (24)
288 PHA00616 hypothetical protein 33.6 12 0.00027 27.1 -0.3 15 384-398 2-16 (44)
289 PRK14571 D-alanyl-alanine synt 33.5 1.8E+02 0.0039 28.6 7.9 36 193-228 3-41 (299)
290 PRK06112 acetolactate synthase 33.1 1.9E+02 0.0042 31.5 8.7 88 169-262 437-547 (578)
291 TIGR01405 polC_Gram_pos DNA po 33.0 20 0.00043 43.0 1.1 24 304-329 683-719 (1213)
292 cd06370 PBP1_Speract_GC_like L 32.7 2.9E+02 0.0064 28.2 9.6 54 168-222 18-72 (404)
293 COG1439 Predicted nucleic acid 32.6 25 0.00055 32.9 1.5 23 364-392 140-162 (177)
294 PF00569 ZZ: Zinc finger, ZZ t 32.5 23 0.00049 25.5 1.0 31 363-399 4-36 (46)
295 cd01840 SGNH_hydrolase_yrhL_li 32.5 3.2E+02 0.007 23.8 8.7 74 171-248 34-115 (150)
296 TIGR03669 urea_ABC_arch urea A 32.5 2.6E+02 0.0055 28.7 9.1 74 168-242 17-92 (374)
297 PLN00209 ribosomal protein S27 32.5 20 0.00044 29.6 0.8 26 306-331 38-68 (86)
298 cd02520 Glucosylceramide_synth 32.3 1.7E+02 0.0037 26.4 7.0 59 190-252 30-96 (196)
299 PF14205 Cys_rich_KTR: Cystein 32.3 34 0.00074 26.0 1.9 23 305-327 5-37 (55)
300 PF09186 DUF1949: Domain of un 32.2 1.3E+02 0.0028 21.6 5.0 41 204-244 4-56 (56)
301 KOG4275 Predicted E3 ubiquitin 32.1 9.2 0.0002 38.5 -1.5 44 364-412 45-88 (350)
302 TIGR01285 nifN nitrogenase mol 31.9 3.3E+02 0.0071 28.8 10.0 75 207-286 322-404 (432)
303 PF01667 Ribosomal_S27e: Ribos 31.8 21 0.00046 27.1 0.7 26 306-331 9-39 (55)
304 cd02525 Succinoglycan_BP_ExoA 31.6 3.6E+02 0.0079 24.5 9.3 90 117-220 16-111 (249)
305 PF13465 zf-H2C2_2: Zinc-finge 31.5 25 0.00055 22.1 1.0 11 383-393 14-24 (26)
306 KOG3576 Ovo and related transc 31.4 14 0.0003 35.5 -0.4 78 295-406 139-235 (267)
307 PRK06882 acetolactate synthase 31.4 2.7E+02 0.0059 30.2 9.5 88 169-262 421-532 (574)
308 PF14803 Nudix_N_2: Nudix N-te 31.3 20 0.00043 24.5 0.5 28 365-392 2-31 (34)
309 cd04196 GT_2_like_d Subfamily 31.2 3.7E+02 0.0081 23.8 10.5 86 175-265 13-108 (214)
310 KOG2272 Focal adhesion protein 31.2 26 0.00057 34.6 1.5 90 290-393 120-231 (332)
311 PRK06965 acetolactate synthase 31.2 2.1E+02 0.0046 31.3 8.7 88 169-262 437-548 (587)
312 PLN02235 ATP citrate (pro-S)-l 31.0 2.2E+02 0.0047 30.4 8.3 126 126-260 266-414 (423)
313 PF02591 DUF164: Putative zinc 30.9 19 0.00042 26.8 0.4 30 363-392 22-55 (56)
314 PRK08322 acetolactate synthase 30.8 1.9E+02 0.0041 31.2 8.2 91 167-263 404-516 (547)
315 PRK03564 formate dehydrogenase 30.6 36 0.00079 34.6 2.4 41 365-413 214-260 (309)
316 PTZ00083 40S ribosomal protein 30.6 23 0.00051 29.2 0.8 26 306-331 37-67 (85)
317 PF15135 UPF0515: Uncharacteri 30.4 35 0.00076 33.7 2.2 54 364-420 133-189 (278)
318 PRK08979 acetolactate synthase 30.3 2.3E+02 0.005 30.9 8.7 88 169-262 421-532 (572)
319 PRK15404 leucine ABC transport 30.1 2.9E+02 0.0063 28.0 9.0 52 170-222 44-95 (369)
320 cd02338 ZZ_PCMF_like Zinc fing 30.1 27 0.00058 25.6 1.0 29 365-399 2-32 (49)
321 COG1198 PriA Primosomal protei 30.1 34 0.00074 38.8 2.3 39 364-414 436-484 (730)
322 cd04919 ACT_AK-Hom3_2 ACT doma 30.0 1.4E+02 0.0029 22.0 5.0 36 194-229 4-39 (66)
323 PRK07789 acetolactate synthase 29.9 2.6E+02 0.0056 30.8 9.1 89 169-263 447-563 (612)
324 cd06349 PBP1_ABC_ligand_bindin 29.8 2.2E+02 0.0048 28.0 7.9 30 169-198 17-46 (340)
325 PRK11788 tetratricopeptide rep 29.8 29 0.00063 34.8 1.6 24 304-327 354-377 (389)
326 PRK09124 pyruvate dehydrogenas 29.7 2.5E+02 0.0055 30.5 9.0 88 170-263 409-518 (574)
327 PRK09545 znuA high-affinity zi 29.4 1.5E+02 0.0032 30.0 6.5 43 205-247 238-280 (311)
328 PF03660 PHF5: PHF5-like prote 29.4 17 0.00036 31.2 -0.2 28 292-326 8-35 (106)
329 PRK05858 hypothetical protein; 29.4 2.4E+02 0.0052 30.5 8.7 89 169-263 407-518 (542)
330 cd01017 AdcA Metal binding pro 29.3 1.5E+02 0.0032 29.2 6.5 44 204-247 205-248 (282)
331 cd03376 TPP_PFOR_porB_like Thi 29.2 3.6E+02 0.0078 26.0 9.0 89 169-262 62-187 (235)
332 PRK03815 murD UDP-N-acetylmura 29.1 5.2E+02 0.011 27.0 10.8 43 192-238 300-342 (401)
333 PF12773 DZR: Double zinc ribb 29.1 47 0.001 23.8 2.2 39 362-411 11-49 (50)
334 COG1579 Zn-ribbon protein, pos 29.0 21 0.00046 35.0 0.4 55 330-392 172-230 (239)
335 PF12646 DUF3783: Domain of un 28.6 1.2E+02 0.0027 22.8 4.5 43 195-240 4-53 (58)
336 KOG2813 Predicted molecular ch 28.5 68 0.0015 33.0 3.8 69 292-398 187-263 (406)
337 PF14949 ARF7EP_C: ARF7 effect 28.5 31 0.00067 29.5 1.3 19 364-395 68-86 (103)
338 PRK12286 rpmF 50S ribosomal pr 28.4 58 0.0013 24.8 2.6 21 304-326 27-48 (57)
339 cd06355 PBP1_FmdD_like Peripla 28.3 3.7E+02 0.0079 26.8 9.3 75 168-243 16-92 (348)
340 PHA02926 zinc finger-like prot 28.2 40 0.00086 32.9 2.1 52 362-413 169-227 (242)
341 PRK00762 hypA hydrogenase nick 28.2 31 0.00067 30.3 1.3 9 364-373 71-79 (124)
342 KOG2228 Origin recognition com 28.2 7.3E+02 0.016 26.2 14.1 97 170-266 116-223 (408)
343 PF14835 zf-RING_6: zf-RING of 27.8 60 0.0013 25.6 2.6 46 365-420 9-55 (65)
344 cd04922 ACT_AKi-HSDH-ThrA_2 AC 27.7 1.5E+02 0.0033 21.5 5.0 36 194-229 4-39 (66)
345 PRK08527 acetolactate synthase 27.7 4.2E+02 0.0091 28.8 10.2 88 169-262 414-525 (563)
346 PF13842 Tnp_zf-ribbon_2: DDE_ 27.7 53 0.0012 22.0 2.1 15 382-396 15-29 (32)
347 cd06335 PBP1_ABC_ligand_bindin 27.6 2.9E+02 0.0062 27.4 8.3 51 169-220 17-68 (347)
348 PRK09107 acetolactate synthase 27.5 3.2E+02 0.007 30.0 9.3 88 169-262 430-541 (595)
349 cd04195 GT2_AmsE_like GT2_AmsE 27.3 3.9E+02 0.0084 23.6 8.5 81 177-261 17-105 (201)
350 TIGR03457 sulphoacet_xsc sulfo 27.2 2.4E+02 0.0052 30.8 8.2 89 169-263 430-542 (579)
351 COG4888 Uncharacterized Zn rib 27.2 28 0.00061 29.7 0.8 24 304-327 22-55 (104)
352 cd03371 TPP_PpyrDC Thiamine py 27.1 4.5E+02 0.0097 24.3 9.0 71 190-263 66-151 (188)
353 cd01407 SIR2-fam SIR2 family o 26.9 48 0.001 31.5 2.4 40 384-424 110-152 (218)
354 PRK14873 primosome assembly pr 26.8 42 0.00091 37.7 2.3 39 363-414 383-431 (665)
355 PRK07119 2-ketoisovalerate fer 26.8 2.5E+02 0.0054 28.9 7.8 68 191-261 247-318 (352)
356 PRK07524 hypothetical protein; 26.8 2.4E+02 0.0053 30.3 8.1 89 169-263 407-517 (535)
357 COG1656 Uncharacterized conser 26.8 28 0.00061 32.3 0.8 30 364-393 98-140 (165)
358 cd06341 PBP1_ABC_ligand_bindin 26.7 4E+02 0.0087 26.1 9.1 60 169-229 17-77 (341)
359 TIGR01556 rhamnosyltran L-rham 26.6 5.3E+02 0.011 24.6 9.8 52 170-225 57-108 (281)
360 TIGR01562 FdhE formate dehydro 26.4 39 0.00084 34.4 1.7 46 321-391 187-232 (305)
361 CHL00099 ilvB acetohydroxyacid 26.2 3.5E+02 0.0076 29.6 9.3 88 169-262 430-542 (585)
362 KOG2858 Uncharacterized conser 26.2 34 0.00074 35.4 1.3 40 363-411 17-57 (390)
363 cd04924 ACT_AK-Arch_2 ACT doma 26.0 1.8E+02 0.0039 21.1 5.0 36 194-229 4-39 (66)
364 KOG4399 C2HC-type Zn-finger pr 25.9 24 0.00053 35.0 0.2 28 385-413 251-282 (325)
365 cd02344 ZZ_HERC2 Zinc finger, 25.9 46 0.001 24.2 1.6 29 365-399 2-32 (45)
366 cd01979 Pchlide_reductase_N Pc 25.9 4.7E+02 0.01 27.1 9.8 77 208-288 288-371 (396)
367 COG1545 Predicted nucleic-acid 25.8 46 0.00099 29.8 2.0 24 304-327 29-52 (140)
368 PF01155 HypA: Hydrogenase exp 25.8 32 0.0007 29.6 0.9 27 382-414 69-95 (113)
369 PRK07591 threonine synthase; V 25.7 52 0.0011 34.7 2.6 28 304-331 18-46 (421)
370 PF14353 CpXC: CpXC protein 25.7 41 0.00089 29.1 1.6 21 383-403 38-58 (128)
371 PRK08617 acetolactate synthase 25.5 2E+02 0.0043 31.1 7.2 70 190-262 432-523 (552)
372 PRK08329 threonine synthase; V 25.5 37 0.0008 34.7 1.5 41 305-346 2-54 (347)
373 PF02780 Transketolase_C: Tran 25.4 87 0.0019 26.7 3.6 49 192-243 11-63 (124)
374 PF06957 COPI_C: Coatomer (COP 25.4 40 0.00086 35.8 1.7 43 290-332 362-410 (422)
375 cd01973 Nitrogenase_VFe_beta_l 25.3 8.5E+02 0.018 26.0 12.2 78 208-285 317-411 (454)
376 TIGR03111 glyc2_xrt_Gpos1 puta 25.3 4E+02 0.0086 28.0 9.2 57 209-265 95-160 (439)
377 PF02875 Mur_ligase_C: Mur lig 25.1 88 0.0019 25.0 3.4 49 175-225 27-78 (91)
378 PRK11869 2-oxoacid ferredoxin 24.9 3.1E+02 0.0067 27.5 7.8 88 169-262 60-180 (280)
379 KOG1812 Predicted E3 ubiquitin 24.9 46 0.00099 34.8 2.0 90 304-412 258-352 (384)
380 cd07041 STAS_RsbR_RsbS_like Su 24.9 2.5E+02 0.0055 22.9 6.3 42 191-232 42-86 (109)
381 PF03854 zf-P11: P-11 zinc fin 24.8 20 0.00043 26.6 -0.5 25 304-328 21-45 (50)
382 KOG1842 FYVE finger-containing 24.8 21 0.00044 38.0 -0.6 43 356-402 173-215 (505)
383 PF07282 OrfB_Zn_ribbon: Putat 24.7 65 0.0014 24.6 2.4 31 361-393 26-56 (69)
384 TIGR03844 cysteate_syn cysteat 24.7 48 0.001 34.8 2.1 22 304-325 2-24 (398)
385 PLN03049 pyridoxine (pyridoxam 24.6 1.7E+02 0.0038 31.4 6.4 53 175-229 44-96 (462)
386 PF05596 Taeniidae_ag: Taeniid 24.6 72 0.0016 25.0 2.6 27 105-131 4-30 (64)
387 KOG2041 WD40 repeat protein [G 24.6 62 0.0013 36.7 3.0 59 307-411 1120-1180(1189)
388 smart00547 ZnF_RBZ Zinc finger 24.6 41 0.00089 20.8 1.0 24 304-327 2-25 (26)
389 PRK06048 acetolactate synthase 24.5 3.3E+02 0.0072 29.5 8.7 88 169-262 414-525 (561)
390 PRK08266 hypothetical protein; 24.4 4.2E+02 0.0091 28.5 9.4 88 169-262 402-512 (542)
391 PF07295 DUF1451: Protein of u 24.4 51 0.0011 29.9 2.0 29 382-414 111-139 (146)
392 COG4530 Uncharacterized protei 24.3 39 0.00085 29.3 1.2 25 304-328 9-36 (129)
393 PRK07710 acetolactate synthase 24.3 4.4E+02 0.0095 28.7 9.6 88 170-263 425-536 (571)
394 PRK06163 hypothetical protein; 24.2 3.9E+02 0.0084 25.3 8.0 70 190-262 75-160 (202)
395 PF13458 Peripla_BP_6: Peripla 24.2 2.6E+02 0.0056 27.2 7.2 79 169-248 19-99 (343)
396 PF12675 DUF3795: Protein of u 24.0 44 0.00096 26.7 1.4 24 392-415 7-44 (78)
397 PRK11823 DNA repair protein Ra 23.9 45 0.00098 35.5 1.8 24 304-327 7-30 (446)
398 PRK12496 hypothetical protein; 23.9 40 0.00087 31.0 1.2 25 364-392 128-152 (164)
399 cd06352 PBP1_NPR_GC_like Ligan 23.9 3.4E+02 0.0074 27.2 8.2 54 168-222 16-71 (389)
400 KOG1812 Predicted E3 ubiquitin 23.8 32 0.0007 36.0 0.7 40 365-404 240-279 (384)
401 cd01019 ZnuA Zinc binding prot 23.8 2.1E+02 0.0046 28.3 6.5 44 203-246 212-255 (286)
402 PF06221 zf-C2HC5: Putative zi 23.8 59 0.0013 24.9 1.9 45 291-335 3-52 (57)
403 KOG0825 PHD Zn-finger protein 23.5 25 0.00053 40.0 -0.3 47 362-413 122-168 (1134)
404 KOG2857 Predicted MYND Zn-fing 23.5 34 0.00074 31.0 0.7 14 305-318 18-31 (157)
405 KOG2879 Predicted E3 ubiquitin 23.5 1E+02 0.0022 31.0 3.9 10 383-392 276-285 (298)
406 PRK08199 thiamine pyrophosphat 23.3 3.9E+02 0.0086 28.9 9.0 88 169-262 415-525 (557)
407 cd06334 PBP1_ABC_ligand_bindin 23.3 4.1E+02 0.009 26.7 8.6 60 168-229 16-76 (351)
408 PRK06466 acetolactate synthase 23.3 3.9E+02 0.0084 29.1 8.9 88 169-262 423-534 (574)
409 PRK10220 hypothetical protein; 23.3 50 0.0011 28.6 1.6 23 386-413 6-28 (111)
410 PRK03824 hypA hydrogenase nick 23.2 54 0.0012 29.2 1.9 11 304-314 70-80 (135)
411 PF13911 AhpC-TSA_2: AhpC/TSA 23.2 1.4E+02 0.0031 24.8 4.4 37 210-247 4-40 (115)
412 PRK08659 2-oxoglutarate ferred 23.2 3E+02 0.0065 28.6 7.6 69 191-262 274-346 (376)
413 cd01018 ZntC Metal binding pro 23.1 3E+02 0.0064 26.8 7.3 44 204-247 202-245 (266)
414 cd04916 ACT_AKiii-YclM-BS_2 AC 23.1 2E+02 0.0044 20.8 4.9 36 194-229 4-39 (66)
415 smart00440 ZnF_C2C2 C2C2 Zinc 23.1 53 0.0012 23.0 1.5 15 379-393 24-38 (40)
416 PF08459 UvrC_HhH_N: UvrC Heli 23.0 73 0.0016 29.2 2.7 33 194-230 82-114 (155)
417 TIGR03863 PQQ_ABC_bind ABC tra 23.0 4.4E+02 0.0095 26.8 8.7 78 167-246 9-87 (347)
418 PF03119 DNA_ligase_ZBD: NAD-d 22.9 37 0.00081 22.0 0.6 14 320-333 1-14 (28)
419 TIGR02418 acolac_catab acetola 22.9 4.6E+02 0.01 28.2 9.4 88 169-262 408-517 (539)
420 PRK06456 acetolactate synthase 22.9 4.1E+02 0.0089 28.9 9.0 88 169-262 421-532 (572)
421 KOG2177 Predicted E3 ubiquitin 22.7 34 0.00074 32.2 0.6 43 362-412 12-54 (386)
422 PF10122 Mu-like_Com: Mu-like 22.7 37 0.00081 25.4 0.6 31 363-393 4-34 (51)
423 COG1439 Predicted nucleic acid 22.7 54 0.0012 30.8 1.8 27 304-330 139-165 (177)
424 COG1957 URH1 Inosine-uridine n 22.7 2.7E+02 0.0059 28.4 7.0 100 107-241 96-210 (311)
425 PF00462 Glutaredoxin: Glutare 22.7 3E+02 0.0066 19.9 6.3 46 194-242 1-46 (60)
426 PRK14093 UDP-N-acetylmuramoyla 22.6 3.9E+02 0.0084 28.5 8.6 16 249-264 428-443 (479)
427 cd03466 Nitrogenase_NifN_2 Nit 22.6 9.1E+02 0.02 25.3 14.8 78 207-285 311-402 (429)
428 cd04914 ACT_AKi-DapG-BS_1 ACT 22.6 2.8E+02 0.006 21.2 5.6 25 204-228 12-36 (67)
429 PRK03681 hypA hydrogenase nick 22.6 40 0.00086 29.1 0.9 26 363-391 70-95 (114)
430 PRK07586 hypothetical protein; 22.5 4.9E+02 0.011 27.8 9.4 88 169-262 385-502 (514)
431 KOG0804 Cytoplasmic Zn-finger 22.5 27 0.00059 37.1 -0.2 60 321-395 178-252 (493)
432 KOG3362 Predicted BBOX Zn-fing 22.5 39 0.00084 30.7 0.8 39 337-396 104-142 (156)
433 cd06342 PBP1_ABC_LIVBP_like Ty 22.4 4.6E+02 0.01 25.3 8.6 50 170-220 18-67 (334)
434 cd06345 PBP1_ABC_ligand_bindin 22.3 5.2E+02 0.011 25.4 9.0 17 169-185 17-33 (344)
435 COG3357 Predicted transcriptio 22.3 53 0.0011 27.6 1.5 27 364-392 59-85 (97)
436 TIGR00197 yjeF_nterm yjeF N-te 22.2 3E+02 0.0066 25.9 6.9 38 190-229 45-82 (205)
437 PHA00626 hypothetical protein 22.2 48 0.001 25.4 1.1 15 381-395 21-35 (59)
438 KOG4602 Nanos and related prot 22.1 44 0.00096 33.2 1.2 25 275-299 216-243 (318)
439 PRK06546 pyruvate dehydrogenas 22.0 3.3E+02 0.0071 29.8 8.0 88 169-262 408-517 (578)
440 PF14206 Cys_rich_CPCC: Cystei 21.9 55 0.0012 26.6 1.5 21 305-325 2-27 (78)
441 smart00184 RING Ring finger. E 21.9 35 0.00076 21.7 0.3 26 386-411 13-39 (39)
442 cd04918 ACT_AK1-AT_2 ACT domai 21.9 2.1E+02 0.0045 21.5 4.7 36 193-229 3-38 (65)
443 PRK11269 glyoxylate carboligas 21.8 5.5E+02 0.012 28.1 9.7 88 169-262 419-539 (591)
444 cd06348 PBP1_ABC_ligand_bindin 21.7 3.4E+02 0.0073 26.7 7.5 12 171-182 52-63 (344)
445 TIGR03394 indol_phenyl_DC indo 21.7 3.7E+02 0.0081 29.1 8.4 89 167-262 401-507 (535)
446 cd06437 CESA_CaSu_A2 Cellulose 21.7 5.6E+02 0.012 23.4 8.6 35 218-252 59-97 (232)
447 TIGR00375 conserved hypothetic 21.7 28 0.0006 36.4 -0.3 10 335-344 290-299 (374)
448 TIGR00118 acolac_lg acetolacta 21.4 4.7E+02 0.01 28.3 9.0 89 169-263 412-524 (558)
449 PF10825 DUF2752: Protein of u 21.4 30 0.00065 25.7 -0.1 15 320-342 11-25 (52)
450 COG0075 Serine-pyruvate aminot 21.3 7E+02 0.015 26.3 9.8 104 152-259 17-127 (383)
451 cd06533 Glyco_transf_WecG_TagA 21.3 2E+02 0.0044 26.2 5.4 73 207-285 33-113 (171)
452 PRK00420 hypothetical protein; 21.1 69 0.0015 27.9 2.0 27 363-392 23-49 (112)
453 PLN03086 PRLI-interacting fact 21.1 77 0.0017 35.0 2.9 48 364-413 454-512 (567)
454 TIGR00570 cdk7 CDK-activating 20.8 76 0.0016 32.4 2.6 26 362-392 27-52 (309)
455 PF00641 zf-RanBP: Zn-finger i 20.8 81 0.0018 20.3 1.9 24 304-327 4-27 (30)
456 PRK11425 PTS system N-acetylga 20.7 2.6E+02 0.0055 25.5 5.8 69 191-263 29-98 (157)
457 PF08242 Methyltransf_12: Meth 20.7 28 0.00061 28.0 -0.4 72 89-167 22-97 (99)
458 cd02345 ZZ_dah Zinc finger, ZZ 20.6 57 0.0012 23.9 1.3 29 365-399 2-32 (49)
459 PF05458 Siva: Cd27 binding pr 20.6 36 0.00079 31.8 0.3 30 383-412 139-168 (175)
460 cd06330 PBP1_Arsenic_SBP_like 20.5 6.6E+02 0.014 24.6 9.3 52 170-222 18-70 (346)
461 PF03833 PolC_DP2: DNA polymer 20.5 33 0.00072 39.3 0.0 42 288-333 665-707 (900)
462 PRK09627 oorA 2-oxoglutarate-a 20.4 4.1E+02 0.009 27.7 8.0 70 191-263 275-348 (375)
463 PRK06276 acetolactate synthase 20.4 3.4E+02 0.0074 29.7 7.8 88 169-262 419-530 (586)
464 KOG3362 Predicted BBOX Zn-fing 20.4 57 0.0012 29.7 1.4 71 235-318 69-143 (156)
465 PRK07064 hypothetical protein; 20.2 3.4E+02 0.0073 29.2 7.6 88 170-263 406-516 (544)
466 cd06331 PBP1_AmiC_like Type I 20.2 7.7E+02 0.017 24.1 9.7 52 169-221 17-69 (333)
467 PRK06027 purU formyltetrahydro 20.2 7.4E+02 0.016 24.7 9.5 53 191-247 90-142 (286)
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=4.4e-122 Score=890.88 Aligned_cols=371 Identities=59% Similarity=1.016 Sum_probs=352.1
Q ss_pred ccccccccccccccccccceecCCCccccccchhHHHHHhhhhhhcccccccchhhhhccccceEEEEEeCCHhhhcCCC
Q 014401 25 NGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQKGLIRYLYIVIDLSRAAAEMDF 104 (425)
Q Consensus 25 ~~g~~~We~~y~~~~sW~~l~ed~~g~l~~~~~~~~~~~kr~~~~~~~~~~~~~~~~r~GiiR~lvlvLD~S~SM~a~D~ 104 (425)
.++.|+||++| +||||.|+||++|+|..+++++++.+||||+++ ..++.|+|||||++||||.|++|.++|+
T Consensus 7 ~~~~y~WE~eY--~RsWe~l~ede~Gsl~~~ia~~v~~~krk~~~~------~~t~~r~GiiRhl~iviD~S~am~e~Df 78 (378)
T KOG2807|consen 7 MNKGYTWEGEY--KRSWEILKEDESGSLEKSIASIVNEAKRKRRLR------YSTRIRKGIIRHLYIVIDCSRAMEEKDF 78 (378)
T ss_pred hccccchhhhh--hhhHHHhhcccccchHHHHHHHHHHHHHhhhhh------ccchhhhhhheeEEEEEEhhhhhhhccC
Confidence 34448999999 999999999999999999999999999999985 6689999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCCcchHHHHHHHHHHHHhC
Q 014401 105 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 184 (425)
Q Consensus 105 ~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~ 184 (425)
+|+|+..+.++++.||.+||+|||++|||||+++||.|++++.+|+|++.|+++|+.+..+.|++||||||++|.+.|++
T Consensus 79 ~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~ltgnp~~hI~aL~~~~~~~g~fSLqNaLe~a~~~Lk~ 158 (378)
T KOG2807|consen 79 RPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLTGNPRIHIHALKGLTECSGDFSLQNALELAREVLKH 158 (378)
T ss_pred CchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhcCCHHHHHHHHhcccccCCChHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999999887899999999999999999999
Q ss_pred CCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCC
Q 014401 185 IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPP 264 (425)
Q Consensus 185 ~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~p 264 (425)
+|+|.+||||||++++.|+||+||+++|+++++.+|||++|||++|+.++|+||++|||.|+|+.|++||++||.+++.|
T Consensus 159 ~p~H~sREVLii~sslsT~DPgdi~~tI~~lk~~kIRvsvIgLsaEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~~~P 238 (378)
T KOG2807|consen 159 MPGHVSREVLIIFSSLSTCDPGDIYETIDKLKAYKIRVSVIGLSAEVFICKELCKATGGRYSVALDEGHLKELLLEHTHP 238 (378)
T ss_pred CCcccceEEEEEEeeecccCcccHHHHHHHHHhhCeEEEEEeechhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhcCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchhhhhhceeeecCCCCCCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCC
Q 014401 265 PPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPI 344 (425)
Q Consensus 265 p~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~ 344 (425)
||+.+. .+.+|||||||++...+.|++|+||..++.. ||.||||++++|+||++||+|+|+|||||||||||||||||
T Consensus 239 p~~~~~-~~~sLvkmGFP~~~~e~~ps~C~CH~~~~~~-Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~PL 316 (378)
T KOG2807|consen 239 PPANKS-KECSLVKMGFPSRSPEDTPSFCACHSELSGG-GYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFPL 316 (378)
T ss_pred CCcccc-cCCceEEecCCCcccccCcchheeccccccC-ceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcCC
Confidence 998843 4899999999999999999999999888888 99999999999999999999999999999999999999999
Q ss_pred CCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 014401 345 APFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 415 (425)
Q Consensus 345 ~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~ 415 (425)
++|.|+++ .+..+++.||+|+..+. .+.+|+|+.|+++||.|||+||||+||+||||+++.
T Consensus 317 ~~F~Eip~-----~~~~~~~~Cf~C~~~~~-----~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~~ 377 (378)
T KOG2807|consen 317 KPFVEIPE-----TEYNGSRFCFACQGELL-----SSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHKP 377 (378)
T ss_pred cchhhccc-----cccCCCcceeeeccccC-----CCCcEEchhccceeeccchHHHHhhhhcCCCcCCCC
Confidence 99999964 55667888999964443 346899999999999999999999999999999543
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=1.4e-106 Score=778.16 Aligned_cols=377 Identities=43% Similarity=0.775 Sum_probs=357.0
Q ss_pred cccccccccccccccccccceecCCCccccccchhHHHHHhhhhhhcccccccchhhhhccccceEEEEEeCCHhhhcCC
Q 014401 24 LNGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQKGLIRYLYIVIDLSRAAAEMD 103 (425)
Q Consensus 24 ~~~g~~~We~~y~~~~sW~~l~ed~~g~l~~~~~~~~~~~kr~~~~~~~~~~~~~~~~r~GiiR~lvlvLD~S~SM~a~D 103 (425)
...| |+||++| +||||.+.+|.+|+|...|+++.+.+|+++.. +++++.|||||||++|+||+|++|.+.|
T Consensus 34 ~n~g-ysWE~Ey--kRsWd~v~~d~eg~l~~vva~~~~~~k~~~~~------~~~tp~qrGIiRhl~l~lD~Seam~e~D 104 (421)
T COG5151 34 MNKG-YSWEQEY--KRSWDDVNDDKEGSLVGVVAEFNLETKAPYSN------NRTTPLQRGIIRHLHLILDVSEAMDESD 104 (421)
T ss_pred cccC-cchHHhh--hhhhhhhcccccccHHHHHHHHHHhccccccc------cCCChhhhhhhheeEEEEEhhhhhhhhh
Confidence 3445 8999999 99999999999999999999999998888765 5999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCCcchHHHHHHHHHHHHh
Q 014401 104 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLS 183 (425)
Q Consensus 104 ~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~ 183 (425)
+.|+|.....+++.+||.+||+|||++|++||.++||-|..++.+.+|+++|+.+|.++.++.|++||||||+||...|.
T Consensus 105 f~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~~~s~~~gnpq~hi~~lkS~rd~~gnfSLqNaLEmar~~l~ 184 (421)
T COG5151 105 FLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAKYTSSMDGNPQAHIGQLKSKRDCSGNFSLQNALEMARIELM 184 (421)
T ss_pred ccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHHHHhhhcCCCHHHHHHHhhcccccCCChhHHhHHHHhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999988899999999999999999998
Q ss_pred CCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhh----CCeEEEecCHhHHHHHHH
Q 014401 184 QIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDT----GGSYSVALDESHFKELIM 259 (425)
Q Consensus 184 ~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~T----GG~Y~~~~d~~~L~~lL~ 259 (425)
+.+.|++||||||+||..+.|||+|.++|+.+...+|||.+|||.+++.++|+|++.| .|.|+++.|++||++|+.
T Consensus 185 ~~~~H~trEvLiifgS~st~DPgdi~~tid~Lv~~~IrV~~igL~aevaicKeickaTn~~~e~~y~v~vde~Hl~el~~ 264 (421)
T COG5151 185 KNTMHGTREVLIIFGSTSTRDPGDIAETIDKLVAYNIRVHFIGLCAEVAICKEICKATNSSTEGRYYVPVDEGHLSELMR 264 (421)
T ss_pred ccccccceEEEEEEeecccCCCccHHHHHHHHHhhceEEEEEeehhHHHHHHHHHhhcCcCcCceeEeeecHHHHHHHHH
Confidence 8889999999999999999999999999999999999999999999999999999999 699999999999999999
Q ss_pred hcCCCCccchhhhhhceeeecCCCCCCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhc
Q 014401 260 EHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYH 339 (425)
Q Consensus 260 ~~~~pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyh 339 (425)
+...||+........+|+|||||++.-++.|++|+||.+++.+ ||.||+|++++|+||+.||+|.|+||+|+|||||||
T Consensus 265 E~~~P~~~n~~k~~~sLVkmGFPs~~~E~~Ps~CaCHs~~~~g-Gy~CP~CktkVCsLPi~CP~Csl~LilsthLarSyh 343 (421)
T COG5151 265 ELSHPTDFNGTKTDLSLVKMGFPSPMMEQLPSVCACHSEVKGG-GYECPVCKTKVCSLPISCPICSLQLILSTHLARSYH 343 (421)
T ss_pred hcCCCCCCCccccCceEEEecCCchhhhcCccceeeeeeeccC-ceeCCcccceeecCCccCcchhHHHHHHHHHHHHHH
Confidence 9999999876667789999999999999999999999999999 999999999999999999999999999999999999
Q ss_pred ccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC------CCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 340 HLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN------KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 340 hlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~------~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
|||||++|.|+++ .+...++.||.||.+||.+.. ..+++|+|+.|++.||.|||+||||+||+||||+.
T Consensus 344 hL~PLk~f~E~p~-----~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 344 HLYPLKPFVEKPE-----GTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred hhccCcccccccC-----CCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 9999999999964 455568899999999998752 34679999999999999999999999999999987
Q ss_pred CC
Q 014401 414 LR 415 (425)
Q Consensus 414 ~~ 415 (425)
..
T Consensus 419 ~~ 420 (421)
T COG5151 419 PH 420 (421)
T ss_pred CC
Confidence 53
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=2.7e-54 Score=402.19 Aligned_cols=191 Identities=53% Similarity=0.959 Sum_probs=185.5
Q ss_pred EEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh--cCCCcc
Q 014401 92 VIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDS 169 (425)
Q Consensus 92 vLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l--~~~G~t 169 (425)
|||+|.+|.++|++||||.++++++++||++||+|||++|||||+++||.|+++++|++|+++|+++|.+.. .+.|++
T Consensus 1 viD~S~~m~~~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls~lsgn~~~h~~~L~~~~~~~~~G~~ 80 (193)
T PF04056_consen 1 VIDMSEAMREKDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLSELSGNPQEHIEALKKLRKLEPSGEP 80 (193)
T ss_pred CeechHhHHhCcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEeeecCCCHHHHHHHHHHhccCCCCCCh
Confidence 699999999999999999999999999999999999999999999999999999999999999999998765 799999
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEec
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVAL 249 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~ 249 (425)
||||||++|...|++.|+|++||||||+|++.++||+||+++++.+++++|||++|||++|+++||+||++|||.|.+++
T Consensus 81 SLqN~Le~A~~~L~~~p~~~srEIlvi~gSl~t~Dp~di~~ti~~l~~~~IrvsvI~laaEv~I~k~i~~~T~G~y~V~l 160 (193)
T PF04056_consen 81 SLQNGLEMARSSLKHMPSHGSREILVIFGSLTTCDPGDIHETIESLKKENIRVSVISLAAEVYICKKICKETGGTYGVIL 160 (193)
T ss_pred hHHHHHHHHHHHHhhCccccceEEEEEEeecccCCchhHHHHHHHHHHcCCEEEEEEEhHHHHHHHHHHHhhCCEEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHhHHHHHHHhcCCCCccchhhhhhceeeecCC
Q 014401 250 DESHFKELIMEHAPPPPAIAEFAIANLIKMGFP 282 (425)
Q Consensus 250 d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP 282 (425)
|++||+++|+++++||++.+...+++||+||||
T Consensus 161 de~H~~~lL~~~~~PP~~~~~~~~~~Li~mGFP 193 (193)
T PF04056_consen 161 DEDHFKELLMEHVPPPPTSSSKSEASLIKMGFP 193 (193)
T ss_pred CHHHHHHHHHhhCCCCcccccCCCCCEEEecCC
Confidence 999999999999999999854458999999999
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=5.2e-49 Score=333.90 Aligned_cols=105 Identities=50% Similarity=1.134 Sum_probs=95.0
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC-----
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN----- 378 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~----- 378 (425)
||+||||+||||+||++|++|||||||||||||||||||||++|+||+|+ +...++.||||+++|++++.
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 33446789999999986531
Q ss_pred -CCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 379 -KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 379 -~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
..+++|+|++|+++||+|||+||||+|||||||++
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
>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=2.7e-40 Score=306.87 Aligned_cols=183 Identities=57% Similarity=0.974 Sum_probs=170.5
Q ss_pred cccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh
Q 014401 84 GLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL 163 (425)
Q Consensus 84 GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l 163 (425)
||||++||+||+|+||.+.|+.||||+++++.+.+|++.++++||.+|+|||+|+++.|++++|||.|.+.++..|....
T Consensus 1 ~~~r~ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~PlT~D~~~~~~~L~~~~ 80 (183)
T cd01453 1 GIMRHLIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLTDLTGNPRKHIQALKTAR 80 (183)
T ss_pred CceeEEEEEEECcHHHhcCCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEECCCCCHHHHHHHhhccc
Confidence 89999999999999999999999999999999999999999999999999999977999999999999998888887654
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCC
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGG 243 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG 243 (425)
.+.|+|+|..||++|...|++.+....++||||+++..+.+++++.++++.++++||+|++||+|+++.+|++||+.|||
T Consensus 81 ~~~G~t~l~~aL~~A~~~l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~~tgG 160 (183)
T cd01453 81 ECSGEPSLQNGLEMALESLKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICKATNG 160 (183)
T ss_pred CCCCchhHHHHHHHHHHHHhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHHHhCC
Confidence 56788999999999999998765555678999998877777878888999999999999999999999999999999999
Q ss_pred eEEEecCHhHHHHHHHhcCCCCc
Q 014401 244 SYSVALDESHFKELIMEHAPPPP 266 (425)
Q Consensus 244 ~Y~~~~d~~~L~~lL~~~~~pp~ 266 (425)
+||.+.|.++|.++|..+..||+
T Consensus 161 ~~~~~~~~~~l~~~~~~~~~p~~ 183 (183)
T cd01453 161 TYKVILDETHLKELLLEHVTPPP 183 (183)
T ss_pred eeEeeCCHHHHHHHHHhcCCCCC
Confidence 99999999999999999999985
No 6
>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=4e-40 Score=322.90 Aligned_cols=233 Identities=16% Similarity=0.312 Sum_probs=195.7
Q ss_pred eEEEEEeCCHhhh---cCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC---------CH---
Q 014401 88 YLYIVIDLSRAAA---EMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG---------SP--- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~---a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~---------d~--- 152 (425)
-++||||+++--+ +.+-.+.-|..+++.+..|+|.|+..|+.+||+||+.+.+.+..++|-+. +.
T Consensus 4 lL~vvlD~np~~W~~~~~~~~~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~~~~ 83 (279)
T TIGR00627 4 LLVVIIEANPCSWGMLALAHGKRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDPKRL 83 (279)
T ss_pred EEEEEEeCCHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCccccccccccccccc
Confidence 5899999999876 22223668999999999999999999999999999999999999999741 00
Q ss_pred ------------HHHHHHHhhhh---c----CCCcchHHHHHHHHHHHHhCCC------CCCCcEEEEEEeCCC-CCCcc
Q 014401 153 ------------ESHIKALMGKL---G----CSGDSSLQNALDLVQGLLSQIP------SYGHREVLILYSALS-TCDPG 206 (425)
Q Consensus 153 ------------~~~i~~L~~~l---~----~~G~tsL~~AL~~A~~~L~~~p------~~~sreILVI~~s~~-t~dp~ 206 (425)
+.+++.|.+++ . ..+.+.|..||.+|++++++.. ...++|||||.++.+ ..++.
T Consensus 84 ~~~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~~~~qYi 163 (279)
T TIGR00627 84 RELLYRDFRTVDETIVEEIKPLMAHADKHMKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITPDMALQYI 163 (279)
T ss_pred cchhccchhHHHHHHHHHHHHHHhhchhcccccccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCCchHHHH
Confidence 12344444332 1 1256789999999999998741 234678999987654 36778
Q ss_pred CHHHHHHHHHhCCcEEEEEEecch--HHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014401 207 DIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~e--~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~ 284 (425)
.+|++|+.||+.+|+||+|+|+++ +.+|||+|++|||.|+++.+++||.++|+.++.||+.. +..|++ |++
T Consensus 164 ~~mn~Ifaaqk~~I~Idv~~L~~e~~~~~lqQa~~~TgG~Y~~~~~~~~L~q~L~~~~~pp~~~----r~~Li~---P~~ 236 (279)
T TIGR00627 164 PLMNCIFSAQKQNIPIDVVSIGGDFTSGFLQQAADITGGSYLHVKKPQGLLQYLMTNMLPDPTL----RAVLSK---PNH 236 (279)
T ss_pred HHHHHHHHHHHcCceEEEEEeCCccccHHHHHHHHHhCCEEeccCCHhHHHHHHHHhcCCChhh----hHhhcC---CCC
Confidence 899999999999999999999987 99999999999999999999999999998888887754 345765 999
Q ss_pred CCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCcee
Q 014401 285 AGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 285 ~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
..++++++||||++++++ ||+||+|+||||++|++|++||+.|
T Consensus 237 ~~vd~ra~CfCh~k~v~~-GyvCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 237 NSVDYRASCFCHHQLVSI-GFVCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred CCCCCcceeeecCccccc-eEECCCccCCcCCCCCCCCCCCCCC
Confidence 999999999999999999 9999999999999999999999864
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=6.4e-35 Score=286.63 Aligned_cols=229 Identities=20% Similarity=0.328 Sum_probs=186.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--------C--------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--------S-------- 151 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--------d-------- 151 (425)
-++||||+++.-+..=-.+..|..+++.+..|+|.|+..|+.|+|+||+.+.+.++.++|... +
T Consensus 3 LLvIILD~nP~~W~~~~~~~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~~~ 82 (276)
T PF03850_consen 3 LLVIILDTNPLAWGQLSDQLSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSSDS 82 (276)
T ss_pred EEEEEEECCHHHHhhccccccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCccccccccc
Confidence 589999999998766555689999999999999999999999999999999999999999876 0
Q ss_pred --H-------HHHHHHHhhhhc-------CCCcchHHHHHHHHHHHHhCC----C---CCCCcEEEE-EEeCC-CCCCcc
Q 014401 152 --P-------ESHIKALMGKLG-------CSGDSSLQNALDLVQGLLSQI----P---SYGHREVLI-LYSAL-STCDPG 206 (425)
Q Consensus 152 --~-------~~~i~~L~~~l~-------~~G~tsL~~AL~~A~~~L~~~----p---~~~sreILV-I~~s~-~t~dp~ 206 (425)
+ +.+.+.|.+.+. ....+.|..||.+|++++++. + ..-++|||| +.++. ...++.
T Consensus 83 ~~y~~f~~v~~~v~~~l~~l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~~~QYi 162 (276)
T PF03850_consen 83 NKYRQFRNVDETVLEELKKLMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDSSSQYI 162 (276)
T ss_pred chhHHHHHHHHHHHHHHHHHHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCccHHHH
Confidence 0 112333333321 112379999999999999875 1 134558999 66544 346778
Q ss_pred CHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhhCCeEEEecCHhH-HHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014401 207 DIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESH-FKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA~~TGG~Y~~~~d~~~-L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~ 284 (425)
.+|++|+.|+|.+|.||++.||. +..+|||+|+.|||.|+.+.+.+. +++|++.++++|..| ..| -.|.+
T Consensus 163 ~~MN~iFaAqk~~v~IDv~~L~~~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L~~~fl~~~~~R-----~~l---~~p~~ 234 (276)
T PF03850_consen 163 PLMNCIFAAQKQKVPIDVCKLGGKDSTFLQQASDITGGIYLKVSKPEGLLQYLLTAFLPDPSSR-----SFL---ILPTQ 234 (276)
T ss_pred HHHHHHHHHhcCCceeEEEEecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHHHH-----hhc---cCCCC
Confidence 89999999999999999999999 899999999999999999877655 555566666555544 444 37999
Q ss_pred CCCCCcceeeecCCccccCeEEcCCCCccccCCCC--CCCCCC
Q 014401 285 AGEGSISICSCHKEVKVGVGYTCPRCKARVCELPT--DCRICG 325 (425)
Q Consensus 285 ~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~--~C~~C~ 325 (425)
..+|||+.||||++.++. |||||+|+|+||++|. +|++||
T Consensus 235 ~~vd~ra~Cfch~k~vd~-g~vCsvCLsIfc~~p~~~~C~tC~ 276 (276)
T PF03850_consen 235 SSVDFRASCFCHRKVVDI-GYVCSVCLSIFCEFPDGGICPTCG 276 (276)
T ss_pred CCCCcceeeeecCCcccc-eeEchhhhhhhhCCCCCCCCCCCC
Confidence 999999999999999999 9999999999999984 999997
No 8
>KOG2487 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=4.2e-33 Score=265.83 Aligned_cols=234 Identities=16% Similarity=0.261 Sum_probs=190.2
Q ss_pred ceEEEEEeCCH---hhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeC--------------CC
Q 014401 87 RYLYIVIDLSR---AAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTD--------------LG 149 (425)
Q Consensus 87 R~lvlvLD~S~---SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lsp--------------LT 149 (425)
.-++++||.++ .|.+.--.---+...++++..|.|+++.+|..+|++||+.+...-..++| ++
T Consensus 24 slL~vlId~~p~~Wg~~as~~~~~ti~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~n~~~~~~t 103 (314)
T KOG2487|consen 24 SLLVVLIDANPCSWGMLASAENWETISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDRNASELDPT 103 (314)
T ss_pred eeEEEEEecCcchhhhhhhhcCceeHHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCccCccccCch
Confidence 36899999999 66544333347788999999999999999999999999997777778888 22
Q ss_pred ----CCH-------HHHHHHHhhhhc-----CCC-cchHHHHHHHHHHHHhCCCCC-----CCcEEEEEEeCC-CCCCcc
Q 014401 150 ----GSP-------ESHIKALMGKLG-----CSG-DSSLQNALDLVQGLLSQIPSY-----GHREVLILYSAL-STCDPG 206 (425)
Q Consensus 150 ----~d~-------~~~i~~L~~~l~-----~~G-~tsL~~AL~~A~~~L~~~p~~-----~sreILVI~~s~-~t~dp~ 206 (425)
.++ +.+++.|..++. ..| .+-+.+||..|+.++.+.... .+.|||||.-+. ...+++
T Consensus 104 ~~~~~~y~~~~~~d~tiv~ei~~lm~~~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSRilV~t~t~d~~~qyi 183 (314)
T KOG2487|consen 104 RLVLFDYSEFRTVDDTIVEEIYRLMEHPDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSRILVFTLTRDRALQYI 183 (314)
T ss_pred hhhcchhhhhcccchHHHHHHHHHHhCccccccccceeeccchhhccchHhhhhhhhhhhhhhceEEEEEechHHHhhhh
Confidence 111 233455554431 122 678999999999999875322 256799997543 346789
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHh-HHHHHHHhcCCCCccchhhhhhceeeecCCCCC
Q 014401 207 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES-HFKELIMEHAPPPPAIAEFAIANLIKMGFPQRA 285 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~-~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~~ 285 (425)
.+|+.|+.|+|.||+|+++.||.+..+|||.|++|||.|..+.+.+ -|++|++.+++.|..+ +.|+ -|.+.
T Consensus 184 ~~MNciFaAqKq~I~Idv~~l~~~s~~LqQa~D~TGG~YL~v~~~~gLLqyLlt~~~~D~~~R-----~~l~---kpnh~ 255 (314)
T KOG2487|consen 184 PYMNCIFAAQKQNIPIDVVSLGGDSGFLQQACDITGGDYLHVEKPDGLLQYLLTLLLTDPELR-----AVLS---KPNHN 255 (314)
T ss_pred hHHHHHHHHHhcCceeEEEEecCCchHHHHHHhhcCCeeEecCCcchHHHHHHHHhcCCcchh-----hhcc---CCCCC
Confidence 9999999999999999999999999999999999999999876655 5677788888777766 6665 49999
Q ss_pred CCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceec
Q 014401 286 GEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLV 329 (425)
Q Consensus 286 ~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lv 329 (425)
.+|||+.|+||++++.. |||||+|+|++|.++++|++|...+-
T Consensus 256 ~VDfRAtC~CH~~lv~i-G~VCSVCLSVfC~~~PiC~~C~s~F~ 298 (314)
T KOG2487|consen 256 SVDFRATCYCHNRLVLI-GFVCSVCLSVFCRFVPICKTCKSKFS 298 (314)
T ss_pred CcCcceeeeeecceeee-eeehHHHHHHhhCCCCccchhhhhcc
Confidence 99999999999999999 99999999999999999999999874
No 9
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=100.00 E-value=1.3e-31 Score=249.62 Aligned_cols=156 Identities=16% Similarity=0.242 Sum_probs=144.4
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCC
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~ 166 (425)
--+||+||+|.||.+.|++||||+++++++..|+.+|+++||.+|+|||+|+++.|++++|||+|+..++..|... .+.
T Consensus 4 ea~vi~lD~S~sM~a~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~plT~D~~~~~~~L~~i-~~~ 82 (187)
T cd01452 4 EATMICIDNSEYMRNGDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLVTLTNDQGKILSKLHDV-QPK 82 (187)
T ss_pred eEEEEEEECCHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEECCCCCHHHHHHHHHhC-CCC
Confidence 3589999999999999999999999999999999999999999999999998779999999999999999998754 678
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhC
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTG 242 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sr-eILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TG 242 (425)
|+++|++||++|...|++.+.++++ ||||+++|+.++|++++.++++.++++||+|++||||.+ ...|+.+.+..+
T Consensus 83 g~~~l~~AL~~A~~~L~~~~~~~~~~rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~ 162 (187)
T cd01452 83 GKANFITGIQIAQLALKHRQNKNQKQRIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAVN 162 (187)
T ss_pred CcchHHHHHHHHHHHHhcCCCcCCcceEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHhc
Confidence 9999999999999999999888875 999999998888999999999999999999999999975 578888888875
Q ss_pred C
Q 014401 243 G 243 (425)
Q Consensus 243 G 243 (425)
+
T Consensus 163 ~ 163 (187)
T cd01452 163 G 163 (187)
T ss_pred C
Confidence 3
No 10
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=99.95 E-value=7.7e-27 Score=217.96 Aligned_cols=233 Identities=17% Similarity=0.223 Sum_probs=184.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH---------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--------------- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~--------------- 152 (425)
-++++||+.+.-+..--+---...++..+..|+++++.-+..++++||+-....-+.+.|-+...
T Consensus 22 lL~viid~~p~~W~~~~ek~~~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~tr~sd~y 101 (296)
T COG5242 22 LLFVIIDLEPENWELTTEKGSRDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESENTRNSDMY 101 (296)
T ss_pred eEEEEEecChhhcccccccccHHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccCccchhhh
Confidence 47888999887764332333456678889999999999999999999997667777888875431
Q ss_pred -------HHHHHHHhhhhc-CC---CcchHHHHHHHHHHHHhCCCCCC--CcEEEEEEeCC--CCCCccCHHHHHHHHHh
Q 014401 153 -------ESHIKALMGKLG-CS---GDSSLQNALDLVQGLLSQIPSYG--HREVLILYSAL--STCDPGDIMETIQKCKE 217 (425)
Q Consensus 153 -------~~~i~~L~~~l~-~~---G~tsL~~AL~~A~~~L~~~p~~~--sreILVI~~s~--~t~dp~~i~~ti~~akk 217 (425)
+..+..+.++++ +. ..+.+++|+..++.+..+..... ..+|||++-++ .-.++..+|+.|+.|+|
T Consensus 102 rrfr~vde~~i~eiyrl~e~~~k~sqr~~v~gams~glay~n~~~~e~slkSriliftlsG~d~~~qYip~mnCiF~Aqk 181 (296)
T COG5242 102 RRFRNVDETDITEIYRLIEHPHKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLSGRDRKDQYIPYMNCIFAAQK 181 (296)
T ss_pred hhhcccchHHHHHHHHHHhCcccccceeehhhhhhhhHHHHhhhcccccccceEEEEEecCchhhhhhchhhhheeehhh
Confidence 113344444432 22 34789999999999998864332 35688887433 23567788999999999
Q ss_pred CCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHh-HHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeec
Q 014401 218 SKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES-HFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCH 296 (425)
Q Consensus 218 ~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~-~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH 296 (425)
.||+|+++.|+....+|+|.|+.|||.|....|.+ -|++|++.+.+.|..+ +.++ =|.+..+|||+.|+||
T Consensus 182 ~~ipI~v~~i~g~s~fl~Q~~daTgG~Yl~ve~~eGllqyL~~~lf~d~~lr-----p~~~---~pn~~svdFratCych 253 (296)
T COG5242 182 FGIPISVFSIFGNSKFLLQCCDATGGDYLTVEDTEGLLQYLLSLLFTDGELR-----PLGV---KPNHGSVDFRATCYCH 253 (296)
T ss_pred cCCceEEEEecCccHHHHHHhhccCCeeEeecCchhHHHHHHHHhcCCCCcc-----cccc---CCCcccccccceeEEe
Confidence 99999999999999999999999999999887754 5677777777766655 4443 4999999999999999
Q ss_pred CCccccCeEEcCCCCccccCCCCCCCCCCceec
Q 014401 297 KEVKVGVGYTCPRCKARVCELPTDCRICGLQLV 329 (425)
Q Consensus 297 ~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lv 329 (425)
++.+.. ||+||+|+|+||+.-+.|+.|...+-
T Consensus 254 ~rvv~~-GfvCsVCLsvfc~p~~~C~~C~skF~ 285 (296)
T COG5242 254 NRVVLL-GFVCSVCLSVFCRPVPVCKKCKSKFS 285 (296)
T ss_pred ccEEEE-eeehhhhheeecCCcCcCcccccccc
Confidence 999999 99999999999999999999998873
No 11
>PRK13685 hypothetical protein; Provisional
Probab=99.92 E-value=7.1e-24 Score=213.31 Aligned_cols=170 Identities=17% Similarity=0.272 Sum_probs=141.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
++|+|||+|+||.+.|..|+||+.+++.+.+|++.+ +|.+++|+|+| ++.++++.|+|.|.+.+...|..+ .+.|
T Consensus 90 ~vvlvlD~S~SM~~~D~~p~RL~~ak~~~~~~l~~l---~~~d~vglv~F-a~~a~~~~p~t~d~~~l~~~l~~l-~~~~ 164 (326)
T PRK13685 90 VVMLVIDVSQSMRATDVEPNRLAAAQEAAKQFADEL---TPGINLGLIAF-AGTATVLVSPTTNREATKNAIDKL-QLAD 164 (326)
T ss_pred eEEEEEECCccccCCCCCCCHHHHHHHHHHHHHHhC---CCCCeEEEEEE-cCceeecCCCCCCHHHHHHHHHhC-CCCC
Confidence 899999999999999999999999999999999864 46789999999 589999999999999888888764 6778
Q ss_pred cchHHHHHHHHHHHHhCC-------CCCCCcEEEEEEeCCCCCC-----ccCHHHHHHHHHhCCcEEEEEEecc------
Q 014401 168 DSSLQNALDLVQGLLSQI-------PSYGHREVLILYSALSTCD-----PGDIMETIQKCKESKIRCSVIGLSA------ 229 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~-------p~~~sreILVI~~s~~t~d-----p~~i~~ti~~akk~~I~V~vIglg~------ 229 (425)
+|+++.||..|++.+... .....+.||+|+++.++.. +....++++.+++.||+|++||+|+
T Consensus 165 ~T~~g~al~~A~~~l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~~~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~ 244 (326)
T PRK13685 165 RTATGEAIFTALQAIATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNPRGAYTAARTAKDQGVPISTISFGTPYGSVE 244 (326)
T ss_pred CcchHHHHHHHHHHHHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCcccHHHHHHHHHHcCCeEEEEEECCCCCCcC
Confidence 999999999999998632 1122355666665544321 1234567889999999999999997
Q ss_pred ----------hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 230 ----------EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 230 ----------e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
+...|++||+.|||+|+.+.+.++|.+++.++.
T Consensus 245 ~~g~~~~~~~d~~~L~~iA~~tgG~~~~~~~~~~L~~if~~I~ 287 (326)
T PRK13685 245 INGQRQPVPVDDESLKKIAQLSGGEFYTAASLEELRAVYATLQ 287 (326)
T ss_pred cCCceeeecCCHHHHHHHHHhcCCEEEEcCCHHHHHHHHHHHH
Confidence 347899999999999999999999999988875
No 12
>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=99.86 E-value=9.9e-21 Score=176.50 Aligned_cols=167 Identities=17% Similarity=0.159 Sum_probs=126.8
Q ss_pred eEEEEEeCCHhhhcCC-C--C-CCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH---------HH
Q 014401 88 YLYIVIDLSRAAAEMD-F--R-PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP---------ES 154 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D-~--~-P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~---------~~ 154 (425)
+|+|+||+|+||...+ + + .+||++++..++.|+ +|.++++.+++| | .|.+..+.|+|.+. +.
T Consensus 2 ~l~lavDlSgSM~~~~~~dg~~~~RL~a~k~v~~~f~-~f~~~r~~DriG---~-~g~~~~~~~lt~d~p~t~d~~~~~~ 76 (191)
T cd01455 2 RLKLVVDVSGSMYRFNGYDGRLDRSLEAVVMVMEAFD-GFEDKIQYDIIG---H-SGDGPCVPFVKTNHPPKNNKERLET 76 (191)
T ss_pred ceEEEEECcHhHHHHhccCCccccHHHHHHHHHHHHH-HHHHhCccceee---e-cCcccccCccccccCcccchhHHHH
Confidence 6899999999997544 2 3 589999999999997 456788889999 3 46777677766554 23
Q ss_pred HHHHHhhhh-cCCC-cchHHHHHHHHHHHHh-CCCCCCCcEEEEEEeCCCC-CCccCHHH-HHHHHHhCCcEEEEEEecc
Q 014401 155 HIKALMGKL-GCSG-DSSLQNALDLVQGLLS-QIPSYGHREVLILYSALST-CDPGDIME-TIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 155 ~i~~L~~~l-~~~G-~tsL~~AL~~A~~~L~-~~p~~~sreILVI~~s~~t-~dp~~i~~-ti~~akk~~I~V~vIglg~ 229 (425)
+.+.|.... ...| +|. .||.+|++.|+ +.+ ...++||+++++.+ ....+..+ ++..+++.||+||+||+|+
T Consensus 77 l~~~l~~~q~g~ag~~Ta--dAi~~av~rl~~~~~--a~~kvvILLTDG~n~~~~i~P~~aAa~lA~~~gV~iytIgiG~ 152 (191)
T cd01455 77 LKMMHAHSQFCWSGDHTV--EATEFAIKELAAKED--FDEAIVIVLSDANLERYGIQPKKLADALAREPNVNAFVIFIGS 152 (191)
T ss_pred HHHHHHhcccCccCccHH--HHHHHHHHHHHhcCc--CCCcEEEEEeCCCcCCCCCChHHHHHHHHHhCCCEEEEEEecC
Confidence 333333322 2334 456 99999999997 653 34457777765543 32235556 4788999999999999998
Q ss_pred -hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 230 -EMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 230 -e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
+...|+.+|+.|||+||.+.|.+.|.+++.++++
T Consensus 153 ~d~~~l~~iA~~tgG~~F~A~d~~~L~~iy~~I~~ 187 (191)
T cd01455 153 LSDEADQLQRELPAGKAFVCMDTSELPHIMQQIFT 187 (191)
T ss_pred CCHHHHHHHHhCCCCcEEEeCCHHHHHHHHHHHHH
Confidence 6788999999999999999999999999998874
No 13
>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=99.85 E-value=5.2e-20 Score=167.93 Aligned_cols=159 Identities=22% Similarity=0.270 Sum_probs=127.1
Q ss_pred eEEEEEeCCHhhhcCCC-CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh--c
Q 014401 88 YLYIVIDLSRAAAEMDF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--G 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~-~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l--~ 164 (425)
+++|+||+|+||...|+ .++|+..++..+..|+. ..|.+++|||+| ++.+..+.|++.+...+.+.|..+. .
T Consensus 4 ~vv~vlD~S~SM~~~~~~~~~r~~~a~~~~~~~~~----~~~~~~v~lv~f-~~~~~~~~~~~~~~~~~~~~l~~l~~~~ 78 (180)
T cd01467 4 DIMIALDVSGSMLAQDFVKPSRLEAAKEVLSDFID----RRENDRIGLVVF-AGAAFTQAPLTLDRESLKELLEDIKIGL 78 (180)
T ss_pred eEEEEEECCcccccccCCCCCHHHHHHHHHHHHHH----hCCCCeEEEEEE-cCCeeeccCCCccHHHHHHHHHHhhhcc
Confidence 99999999999999888 68999999998887775 457789999999 5888999999988776666565432 3
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCC-CCCccCHHHHHHHHHhCCcEEEEEEecc-------------h
Q 014401 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALS-TCDPGDIMETIQKCKESKIRCSVIGLSA-------------E 230 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~-t~dp~~i~~ti~~akk~~I~V~vIglg~-------------e 230 (425)
+.|+|++..||..|+..+...+ ..+.+|||+++.. +..+....++++.+++.||+|++|+||. +
T Consensus 79 ~~g~T~l~~al~~a~~~l~~~~--~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~ 156 (180)
T cd01467 79 AGQGTAIGDAIGLAIKRLKNSE--AKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILD 156 (180)
T ss_pred cCCCCcHHHHHHHHHHHHHhcC--CCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCC
Confidence 5788999999999999997753 2334566655443 3333344567788889999999999997 4
Q ss_pred HHHHHHHHHhhCCeEEEecCHhH
Q 014401 231 MFICKHLCQDTGGSYSVALDESH 253 (425)
Q Consensus 231 ~~iLk~iA~~TGG~Y~~~~d~~~ 253 (425)
...|++||+.|||.|+.+.+...
T Consensus 157 ~~~l~~la~~tgG~~~~~~~~~~ 179 (180)
T cd01467 157 EDSLVEIADKTGGRIFRALDGFE 179 (180)
T ss_pred HHHHHHHHHhcCCEEEEecCccc
Confidence 67999999999999999887653
No 14
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.85 E-value=3.8e-20 Score=164.72 Aligned_cols=165 Identities=18% Similarity=0.265 Sum_probs=132.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh---c
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---G 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l---~ 164 (425)
++||+||.|+||...|..++|+..++..+..|++.+ |.+++||+.|. +.+.+..|+|.|...+.+.|.++. .
T Consensus 1 dvv~v~D~SgSM~~~~~~~~~~~~~~~~~~~~~~~~----~~~~v~l~~f~-~~~~~~~~~t~~~~~~~~~l~~~~~~~~ 75 (172)
T PF13519_consen 1 DVVFVLDNSGSMNGYDGNRTRIDQAKDALNELLANL----PGDRVGLVSFS-DSSRTLSPLTSDKDELKNALNKLSPQGM 75 (172)
T ss_dssp EEEEEEE-SGGGGTTTSSS-HHHHHHHHHHHHHHHH----TTSEEEEEEES-TSCEEEEEEESSHHHHHHHHHTHHHHG-
T ss_pred CEEEEEECCcccCCCCCCCcHHHHHHHHHHHHHHHC----CCCEEEEEEec-ccccccccccccHHHHHHHhhccccccc
Confidence 689999999999999989999999999999999874 56799999995 678999999999999988887653 4
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---HHHHHHHHhh
Q 014401 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---FICKHLCQDT 241 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~---~iLk~iA~~T 241 (425)
+.|++.+..||..|.++|...+ ..+++||+++++.. ..+..++++.+++.+|+|++|++|.+. ..|+++|+.|
T Consensus 76 ~~~~t~~~~al~~a~~~~~~~~--~~~~~iv~iTDG~~--~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~t 151 (172)
T PF13519_consen 76 PGGGTNLYDALQEAAKMLASSD--NRRRAIVLITDGED--NSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEAT 151 (172)
T ss_dssp -SSS--HHHHHHHHHHHHHC-S--SEEEEEEEEES-TT--HCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHT
T ss_pred CccCCcHHHHHHHHHHHHHhCC--CCceEEEEecCCCC--CcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhc
Confidence 6788999999999999998763 34456666655432 234457899999999999999999764 5899999999
Q ss_pred CCeEEEe-cCHhHHHHHHHhc
Q 014401 242 GGSYSVA-LDESHFKELIMEH 261 (425)
Q Consensus 242 GG~Y~~~-~d~~~L~~lL~~~ 261 (425)
||.|+.+ .+...|.++|.++
T Consensus 152 gG~~~~~~~~~~~l~~~~~~I 172 (172)
T PF13519_consen 152 GGRYFHVDNDPEDLDDAFQQI 172 (172)
T ss_dssp EEEEEEE-SSSHHHHHHHHH-
T ss_pred CCEEEEecCCHHHHHHHHhcC
Confidence 9999998 7889999998764
No 15
>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=2.8e-22 Score=148.08 Aligned_cols=49 Identities=55% Similarity=1.338 Sum_probs=33.3
Q ss_pred ccccccccccCCCC--CCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 365 TCFGCQQSLLSSGN--KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 365 ~C~~C~~~~~~~~~--~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
+||||+++|+.+.. ..+++|+||+|+++||+|||+||||+|||||||++
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 49999999987642 23579999999999999999999999999999974
No 16
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=99.77 E-value=1.1e-17 Score=165.43 Aligned_cols=166 Identities=17% Similarity=0.197 Sum_probs=130.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhc---
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG--- 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~--- 164 (425)
+++|+||.|+||.. ++..+++.+..|++..+ +|.+++|||.| ++.+..+.|+|.+...+.++|..+..
T Consensus 55 ~vvlvlD~SgSM~~------~~~~a~~a~~~~l~~~l--~~~d~v~lv~f-~~~~~~~~~~t~~~~~l~~~l~~l~~~~~ 125 (296)
T TIGR03436 55 TVGLVIDTSGSMRN------DLDRARAAAIRFLKTVL--RPNDRVFVVTF-NTRLRLLQDFTSDPRLLEAALNRLKPPLR 125 (296)
T ss_pred eEEEEEECCCCchH------HHHHHHHHHHHHHHhhC--CCCCEEEEEEe-CCceeEeecCCCCHHHHHHHHHhccCCCc
Confidence 89999999999973 68899999999998754 57899999999 58999999999999988888876422
Q ss_pred -----------CCCcchHHHHHHHHH-HHHhCCCC-CCCcEEEEEEe-CCCCCCccCHHHHHHHHHhCCcEEEEEEecc-
Q 014401 165 -----------CSGDSSLQNALDLVQ-GLLSQIPS-YGHREVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSA- 229 (425)
Q Consensus 165 -----------~~G~tsL~~AL~~A~-~~L~~~p~-~~sreILVI~~-s~~t~dp~~i~~ti~~akk~~I~V~vIglg~- 229 (425)
+.|+|+|.+||.+|. ..+..... ...+++||+++ +.++.+..++.++++.+++.+|.|++|+++.
T Consensus 126 ~~~~~~~~~~~~~g~T~l~~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~~~~~~~~~~~~~~~~v~vy~I~~~~~ 205 (296)
T TIGR03436 126 TDYNSSGAFVRDGGGTALYDAITLAALEQLANALAGIPGRKALIVISDGGDNRSRDTLERAIDAAQRADVAIYSIDARGL 205 (296)
T ss_pred cccccccccccCCCcchhHHHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcchHHHHHHHHHHHHHcCCEEEEeccCcc
Confidence 278999999998775 44443211 11234555555 4333333456788999999999999999983
Q ss_pred --------------hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 230 --------------EMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 230 --------------e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
....|++||+.|||.|+.+ +.++|...+..+..
T Consensus 206 ~~~~~~~~~~~~~~~~~~L~~iA~~TGG~~~~~-~~~~l~~~f~~i~~ 252 (296)
T TIGR03436 206 RAPDLGAGAKAGLGGPEALERLAEETGGRAFYV-NSNDLDGAFAQIAE 252 (296)
T ss_pred ccCCcccccccCCCcHHHHHHHHHHhCCeEecc-cCccHHHHHHHHHH
Confidence 3579999999999999998 88888888877774
No 17
>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=99.77 E-value=9.5e-18 Score=151.08 Aligned_cols=147 Identities=18% Similarity=0.270 Sum_probs=109.7
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH----HHHHHHHhhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP----ESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~----~~~i~~L~~~l 163 (425)
+++++||.|+||.. +||..++.++..+++.+. +.+++|||+| ++.++.+.|++... ....+.|.. +
T Consensus 2 ~v~~vlD~S~SM~~-----~rl~~ak~a~~~l~~~l~---~~~~~~li~F-~~~~~~~~~~~~~~~~~~~~~~~~i~~-~ 71 (155)
T cd01466 2 DLVAVLDVSGSMAG-----DKLQLVKHALRFVISSLG---DADRLSIVTF-STSAKRLSPLRRMTAKGKRSAKRVVDG-L 71 (155)
T ss_pred cEEEEEECCCCCCc-----HHHHHHHHHHHHHHHhCC---CcceEEEEEe-cCCccccCCCcccCHHHHHHHHHHHHh-c
Confidence 78999999999975 399999999987776543 4579999999 57899999987422 233333433 4
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec--chHHHHHHHHHhh
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--AEMFICKHLCQDT 241 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg--~e~~iLk~iA~~T 241 (425)
.+.|+|++..||..|.+.+......+...+||+++++...+ + .....+++.+|+|++||+| .+...|++||..|
T Consensus 72 ~~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~~-~---~~~~~~~~~~v~v~~igig~~~~~~~l~~iA~~t 147 (155)
T cd01466 72 QAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDNH-G---AVVLRADNAPIPIHTFGLGASHDPALLAFIAEIT 147 (155)
T ss_pred cCCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCCc-c---hhhhcccCCCceEEEEecCCCCCHHHHHHHHhcc
Confidence 68899999999999999997542222233455554433322 2 3344566789999999999 5679999999999
Q ss_pred CCeEEEe
Q 014401 242 GGSYSVA 248 (425)
Q Consensus 242 GG~Y~~~ 248 (425)
||.|+.+
T Consensus 148 ~G~~~~~ 154 (155)
T cd01466 148 GGTFSYV 154 (155)
T ss_pred CceEEEe
Confidence 9999975
No 18
>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=99.77 E-value=3.3e-17 Score=150.67 Aligned_cols=157 Identities=23% Similarity=0.286 Sum_probs=120.5
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCCc
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGD 168 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G~ 168 (425)
++|+||.|+||... +||+.++..+..|+...+ ++.+++|||+|.++.++.+.|++.+...+...|.. +.+.|+
T Consensus 3 v~lvlD~SgSM~~~----~rl~~ak~a~~~~~~~~~--~~~d~v~lv~F~~~~~~~~~~~t~~~~~~~~~l~~-l~~~G~ 75 (178)
T cd01451 3 VIFVVDASGSMAAR----HRMAAAKGAVLSLLRDAY--QRRDKVALIAFRGTEAEVLLPPTRSVELAKRRLAR-LPTGGG 75 (178)
T ss_pred EEEEEECCccCCCc----cHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEeCCCCCHHHHHHHHHh-CCCCCC
Confidence 78999999999753 699999999999987654 35689999999544588899999988777666665 357889
Q ss_pred chHHHHHHHHHHHH-hCCCCCCCcEEEEEEeCCC-CC--CccC-H-HHHHHHHHhCCcEEEEEEecch---HHHHHHHHH
Q 014401 169 SSLQNALDLVQGLL-SQIPSYGHREVLILYSALS-TC--DPGD-I-METIQKCKESKIRCSVIGLSAE---MFICKHLCQ 239 (425)
Q Consensus 169 tsL~~AL~~A~~~L-~~~p~~~sreILVI~~s~~-t~--dp~~-i-~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~ 239 (425)
|+|..||..|...+ ...+..+.+.+|||++++. +. +|.. . .+.++.+++.+|.|++|+++.. ...|++||+
T Consensus 76 T~l~~aL~~a~~~l~~~~~~~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~ 155 (178)
T cd01451 76 TPLAAGLLAAYELAAEQARDPGQRPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLAR 155 (178)
T ss_pred CcHHHHHHHHHHHHHHHhcCCCCceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHH
Confidence 99999999999998 3222223335566655443 32 2221 2 4567889999999999999864 579999999
Q ss_pred hhCCeEEEecCHh
Q 014401 240 DTGGSYSVALDES 252 (425)
Q Consensus 240 ~TGG~Y~~~~d~~ 252 (425)
.|||+|+.+.|.+
T Consensus 156 ~tgG~~~~~~d~~ 168 (178)
T cd01451 156 ALGGQYVRLPDLS 168 (178)
T ss_pred HcCCeEEEcCcCC
Confidence 9999999886654
No 19
>cd01456 vWA_ywmD_type VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=99.76 E-value=2.3e-17 Score=155.00 Aligned_cols=155 Identities=21% Similarity=0.258 Sum_probs=112.9
Q ss_pred eEEEEEeCCHhhhc-CCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCc------eEEee---CCC--------
Q 014401 88 YLYIVIDLSRAAAE-MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV------ANCLT---DLG-------- 149 (425)
Q Consensus 88 ~lvlvLD~S~SM~a-~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~------A~~ls---pLT-------- 149 (425)
+++|+||.|+||.. .+-.++||+.+++.+..|++.+ +|.+++|||+|. +. ...+. |++
T Consensus 22 ~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l---~~~~~v~lv~F~-~~~~~~~~~~~~~p~~~~~~~~~~~~~ 97 (206)
T cd01456 22 NVAIVLDNSGSMREVDGGGETRLDNAKAALDETANAL---PDGTRLGLWTFS-GDGDNPLDVRVLVPKGCLTAPVNGFPS 97 (206)
T ss_pred cEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhC---CCCceEEEEEec-CCCCCCccccccccccccccccCCCCc
Confidence 89999999999985 4446899999999999999864 456899999995 42 22332 332
Q ss_pred CCHHHHHHHHhhhhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh-----CCcEEEE
Q 014401 150 GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSV 224 (425)
Q Consensus 150 ~d~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk-----~~I~V~v 224 (425)
.+...+.+.|..+..+.|+|+|..||+.|.++|. +. ..+.||+|+++..+++. +..+.+..+.+ .+|+|++
T Consensus 98 ~~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~--~~-~~~~iillTDG~~~~~~-~~~~~~~~~~~~~~~~~~i~i~~ 173 (206)
T cd01456 98 AQRSALDAALNSLQTPTGWTPLAAALAEAAAYVD--PG-RVNVVVLITDGEDTCGP-DPCEVARELAKRRTPAPPIKVNV 173 (206)
T ss_pred ccHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC--CC-CcceEEEEcCCCccCCC-CHHHHHHHHHHhcCCCCCceEEE
Confidence 2445555555554237899999999999999996 21 22556666666554432 44455554444 4999999
Q ss_pred EEecch--HHHHHHHHHhhCCeE-EEecC
Q 014401 225 IGLSAE--MFICKHLCQDTGGSY-SVALD 250 (425)
Q Consensus 225 Iglg~e--~~iLk~iA~~TGG~Y-~~~~d 250 (425)
||||.+ ...|++||+.|||.| +.+.+
T Consensus 174 igiG~~~~~~~l~~iA~~tgG~~~~~~~~ 202 (206)
T cd01456 174 IDFGGDADRAELEAIAEATGGTYAYNQSD 202 (206)
T ss_pred EEecCcccHHHHHHHHHhcCCeEeccccc
Confidence 999986 689999999999999 65544
No 20
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=99.76 E-value=2.9e-17 Score=181.63 Aligned_cols=161 Identities=22% Similarity=0.260 Sum_probs=122.5
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC-CHHHHHHHHhhhh--
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-SPESHIKALMGKL-- 163 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~-d~~~~i~~L~~~l-- 163 (425)
|.++||||+|+||...| ||.+++++++.|+...+ +|.+++|||+| ++.|+++.||+. +.....++|...+
T Consensus 305 r~VVLVLDvSGSM~g~d----RL~~lkqAA~~fL~~~l--~~~DrVGLVtF-sssA~vl~pLt~Its~~dr~aL~~~L~~ 377 (863)
T TIGR00868 305 RIVCLVLDKSGSMTVED----RLKRMNQAAKLFLLQTV--EKGSWVGMVTF-DSAAYIKNELIQITSSAERDALTANLPT 377 (863)
T ss_pred ceEEEEEECCccccccC----HHHHHHHHHHHHHHHhC--CCCCEEEEEEE-CCceeEeeccccCCcHHHHHHHHHhhcc
Confidence 57999999999998754 99999999999998775 46799999999 689999999873 1112233333332
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCC-CCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHHhh
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDT 241 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~-~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-~~iLk~iA~~T 241 (425)
.+.|+|+|..||.+|++.|.+... ...+.||+|+++..+ ++..++..+++.+|+|++||+|.+ ...|++||+.|
T Consensus 378 ~A~GGT~I~~GL~~Alq~L~~~~~~~~~~~IILLTDGedn----~~~~~l~~lk~~gVtI~TIg~G~dad~~L~~IA~~T 453 (863)
T TIGR00868 378 AASGGTSICSGLKAAFQVIKKSYQSTDGSEIVLLTDGEDN----TISSCFEEVKQSGAIIHTIALGPSAAKELEELSDMT 453 (863)
T ss_pred ccCCCCcHHHHHHHHHHHHHhcccccCCCEEEEEeCCCCC----CHHHHHHHHHHcCCEEEEEEeCCChHHHHHHHHHhc
Confidence 468999999999999999987532 223445555544322 346778889999999999999964 46699999999
Q ss_pred CCeEEEecCHhHHHHHH
Q 014401 242 GGSYSVALDESHFKELI 258 (425)
Q Consensus 242 GG~Y~~~~d~~~L~~lL 258 (425)
||.|+.+.+..++..|.
T Consensus 454 GG~~f~asd~~dl~~L~ 470 (863)
T TIGR00868 454 GGLRFYASDQADNNGLI 470 (863)
T ss_pred CCEEEEeCCHHHHHHHH
Confidence 99999988876544433
No 21
>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=99.74 E-value=1.5e-16 Score=143.15 Aligned_cols=161 Identities=16% Similarity=0.200 Sum_probs=122.2
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~~ 165 (425)
+++++||.|+||... +++.+++.+..++..+ ++.+++|||+|. +.+..+.|++. +.+.+.+.|.+ +.+
T Consensus 2 ~~~~vlD~S~SM~~~-----~~~~~k~a~~~~~~~l---~~~~~v~li~f~-~~~~~~~~~~~~~~~~~l~~~l~~-~~~ 71 (170)
T cd01465 2 NLVFVIDRSGSMDGP-----KLPLVKSALKLLVDQL---RPDDRLAIVTYD-GAAETVLPATPVRDKAAILAAIDR-LTA 71 (170)
T ss_pred cEEEEEECCCCCCCh-----hHHHHHHHHHHHHHhC---CCCCEEEEEEec-CCccEEecCcccchHHHHHHHHHc-CCC
Confidence 789999999999743 5899999888888754 566899999995 78888888764 45555555554 356
Q ss_pred CCcchHHHHHHHHHHHHhCCCC-CCCcEEEEEEeCCCCCCccC---HHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHH
Q 014401 166 SGDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSA--EMFICKHLCQ 239 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~p~-~~sreILVI~~s~~t~dp~~---i~~ti~~akk~~I~V~vIglg~--e~~iLk~iA~ 239 (425)
.|+|++..||..|+..+.+... ...+.||+++++..+.++.+ +.+.+..+++.+|+|++||+|. +...|++||+
T Consensus 72 ~g~T~~~~al~~a~~~~~~~~~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~ 151 (170)
T cd01465 72 GGSTAGGAGIQLGYQEAQKHFVPGGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIAD 151 (170)
T ss_pred CCCCCHHHHHHHHHHHHHhhcCCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHh
Confidence 7899999999999999976422 22244555555544433333 3345666678999999999995 4689999999
Q ss_pred hhCCeEEEecCHhHHHHHH
Q 014401 240 DTGGSYSVALDESHFKELI 258 (425)
Q Consensus 240 ~TGG~Y~~~~d~~~L~~lL 258 (425)
.++|.|+.+.+...+.+++
T Consensus 152 ~~~g~~~~~~~~~~~~~~~ 170 (170)
T cd01465 152 AGNGNTAYIDNLAEARKVF 170 (170)
T ss_pred cCCceEEEeCCHHHHHhhC
Confidence 9999999999998888753
No 22
>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=99.74 E-value=1.2e-16 Score=143.67 Aligned_cols=160 Identities=14% Similarity=0.303 Sum_probs=118.1
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC--CCHHH---HHHHHhh
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPES---HIKALMG 161 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT--~d~~~---~i~~L~~ 161 (425)
|+++|+||.|+||.. .+++.++..+..|+..+ ++.++++||+|. +.+..+.|.+ .+... .++.|..
T Consensus 3 ~~v~~vlD~S~SM~~-----~~~~~~~~al~~~l~~l---~~~~~~~l~~Fs-~~~~~~~~~~~~~~~~~~~~~~~~l~~ 73 (171)
T cd01461 3 KEVVFVIDTSGSMSG-----TKIEQTKEALLTALKDL---PPGDYFNIIGFS-DTVEEFSPSSVSATAENVAAAIEYVNR 73 (171)
T ss_pred ceEEEEEECCCCCCC-----hhHHHHHHHHHHHHHhC---CCCCEEEEEEeC-CCceeecCcceeCCHHHHHHHHHHHHh
Confidence 689999999999963 57999999999988764 345789999995 6677766643 23222 2233332
Q ss_pred hhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHH
Q 014401 162 KLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQ 239 (425)
Q Consensus 162 ~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~--e~~iLk~iA~ 239 (425)
+.+.|+|++..||..|...+...+ ...++||+++++...++.++.+.++.+.+.+|+|++||+|. +...|+++|+
T Consensus 74 -~~~~g~T~l~~al~~a~~~l~~~~--~~~~~iillTDG~~~~~~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia~ 150 (171)
T cd01461 74 -LQALGGTNMNDALEAALELLNSSP--GSVPQIILLTDGEVTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAR 150 (171)
T ss_pred -cCCCCCcCHHHHHHHHHHhhccCC--CCccEEEEEeCCCCCCHHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHH
Confidence 356889999999999999997632 23345555554443344445566666666799999999995 5799999999
Q ss_pred hhCCeEEEecCHhHHHHHH
Q 014401 240 DTGGSYSVALDESHFKELI 258 (425)
Q Consensus 240 ~TGG~Y~~~~d~~~L~~lL 258 (425)
.|||.|+.+.+.+.+.+-+
T Consensus 151 ~~gG~~~~~~~~~~~~~~~ 169 (171)
T cd01461 151 EGRGIARRIYETDDIESQL 169 (171)
T ss_pred cCCCeEEEecChHHHHHHh
Confidence 9999999999988877644
No 23
>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=99.73 E-value=1.7e-16 Score=143.33 Aligned_cols=154 Identities=18% Similarity=0.163 Sum_probs=123.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT--~d~~~~i~~L~~~l~~ 165 (425)
++|++||.|+||.. .++..+++.+..+++.+...+...++|||.| ++.+..+.|++ .|.+.+.+.|..+...
T Consensus 2 Dvv~vlD~SgSm~~-----~~~~~~k~~~~~~~~~l~~~~~~~~~giv~F-s~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 75 (164)
T cd01472 2 DIVFLVDGSESIGL-----SNFNLVKDFVKRVVERLDIGPDGVRVGVVQY-SDDPRTEFYLNTYRSKDDVLEAVKNLRYI 75 (164)
T ss_pred CEEEEEeCCCCCCH-----HHHHHHHHHHHHHHhhcccCCCCeEEEEEEE-cCceeEEEecCCCCCHHHHHHHHHhCcCC
Confidence 79999999999975 5888999999999988765556679999999 58999999999 7888887877764333
Q ss_pred CCcchHHHHHHHHHHHHhCC---CCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhh
Q 014401 166 SGDSSLQNALDLVQGLLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDT 241 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~---p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA~~T 241 (425)
.|+|+++.||..|.+.|... +....++++|+++++... .+....+..+++.||+|++||+|. +...|++||..+
T Consensus 76 ~g~T~~~~al~~a~~~l~~~~~~~~~~~~~~iiliTDG~~~--~~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~~~ 153 (164)
T cd01472 76 GGGTNTGKALKYVRENLFTEASGSREGVPKVLVVITDGKSQ--DDVEEPAVELKQAGIEVFAVGVKNADEEELKQIASDP 153 (164)
T ss_pred CCCchHHHHHHHHHHHhCCcccCCCCCCCEEEEEEcCCCCC--chHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHCCC
Confidence 67899999999999999863 223445666666655432 234566778889999999999997 789999999999
Q ss_pred CCeEEEec
Q 014401 242 GGSYSVAL 249 (425)
Q Consensus 242 GG~Y~~~~ 249 (425)
+|.|....
T Consensus 154 ~~~~~~~~ 161 (164)
T cd01472 154 KELYVFNV 161 (164)
T ss_pred chheEEec
Confidence 99998654
No 24
>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=99.72 E-value=2.3e-16 Score=147.11 Aligned_cols=165 Identities=14% Similarity=0.204 Sum_probs=120.1
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC----CHHHHHHHHhhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~----d~~~~i~~L~~~l 163 (425)
+++++||.|+||. ++||..++..+..|++.+....+..++|||+| ++.+..+.|++. +...+++.|..+.
T Consensus 2 di~~vlD~SgSM~-----~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~F-s~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 75 (198)
T cd01470 2 NIYIALDASDSIG-----EEDFDEAKNAIKTLIEKISSYEVSPRYEIISY-ASDPKEIVSIRDFNSNDADDVIKRLEDFN 75 (198)
T ss_pred cEEEEEECCCCcc-----HHHHHHHHHHHHHHHHHccccCCCceEEEEEe-cCCceEEEecccCCCCCHHHHHHHHHhCC
Confidence 6899999999995 56999999999999998755556789999999 488888888763 4566767776542
Q ss_pred ----cCCCcchHHHHHHHHHHHHhCC---CC---CCCcEEEEEEeCCCCC---CccCHHHHHHHH----------HhCCc
Q 014401 164 ----GCSGDSSLQNALDLVQGLLSQI---PS---YGHREVLILYSALSTC---DPGDIMETIQKC----------KESKI 220 (425)
Q Consensus 164 ----~~~G~tsL~~AL~~A~~~L~~~---p~---~~sreILVI~~s~~t~---dp~~i~~ti~~a----------kk~~I 220 (425)
...|+|++..||.+|.+.+... +. ...+++|||++++... +|....+.++.+ ++.+|
T Consensus 76 ~~~~~~~ggT~~~~Al~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~v 155 (198)
T cd01470 76 YDDHGDKTGTNTAAALKKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIKNLVYKNNKSDNPREDYL 155 (198)
T ss_pred cccccCccchhHHHHHHHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHHHHHhcccccccchhcce
Confidence 1347899999999999877321 11 1124555555544332 222222233333 45589
Q ss_pred EEEEEEecc--hHHHHHHHHHhhCC--eEEEecCHhHHHHHH
Q 014401 221 RCSVIGLSA--EMFICKHLCQDTGG--SYSVALDESHFKELI 258 (425)
Q Consensus 221 ~V~vIglg~--e~~iLk~iA~~TGG--~Y~~~~d~~~L~~lL 258 (425)
.|++||+|. +...|++||..||| .||.+.+.+.|+++|
T Consensus 156 ~i~~iGvG~~~~~~~L~~iA~~~~g~~~~f~~~~~~~l~~v~ 197 (198)
T cd01470 156 DVYVFGVGDDVNKEELNDLASKKDNERHFFKLKDYEDLQEVF 197 (198)
T ss_pred eEEEEecCcccCHHHHHHHhcCCCCCceEEEeCCHHHHHHhc
Confidence 999999996 47999999999999 467888888888875
No 25
>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=99.71 E-value=2.4e-16 Score=146.00 Aligned_cols=166 Identities=13% Similarity=0.113 Sum_probs=127.2
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhcc------CCCCcEEEEeecCCceEEeeCCC---CCHHHHHHH
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQ------NPLSQIGLVTVKDGVANCLTDLG---GSPESHIKA 158 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~q------nP~sqlGvI~~~~g~A~~lspLT---~d~~~~i~~ 158 (425)
+++++||.|+||.. ++++.+++.++.|++.+..+ +...|+|||.| ++.+.+..|++ .+...+.++
T Consensus 4 dvv~vlD~S~Sm~~-----~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~f-s~~~~~~~~l~~~~~~~~~l~~~ 77 (186)
T cd01480 4 DITFVLDSSESVGL-----QNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQY-SDQQEVEAGFLRDIRNYTSLKEA 77 (186)
T ss_pred eEEEEEeCCCccch-----hhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEe-cCCceeeEecccccCCHHHHHHH
Confidence 89999999999975 46788888888888888542 44589999999 48899999998 567777777
Q ss_pred HhhhhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCC--CccCHHHHHHHHHhCCcEEEEEEecc-hHHHHH
Q 014401 159 LMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICK 235 (425)
Q Consensus 159 L~~~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~--dp~~i~~ti~~akk~~I~V~vIglg~-e~~iLk 235 (425)
|.++.-..|+|+++.||..|...+........+++||+++++.+. +..++.++++.+++.||.|++||+|. +...|+
T Consensus 78 i~~l~~~gg~T~~~~AL~~a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~ 157 (186)
T cd01480 78 VDNLEYIGGGTFTDCALKYATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLS 157 (186)
T ss_pred HHhCccCCCCccHHHHHHHHHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecCccchHHHH
Confidence 776433478899999999999999863223344566666544331 23356788999999999999999996 557899
Q ss_pred HHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 236 HLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 236 ~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
+||...+|.|+.. .+.++++++..
T Consensus 158 ~IA~~~~~~~~~~----~~~~l~~~~~~ 181 (186)
T cd01480 158 RIACDGKSALYRE----NFAELLWSFFI 181 (186)
T ss_pred HHHcCCcchhhhc----chhhhcccccc
Confidence 9999999987765 35666655554
No 26
>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=99.71 E-value=9.4e-16 Score=141.70 Aligned_cols=166 Identities=15% Similarity=0.091 Sum_probs=121.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh--hcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK--LGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~--l~~ 165 (425)
+++++||.|+||.... +.+ ++.++.+++.|. +|..|+|||.| ++.+..+.||+.+.....+.|..+ +.+
T Consensus 6 Dvv~llD~SgSm~~~~--~~~----~~~~~~l~~~~~--~~~~rvglv~F-s~~~~~~~~l~~~~~~~~~~l~~l~~~~~ 76 (185)
T cd01474 6 DLYFVLDKSGSVAANW--IEI----YDFVEQLVDRFN--SPGLRFSFITF-STRATKILPLTDDSSAIIKGLEVLKKVTP 76 (185)
T ss_pred eEEEEEeCcCchhhhH--HHH----HHHHHHHHHHcC--CCCcEEEEEEe-cCCceEEEeccccHHHHHHHHHHHhccCC
Confidence 9999999999997532 223 345555665553 46799999999 588999999998876655555322 246
Q ss_pred CCcchHHHHHHHHHHHHhCC--CCCCCcEEEEEEeCCCC--CCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHh
Q 014401 166 SGDSSLQNALDLVQGLLSQI--PSYGHREVLILYSALST--CDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQD 240 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~--p~~~sreILVI~~s~~t--~dp~~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA~~ 240 (425)
.|+|.++.||+.|.+.|... .+....++||+++++.+ .+..+....++.+++.||.|++||++. +...|++||..
T Consensus 77 ~g~T~~~~aL~~a~~~l~~~~~~~r~~~~~villTDG~~~~~~~~~~~~~a~~l~~~gv~i~~vgv~~~~~~~L~~iA~~ 156 (185)
T cd01474 77 SGQTYIHEGLENANEQIFNRNGGGRETVSVIIALTDGQLLLNGHKYPEHEAKLSRKLGAIVYCVGVTDFLKSQLINIADS 156 (185)
T ss_pred CCCCcHHHHHHHHHHHHHhhccCCCCCCeEEEEEcCCCcCCCCCcchHHHHHHHHHcCCEEEEEeechhhHHHHHHHhCC
Confidence 78999999999999988432 11111145666554443 223355677889999999999999963 45789999999
Q ss_pred hCCeEEEecCHhHHHHHHHhcC
Q 014401 241 TGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 241 TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
+++.|.+..+-+.|+.++..+.
T Consensus 157 ~~~~f~~~~~~~~l~~~~~~~~ 178 (185)
T cd01474 157 KEYVFPVTSGFQALSGIIESVV 178 (185)
T ss_pred CCeeEecCccHHHHHHHHHHHH
Confidence 9887778888889998887765
No 27
>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=99.71 E-value=2.3e-16 Score=146.33 Aligned_cols=152 Identities=15% Similarity=0.156 Sum_probs=110.8
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC---------HHHHHH
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS---------PESHIK 157 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d---------~~~~i~ 157 (425)
++++|+||.|+||.. +||+.++..+..|++.+ ++.+++|||+| ++.+..+.|++.+ .+.+.+
T Consensus 14 ~~vv~llD~SgSM~~-----~~l~~ak~~~~~ll~~l---~~~d~v~lv~F-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (190)
T cd01463 14 KDIVILLDVSGSMTG-----QRLHLAKQTVSSILDTL---SDNDFFNIITF-SNEVNPVVPCFNDTLVQATTSNKKVLKE 84 (190)
T ss_pred ceEEEEEECCCCCCc-----HHHHHHHHHHHHHHHhC---CCCCEEEEEEe-CCCeeEEeeecccceEecCHHHHHHHHH
Confidence 399999999999974 69999999999998764 56689999999 5888888886532 344444
Q ss_pred HHhhhhcCCCcchHHHHHHHHHHHHhC---C--C--CCCCcEEEEEEeCCCCCCccCHHHHHHHHHh-C----CcEEEEE
Q 014401 158 ALMGKLGCSGDSSLQNALDLVQGLLSQ---I--P--SYGHREVLILYSALSTCDPGDIMETIQKCKE-S----KIRCSVI 225 (425)
Q Consensus 158 ~L~~~l~~~G~tsL~~AL~~A~~~L~~---~--p--~~~sreILVI~~s~~t~dp~~i~~ti~~akk-~----~I~V~vI 225 (425)
.|.. +.+.|+|.+..||..|+..|.. . + ....+.+|||++++...+ ..+.+..+++ . +|+|++|
T Consensus 85 ~l~~-l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~---~~~~~~~~~~~~~~~~~v~i~ti 160 (190)
T cd01463 85 ALDM-LEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPEN---YKEIFDKYNWDKNSEIPVRVFTY 160 (190)
T ss_pred HHhh-CCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCc---HhHHHHHhcccccCCCcEEEEEE
Confidence 4543 3567889999999999999975 1 1 112233555554443323 2334444332 2 5999999
Q ss_pred Eecch---HHHHHHHHHhhCCeEEEecCH
Q 014401 226 GLSAE---MFICKHLCQDTGGSYSVALDE 251 (425)
Q Consensus 226 glg~e---~~iLk~iA~~TGG~Y~~~~d~ 251 (425)
|+|.+ ...|++||..+||.|+.+.+.
T Consensus 161 giG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 161 LIGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred ecCCccccchHHHHHHhhcCCeEEEcccC
Confidence 99965 589999999999999988663
No 28
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.70 E-value=8.5e-16 Score=143.68 Aligned_cols=157 Identities=15% Similarity=0.264 Sum_probs=138.6
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCC
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~ 166 (425)
-.+||+||.|..|+..|+.|+||.+-++.+.-....-+..||.+.+|||++.+....+++.+|.+...++..|.. +.+.
T Consensus 4 Eatmi~iDNse~mrNgDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T~d~gkils~lh~-i~~~ 82 (259)
T KOG2884|consen 4 EATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDRGKILSKLHG-IQPH 82 (259)
T ss_pred ceEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccchHHHHHhcC-CCcC
Confidence 367999999999999999999999999999999999999999999999999877999999999999888888865 3788
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhC
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTG 242 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sr-eILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TG 242 (425)
|+..+..+|..|.-.|+|..+.+.| +||+++||+-..+..++...++.+||++|.|++|.+|.. ...|...-+.++
T Consensus 83 g~~~~~~~i~iA~lalkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N 162 (259)
T KOG2884|consen 83 GKANFMTGIQIAQLALKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALN 162 (259)
T ss_pred CcccHHHHHHHHHHHHHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhc
Confidence 9999999999999999998666654 688888887665667788899999999999999999954 367777777777
Q ss_pred Ce
Q 014401 243 GS 244 (425)
Q Consensus 243 G~ 244 (425)
|.
T Consensus 163 ~~ 164 (259)
T KOG2884|consen 163 GK 164 (259)
T ss_pred CC
Confidence 75
No 29
>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=99.70 E-value=2e-15 Score=134.91 Aligned_cols=155 Identities=25% Similarity=0.290 Sum_probs=128.5
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCC--CCCHHHHHHHHhhhhc
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspL--T~d~~~~i~~L~~~l~ 164 (425)
.+++|+||.|.||. ++++..++..+..|+..+..+++..++||+.|. +......|+ +.+...+...+.....
T Consensus 2 ~~v~l~vD~S~SM~-----~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~ 75 (177)
T smart00327 2 LDVVFLLDGSGSMG-----PNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFS-DDATVLFPLNDSRSKDALLEALASLSY 75 (177)
T ss_pred ccEEEEEeCCCccc-----hHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeC-CCceEEEcccccCCHHHHHHHHHhcCC
Confidence 37999999999996 579999999999999999988889999999995 677888888 6677777777765432
Q ss_pred -CCCcchHHHHHHHHHHHHhCCC---CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHH
Q 014401 165 -CSGDSSLQNALDLVQGLLSQIP---SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLC 238 (425)
Q Consensus 165 -~~G~tsL~~AL~~A~~~L~~~p---~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~--e~~iLk~iA 238 (425)
..|.+++..||..|...+.... ....+++|||+++....++.++.+.++.+++.+|.|++|++|. ....+++++
T Consensus 76 ~~~~~~~~~~al~~~~~~~~~~~~~~~~~~~~~iviitDg~~~~~~~~~~~~~~~~~~~i~i~~i~~~~~~~~~~l~~~~ 155 (177)
T smart00327 76 KLGGGTNLGAALQYALENLFSKSAGSRRGAPKVLILITDGESNDGGDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLA 155 (177)
T ss_pred CCCCCchHHHHHHHHHHHhcCcCCCCCCCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCCEEEEEEccCccCHHHHHHHh
Confidence 5788999999999999986321 1222567777776555454578899999999999999999998 689999999
Q ss_pred HhhCCeEEE
Q 014401 239 QDTGGSYSV 247 (425)
Q Consensus 239 ~~TGG~Y~~ 247 (425)
..++|.|..
T Consensus 156 ~~~~~~~~~ 164 (177)
T smart00327 156 SAPGGVYVF 164 (177)
T ss_pred CCCcceEEe
Confidence 999999987
No 30
>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=99.68 E-value=1.9e-15 Score=141.85 Aligned_cols=157 Identities=16% Similarity=0.200 Sum_probs=116.5
Q ss_pred ccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhcc--CC----CCcEEEEeecCCceEEeeCCCC--CHHH
Q 014401 83 KGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQ--NP----LSQIGLVTVKDGVANCLTDLGG--SPES 154 (425)
Q Consensus 83 ~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~q--nP----~sqlGvI~~~~g~A~~lspLT~--d~~~ 154 (425)
.|+ +||++||.|.||. ++||+.+++.+..|+..+..- +| ..|+|||+| ++.+++..||+. +..+
T Consensus 18 ~~~--DivfvlD~S~Sm~-----~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~f-s~~a~~~~~L~d~~~~~~ 89 (193)
T cd01477 18 LWL--DIVFVVDNSKGMT-----QGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTY-NSNATVVADLNDLQSFDD 89 (193)
T ss_pred cee--eEEEEEeCCCCcc-----hhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEc-cCceEEEEecccccCHHH
Confidence 466 9999999999996 568999888888877765431 22 369999999 699999999984 4456
Q ss_pred HHHHHhhhh---cCCCcchHHHHHHHHHHHHhCC-C--CCCCcEEEEEEeCC-CCCCccCHHHHHHHHHhCCcEEEEEEe
Q 014401 155 HIKALMGKL---GCSGDSSLQNALDLVQGLLSQI-P--SYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGL 227 (425)
Q Consensus 155 ~i~~L~~~l---~~~G~tsL~~AL~~A~~~L~~~-p--~~~sreILVI~~s~-~t~dp~~i~~ti~~akk~~I~V~vIgl 227 (425)
++++|...+ ...|+|+++.||.+|.+.|... . ....+++|||++++ .+....+....++.|++.||+|++||+
T Consensus 90 ~~~ai~~~~~~~~~~ggT~ig~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGi 169 (193)
T cd01477 90 LYSQIQGSLTDVSSTNASYLDTGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAF 169 (193)
T ss_pred HHHHHHHHhhccccCCcchHHHHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEe
Confidence 667777532 2457899999999999999742 1 12234566666533 221224567889999999999999999
Q ss_pred cch--HHHHHHHHHhhCCeEEE
Q 014401 228 SAE--MFICKHLCQDTGGSYSV 247 (425)
Q Consensus 228 g~e--~~iLk~iA~~TGG~Y~~ 247 (425)
|.. ...+++|+++..+.|+.
T Consensus 170 G~~~d~~~~~~L~~ias~~~~~ 191 (193)
T cd01477 170 TQDESSNLLDKLGKIASPGMNF 191 (193)
T ss_pred CCCCCHHHHHHHHHhcCCCCCC
Confidence 974 46788899888776653
No 31
>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=99.67 E-value=2.8e-15 Score=137.95 Aligned_cols=162 Identities=15% Similarity=0.097 Sum_probs=124.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~~ 165 (425)
+|+++||.|+||. |.++..+++.+..|++.+....+..|+|||.|. +.+.+..||+. +..++++++......
T Consensus 2 Di~fvlD~S~S~~-----~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs-~~~~~~~~l~~~~~~~~~~~~i~~~~~~ 75 (177)
T cd01469 2 DIVFVLDGSGSIY-----PDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYS-ESFRTEFTLNEYRTKEEPLSLVKHISQL 75 (177)
T ss_pred cEEEEEeCCCCCC-----HHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEEC-CceeEEEecCccCCHHHHHHHHHhCccC
Confidence 7999999999996 578999999999999988776678999999994 88999999983 344556666654345
Q ss_pred CCcchHHHHHHHHHHHHhCC-C--CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch------HHHHHH
Q 014401 166 SGDSSLQNALDLVQGLLSQI-P--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKH 236 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~-p--~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e------~~iLk~ 236 (425)
.|.|.++.||+.|.+.+... . ....++++|+++++.+.+.....++++.+++.||.|++||+|.. ...|+.
T Consensus 76 ~g~T~~~~AL~~a~~~l~~~~~g~R~~~~kv~illTDG~~~~~~~~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ 155 (177)
T cd01469 76 LGLTNTATAIQYVVTELFSESNGARKDATKVLVVITDGESHDDPLLKDVIPQAEREGIIRYAIGVGGHFQRENSREELKT 155 (177)
T ss_pred CCCccHHHHHHHHHHHhcCcccCCCCCCCeEEEEEeCCCCCCccccHHHHHHHHHCCcEEEEEEecccccccccHHHHHH
Confidence 67799999999999987431 1 12345677777665554544446678999999999999999975 488999
Q ss_pred HHHhhCCeEE-EecCHhHHH
Q 014401 237 LCQDTGGSYS-VALDESHFK 255 (425)
Q Consensus 237 iA~~TGG~Y~-~~~d~~~L~ 255 (425)
||..+++.|+ ...|.+.|+
T Consensus 156 ias~p~~~h~f~~~~~~~l~ 175 (177)
T cd01469 156 IASKPPEEHFFNVTDFAALK 175 (177)
T ss_pred HhcCCcHHhEEEecCHHHhc
Confidence 9999987555 456655554
No 32
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=99.67 E-value=2.5e-15 Score=132.74 Aligned_cols=152 Identities=17% Similarity=0.163 Sum_probs=123.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC--HHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d--~~~~i~~L~~~l~~ 165 (425)
+++++||.|.||.. .++..+++.+..|+..+...++..++|||.|. +.+....+++.+ ...+.+.|......
T Consensus 2 di~~llD~S~Sm~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 75 (161)
T cd01450 2 DIVFLLDGSESVGP-----ENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYS-DDVRVEFSLNDYKSKDDLLKAVKNLKYL 75 (161)
T ss_pred cEEEEEeCCCCcCH-----HHHHHHHHHHHHHHHheeeCCCceEEEEEEEc-CCceEEEECCCCCCHHHHHHHHHhcccC
Confidence 78999999999974 38899999999999998877788999999995 778888999876 66777777654333
Q ss_pred C-CcchHHHHHHHHHHHHhCCC--CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhh
Q 014401 166 S-GDSSLQNALDLVQGLLSQIP--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDT 241 (425)
Q Consensus 166 ~-G~tsL~~AL~~A~~~L~~~p--~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA~~T 241 (425)
. |+|++..||..|...+...+ ....+.+||+++++...++.++.++++.+++++|+|++||+|. +...|+++|..|
T Consensus 76 ~~~~t~~~~al~~a~~~~~~~~~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~~ 155 (161)
T cd01450 76 GGGGTNTGKALQYALEQLFSESNARENVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIASCP 155 (161)
T ss_pred CCCCccHHHHHHHHHHHhcccccccCCCCeEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCCC
Confidence 4 38999999999999998763 1345567777765544444468899999999999999999997 789999999999
Q ss_pred CCeE
Q 014401 242 GGSY 245 (425)
Q Consensus 242 GG~Y 245 (425)
|+.|
T Consensus 156 ~~~~ 159 (161)
T cd01450 156 SERH 159 (161)
T ss_pred CCCc
Confidence 5544
No 33
>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=99.64 E-value=3e-15 Score=146.79 Aligned_cols=145 Identities=13% Similarity=0.119 Sum_probs=113.7
Q ss_pred chhhhhccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHH
Q 014401 77 TTARIQKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHI 156 (425)
Q Consensus 77 ~~~~~r~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i 156 (425)
.+.+.+||. +++|+||.|.||.+.|..|+||+ ++..+.+|+. +.+.+++||++|+ +.+.++.|+|.|... .
T Consensus 53 Rtkpskr~~--qIvlaID~S~SM~~~~~~~~ale-ak~lIs~al~----~Le~g~vgVv~Fg-~~~~~v~Plt~d~~~-~ 123 (266)
T cd01460 53 RTKPAKRDY--QILIAIDDSKSMSENNSKKLALE-SLCLVSKALT----LLEVGQLGVCSFG-EDVQILHPFDEQFSS-Q 123 (266)
T ss_pred eccCCccCc--eEEEEEecchhcccccccccHHH-HHHHHHHHHH----hCcCCcEEEEEeC-CCceEeCCCCCCchh-h
Confidence 777889999 99999999999999999999998 7777776665 5677999999994 899999999998765 3
Q ss_pred HHHh---hhhcCCCcchHHHHHHHHHHHHhCC--CCCCC--cEEEEEEeCCCC-CCccCHHHHHHHHHhCCcEEEEEEec
Q 014401 157 KALM---GKLGCSGDSSLQNALDLVQGLLSQI--PSYGH--REVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 157 ~~L~---~~l~~~G~tsL~~AL~~A~~~L~~~--p~~~s--reILVI~~s~~t-~dp~~i~~ti~~akk~~I~V~vIglg 228 (425)
..+. ......++|++..+|.+|+.++... +.++. .+++||++++.. .+++.....++.++++||.|++|+|.
T Consensus 124 a~~~~l~~~~f~~~~Tni~~aL~~a~~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~~~~~~~r~a~e~~i~l~~I~ld 203 (266)
T cd01460 124 SGPRILNQFTFQQDKTDIANLLKFTAQIFEDARTQSSSGSLWQLLLIISDGRGEFSEGAQKVRLREAREQNVFVVFIIID 203 (266)
T ss_pred HHHHHhCcccCCCCCCcHHHHHHHHHHHHHhhhccccccccccEEEEEECCCcccCccHHHHHHHHHHHcCCeEEEEEEc
Confidence 3333 2223567899999999999999865 22222 257777766552 33444456699999999999999998
Q ss_pred ch
Q 014401 229 AE 230 (425)
Q Consensus 229 ~e 230 (425)
+.
T Consensus 204 ~~ 205 (266)
T cd01460 204 NP 205 (266)
T ss_pred CC
Confidence 74
No 34
>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=99.63 E-value=1.6e-14 Score=125.33 Aligned_cols=152 Identities=20% Similarity=0.263 Sum_probs=122.0
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhc-
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG- 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~- 164 (425)
+++++||.|.|| .++++..++..+..++..+...++..++||+.|. +......+++. +...+.+.+.....
T Consensus 2 ~v~~viD~S~Sm-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (161)
T cd00198 2 DIVFLLDVSGSM-----GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFG-SNARVVLPLTTDTDKADLLEAIDALKKG 75 (161)
T ss_pred cEEEEEeCCCCc-----CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEec-CccceeecccccCCHHHHHHHHHhcccC
Confidence 789999999999 5689999999999999999887788999999995 67888888876 66677677765433
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCcc-CHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHHhh
Q 014401 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT 241 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~-~i~~ti~~akk~~I~V~vIglg~--e~~iLk~iA~~T 241 (425)
..|++++..||..|...+........+++||++++....+.. ++.++++.+++.+|+|++|++|. ....|+.++..|
T Consensus 76 ~~~~t~~~~al~~~~~~~~~~~~~~~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v~v~~v~~g~~~~~~~l~~l~~~~ 155 (161)
T cd00198 76 LGGGTNIGAALRLALELLKSAKRPNARRVIILLTDGEPNDGPELLAEAARELRKLGITVYTIGIGDDANEDELKEIADKT 155 (161)
T ss_pred CCCCccHHHHHHHHHHHhcccCCCCCceEEEEEeCCCCCCCcchhHHHHHHHHHcCCEEEEEEcCCCCCHHHHHHHhccc
Confidence 678899999999999999875223344566666554433332 67789999999999999999995 689999999998
Q ss_pred -CCeE
Q 014401 242 -GGSY 245 (425)
Q Consensus 242 -GG~Y 245 (425)
+|.|
T Consensus 156 ~~~~~ 160 (161)
T cd00198 156 TGGAV 160 (161)
T ss_pred ccccc
Confidence 5554
No 35
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=99.63 E-value=1.8e-14 Score=137.38 Aligned_cols=169 Identities=16% Similarity=0.115 Sum_probs=130.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~~ 165 (425)
+|+++||.|+||. +++|+.+++.+..|++.+.-.....|+|||.| +..+.+..||+. +..++.++|..+.-.
T Consensus 4 DlvfllD~S~Sm~-----~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~f-s~~~~~~~~l~~~~~~~~l~~~i~~i~~~ 77 (224)
T cd01475 4 DLVFLIDSSRSVR-----PENFELVKQFLNQIIDSLDVGPDATRVGLVQY-SSTVKQEFPLGRFKSKADLKRAVRRMEYL 77 (224)
T ss_pred cEEEEEeCCCCCC-----HHHHHHHHHHHHHHHHhcccCCCccEEEEEEe-cCceeEEecccccCCHHHHHHHHHhCcCC
Confidence 8999999999995 46899999999999988755555679999999 588999999983 456666777654334
Q ss_pred CCcchHHHHHHHHHHHHhC-----CCCC-CCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHH
Q 014401 166 SGDSSLQNALDLVQGLLSQ-----IPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLC 238 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~-----~p~~-~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA 238 (425)
.|+|.++.||..|+..+.. .|.. ..+++|||++++.+. .++.+.++.+++.||+|++||+|. +...|++||
T Consensus 78 ~~~t~tg~AL~~a~~~~~~~~~g~r~~~~~~~kvvillTDG~s~--~~~~~~a~~lk~~gv~i~~VgvG~~~~~~L~~ia 155 (224)
T cd01475 78 ETGTMTGLAIQYAMNNAFSEAEGARPGSERVPRVGIVVTDGRPQ--DDVSEVAAKARALGIEMFAVGVGRADEEELREIA 155 (224)
T ss_pred CCCChHHHHHHHHHHHhCChhcCCCCCCCCCCeEEEEEcCCCCc--ccHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHh
Confidence 5778999999999876532 1111 125677777665443 357788999999999999999996 468899999
Q ss_pred HhhCC-eEEEecCHhHHHHHHHhcCCC
Q 014401 239 QDTGG-SYSVALDESHFKELIMEHAPP 264 (425)
Q Consensus 239 ~~TGG-~Y~~~~d~~~L~~lL~~~~~p 264 (425)
..+++ .|+.+.|-+.|..+...+...
T Consensus 156 s~~~~~~~f~~~~~~~l~~~~~~l~~~ 182 (224)
T cd01475 156 SEPLADHVFYVEDFSTIEELTKKFQGK 182 (224)
T ss_pred CCCcHhcEEEeCCHHHHHHHhhhcccc
Confidence 87765 567788888899888877643
No 36
>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=99.62 E-value=3e-14 Score=131.25 Aligned_cols=167 Identities=17% Similarity=0.149 Sum_probs=118.4
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC----HHH---HHHHHh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PES---HIKALM 160 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d----~~~---~i~~L~ 160 (425)
+++++||.|+||... +|+..+++.+..|++.+.-.++..++|||+| ++.+..+.|++.. ... .++.|.
T Consensus 2 Dv~~vlD~SgSm~~~----~~~~~~k~~~~~~~~~~~~~~~~~~vglv~F-s~~~~~~~~l~~~~~~~~~~~~~~i~~l~ 76 (186)
T cd01471 2 DLYLLVDGSGSIGYS----NWVTHVVPFLHTFVQNLNISPDEINLYLVTF-STNAKELIRLSSPNSTNKDLALNAIRALL 76 (186)
T ss_pred cEEEEEeCCCCccch----hhHHHHHHHHHHHHHhcccCCCceEEEEEEe-cCCceEEEECCCccccchHHHHHHHHHHH
Confidence 799999999999764 4799999999999988754555679999999 5889999888753 333 333343
Q ss_pred hhhcCCCcchHHHHHHHHHHHHhCC--CCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHH
Q 014401 161 GKLGCSGDSSLQNALDLVQGLLSQI--PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKH 236 (425)
Q Consensus 161 ~~l~~~G~tsL~~AL~~A~~~L~~~--p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~--e~~iLk~ 236 (425)
....+.|+|++..||..|.+.+... .....+++|||++++...++....++++.+++.||.|++||+|. +...|+.
T Consensus 77 ~~~~~~G~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~~~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ 156 (186)
T cd01471 77 SLYYPNGSTNTTSALLVVEKHLFDTRGNRENAPQLVIIMTDGIPDSKFRTLKEARKLRERGVIIAVLGVGQGVNHEENRS 156 (186)
T ss_pred hCcCCCCCccHHHHHHHHHHHhhccCCCcccCceEEEEEccCCCCCCcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHH
Confidence 3334678999999999999999752 11122345555554444344455577889999999999999986 4688999
Q ss_pred HHHhhC-C---eEEEecCHhHHHHHHH
Q 014401 237 LCQDTG-G---SYSVALDESHFKELIM 259 (425)
Q Consensus 237 iA~~TG-G---~Y~~~~d~~~L~~lL~ 259 (425)
||..-+ . ..+...+-++++..+.
T Consensus 157 ia~~~~~~~~~~~~~~~~~~~~~~~~~ 183 (186)
T cd01471 157 LVGCDPDDSPCPLYLQSSWSEVQNVIK 183 (186)
T ss_pred hcCCCCCCCCCCeeecCCHHHHHHHhh
Confidence 987541 1 2333455555555543
No 37
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=99.60 E-value=3.7e-14 Score=152.80 Aligned_cols=165 Identities=21% Similarity=0.232 Sum_probs=126.2
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCC
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~ 166 (425)
..++|+||.|+||.. +||..+|.++..|+.+-+ .+.++||||+|++..++++.|+|.+.......|.. +...
T Consensus 402 ~~vvfvvD~SGSM~~-----~rl~~aK~a~~~ll~~ay--~~rD~v~lI~F~g~~a~~~lppT~~~~~~~~~L~~-l~~g 473 (584)
T PRK13406 402 TTTIFVVDASGSAAL-----HRLAEAKGAVELLLAEAY--VRRDQVALVAFRGRGAELLLPPTRSLVRAKRSLAG-LPGG 473 (584)
T ss_pred ccEEEEEECCCCCcH-----hHHHHHHHHHHHHHHhhc--CCCCEEEEEEECCCceeEEcCCCcCHHHHHHHHhc-CCCC
Confidence 499999999999953 599999999999997643 35689999999756699999999998887777764 3667
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCc-----------cCHHHHHHHHHhCCcEEEEEEecchH-HHH
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP-----------GDIMETIQKCKESKIRCSVIGLSAEM-FIC 234 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp-----------~~i~~ti~~akk~~I~V~vIglg~e~-~iL 234 (425)
|+|.|..||.+|++.+.+....+.+.+|||++++..+.+ .+..+++..+++.+|++++|.++... ..+
T Consensus 474 GgTpL~~gL~~A~~~l~~~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~ 553 (584)
T PRK13406 474 GGTPLAAGLDAAAALALQVRRKGMTPTVVLLTDGRANIARDGTAGRAQAEEDALAAARALRAAGLPALVIDTSPRPQPQA 553 (584)
T ss_pred CCChHHHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCCccccccccchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHH
Confidence 899999999999999876533333345555443332211 12345688889999999999998654 579
Q ss_pred HHHHHhhCCeEEEe--cCHhHHHHHHH
Q 014401 235 KHLCQDTGGSYSVA--LDESHFKELIM 259 (425)
Q Consensus 235 k~iA~~TGG~Y~~~--~d~~~L~~lL~ 259 (425)
++||+.|||.||.. .+.+.+..+..
T Consensus 554 ~~LA~~~gg~y~~l~~~~a~~~~~~v~ 580 (584)
T PRK13406 554 RALAEAMGARYLPLPRADAGRLSQAVR 580 (584)
T ss_pred HHHHHhcCCeEEECCCCCHHHHHHHHH
Confidence 99999999999975 45555655543
No 38
>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=99.60 E-value=6.2e-14 Score=127.00 Aligned_cols=151 Identities=17% Similarity=0.124 Sum_probs=116.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT--~d~~~~i~~L~~~l~~ 165 (425)
+++++||.|+||.. .++..+++.+..+++.+--.++..++|||.| ++.+....|++ .+.+.+.+.|.+...+
T Consensus 2 Dv~~vlD~S~Sm~~-----~~~~~~k~~~~~l~~~~~~~~~~~rvgli~f-s~~~~~~~~l~~~~~~~~l~~~l~~~~~~ 75 (164)
T cd01482 2 DIVFLVDGSWSIGR-----SNFNLVRSFLSSVVEAFEIGPDGVQVGLVQY-SDDPRTEFDLNAYTSKEDVLAAIKNLPYK 75 (164)
T ss_pred CEEEEEeCCCCcCh-----hhHHHHHHHHHHHHhheeeCCCceEEEEEEE-CCCeeEEEecCCCCCHHHHHHHHHhCcCC
Confidence 78999999999963 4788999999999988754556799999999 48899999997 4556677777665446
Q ss_pred CCcchHHHHHHHHHHHHhCC-C--CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHHhh
Q 014401 166 SGDSSLQNALDLVQGLLSQI-P--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDT 241 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~-p--~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-~~iLk~iA~~T 241 (425)
.|+|+++.||..|...+... . ....+++|||++++.+. .++.++++.+++.||.|++||+|.. ...|++||..+
T Consensus 76 ~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~--~~~~~~a~~lk~~gi~i~~ig~g~~~~~~L~~ia~~~ 153 (164)
T cd01482 76 GGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQ--DDVELPARVLRNLGVNVFAVGVKDADESELKMIASKP 153 (164)
T ss_pred CCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCC--chHHHHHHHHHHCCCEEEEEecCcCCHHHHHHHhCCC
Confidence 78999999999988765331 1 12344567776655442 3567889999999999999999854 67899999887
Q ss_pred CCeEE
Q 014401 242 GGSYS 246 (425)
Q Consensus 242 GG~Y~ 246 (425)
.+.+.
T Consensus 154 ~~~~~ 158 (164)
T cd01482 154 SETHV 158 (164)
T ss_pred chheE
Confidence 76544
No 39
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=8.8e-14 Score=127.75 Aligned_cols=156 Identities=18% Similarity=0.263 Sum_probs=135.7
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCC
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~ 166 (425)
-.+|++||.|..|...|+.|+||++-++.+.-.++.-|++||.+.+|+|........+++.+|.+...++..|... ...
T Consensus 4 EatvvliDNse~s~NgDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vlsT~T~~~gkilt~lhd~-~~~ 82 (243)
T COG5148 4 EATVVLIDNSEASQNGDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLSTPTKQRGKILTFLHDI-RLH 82 (243)
T ss_pred ceEEEEEeChhhhhcCCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhccchhhhhHHHHHhccc-ccc
Confidence 3689999999999999999999999999999999999999999999999998889999999999988888888763 557
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHHhhCC
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGG 243 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sr-eILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~--e~~iLk~iA~~TGG 243 (425)
|+..+..+|..|.-.|++..+.+.+ +|+++++|.-..+..++...++.++++||.|++|-+|. +...|.+.-+.|+-
T Consensus 83 g~a~~~~~lqiaql~lkhR~nk~q~qriVaFvgSpi~esedeLirlak~lkknnVAidii~fGE~~n~~~l~efIda~N~ 162 (243)
T COG5148 83 GGADIMRCLQIAQLILKHRDNKGQRQRIVAFVGSPIQESEDELIRLAKQLKKNNVAIDIIFFGEAANMAGLFEFIDATNF 162 (243)
T ss_pred CcchHHHHHHHHHHHHhcccCCccceEEEEEecCcccccHHHHHHHHHHHHhcCeeEEEEehhhhhhhhHHHHHHHhhcc
Confidence 8899999999999999998666654 57777888765555667788999999999999999994 46677777777775
No 40
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=99.57 E-value=1.1e-13 Score=146.87 Aligned_cols=176 Identities=15% Similarity=0.156 Sum_probs=130.3
Q ss_pred hhhhccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC----HHH
Q 014401 79 ARIQKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PES 154 (425)
Q Consensus 79 ~~~r~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d----~~~ 154 (425)
...++.+ +|+|+||.|.||. .+++++.++..+..||..+.-+.-..+||||+| ++.+..+.+++.. .+.
T Consensus 37 ~vC~~~l--DIvFLLD~SgSMg----~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~F-Sd~~r~vfpL~s~~s~Dk~~ 109 (576)
T PTZ00441 37 EVCNEEV--DLYLLVDGSGSIG----YHNWITHVIPMLMGLIQQLNLSDDAINLYMSLF-SNNTTELIRLGSGASKDKEQ 109 (576)
T ss_pred ccccCCc--eEEEEEeCCCccC----CccHHHHHHHHHHHHHHHhccCCCceEEEEEEe-CCCceEEEecCCCccccHHH
Confidence 3345666 9999999999996 357889999999999988765443456777888 5888888898754 235
Q ss_pred HHHHHhhhh---cCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-
Q 014401 155 HIKALMGKL---GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA- 229 (425)
Q Consensus 155 ~i~~L~~~l---~~~G~tsL~~AL~~A~~~L~~~p-~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~- 229 (425)
++.+|.++. .+.|+|.++.||..|...|.+.. .....++|||++++...+..+..++++.|++.||.|++||||.
T Consensus 110 aL~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~~dvleaAq~LR~~GVeI~vIGVG~g 189 (576)
T PTZ00441 110 ALIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSKYRALEESRKLKDRNVKLAVIGIGQG 189 (576)
T ss_pred HHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCcccHHHHHHHHHHCCCEEEEEEeCCC
Confidence 555555442 46789999999999999987531 1223356777665554344566678899999999999999996
Q ss_pred -hHHHHHHHH----HhhCCeEEEecCHhHHHHHHHhc
Q 014401 230 -EMFICKHLC----QDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 230 -e~~iLk~iA----~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
...+|+.|| ..++|.||...+-+.|+.+...+
T Consensus 190 ~n~e~LrlIAgC~p~~g~c~~Y~vadf~eL~~ivk~L 226 (576)
T PTZ00441 190 INHQFNRLLAGCRPREGKCKFYSDADWEEAKNLIKPF 226 (576)
T ss_pred cCHHHHHHHhccCCCCCCCceEEeCCHHHHHHHHHHH
Confidence 467889898 45677899888877776665444
No 41
>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=99.56 E-value=1.3e-13 Score=129.00 Aligned_cols=167 Identities=11% Similarity=0.150 Sum_probs=116.8
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC----HHHHHHHHhhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d----~~~~i~~L~~~l 163 (425)
+|+++||.|.||...|+.+.+...++. +++.|.-.....|+|||.|. +.+++..|++.+ ...+++++.++.
T Consensus 2 Di~fllD~S~Si~~~~f~~~~~~f~~~----lv~~l~i~~~~~rvgvv~fs-~~~~~~~~~~~~~~~~~~~l~~~i~~l~ 76 (192)
T cd01473 2 DLTLILDESASIGYSNWRKDVIPFTEK----IINNLNISKDKVHVGILLFA-EKNRDVVPFSDEERYDKNELLKKINDLK 76 (192)
T ss_pred cEEEEEeCCCcccHHHHHHHHHHHHHH----HHHhCccCCCccEEEEEEec-CCceeEEecCcccccCHHHHHHHHHHHH
Confidence 799999999999988776555555444 45454445557899999994 899999999854 345556665442
Q ss_pred ---cCCCcchHHHHHHHHHHHHhCCCC--CCCcEEEEEEeCCCCCCc--cCHHHHHHHHHhCCcEEEEEEecch-HHHHH
Q 014401 164 ---GCSGDSSLQNALDLVQGLLSQIPS--YGHREVLILYSALSTCDP--GDIMETIQKCKESKIRCSVIGLSAE-MFICK 235 (425)
Q Consensus 164 ---~~~G~tsL~~AL~~A~~~L~~~p~--~~sreILVI~~s~~t~dp--~~i~~ti~~akk~~I~V~vIglg~e-~~iLk 235 (425)
.+.|+|.++.||+.|++.+....+ ...++|+||++++.+.++ .++.++++.|++.||+|++||+|.. ...|+
T Consensus 77 ~~~~~~g~T~~~~AL~~a~~~~~~~~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~ 156 (192)
T cd01473 77 NSYRSGGETYIVEALKYGLKNYTKHGNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGAASENKLK 156 (192)
T ss_pred hccCCCCcCcHHHHHHHHHHHhccCCCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEeccccHHHHH
Confidence 357899999999999999865321 222567777776655443 3467889999999999999999964 46688
Q ss_pred HHHHh--hCCe--EEEecCHhHHHHHHH
Q 014401 236 HLCQD--TGGS--YSVALDESHFKELIM 259 (425)
Q Consensus 236 ~iA~~--TGG~--Y~~~~d~~~L~~lL~ 259 (425)
.||.- ..+. |+...+-+.|..+-.
T Consensus 157 ~ia~~~~~~~~~~~~~~~~f~~l~~~~~ 184 (192)
T cd01473 157 LLAGCDINNDNCPNVIKTEWNNLNGISK 184 (192)
T ss_pred HhcCCCCCCCCCCeEEecchhhHHHHHH
Confidence 88853 2222 333334555555543
No 42
>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=99.55 E-value=1.5e-13 Score=123.46 Aligned_cols=167 Identities=19% Similarity=0.217 Sum_probs=130.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC--HHHHHHHH-hhhhc
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKAL-MGKLG 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d--~~~~i~~L-~~~l~ 164 (425)
+|+++||.|.||.. +++..+++.+..|++.+...++..++|||.| +..+..+.+++.. ..+....+ .....
T Consensus 1 DivflvD~S~sm~~-----~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f-~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 74 (178)
T PF00092_consen 1 DIVFLVDTSGSMSG-----DNFEKAKQFVKSIISRLSISNNGTRVGIVTF-SDSARVLFSLTDYQSKNDLLNAINDSIPS 74 (178)
T ss_dssp EEEEEEE-STTSCH-----HHHHHHHHHHHHHHHHSTBSTTSEEEEEEEE-SSSEEEEEETTSHSSHHHHHHHHHTTGGC
T ss_pred CEEEEEeCCCCCch-----HHHHHHHHHHHHHHHhhhccccccccceeee-ecccccccccccccccccccccccccccc
Confidence 68999999999976 5799999999999998867888999999999 5888889998753 56677776 44445
Q ss_pred CCCcchHHHHHHHHHHHHhCC---CCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh-CCcEEEEEEe-cchHHHHHHHHH
Q 014401 165 CSGDSSLQNALDLVQGLLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGL-SAEMFICKHLCQ 239 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~---p~~~sreILVI~~s~~t~dp~~i~~ti~~akk-~~I~V~vIgl-g~e~~iLk~iA~ 239 (425)
..|+|+++.||..|...+... .....+++||+++++...+..........+++ .+|.+.+||+ +.+...|+.|+.
T Consensus 75 ~~g~t~~~~aL~~a~~~l~~~~~~~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~i~~~~ig~~~~~~~~l~~la~ 154 (178)
T PF00092_consen 75 SGGGTNLGAALKFAREQLFSSNNGGRPNSPKVIILITDGNSNDSDSPSEEAANLKKSNGIKVIAIGIDNADNEELRELAS 154 (178)
T ss_dssp CBSSB-HHHHHHHHHHHTTSGGGTTGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHHCTEEEEEEEESCCHHHHHHHHSH
T ss_pred cchhhhHHHHHhhhhhcccccccccccccccceEEEEeecccCCcchHHHHHHHHHhcCcEEEEEecCcCCHHHHHHHhC
Confidence 778999999999999999764 22355678888776665555445555555555 5999999999 788999999997
Q ss_pred hh--CCeEEEecCHhHHHHHHHh
Q 014401 240 DT--GGSYSVALDESHFKELIME 260 (425)
Q Consensus 240 ~T--GG~Y~~~~d~~~L~~lL~~ 260 (425)
.+ +|.++...+...+.++..+
T Consensus 155 ~~~~~~~~~~~~~~~~l~~~~~~ 177 (178)
T PF00092_consen 155 CPTSEGHVFYLADFSDLSQIIQQ 177 (178)
T ss_dssp SSTCHHHEEEESSHHHHHHHHHH
T ss_pred CCCCCCcEEEcCCHHHHHHHHhc
Confidence 64 3677788898888887654
No 43
>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=99.50 E-value=5.8e-13 Score=144.35 Aligned_cols=162 Identities=16% Similarity=0.199 Sum_probs=115.1
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHH---HHHHHHhh
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPE---SHIKALMG 161 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~---~~i~~L~~ 161 (425)
++++++||.|+||.. +++..++.++..+++. .+|.++++||+| ++.+..+.|.+. +.. .....|.+
T Consensus 272 ~~vvfvlD~SgSM~g-----~~i~~ak~al~~~l~~---L~~~d~~~ii~F-~~~~~~~~~~~~~~~~~~~~~a~~~i~~ 342 (596)
T TIGR03788 272 RELVFVIDTSGSMAG-----ESIEQAKSALLLALDQ---LRPGDRFNIIQF-DSDVTLLFPVPVPATAHNLARARQFVAG 342 (596)
T ss_pred ceEEEEEECCCCCCC-----ccHHHHHHHHHHHHHh---CCCCCEEEEEEE-CCcceEeccccccCCHHHHHHHHHHHhh
Confidence 689999999999975 4688899988888875 467799999999 588888877643 222 22333433
Q ss_pred hhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--HHHHHHHHH
Q 014401 162 KLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQ 239 (425)
Q Consensus 162 ~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e--~~iLk~iA~ 239 (425)
+.+.|+|+|..||..|+...........+.||+|+++. ..+...+.+.++. +..+++|++||+|.+ ..+|++||+
T Consensus 343 -l~a~GgT~l~~aL~~a~~~~~~~~~~~~~~iillTDG~-~~~~~~~~~~~~~-~~~~~ri~tvGiG~~~n~~lL~~lA~ 419 (596)
T TIGR03788 343 -LQADGGTEMAGALSAALRDDGPESSGALRQVVFLTDGA-VGNEDALFQLIRT-KLGDSRLFTVGIGSAPNSYFMRKAAQ 419 (596)
T ss_pred -CCCCCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCC-CCCHHHHHHHHHH-hcCCceEEEEEeCCCcCHHHHHHHHH
Confidence 35779999999999999875433222345566666553 2233333333322 234699999999975 689999999
Q ss_pred hhCCeEEEecCHhHHHHHHHh
Q 014401 240 DTGGSYSVALDESHFKELIME 260 (425)
Q Consensus 240 ~TGG~Y~~~~d~~~L~~lL~~ 260 (425)
.+||.|..+.+.+++.+.+..
T Consensus 420 ~g~G~~~~i~~~~~~~~~~~~ 440 (596)
T TIGR03788 420 FGRGSFTFIGSTDEVQRKMSQ 440 (596)
T ss_pred cCCCEEEECCCHHHHHHHHHH
Confidence 999999998888776544333
No 44
>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=99.50 E-value=3.8e-13 Score=127.76 Aligned_cols=144 Identities=18% Similarity=0.193 Sum_probs=103.7
Q ss_pred eEEEEEeCCHhhhcC-CC-CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCc---------eEEeeCCCCCHHHHH
Q 014401 88 YLYIVIDLSRAAAEM-DF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV---------ANCLTDLGGSPESHI 156 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~-D~-~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~---------A~~lspLT~d~~~~i 156 (425)
.++++||+|+||... |. .|+||+.+++.+..|+++..-.+|.+++|||.|+... .+++.|+.......+
T Consensus 3 ~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~~~l 82 (218)
T cd01458 3 SVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGAERV 82 (218)
T ss_pred EEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCCHHHH
Confidence 579999999999855 33 4999999999999999976667999999999995332 235677744333444
Q ss_pred HHHhhhhc-----------CCCcchHHHHHHHHHHHHhCC-CCCCCcEEEEEEeCCCCCC-----ccCHHHHHHHHHhCC
Q 014401 157 KALMGKLG-----------CSGDSSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTCD-----PGDIMETIQKCKESK 219 (425)
Q Consensus 157 ~~L~~~l~-----------~~G~tsL~~AL~~A~~~L~~~-p~~~sreILVI~~s~~t~d-----p~~i~~ti~~akk~~ 219 (425)
+.|.+.+. ..++++|.+||..|+.+|.+. +....|+|++|+++.+... +.++...++.+++.|
T Consensus 83 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~~~~~~~~~~~a~~l~~~g 162 (218)
T cd01458 83 EDLKELIEPGGLSFAGQVGDSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGDSIKDSQAAVKAEDLKDKG 162 (218)
T ss_pred HHHHHHhhcchhhhcccCCCCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCCHHHHHHHHHHHHHHHhCC
Confidence 55554331 245789999999999999873 2244566666665433221 122345678888899
Q ss_pred cEEEEEEecchH
Q 014401 220 IRCSVIGLSAEM 231 (425)
Q Consensus 220 I~V~vIglg~e~ 231 (425)
|.|++||++.+.
T Consensus 163 I~i~~i~i~~~~ 174 (218)
T cd01458 163 IELELFPLSSPG 174 (218)
T ss_pred cEEEEEecCCCC
Confidence 999999999764
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=99.50 E-value=1.5e-12 Score=116.91 Aligned_cols=145 Identities=14% Similarity=0.135 Sum_probs=106.0
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCC--ceEEeeCCCC--CHHHHHHHHhhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG--VANCLTDLGG--SPESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g--~A~~lspLT~--d~~~~i~~L~~~l 163 (425)
+++++||.|+||.. ++..+++.++.++..+....+..++|||.|. + .+.+..|++. +...+.+.|..+.
T Consensus 2 dv~~llD~S~Sm~~------~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~-~~~~~~~~~~l~~~~~~~~l~~~i~~l~ 74 (163)
T cd01476 2 DLLFVLDSSGSVRG------KFEKYKKYIERIVEGLEIGPTATRVALITYS-GRGRQRVRFNLPKHNDGEELLEKVDNLR 74 (163)
T ss_pred CEEEEEeCCcchhh------hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEc-CCCceEEEecCCCCCCHHHHHHHHHhCc
Confidence 68999999999963 5777888899999887766667999999995 6 6888888874 5666777776643
Q ss_pred cCCCcchHHHHHHHHHHHHhCCC--CCCCcEEEEEEeCCCCCCccCHHHHHHHHHh-CCcEEEEEEecch----HHHHHH
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIP--SYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAE----MFICKH 236 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p--~~~sreILVI~~s~~t~dp~~i~~ti~~akk-~~I~V~vIglg~e----~~iLk~ 236 (425)
.+.|+|+++.||..|...|.... ....++++||++++.+. .+....++.+++ .+|.|++||+|.. ...|++
T Consensus 75 ~~gg~T~l~~aL~~a~~~l~~~~~~r~~~~~~villTDG~~~--~~~~~~~~~l~~~~~v~v~~vg~g~~~~~~~~~L~~ 152 (163)
T cd01476 75 FIGGTTATGAAIEVALQQLDPSEGRREGIPKVVVVLTDGRSH--DDPEKQARILRAVPNIETFAVGTGDPGTVDTEELHS 152 (163)
T ss_pred cCCCCccHHHHHHHHHHHhccccCCCCCCCeEEEEECCCCCC--CchHHHHHHHhhcCCCEEEEEECCCccccCHHHHHH
Confidence 34677999999999999996321 11233566666654432 235566788888 9999999999976 355555
Q ss_pred HHHhh
Q 014401 237 LCQDT 241 (425)
Q Consensus 237 iA~~T 241 (425)
||...
T Consensus 153 ia~~~ 157 (163)
T cd01476 153 ITGNE 157 (163)
T ss_pred HhCCC
Confidence 55433
No 46
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=99.49 E-value=9.1e-13 Score=143.78 Aligned_cols=154 Identities=21% Similarity=0.244 Sum_probs=117.4
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
.++|+||+|+||.. .+|+..++..+..|+...+. +.+++|||+|.+..++++.|+|.+.......|.. +.+.|
T Consensus 467 ~vv~vvD~SgSM~~----~~rl~~ak~a~~~ll~~a~~--~~D~v~lI~F~g~~a~~~~p~t~~~~~~~~~L~~-l~~gG 539 (633)
T TIGR02442 467 LVIFVVDASGSMAA----RGRMAAAKGAVLSLLRDAYQ--KRDKVALITFRGEEAEVLLPPTSSVELAARRLEE-LPTGG 539 (633)
T ss_pred eEEEEEECCccCCC----ccHHHHHHHHHHHHHHHhhc--CCCEEEEEEECCCCceEEcCCCCCHHHHHHHHHh-CCCCC
Confidence 89999999999974 36999999999999876543 3589999999645799999999887766666654 35678
Q ss_pred cchHHHHHHHHHHHHhCC--CCCCCcEEEEEEeCCCCCCc-------cCHHHHHHHHHhCCcEEEEEEecch---HHHHH
Q 014401 168 DSSLQNALDLVQGLLSQI--PSYGHREVLILYSALSTCDP-------GDIMETIQKCKESKIRCSVIGLSAE---MFICK 235 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~--p~~~sreILVI~~s~~t~dp-------~~i~~ti~~akk~~I~V~vIglg~e---~~iLk 235 (425)
+|.|..||..|...+.+. .....+.+|||++++..+.+ .+...++..+++.+|.+.+|..+.. ...++
T Consensus 540 ~Tpl~~aL~~A~~~l~~~~~~~~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~ 619 (633)
T TIGR02442 540 RTPLAAGLLKAAEVLSNELLRDDDGRPLLVVITDGRANVADGGEPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAE 619 (633)
T ss_pred CCCHHHHHHHHHHHHHHhhccCCCCceEEEEECCCCCCCCCCCCChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHH
Confidence 999999999999999831 12234445666554433221 1234557788889999999988653 57899
Q ss_pred HHHHhhCCeEEEe
Q 014401 236 HLCQDTGGSYSVA 248 (425)
Q Consensus 236 ~iA~~TGG~Y~~~ 248 (425)
+||+.+||.|+..
T Consensus 620 ~lA~~~gg~y~~l 632 (633)
T TIGR02442 620 DLARALGGEYVRL 632 (633)
T ss_pred HHHHhhCCeEEec
Confidence 9999999999864
No 47
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=99.49 E-value=7.9e-13 Score=118.15 Aligned_cols=143 Identities=19% Similarity=0.281 Sum_probs=101.1
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CH---HHHHHHHhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SP---ESHIKALMGK 162 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~---~~~i~~L~~~ 162 (425)
++||+||+|.||... . ..+++.+..+++. ..|.+++.||.|. ..+..+.|-.. +. +...+.|++
T Consensus 2 ~vvilvD~S~Sm~g~-----~-~~~k~al~~~l~~---L~~~d~fnii~f~-~~~~~~~~~~~~~~~~~~~~a~~~I~~- 70 (155)
T PF13768_consen 2 DVVILVDTSGSMSGE-----K-ELVKDALRAILRS---LPPGDRFNIIAFG-SSVRPLFPGLVPATEENRQEALQWIKS- 70 (155)
T ss_pred eEEEEEeCCCCCCCc-----H-HHHHHHHHHHHHh---CCCCCEEEEEEeC-CEeeEcchhHHHHhHHHHHHHHHHHHH-
Confidence 689999999999753 3 7888888888877 4678999999994 67776665421 11 222333433
Q ss_pred hcC-CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh--CCcEEEEEEecch--HHHHHHH
Q 014401 163 LGC-SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE--SKIRCSVIGLSAE--MFICKHL 237 (425)
Q Consensus 163 l~~-~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk--~~I~V~vIglg~e--~~iLk~i 237 (425)
+.+ .|+|.+..||+.|+..+.. ....+.|++|+++..+..+ ..+++.+++ .+|+|+++|+|.. ..+|++|
T Consensus 71 ~~~~~G~t~l~~aL~~a~~~~~~--~~~~~~IilltDG~~~~~~---~~i~~~v~~~~~~~~i~~~~~g~~~~~~~L~~L 145 (155)
T PF13768_consen 71 LEANSGGTDLLAALRAALALLQR--PGCVRAIILLTDGQPVSGE---EEILDLVRRARGHIRIFTFGIGSDADADFLREL 145 (155)
T ss_pred hcccCCCccHHHHHHHHHHhccc--CCCccEEEEEEeccCCCCH---HHHHHHHHhcCCCceEEEEEECChhHHHHHHHH
Confidence 345 8999999999999988722 2334556666654422222 344444433 5799999999974 5899999
Q ss_pred HHhhCCeEE
Q 014401 238 CQDTGGSYS 246 (425)
Q Consensus 238 A~~TGG~Y~ 246 (425)
|+.|||.|.
T Consensus 146 A~~~~G~~~ 154 (155)
T PF13768_consen 146 ARATGGSFH 154 (155)
T ss_pred HHcCCCEEE
Confidence 999999995
No 48
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=99.48 E-value=3.8e-13 Score=123.20 Aligned_cols=142 Identities=19% Similarity=0.259 Sum_probs=99.5
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccC---CCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhc
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQN---PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qn---P~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~ 164 (425)
.++++||.|+||.. .++..+++.+..|++.+.... +..++|||+| ++.++.+.|++...... + ..+.
T Consensus 5 ~v~~llD~SgSM~~-----~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F-~~~a~~~~~l~~~~~~~---~-~~l~ 74 (176)
T cd01464 5 PIYLLLDTSGSMAG-----EPIEALNQGLQMLQSELRQDPYALESVEISVITF-DSAARVIVPLTPLESFQ---P-PRLT 74 (176)
T ss_pred CEEEEEECCCCCCC-----hHHHHHHHHHHHHHHHHhcChhhccccEEEEEEe-cCCceEecCCccHHhcC---C-Cccc
Confidence 68999999999965 368888888998988765422 4678999999 58999999998642211 1 2235
Q ss_pred CCCcchHHHHHHHHHHHHhCCCC-------CCCcEEEEEE-eCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHH
Q 014401 165 CSGDSSLQNALDLVQGLLSQIPS-------YGHREVLILY-SALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFIC 234 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~p~-------~~sreILVI~-~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~--e~~iL 234 (425)
..|+|++..||..|++.|..... ...+.+||++ ++..+.++....+.++.+++.+++|++||+|. +...|
T Consensus 75 ~~GgT~l~~aL~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L 154 (176)
T cd01464 75 ASGGTSMGAALELALDCIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTL 154 (176)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHHHHhhcccCCcEEEEEeccccCHHHH
Confidence 67899999999999999965210 1112344554 44333222222355677777789999999996 46788
Q ss_pred HHHHH
Q 014401 235 KHLCQ 239 (425)
Q Consensus 235 k~iA~ 239 (425)
++||.
T Consensus 155 ~~ia~ 159 (176)
T cd01464 155 KQITE 159 (176)
T ss_pred HHHHC
Confidence 88874
No 49
>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=99.47 E-value=1.6e-12 Score=140.80 Aligned_cols=155 Identities=22% Similarity=0.236 Sum_probs=117.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
.++|+||.|+||. .+||..++..+..|+...+. +.+++|||+|.++.+.++.|+|.+.......|.. +.+.|
T Consensus 409 ~v~fvvD~SGSM~-----~~rl~~aK~av~~Ll~~~~~--~~D~v~Li~F~~~~a~~~lp~t~~~~~~~~~L~~-l~~gG 480 (589)
T TIGR02031 409 LLIFVVDASGSAA-----VARMSEAKGAVELLLGEAYV--HRDQVSLIAFRGTAAEVLLPPSRSVEQAKRRLDV-LPGGG 480 (589)
T ss_pred eEEEEEECCCCCC-----hHHHHHHHHHHHHHHHhhcc--CCCEEEEEEECCCCceEECCCCCCHHHHHHHHhc-CCCCC
Confidence 6899999999994 36999999999999986543 4589999999756678889999887776666654 35778
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCc----------------cCHHHHHHHHHhCCcEEEEEEecch-
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP----------------GDIMETIQKCKESKIRCSVIGLSAE- 230 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp----------------~~i~~ti~~akk~~I~V~vIglg~e- 230 (425)
+|.|..||.+|++.+.+......+.+|||++++..+.+ .++...+..+++.||.+.+|+++..
T Consensus 481 gTpL~~gL~~A~~~~~~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~ 560 (589)
T TIGR02031 481 GTPLAAGLAAAFQTALQARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAMRF 560 (589)
T ss_pred CCcHHHHHHHHHHHHHHhcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCC
Confidence 99999999999999975422233334555543332211 1234557888999999999999864
Q ss_pred --HHHHHHHHHhhCCeEEEecC
Q 014401 231 --MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 231 --~~iLk~iA~~TGG~Y~~~~d 250 (425)
...+++||+..||.|+...+
T Consensus 561 ~~~~~~~~lA~~~~g~y~~l~~ 582 (589)
T TIGR02031 561 VSTGFAQKLARKMGAHYIYLPN 582 (589)
T ss_pred ccchHHHHHHHhcCCcEEeCCC
Confidence 46799999999999998654
No 50
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=99.47 E-value=1.8e-12 Score=125.19 Aligned_cols=160 Identities=20% Similarity=0.259 Sum_probs=125.8
Q ss_pred hccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhh
Q 014401 82 QKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMG 161 (425)
Q Consensus 82 r~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~ 161 (425)
|-|. -+|+|+|.|.||... .|+.++|-.+..|+++-..++ ++|+||+|+..+|+++.|+|.+.+...+.|..
T Consensus 76 r~g~--lvvfvVDASgSM~~~----~Rm~aaKG~~~~lL~dAYq~R--dkvavI~F~G~~A~lll~pT~sv~~~~~~L~~ 147 (261)
T COG1240 76 RAGN--LIVFVVDASGSMAAR----RRMAAAKGAALSLLRDAYQRR--DKVAVIAFRGEKAELLLPPTSSVELAERALER 147 (261)
T ss_pred CcCC--cEEEEEeCcccchhH----HHHHHHHHHHHHHHHHHHHcc--ceEEEEEecCCcceEEeCCcccHHHHHHHHHh
Confidence 4455 899999999999875 499999999999998876544 99999999888999999999999888888876
Q ss_pred hhcCCCcchHHHHHHHHHHHHhCCC--CCCCcEEEEEEeCCCCCCc--cC-HH---HHHHHHHhCCcEEEEEEecch---
Q 014401 162 KLGCSGDSSLQNALDLVQGLLSQIP--SYGHREVLILYSALSTCDP--GD-IM---ETIQKCKESKIRCSVIGLSAE--- 230 (425)
Q Consensus 162 ~l~~~G~tsL~~AL~~A~~~L~~~p--~~~sreILVI~~s~~t~dp--~~-i~---~ti~~akk~~I~V~vIglg~e--- 230 (425)
+ .+.|.|.|..||.+|.+.+.+.. +...+-++|+++++..+++ .+ .. ++...+...++.+-+|.....
T Consensus 148 l-~~GG~TPL~~aL~~a~ev~~r~~r~~p~~~~~~vviTDGr~n~~~~~~~~~e~~~~a~~~~~~g~~~lvid~e~~~~~ 226 (261)
T COG1240 148 L-PTGGKTPLADALRQAYEVLAREKRRGPDRRPVMVVITDGRANVPIPLGPKAETLEAASKLRLRGIQLLVIDTEGSEVR 226 (261)
T ss_pred C-CCCCCCchHHHHHHHHHHHHHhhccCCCcceEEEEEeCCccCCCCCCchHHHHHHHHHHHhhcCCcEEEEecCCcccc
Confidence 4 67788999999999999998752 1223345555554433233 23 22 456667788999999888765
Q ss_pred HHHHHHHHHhhCCeEEEecC
Q 014401 231 MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 231 ~~iLk~iA~~TGG~Y~~~~d 250 (425)
..+.++||...||.|+...+
T Consensus 227 ~g~~~~iA~~~Gg~~~~L~~ 246 (261)
T COG1240 227 LGLAEEIARASGGEYYHLDD 246 (261)
T ss_pred ccHHHHHHHHhCCeEEeccc
Confidence 37899999999999998644
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=99.43 E-value=6.5e-12 Score=114.73 Aligned_cols=135 Identities=16% Similarity=0.147 Sum_probs=94.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCC---c--eEEeeCCCCCH---HHHHHHH
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---V--ANCLTDLGGSP---ESHIKAL 159 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g---~--A~~lspLT~d~---~~~i~~L 159 (425)
.++|+||.|+||... +|++.+++++..|+..+.. +.+++||++|.++ . ...+.+.+.+. ....+.|
T Consensus 2 ~v~~llD~SgSM~~~----~kl~~ak~a~~~l~~~l~~--~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 75 (174)
T cd01454 2 AVTLLLDLSGSMRSD----RRIDVAKKAAVLLAEALEA--CGVPHAILGFTTDAGGRERVRWIKIKDFDESLHERARKRL 75 (174)
T ss_pred EEEEEEECCCCCCCC----cHHHHHHHHHHHHHHHHHH--cCCcEEEEEecCCCCCccceEEEEecCcccccchhHHHHH
Confidence 478999999999754 7999999999999877654 5689999999643 1 13344222221 1233444
Q ss_pred hhhhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCc----cC---HHHH---HHHHHhCCcEEEEEEecc
Q 014401 160 MGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP----GD---IMET---IQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 160 ~~~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp----~~---i~~t---i~~akk~~I~V~vIglg~ 229 (425)
.. +.+.|+|+++.||..|...|...+ ..+++||+++++...+. ++ +.++ ++.+++.||+|++||+|.
T Consensus 76 ~~-~~~~g~T~~~~al~~a~~~l~~~~--~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~ 152 (174)
T cd01454 76 AA-LSPGGNTRDGAAIRHAAERLLARP--EKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDR 152 (174)
T ss_pred Hc-cCCCCCCcHHHHHHHHHHHHhcCC--CcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecC
Confidence 33 356778999999999999998753 23456666655443221 12 3344 788899999999999998
Q ss_pred hH
Q 014401 230 EM 231 (425)
Q Consensus 230 e~ 231 (425)
+.
T Consensus 153 ~~ 154 (174)
T cd01454 153 DA 154 (174)
T ss_pred cc
Confidence 64
No 52
>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=99.37 E-value=3.4e-11 Score=110.15 Aligned_cols=147 Identities=16% Similarity=0.128 Sum_probs=112.6
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhc
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~ 164 (425)
++|+++||.|.||. +..+..+++.+..+++.|--.+...|+|||.|. +.+....+|.. +..+++++|.++.-
T Consensus 1 ~DivfllD~S~Si~-----~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys-~~~~~~~~l~~~~~~~~l~~~i~~i~~ 74 (165)
T cd01481 1 KDIVFLIDGSDNVG-----SGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFS-DTPRPEFYLNTHSTKADVLGAVRRLRL 74 (165)
T ss_pred CCEEEEEeCCCCcC-----HHHHHHHHHHHHHHHhhccCCCCCcEEEEEEec-CCeeEEEeccccCCHHHHHHHHHhccc
Confidence 48999999999995 468899999999999887655556899999994 88888888864 45667777776422
Q ss_pred CCC-cchHHHHHHHHHHHHhCCCC-----CCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec-chHHHHHHH
Q 014401 165 CSG-DSSLQNALDLVQGLLSQIPS-----YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHL 237 (425)
Q Consensus 165 ~~G-~tsL~~AL~~A~~~L~~~p~-----~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg-~e~~iLk~i 237 (425)
..| +|..+.||..+...+-..+. .+.+++||+++++.+. .++.++++.|++.||.|++||+| .+..-|++|
T Consensus 75 ~~g~~t~t~~AL~~~~~~~f~~~~g~R~~~~~~kv~vviTdG~s~--d~~~~~a~~lr~~gv~i~~vG~~~~~~~eL~~i 152 (165)
T cd01481 75 RGGSQLNTGSALDYVVKNLFTKSAGSRIEEGVPQFLVLITGGKSQ--DDVERPAVALKRAGIVPFAIGARNADLAELQQI 152 (165)
T ss_pred CCCCcccHHHHHHHHHHhhcCccccCCccCCCCeEEEEEeCCCCc--chHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHH
Confidence 334 47999999999877654321 1223677777665543 36788999999999999999999 777888888
Q ss_pred HHhh
Q 014401 238 CQDT 241 (425)
Q Consensus 238 A~~T 241 (425)
|..-
T Consensus 153 as~p 156 (165)
T cd01481 153 AFDP 156 (165)
T ss_pred hCCC
Confidence 8554
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=99.36 E-value=3.7e-11 Score=107.02 Aligned_cols=133 Identities=13% Similarity=0.166 Sum_probs=92.2
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
+++|+||.|+||.. .|+..++..+..++..... +.++++||+|.++......+...+....++.|.. +.+.|
T Consensus 2 ~v~illD~SgSM~~-----~k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~~~~~~~~~~~~~~~~~~l~~-~~~~g 73 (152)
T cd01462 2 PVILLVDQSGSMYG-----APEEVAKAVALALLRIALA--ENRDTYLILFDSEFQTKIVDKTDDLEEPVEFLSG-VQLGG 73 (152)
T ss_pred CEEEEEECCCCCCC-----CHHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCceEEecCCcccHHHHHHHHhc-CCCCC
Confidence 68999999999963 4888999999988887764 3478999999644222222334455555555543 25678
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCC-CCCCccCHHHHHHHHHhCCcEEEEEEecch
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGLSAE 230 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~-~t~dp~~i~~ti~~akk~~I~V~vIglg~e 230 (425)
+|++..||..+...+.+.. ..+.+|||++++ +..++..+.+..+.+++.+++|++||+|..
T Consensus 74 gT~l~~al~~a~~~l~~~~--~~~~~ivliTDG~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 74 GTDINKALRYALELIERRD--PRKADIVLITDGYEGGVSDELLREVELKRSRVARFVALALGDH 135 (152)
T ss_pred CcCHHHHHHHHHHHHHhcC--CCCceEEEECCCCCCCCCHHHHHHHHHHHhcCcEEEEEEecCC
Confidence 9999999999999997642 223355555544 333343444446666777899999999964
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=99.36 E-value=1.9e-11 Score=114.39 Aligned_cols=149 Identities=16% Similarity=0.143 Sum_probs=103.2
Q ss_pred ceEEEEEeCCHhhhcCC--CCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhc
Q 014401 87 RYLYIVIDLSRAAAEMD--FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D--~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~ 164 (425)
|+++++||.|+||...+ ..|+|+..+++.+..++.-.. +...+.++++.| ++.+....|++ ...+.+.+.+ +.
T Consensus 3 ~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~-~~D~d~i~l~~f-~~~~~~~~~~~--~~~v~~~~~~-~~ 77 (199)
T cd01457 3 RDYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCE-EYDSDGITVYLF-SGDFRRYDNVN--SSKVDQLFAE-NS 77 (199)
T ss_pred cCEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHH-hcCCCCeEEEEe-cCCccccCCcC--HHHHHHHHhc-CC
Confidence 68999999999999876 678999999999999986543 333467999998 47777777876 4444444433 35
Q ss_pred CCCcchHHHHHHHHHHHHhC-CCC---CCCcEEEEEEeCCCCCCccCHHHHH-HHHHh----CCcEEEEEEecch---HH
Q 014401 165 CSGDSSLQNALDLVQGLLSQ-IPS---YGHREVLILYSALSTCDPGDIMETI-QKCKE----SKIRCSVIGLSAE---MF 232 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~-~p~---~~sreILVI~~s~~t~dp~~i~~ti-~~akk----~~I~V~vIglg~e---~~ 232 (425)
+.|+|.+..+|+.|+..+.. .+. ...+.+|||++++...+...+.++| +.+++ .+|.|++|+||.+ ..
T Consensus 78 p~G~T~l~~~l~~a~~~~~~~~~~~~~~p~~~~vIiiTDG~~~d~~~~~~~i~~a~~~l~~~~~i~i~~v~vG~~~~~~~ 157 (199)
T cd01457 78 PDGGTNLAAVLQDALNNYFQRKENGATCPEGETFLVITDGAPDDKDAVERVIIKASDELDADNELAISFLQIGRDPAATA 157 (199)
T ss_pred CCCcCcHHHHHHHHHHHHHHHHhhccCCCCceEEEEEcCCCCCcHHHHHHHHHHHHHhhccccCceEEEEEeCCcHHHHH
Confidence 78999999999999854432 111 1113566666555444444444433 33222 4799999999975 45
Q ss_pred HHHHHHHh
Q 014401 233 ICKHLCQD 240 (425)
Q Consensus 233 iLk~iA~~ 240 (425)
.|+++++.
T Consensus 158 ~L~~ld~~ 165 (199)
T cd01457 158 FLKALDDQ 165 (199)
T ss_pred HHHHHhHH
Confidence 69999876
No 55
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=98.71 E-value=2.5e-07 Score=85.88 Aligned_cols=159 Identities=15% Similarity=0.239 Sum_probs=103.1
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCC----CcEEEEeecCCceEEeeCCCCCHHHHHHHHh-hh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPL----SQIGLVTVKDGVANCLTDLGGSPESHIKALM-GK 162 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~----sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~-~~ 162 (425)
-++++||+|+||.. .++++...-++.+++++. |+|. ..|+||+| +|.|.++.|||.- ..+. ..
T Consensus 5 P~~lllDtSgSM~G-----e~IealN~Glq~m~~~Lk-qdp~Ale~v~lsIVTF-~~~a~~~~pf~~~-----~nF~~p~ 72 (207)
T COG4245 5 PCYLLLDTSGSMIG-----EPIEALNAGLQMMIDTLK-QDPYALERVELSIVTF-GGPARVIQPFTDA-----ANFNPPI 72 (207)
T ss_pred CEEEEEecCccccc-----ccHHHHHHHHHHHHHHHH-hChhhhheeEEEEEEe-cCcceEEechhhH-----hhcCCCc
Confidence 57999999999976 589999999999998764 6775 46899999 5899999999742 1111 12
Q ss_pred hcCCCcchHHHHHHHHHHHHhCC----CCCC---CcEEEEEEeCCCCCCccCHHHHHHHH-Hh--CCcEEEEEEecc---
Q 014401 163 LGCSGDSSLQNALDLVQGLLSQI----PSYG---HREVLILYSALSTCDPGDIMETIQKC-KE--SKIRCSVIGLSA--- 229 (425)
Q Consensus 163 l~~~G~tsL~~AL~~A~~~L~~~----p~~~---sreILVI~~s~~t~dp~~i~~ti~~a-kk--~~I~V~vIglg~--- 229 (425)
+...|+|+++.||..|+.++... ...+ -|-.++|+++++-.| +..+.+... .+ ...+|-.+++|.
T Consensus 73 L~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD--~w~~~~~~~~~~~~~~k~v~a~~~G~~~a 150 (207)
T COG4245 73 LTAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTD--DWQAGAALVFQGERRAKSVAAFSVGVQGA 150 (207)
T ss_pred eecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcch--HHHhHHHHhhhcccccceEEEEEeccccc
Confidence 35679999999999999999753 1111 133555555443222 122222111 11 223455555554
Q ss_pred hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 230 EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 230 e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
+...|+||++.-+ . +...+...|.+++.-+.
T Consensus 151 d~~~L~qit~~V~-~-~~t~d~~~f~~fFkW~S 181 (207)
T COG4245 151 DNKTLNQITEKVR-Q-FLTLDGLQFREFFKWLS 181 (207)
T ss_pred ccHHHHHHHHhhc-c-ccccchHHHHHHHHHHH
Confidence 5678888876543 2 23456777888876555
No 56
>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=98.61 E-value=1.3e-06 Score=82.53 Aligned_cols=150 Identities=16% Similarity=0.230 Sum_probs=110.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC-HHHHHHHHhhhh---
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS-PESHIKALMGKL--- 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d-~~~~i~~L~~~l--- 163 (425)
.++||||.|+||... ++--+.+.+.+.+.-+.-. |+ +...|=++.| +.....+-++|.+ ....++.+....
T Consensus 3 rV~LVLD~SGSM~~~-yk~G~vQ~~~Er~lalA~~-~D--dDG~i~v~~F-s~~~~~~~~vt~~~~~~~v~~~~~~~~~~ 77 (200)
T PF10138_consen 3 RVYLVLDISGSMRPL-YKDGTVQRVVERILALAAQ-FD--DDGEIDVWFF-STEFDRLPDVTLDNYEGYVDELHAGLPDW 77 (200)
T ss_pred EEEEEEeCCCCCchh-hhCccHHHHHHHHHHHHhh-cC--CCCceEEEEe-CCCCCcCCCcCHHHHHHHHHHHhcccccc
Confidence 589999999999743 4556777777777766654 44 3478999999 5888888999854 555665554332
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHHhhC
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTG 242 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-~~iLk~iA~~TG 242 (425)
.+-|+|+...+|+.++.......+......|++++++...+...+.++|..+.+..|-...||||.+ -.+|++|.++.|
T Consensus 78 ~~~G~t~y~~vm~~v~~~y~~~~~~~~P~~VlFiTDG~~~~~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~l~g 157 (200)
T PF10138_consen 78 GRMGGTNYAPVMEDVLDHYFKREPSDAPALVLFITDGGPDDRRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDDLAG 157 (200)
T ss_pred CCCCCcchHHHHHHHHHHHhhcCCCCCCeEEEEEecCCccchHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhccCC
Confidence 4558899999999999998854222234455555555555667788999999999999999999975 589999999633
No 57
>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=98.60 E-value=9.3e-07 Score=84.03 Aligned_cols=139 Identities=18% Similarity=0.239 Sum_probs=93.0
Q ss_pred EEEEEeCCHhhhcCCCC-CCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCC------------ceEEeeCCCCCHHHH
Q 014401 89 LYIVIDLSRAAAEMDFR-PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG------------VANCLTDLGGSPESH 155 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~-P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g------------~A~~lspLT~d~~~~ 155 (425)
++++||+|+||....-. ...|..|++++..++.+..-.+|.+.||||.|+-. ..+++.||+.-..+.
T Consensus 2 ~vflID~s~sM~~~~~~~~~~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~~~~ 81 (224)
T PF03731_consen 2 TVFLIDVSPSMFEPSSESESPLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPSAER 81 (224)
T ss_dssp EEEEEE-SCGGGS-BTTCS-HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEEECC--BHHH
T ss_pred EEEEEECCHHHCCCCCCcchhHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEeecCCccCHHH
Confidence 78999999999855432 12899999999999999999999999999999622 234566776554555
Q ss_pred HHHHhhhhc----------CCCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEeCCCCC-CccCHHHHHHH-----HH
Q 014401 156 IKALMGKLG----------CSGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTC-DPGDIMETIQK-----CK 216 (425)
Q Consensus 156 i~~L~~~l~----------~~G~tsL~~AL~~A~~~L~~---~p~~~sreILVI~~s~~t~-dp~~i~~ti~~-----ak 216 (425)
+..|.+... .....++.+||-.|..+|+. ......|+|++++....-. +..++..++.. ++
T Consensus 82 l~~L~~~~~~~~~~~~~~~~~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~~~~~~~~~~~l~~~Dl~ 161 (224)
T PF03731_consen 82 LKELEELLKPGDKFENFFSGSDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHEDDDELERIIQKLKAKDLQ 161 (224)
T ss_dssp HHHHHTTSHHHHHHHHHC-SSS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT-CCCHHHHHHHHHHHHHH
T ss_pred HHHHHHhhcccccccccCCCCCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCCHHHHHHHHHhhccccch
Confidence 666665432 24456899999999999985 2334567777777533322 55566666555 88
Q ss_pred hCCcEEEEEEe
Q 014401 217 ESKIRCSVIGL 227 (425)
Q Consensus 217 k~~I~V~vIgl 227 (425)
..+|.+.++.|
T Consensus 162 ~~~i~~~~~~l 172 (224)
T PF03731_consen 162 DNGIEIELFFL 172 (224)
T ss_dssp HHTEEEEEEEC
T ss_pred hcCcceeEeec
Confidence 99999999999
No 58
>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=98.47 E-value=1.4e-05 Score=77.79 Aligned_cols=152 Identities=18% Similarity=0.242 Sum_probs=101.6
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC------------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG------------------ 149 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT------------------ 149 (425)
..+++||+|..-.+. .=++.+++.++..++.+.+..|..+||||+|. ...++ ..+.
T Consensus 5 ~~~FvIDvs~~a~~~----g~~~~~~~si~~~L~~lp~~~~~~~VgiITfd-~~v~~-y~l~~~~~~~q~~vv~dl~d~f 78 (244)
T cd01479 5 VYVFLIDVSYNAIKS----GLLATACEALLSNLDNLPGDDPRTRVGFITFD-STLHF-FNLKSSLEQPQMMVVSDLDDPF 78 (244)
T ss_pred EEEEEEEccHHHHhh----ChHHHHHHHHHHHHHhcCCCCCCeEEEEEEEC-CeEEE-EECCCCCCCCeEEEeeCccccc
Confidence 579999998764322 24678888899888876655477999999994 43322 1111
Q ss_pred ----C----CHH----H---HHHHHhhhh--cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccC-----
Q 014401 150 ----G----SPE----S---HIKALMGKL--GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD----- 207 (425)
Q Consensus 150 ----~----d~~----~---~i~~L~~~l--~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~----- 207 (425)
. +.. . +++.|.... ....+.+++.||..|..+|++. .++|+++.++.-+..||.
T Consensus 79 ~P~~~~~lv~l~e~~~~i~~lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~----GGkIi~f~s~~pt~GpG~l~~~~ 154 (244)
T cd01479 79 LPLPDGLLVNLKESRQVIEDLLDQIPEMFQDTKETESALGPALQAAFLLLKET----GGKIIVFQSSLPTLGAGKLKSRE 154 (244)
T ss_pred CCCCcceeecHHHHHHHHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhc----CCEEEEEeCCCCCcCCcccccCc
Confidence 0 111 1 122222211 2234689999999999999953 346888876643322221
Q ss_pred -------------------HH-HHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEec
Q 014401 208 -------------------IM-ETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVAL 249 (425)
Q Consensus 208 -------------------i~-~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~~ 249 (425)
+. +.+..+.+++|-|++...+.+ ...++.+|+.|||..+...
T Consensus 155 ~~~~~~~~~e~~~~~p~~~fY~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~~y~ 219 (244)
T cd01479 155 DPKLLSTDKEKQLLQPQTDFYKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVYYYP 219 (244)
T ss_pred cccccCchhhhhhcCcchHHHHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEEEEC
Confidence 22 568889999999999988764 6889999999999777544
No 59
>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=98.43 E-value=3.2e-06 Score=81.09 Aligned_cols=125 Identities=18% Similarity=0.237 Sum_probs=84.1
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhh-
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKL- 163 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l- 163 (425)
+.+++++|+|+||.. + ...+..|+..+..+.+ ++.+++|. .....+++.-. ++.+.+..+....
T Consensus 58 ~~lvvl~DvSGSM~~-------~---s~~~l~~~~~l~~~~~--~~~~f~F~-~~l~~vT~~l~~~~~~~~l~~~~~~~~ 124 (222)
T PF05762_consen 58 RRLVVLCDVSGSMAG-------Y---SEFMLAFLYALQRQFR--RVRVFVFS-TRLTEVTPLLRRRDPEEALARLSALVQ 124 (222)
T ss_pred ccEEEEEeCCCChHH-------H---HHHHHHHHHHHHHhCC--CEEEEEEe-eehhhhhhhhccCCHHHHHHHHHhhcc
Confidence 389999999999964 1 2234456667666654 89999995 44444444333 5555555554322
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCC-CCCCccCHHHHHHHHHhCCcEEEEEE
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIG 226 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~-~t~dp~~i~~ti~~akk~~I~V~vIg 226 (425)
.-.|+|+++.||+.+...+... .. .+.+|||+|+. .+.++....+.++.+++.+-+|..+.
T Consensus 125 ~~~GgTdi~~aL~~~~~~~~~~-~~-~~t~vvIiSDg~~~~~~~~~~~~l~~l~~r~~rviwLn 186 (222)
T PF05762_consen 125 SFGGGTDIGQALREFLRQYARP-DL-RRTTVVIISDGWDTNDPEPLAEELRRLRRRGRRVIWLN 186 (222)
T ss_pred CCCCccHHHHHHHHHHHHhhcc-cc-cCcEEEEEecccccCChHHHHHHHHHHHHhCCEEEEEC
Confidence 4678999999999999998742 23 44466666655 55565566677888888887766553
No 60
>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=98.39 E-value=2.6e-05 Score=75.41 Aligned_cols=154 Identities=19% Similarity=0.277 Sum_probs=103.8
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC-----------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----------------- 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~----------------- 150 (425)
..++|||+|..- ++..-++.+++.+...+..+.. ++..+||||+|. +.-++ ..+..
T Consensus 5 ~~vFvID~s~~a----i~~~~l~~~~~sl~~~l~~lp~-~~~~~igiITf~-~~V~~-~~~~~~~~~~~~~v~~dl~d~f 77 (239)
T cd01468 5 VFVFVIDVSYEA----IKEGLLQALKESLLASLDLLPG-DPRARVGLITYD-STVHF-YNLSSDLAQPKMYVVSDLKDVF 77 (239)
T ss_pred EEEEEEEcchHh----ccccHHHHHHHHHHHHHHhCCC-CCCcEEEEEEeC-CeEEE-EECCCCCCCCeEEEeCCCccCc
Confidence 679999999753 3345688999999999987542 577999999993 43322 22211
Q ss_pred -----C----HH----HHHHHHhhh---hc----CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccC---
Q 014401 151 -----S----PE----SHIKALMGK---LG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD--- 207 (425)
Q Consensus 151 -----d----~~----~~i~~L~~~---l~----~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~--- 207 (425)
+ .. .+.+.|.++ .. ...+.+++.||+.|..+|+.. ...++|++++++.-+..||.
T Consensus 78 ~p~~~~~l~~~~e~~~~i~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~--~~gGkI~~f~sg~pt~GpG~l~~ 155 (239)
T cd01468 78 LPLPDRFLVPLSECKKVIHDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGT--FAGGRIIVFQGGLPTVGPGKLKS 155 (239)
T ss_pred CCCcCceeeeHHHHHHHHHHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhc--CCCceEEEEECCCCCCCCCcccc
Confidence 0 01 122222222 11 123579999999999999875 23556888887644333332
Q ss_pred ---------------------H-HHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEecC
Q 014401 208 ---------------------I-METIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 208 ---------------------i-~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~~d 250 (425)
+ .+.+..+.+.+|-|++...+.+ ...++.+++.|||..+...+
T Consensus 156 ~~~~~~~~~~~e~~~~~~a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~~ 223 (239)
T cd01468 156 REDKEPIRSHDEAQLLKPATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYDS 223 (239)
T ss_pred CcccccCCCccchhcccccHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeCC
Confidence 2 2467888999999999998864 68899999999998776543
No 61
>PRK10997 yieM hypothetical protein; Provisional
Probab=98.37 E-value=9.3e-06 Score=86.13 Aligned_cols=139 Identities=12% Similarity=0.137 Sum_probs=91.0
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~--d~~~~i~~L~~~l~~ 165 (425)
.++|+||.|+||... +...|+..+..+..-- ....+++++|.|.++ .... ++++ ....++..|.. ..
T Consensus 325 piII~VDtSGSM~G~-----ke~~AkalAaAL~~iA--l~q~dr~~li~Fs~~-i~~~-~l~~~~gl~~ll~fL~~--~f 393 (487)
T PRK10997 325 PFIVCVDTSGSMGGF-----NEQCAKAFCLALMRIA--LAENRRCYIMLFSTE-VVTY-ELTGPDGLEQAIRFLSQ--SF 393 (487)
T ss_pred cEEEEEECCCCCCCC-----HHHHHHHHHHHHHHHH--HhcCCCEEEEEecCC-ceee-ccCCccCHHHHHHHHHH--hc
Confidence 799999999999622 3355555444444333 334478999999643 3322 4443 34555566643 24
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC-CCccCHHHHHHHHHh-CCcEEEEEEecc-hHHHHHHHHH
Q 014401 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPGDIMETIQKCKE-SKIRCSVIGLSA-EMFICKHLCQ 239 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t-~dp~~i~~ti~~akk-~~I~V~vIglg~-e~~iLk~iA~ 239 (425)
.|+|++..+|..|+..+.+. .. .+..|||+|+... ..|.++.+.++.+++ .+.+++.+.||. ...-+.++.+
T Consensus 394 ~GGTDl~~aL~~al~~l~~~-~~-r~adIVVISDF~~~~~~eel~~~L~~Lk~~~~~rf~~l~i~~~~~p~l~~ifD 468 (487)
T PRK10997 394 RGGTDLAPCLRAIIEKMQGR-EW-FDADAVVISDFIAQRLPDELVAKVKELQRQHQHRFHAVAMSAHGKPGIMRIFD 468 (487)
T ss_pred CCCCcHHHHHHHHHHHHccc-cc-CCceEEEECCCCCCCChHHHHHHHHHHHHhcCcEEEEEEeCCCCCchHHHhcC
Confidence 78999999999999999764 22 2335666665533 224557788899888 899999999985 2334455554
No 62
>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=98.36 E-value=1.2e-05 Score=77.62 Aligned_cols=154 Identities=19% Similarity=0.271 Sum_probs=98.8
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC-----------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----------------- 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~----------------- 150 (425)
..+++||+|..--+. ..++.+++.++..++.+. .++..+||||+| +...++ ..|..
T Consensus 5 ~y~FvID~s~~av~~----g~~~~~~~sl~~~l~~l~-~~~~~~vgiitf-d~~V~~-y~l~~~~~~~~~~v~~dl~~~~ 77 (243)
T PF04811_consen 5 VYVFVIDVSYEAVQS----GLLQSLIESLKSALDSLP-GDERTRVGIITF-DSSVHF-YNLSSSLSQPQMIVVSDLDDPF 77 (243)
T ss_dssp EEEEEEE-SHHHHHH----THHHHHHHHHHHHGCTSS-TSTT-EEEEEEE-SSSEEE-EETTTTSSSTEEEEEHHTTSHH
T ss_pred EEEEEEECchhhhhc----cHHHHHHHHHHHHHHhcc-CCCCcEEEEEEe-CCEEEE-EECCCCcCCCcccchHHHhhcc
Confidence 579999999663222 478899999999997655 567899999999 444332 22211
Q ss_pred -------------CHHHH---HHHHhhhhc----CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCcc----
Q 014401 151 -------------SPESH---IKALMGKLG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG---- 206 (425)
Q Consensus 151 -------------d~~~~---i~~L~~~l~----~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~---- 206 (425)
....+ ++.|.+... ...+..++.||+.|..+|+.. ...++|+++.++.-+..||
T Consensus 78 ~p~~~~llv~~~e~~~~i~~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~--~~gGkI~~F~s~~pt~G~Gg~l~ 155 (243)
T PF04811_consen 78 IPLPDGLLVPLSECRDAIEELLESLPSIFPETAGKRPERCLGSALSAALSLLSSR--NTGGKILVFTSGPPTYGPGGSLK 155 (243)
T ss_dssp SSTSSSSSEETTTCHHHHHHHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHH--TS-EEEEEEESS---SSSTTSS-
T ss_pred cCCcccEEEEhHHhHHHHHHHHHHhhhhcccccccCccccHHHHHHHHHHHHhcc--ccCCEEEEEeccCCCCCCCceec
Confidence 11122 233333211 224679999999999999943 1355788888764433331
Q ss_pred -----------------------CHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEecC
Q 014401 207 -----------------------DIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 207 -----------------------~i~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~~d 250 (425)
-+.+.+..+.+.+|.|++...+.+ ...|..+++.|||.-+...+
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~ 225 (243)
T PF04811_consen 156 KREDSSHYDTEKEKALLLPPANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPN 225 (243)
T ss_dssp SBTTSCCCCHCTTHHCHSHSSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETT
T ss_pred ccccccccccccchhhhccccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCC
Confidence 134678899999999999999875 68899999999998776543
No 63
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=98.24 E-value=8.9e-06 Score=84.96 Aligned_cols=155 Identities=12% Similarity=0.066 Sum_probs=112.1
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceE--EeeCCCCCHHHHHHHHhhhhcC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVAN--CLTDLGGSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~--~lspLT~d~~~~i~~L~~~l~~ 165 (425)
.+++.||.|+||.. +..+.|+..+...++--+..|. ++.++.|.+ ... .+++-..+.+++++.|.. ..
T Consensus 274 pvilllD~SGSM~G-----~~e~~AKAvalAl~~~alaenR--~~~~~lF~s-~~~~~el~~k~~~~~e~i~fL~~--~f 343 (437)
T COG2425 274 PVILLLDKSGSMSG-----FKEQWAKAVALALMRIALAENR--DCYVILFDS-EVIEYELYEKKIDIEELIEFLSY--VF 343 (437)
T ss_pred CEEEEEeCCCCcCC-----cHHHHHHHHHHHHHHHHHHhcc--ceEEEEecc-cceeeeecCCccCHHHHHHHHhh--hc
Confidence 68999999999975 5888888888888887777774 799999954 222 233444466666666654 35
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHH-HHHHHHHhCCcEEEEEEecchH-HHHHHHHHhhCC
Q 014401 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGG 243 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~-~ti~~akk~~I~V~vIglg~e~-~iLk~iA~~TGG 243 (425)
.|||++..+|..|++.+++.+-.. ..||+|+++....+ .++. ++-+..++.+.+++.|.|++.. +-|.+|.+.+
T Consensus 344 ~GGTD~~~~l~~al~~~k~~~~~~-adiv~ITDg~~~~~-~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~Isd~~-- 419 (437)
T COG2425 344 GGGTDITKALRSALEDLKSRELFK-ADIVVITDGEDERL-DDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRISDHI-- 419 (437)
T ss_pred CCCCChHHHHHHHHHHhhcccccC-CCEEEEeccHhhhh-hHHHHHHHHHHHHhhceEEEEEecCCCCcccceeeeee--
Confidence 566999999999999999875444 56999988754333 2333 5566667999999999999876 8888888876
Q ss_pred eEEEecCHhHHHHHH
Q 014401 244 SYSVALDESHFKELI 258 (425)
Q Consensus 244 ~Y~~~~d~~~L~~lL 258 (425)
.|-+ ++.....++
T Consensus 420 i~~~--~~~~~~kv~ 432 (437)
T COG2425 420 IYRV--EPRDRVKVV 432 (437)
T ss_pred EEee--CcHHHhHHH
Confidence 4443 344444443
No 64
>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=98.14 E-value=6.2e-05 Score=82.01 Aligned_cols=142 Identities=14% Similarity=0.151 Sum_probs=102.6
Q ss_pred eEEEEEeCCHhhhcCCC---CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCC---------ceEEeeCCCCCHHHH
Q 014401 88 YLYIVIDLSRAAAEMDF---RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---------VANCLTDLGGSPESH 155 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~---~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g---------~A~~lspLT~d~~~~ 155 (425)
-|+++||+|+||..... ..++|..+++.+..++.+..-.+|.+.||||.|+-. ..+++.+|..-..+.
T Consensus 12 ailflIDvs~sM~~~~~~~~~~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p~a~~ 91 (584)
T TIGR00578 12 SLIFLVDASKAMFEESQGEDELTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKR 91 (584)
T ss_pred EEEEEEECCHHHcCCCcCcCcCChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCCCHHH
Confidence 46999999999986321 257999999999999999999999999999999522 234577777555556
Q ss_pred HHHHhhhhc-----------CCCc-chHHHHHHHHHHHHhCC-CCCCCcEEEEEEeCCCCC-CccCH----HHHHHHHHh
Q 014401 156 IKALMGKLG-----------CSGD-SSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTC-DPGDI----METIQKCKE 217 (425)
Q Consensus 156 i~~L~~~l~-----------~~G~-tsL~~AL~~A~~~L~~~-p~~~sreILVI~~s~~t~-dp~~i----~~ti~~akk 217 (425)
+..|.++.. +.+. .+|.+||-.|..+|... +..++|||++|++...-. +..+. ...++.+++
T Consensus 92 i~~L~~l~~~~~~~~~~~~~~~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~~~~~~~~a~~~a~dl~~ 171 (584)
T TIGR00578 92 ILELDQFKGDQGPKKFRDTYGHGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGNDSAKASRARTKAGDLRD 171 (584)
T ss_pred HHHHHHHhhccCccchhhccCCCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCCchhHHHHHHHHHHHHHh
Confidence 566655421 1122 48999999999999863 345678888888643221 11221 124788899
Q ss_pred CCcEEEEEEecc
Q 014401 218 SKIRCSVIGLSA 229 (425)
Q Consensus 218 ~~I~V~vIglg~ 229 (425)
.||.|..+.|..
T Consensus 172 ~gi~ielf~l~~ 183 (584)
T TIGR00578 172 TGIFLDLMHLKK 183 (584)
T ss_pred cCeEEEEEecCC
Confidence 999999998875
No 65
>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=98.08 E-value=3.6e-05 Score=73.06 Aligned_cols=142 Identities=17% Similarity=0.261 Sum_probs=95.6
Q ss_pred eEEEEEeCCHhhhcCCCCCCH--HHHHHHHHHHHHHHHhccCCCCcEEEEeec-CC--ceEEeeCCC--CCHH---HHHH
Q 014401 88 YLYIVIDLSRAAAEMDFRPSR--MAVVAKQVEAFVREFFDQNPLSQIGLVTVK-DG--VANCLTDLG--GSPE---SHIK 157 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~R--L~~a~~~l~~FI~~~~~qnP~sqlGvI~~~-~g--~A~~lspLT--~d~~---~~i~ 157 (425)
.|||++|+|.||...+++=.| +..|+.. -++++.+. ..|..+|+|-.|- +| ...++.|-| .+.+ .+..
T Consensus 5 aLvLavDvS~SVD~~E~~lQ~~G~A~Al~d-p~V~~Ai~-~g~~g~Iav~~~eWsg~~~q~~~v~Wt~i~~~~da~a~A~ 82 (205)
T PF06707_consen 5 ALVLAVDVSGSVDADEYRLQREGYAAALRD-PEVIAAIL-SGPIGRIAVAVVEWSGPGRQRVVVPWTRIDSPADAEAFAA 82 (205)
T ss_pred eeeeeeeccCCCCHHHHHHHHHHHHHHHCC-HHHHHHHh-cCCCCeEEEEEEEecCCCCceEEeCCEEeCCHHHHHHHHH
Confidence 589999999999877652222 1122221 13444443 4677888776652 23 567777776 2333 3444
Q ss_pred HHhhhh-cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCc-cCHHHHHHHHHhCCcEEEEEEecchH
Q 014401 158 ALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP-GDIMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 158 ~L~~~l-~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp-~~i~~ti~~akk~~I~V~vIglg~e~ 231 (425)
.|...- ...+.|+|+.||..|..+|.+.|..+.|+||=|.|++.+++- .....+-+.+...||.|+-+.|+.+.
T Consensus 83 ~l~~~~r~~~~~Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~~p~~~ard~~~~~GitINgL~I~~~~ 158 (205)
T PF06707_consen 83 RLRAAPRRFGGRTAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGPRPVTSARDAAVAAGITINGLAILDDD 158 (205)
T ss_pred HHHhCCCCCCCCchHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCCCccHHHHHHHHHCCeEEeeeEecCCC
Confidence 444321 234569999999999999999987799999999987655332 23337788899999999999998653
No 66
>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=98.03 E-value=0.00023 Score=74.10 Aligned_cols=165 Identities=19% Similarity=0.173 Sum_probs=111.8
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCce-------------------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA------------------------- 142 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A------------------------- 142 (425)
+|++++|+|.||.. -|+..+.....+.+++-.-.+.-|+|+=.|-++..
T Consensus 101 DLYyLMDlS~SM~d------dl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~ 174 (423)
T smart00187 101 DLYYLMDLSYSMKD------DLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPP 174 (423)
T ss_pred ceEEEEeCCccHHH------HHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCC
Confidence 99999999999974 67888888888888888777889999988865521
Q ss_pred ---EEeeCCCCCHHHHHHHHhhhh------cCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEeCCCC----------
Q 014401 143 ---NCLTDLGGSPESHIKALMGKL------GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALST---------- 202 (425)
Q Consensus 143 ---~~lspLT~d~~~~i~~L~~~l------~~~G~tsL~~AL~~A~~~L~~~p-~~~sreILVI~~s~~t---------- 202 (425)
.-+.|||.|...+.+++.+.. .|.|+. .||..|.---+... ...++++||++++...
T Consensus 175 f~f~~~L~LT~~~~~F~~~V~~~~iSgN~D~PEgG~---DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaG 251 (423)
T smart00187 175 YGFKHVLSLTDDTDEFNEEVKKQRISGNLDAPEGGF---DAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAG 251 (423)
T ss_pred cceeeeccCCCCHHHHHHHHhhceeecCCcCCcccH---HHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceee
Confidence 234688899888888877542 244442 23333331112221 1346778888764222
Q ss_pred ----------------------CCccCHHHHHHHHHhCCcEEEEEEec-chHHHHHHHHHhhCCeEEEe--cCHhHHHHH
Q 014401 203 ----------------------CDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQDTGGSYSVA--LDESHFKEL 257 (425)
Q Consensus 203 ----------------------~dp~~i~~ti~~akk~~I~V~vIglg-~e~~iLk~iA~~TGG~Y~~~--~d~~~L~~l 257 (425)
-|+..+-+..+.|++++|.+- .++- ....+.+++++.-.|...-. .|...+-+|
T Consensus 252 Iv~PNDg~CHL~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~I-FAVT~~~~~~Y~~Ls~lipgs~vg~Ls~DSsNIv~L 330 (423)
T smart00187 252 IVQPNDGQCHLDNNGEYTMSTTQDYPSIGQLNQKLAENNINPI-FAVTKKQVSLYKELSALIPGSSVGVLSEDSSNVVEL 330 (423)
T ss_pred EecCCCCcceeCCCCCcCccCcCCCCCHHHHHHHHHhcCceEE-EEEcccchhHHHHHHHhcCcceeeecccCcchHHHH
Confidence 266788899999999999653 3333 34678999999999988744 444555555
Q ss_pred HHhcC
Q 014401 258 IMEHA 262 (425)
Q Consensus 258 L~~~~ 262 (425)
+.+-.
T Consensus 331 I~~aY 335 (423)
T smart00187 331 IKDAY 335 (423)
T ss_pred HHHHH
Confidence 44433
No 67
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=98.01 E-value=0.00014 Score=74.98 Aligned_cols=145 Identities=16% Similarity=0.172 Sum_probs=100.1
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHH---HHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh-
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQ---VEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL- 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~---l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l- 163 (425)
.+++.+|.|-||.... |+.-+|+. +-.+|.. +-|.+.+.+|+|+ ..|..+. ++.|..+.
T Consensus 465 AvallvDtS~SM~~eG----Rw~PmKQtALALhHLv~T---rfrGD~l~~i~Fg-r~A~~v~---------v~eLt~l~~ 527 (652)
T COG4867 465 AVALLVDTSFSMVMEG----RWLPMKQTALALHHLVCT---RFRGDALQIIAFG-RYARTVT---------AAELTGLAG 527 (652)
T ss_pred ceeeeeeccHHHHHhc----cCCchHHHHHHHHHHHHh---cCCCcceEEEecc-chhcccC---------HHHHhcCCC
Confidence 6899999999997654 55545554 4455554 4578899999995 5554321 23343321
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC---C-------------CccCHHHH---HHHHHhCCcEEEE
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST---C-------------DPGDIMET---IQKCKESKIRCSV 224 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t---~-------------dp~~i~~t---i~~akk~~I~V~v 224 (425)
.-..+|++..||.+|-..|++-++ ..+.||||+++..+ . ||.-+..| ++...+.||.|.+
T Consensus 528 v~eqgTNlhhaL~LA~r~l~Rh~~-~~~~il~vTDGePtAhle~~DG~~~~f~yp~DP~t~~~Tvr~~d~~~r~G~q~t~ 606 (652)
T COG4867 528 VYEQGTNLHHALALAGRHLRRHAG-AQPVVLVVTDGEPTAHLEDGDGTSVFFDYPPDPRTIAHTVRGFDDMARLGAQVTI 606 (652)
T ss_pred ccccccchHHHHHHHHHHHHhCcc-cCceEEEEeCCCccccccCCCCceEecCCCCChhHHHHHHHHHHHHHhccceeeE
Confidence 123469999999999999998653 34457777754221 1 22223333 6677899999999
Q ss_pred EEecch---HHHHHHHHHhhCCeEEEecC
Q 014401 225 IGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 225 Iglg~e---~~iLk~iA~~TGG~Y~~~~d 250 (425)
.-||.+ +.+++++|++|+|+-+++.-
T Consensus 607 FrLg~DpgL~~Fv~qva~rv~G~vv~pdl 635 (652)
T COG4867 607 FRLGSDPGLARFIDQVARRVQGRVVVPDL 635 (652)
T ss_pred EeecCCHhHHHHHHHHHHHhCCeEEecCc
Confidence 999987 58999999999999887643
No 68
>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=97.87 E-value=0.00063 Score=67.27 Aligned_cols=91 Identities=18% Similarity=0.243 Sum_probs=63.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCH-----------------------------H-HHHHHHH
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCK 216 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i-----------------------------~-~ti~~ak 216 (425)
...+++.||..|..+|+..-....++|+++.+++-|.-||.+ . +.+..+.
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 357899999999999985422334568888876443333211 1 2355567
Q ss_pred hCCcEEEEEEecch---HHHHHHHHHhhCCeEEEe--cCHhHHHHH
Q 014401 217 ESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA--LDESHFKEL 257 (425)
Q Consensus 217 k~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~--~d~~~L~~l 257 (425)
+.+|-|++...+.+ +..++.+++.|||.-+.. -+..-|++-
T Consensus 219 ~~~vsvDlF~~s~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s 264 (267)
T cd01478 219 ANGHAVDIFAGCLDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQS 264 (267)
T ss_pred hCCeEEEEEeccccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHH
Confidence 89999999998864 689999999999977764 344445543
No 69
>PLN00162 transport protein sec23; Provisional
Probab=97.59 E-value=0.0051 Score=69.23 Aligned_cols=97 Identities=20% Similarity=0.185 Sum_probs=70.0
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCH-----------------------------H-HHHHHHHh
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCKE 217 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i-----------------------------~-~ti~~akk 217 (425)
..+++.||..|..+|...-....++|+++.++.-|..||.+ . +.+..+.+
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 46899999999999986432345678888877543333321 1 34667888
Q ss_pred CCcEEEEEEecch---HHHHHHHHHhhCCeEEEe--cCHhHHHHHHHhcCCC
Q 014401 218 SKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA--LDESHFKELIMEHAPP 264 (425)
Q Consensus 218 ~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~--~d~~~L~~lL~~~~~p 264 (425)
+||.|++...+.+ +..++.+++.|||.-+.. -+...|++-|..++.-
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 689999999999977754 3445577766666653
No 70
>PTZ00395 Sec24-related protein; Provisional
Probab=97.30 E-value=0.0043 Score=71.95 Aligned_cols=158 Identities=16% Similarity=0.215 Sum_probs=100.7
Q ss_pred hhhccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEE---------------
Q 014401 80 RIQKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANC--------------- 144 (425)
Q Consensus 80 ~~r~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~--------------- 144 (425)
+++.-+--+.+++||+|..--..- -+..+.+.|+.-+..+. .|..+||||+| |..-+.
T Consensus 946 ~~~~p~PP~YvFLIDVS~~AVkSG----Ll~tacesIK~sLDsL~--dpRTRVGIITF-DSsLHFYNLks~l~~~~~~~~ 1018 (1560)
T PTZ00395 946 QVKNMLPPYFVFVVECSYNAIYNN----ITYTILEGIRYAVQNVK--CPQTKIAIITF-NSSIYFYHCKGGKGVSGEEGD 1018 (1560)
T ss_pred cccCCCCCEEEEEEECCHHHHhhC----hHHHHHHHHHHHHhcCC--CCCcEEEEEEe-cCcEEEEecCccccccccccc
Confidence 333333348999999997765443 45566666676666543 46689999999 343321
Q ss_pred ------------e-------eCCC-C----CHH---HHHHH----Hhhhh--cCCCcchHHHHHHHHHHHHhCCCCCCCc
Q 014401 145 ------------L-------TDLG-G----SPE---SHIKA----LMGKL--GCSGDSSLQNALDLVQGLLSQIPSYGHR 191 (425)
Q Consensus 145 ------------l-------spLT-~----d~~---~~i~~----L~~~l--~~~G~tsL~~AL~~A~~~L~~~p~~~sr 191 (425)
+ .|+. . ++. +.++. |.+.. ....++.++.||+.|..+|+.. .+.+
T Consensus 1019 ~~~~l~qPQMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t~~~esCLGSALqAA~~aLk~~--GGGG 1096 (1560)
T PTZ00395 1019 GGGGSGNHQVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTMQSYGSCGNSALKIAMDMLKER--NGLG 1096 (1560)
T ss_pred ccccCCCceEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhccCCCcccHHHHHHHHHHHHHhc--CCCc
Confidence 1 1221 1 111 12222 22211 1245689999999999999976 2245
Q ss_pred EEEEEEeCCCCCCccC-------------------HH-HHHHHHHhCCcEEEEEEecch-----HHHHHHHHHhhCCeEE
Q 014401 192 EVLILYSALSTCDPGD-------------------IM-ETIQKCKESKIRCSVIGLSAE-----MFICKHLCQDTGGSYS 246 (425)
Q Consensus 192 eILVI~~s~~t~dp~~-------------------i~-~ti~~akk~~I~V~vIglg~e-----~~iLk~iA~~TGG~Y~ 246 (425)
+|+++.+++-+.-+|. +. +.+..+.+.+|-|++..+++. +..|..|++.|||.-+
T Consensus 1097 KIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqly 1176 (1560)
T PTZ00395 1097 SICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKIL 1176 (1560)
T ss_pred eEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEE
Confidence 6888877654433332 22 467888999999999988753 4679999999999544
No 71
>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=97.27 E-value=0.026 Score=54.57 Aligned_cols=165 Identities=11% Similarity=0.092 Sum_probs=100.6
Q ss_pred hhccccceEEEEEeCCHhhhc--CCCCCCHHHHHHHHHHHHH---HHHhccCCCCcEEEEeecCCceE-----EeeCCCC
Q 014401 81 IQKGLIRYLYIVIDLSRAAAE--MDFRPSRMAVVAKQVEAFV---REFFDQNPLSQIGLVTVKDGVAN-----CLTDLGG 150 (425)
Q Consensus 81 ~r~GiiR~lvlvLD~S~SM~a--~D~~P~RL~~a~~~l~~FI---~~~~~qnP~sqlGvI~~~~g~A~-----~lspLT~ 150 (425)
.+.+..++||+|||-+..|.. .+++-+=|.-+++.+..-. .++..++...+.|||+|+....+ .-++.|.
T Consensus 8 ~~~~~~~~vVfvvEgTAalgpy~~~Lkt~Yl~P~le~f~~g~~~e~~~~~~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~ 87 (226)
T PF11265_consen 8 ADQPPQAQVVFVVEGTAALGPYWNTLKTNYLDPILEYFNGGPIAERDFGGDYSNTEYGLVVFNTADCYPEPIVQRSGPTS 87 (226)
T ss_pred cccCccceEEEEEecchhhhhhHHHHHHHHHHHHHHHhcCCCcccccccccCCCceEEEEEEeccCCCcccceeccCCcC
Confidence 345677899999999999863 1222222222222111000 01112456678999999743222 3456688
Q ss_pred CHHHHHHHHhhhhcCCCc----chHHHHHHHHHHHHhCCC-------C-CCCcEEEEEEeCCCC-----C--Cc--cCHH
Q 014401 151 SPESHIKALMGKLGCSGD----SSLQNALDLVQGLLSQIP-------S-YGHREVLILYSALST-----C--DP--GDIM 209 (425)
Q Consensus 151 d~~~~i~~L~~~l~~~G~----tsL~~AL~~A~~~L~~~p-------~-~~sreILVI~~s~~t-----~--dp--~~i~ 209 (425)
|+..+++.|.++.-..|+ ..+..||..|+.++.... . ...|..|+|..|.-. . .+ ....
T Consensus 88 ~~~~fl~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~~~khcILI~nSpP~~~p~~~~~~~~~~~~d 167 (226)
T PF11265_consen 88 SPQKFLQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTDVQKHCILICNSPPYRLPVNECPQYSGKTCD 167 (226)
T ss_pred CHHHHHHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCcccccceEEEEeCCCCccccccCCCcccCCCHH
Confidence 999999999875322222 359999999999997421 1 134667777654211 0 11 1445
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEE
Q 014401 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 246 (425)
Q Consensus 210 ~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~ 246 (425)
+.+....+.||.+++|+- -....|++|-+..+|.-.
T Consensus 168 ~la~~~~~~~I~LSiisP-rklP~l~~Lfeka~~~~~ 203 (226)
T PF11265_consen 168 QLAVLISERNISLSIISP-RKLPSLRSLFEKAKGNPR 203 (226)
T ss_pred HHHHHHHhcCceEEEEcC-ccCHHHHHHHHhcCCCcc
Confidence 667788899999999987 355677777777766433
No 72
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=97.18 E-value=0.003 Score=72.89 Aligned_cols=153 Identities=15% Similarity=0.211 Sum_probs=106.5
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC---------CHHHHHH
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG---------SPESHIK 157 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~---------d~~~~i~ 157 (425)
++|+|++|+|+||.. .||..++..+...+..+.+ .+-+-+++| +..+..++|-.. |.+.+.+
T Consensus 226 KdiviLlD~SgSm~g-----~~~~lak~tv~~iLdtLs~---~Dfvni~tf-~~~~~~v~pc~~~~lvqAt~~nk~~~~~ 296 (1104)
T KOG2353|consen 226 KDIVILLDVSGSMSG-----LRLDLAKQTVNEILDTLSD---NDFVNILTF-NSEVNPVSPCFNGTLVQATMRNKKVFKE 296 (1104)
T ss_pred cceEEEEeccccccc-----hhhHHHHHHHHHHHHhccc---CCeEEEEee-ccccCcccccccCceeecchHHHHHHHH
Confidence 388999999999975 5999999999998877654 478999999 588888886532 2233334
Q ss_pred HHhhhhcCCCcchHHHHHHHHHHHHhCCC--------CCCCcEEEEEEeCCCCCCccCHHHHHHHHH--hCCcEEEEEEe
Q 014401 158 ALMGKLGCSGDSSLQNALDLVQGLLSQIP--------SYGHREVLILYSALSTCDPGDIMETIQKCK--ESKIRCSVIGL 227 (425)
Q Consensus 158 ~L~~~l~~~G~tsL~~AL~~A~~~L~~~p--------~~~sreILVI~~s~~t~dp~~i~~ti~~ak--k~~I~V~vIgl 227 (425)
.+.. +.+.|.+.+..|++.|.+.|.... +.....|++++ ++. +.+..++++.-- ...|||++..|
T Consensus 297 ~i~~-l~~k~~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~t-dG~---~~~~~~If~~yn~~~~~Vrvftfli 371 (1104)
T KOG2353|consen 297 AIET-LDAKGIANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLIT-DGV---DENAKEIFEKYNWPDKKVRVFTFLI 371 (1104)
T ss_pred HHhh-hccccccchhhhHHHHHHHHHHhccccccccccccceeeEEee-cCC---cccHHHHHHhhccCCCceEEEEEEe
Confidence 3433 358899999999999999997531 11233355555 332 234455555443 47799999999
Q ss_pred cchH---HHHHHHHHhhCCeEEEecCHhH
Q 014401 228 SAEM---FICKHLCQDTGGSYSVALDESH 253 (425)
Q Consensus 228 g~e~---~iLk~iA~~TGG~Y~~~~d~~~ 253 (425)
|.+. .-+|-.|=.-.|-|..+.+-.+
T Consensus 372 g~~~~~~~~~~wmac~n~gyy~~I~~~~~ 400 (1104)
T KOG2353|consen 372 GDEVYDLDEIQWMACANKGYYVHIISIAD 400 (1104)
T ss_pred cccccccccchhhhhhCCCceEeccchhh
Confidence 9875 3466777777787776655543
No 73
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.89 E-value=0.026 Score=63.06 Aligned_cols=152 Identities=16% Similarity=0.184 Sum_probs=101.4
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHH-HHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeC-------------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMA-VVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTD------------------- 147 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~-~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lsp------------------- 147 (425)
+.|+.||+|-.-.. |++. ++-+.++.-+..+....|.-+||||+| |..-+..-.
T Consensus 419 afvFmIDVSy~Ai~-----~G~~~a~ce~ik~~l~~lp~~~p~~~Vgivtf-d~tvhFfnl~s~L~qp~mliVsdv~dvf 492 (1007)
T KOG1984|consen 419 AFVFMIDVSYNAIS-----NGAVKAACEAIKSVLEDLPREEPNIRVGIVTF-DKTVHFFNLSSNLAQPQMLIVSDVDDVF 492 (1007)
T ss_pred eEEEEEEeehhhhh-----cchHHHHHHHHHHHHhhcCccCCceEEEEEEe-cceeEeeccCccccCceEEEeecccccc
Confidence 78999999865443 3444 455667777766666778899999999 454443221
Q ss_pred --CCC-------CHHHHHHHHhhhh----c--CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCcc------
Q 014401 148 --LGG-------SPESHIKALMGKL----G--CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------ 206 (425)
Q Consensus 148 --LT~-------d~~~~i~~L~~~l----~--~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~------ 206 (425)
|.. ..+.+++.|...+ . -.-++.+++||+.|+.+|+.. . .++++|+.+++.+.+.+
T Consensus 493 vPf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~--~-gGKl~vF~s~Lpt~g~g~kl~~r 569 (1007)
T KOG1984|consen 493 VPFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAA--D-GGKLFVFHSVLPTAGAGGKLSNR 569 (1007)
T ss_pred cccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhcc--C-CceEEEEecccccccCccccccc
Confidence 110 1123444443221 1 234689999999999999986 2 34577777766553332
Q ss_pred --------------------CHHHHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEEEe
Q 014401 207 --------------------DIMETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYSVA 248 (425)
Q Consensus 207 --------------------~i~~ti~~akk~~I~V~vIglg~---e~~iLk~iA~~TGG~Y~~~ 248 (425)
.+.+.++.+.+.+|-|++....+ ++..+-.+++.|||.-|+-
T Consensus 570 ~D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~Y 634 (1007)
T KOG1984|consen 570 DDRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYKY 634 (1007)
T ss_pred chhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEEe
Confidence 13356788899999999988854 5788889999999976643
No 74
>PF00362 Integrin_beta: Integrin, beta chain; InterPro: IPR002369 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. Integrins are important therapeutic targets in conditions such as atherosclerosis, thrombosis, cancer and asthma []. At the N terminus of the beta subunit is a cysteine-containing domain reminiscent of that found in presenillins and semaphorins, which has hence been termed the PSI domain. C-terminal to the PSI domain is an A-domain, which has been predicted to adopt a Rossmann fold similar to that of the alpha subunit, but with additional loops between the second and third beta strands []. The murine gene Pactolus shares significant similarity with the beta subunit [], but lacks either one or both of the inserted loops. The C-terminal portion of the beta subunit extracellular domain contains an internally disulphide-bonded cysteine-rich region, while the intracellular tail contains putative sites of interaction with a variety of intracellular signalling and cytoskeletal proteins, such as focal adhesion kinase and alpha-actinin respectively []. Integrin cytoplasmic domains are normally less than 50 amino acids in length, with the beta-subunit sequences exhibiting greater homology to each other than the alpha-subunit sequences. This is consistent with current evidence that the beta subunit is the principal site for binding of cytoskeletal and signalling molecules, whereas the alpha subunit has a regulatory role. The first 20 amino acids of the beta-subunit cytoplasmic domain are also alpha helical, but the final 25 residues are disordered and, apart from a turn that follows a conserved NPxY motif, appear to lack defined structure, suggesting that this is adopted on effector binding. The two membrane-proximal helices mediate the link between the subunits via a series of hydrophobic and electrostatic contacts. This entry represents the N-terminal portion of the extracellular region of integrin beta subunits.; GO: 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion; PDB: 3VI4_B 3VI3_B 2VDQ_B 3IJE_B 1M1X_B 2VDR_B 3NIF_B 3NID_D 1TYE_F 2Q6W_F ....
Probab=96.81 E-value=0.045 Score=57.71 Aligned_cols=160 Identities=16% Similarity=0.158 Sum_probs=97.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCc--------------------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV-------------------------- 141 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~-------------------------- 141 (425)
++++++|+|.||.. -|+..+....++++++-..-..-|+|+=.|-++.
T Consensus 104 DLYyLmDlS~Sm~d------dl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~ 177 (426)
T PF00362_consen 104 DLYYLMDLSYSMKD------DLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPP 177 (426)
T ss_dssp EEEEEEE-SGGGHH------HHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B--
T ss_pred eEEEEeechhhhhh------hHHHHHHHHHHHHHHHHhcCccceEechhhcccccCCcccCChhhhcCcccccCCCCCCC
Confidence 99999999999974 4555555555666666656666889998886542
Q ss_pred --eEEeeCCCCCHHHHHHHHhhhh------cCCCcchHHHHHHHHHHH--HhCCCCCCCcEEEEEEeCCC----------
Q 014401 142 --ANCLTDLGGSPESHIKALMGKL------GCSGDSSLQNALDLVQGL--LSQIPSYGHREVLILYSALS---------- 201 (425)
Q Consensus 142 --A~~lspLT~d~~~~i~~L~~~l------~~~G~tsL~~AL~~A~~~--L~~~p~~~sreILVI~~s~~---------- 201 (425)
..-..|||.|...+.+.+.+.. .|.|+ |..-++.|++- +. . ....|++||+.++..
T Consensus 178 ~~f~~~l~Lt~~~~~F~~~v~~~~is~n~D~PEgg--~dal~Qa~vC~~~ig-W-r~~a~~llv~~TD~~fH~agDg~l~ 253 (426)
T PF00362_consen 178 FSFRHVLSLTDDITEFNEEVNKQKISGNLDAPEGG--LDALMQAAVCQEEIG-W-RNEARRLLVFSTDAGFHFAGDGKLA 253 (426)
T ss_dssp -SEEEEEEEES-HHHHHHHHHTS--B--SSSSBSH--HHHHHHHHH-HHHHT----STSEEEEEEEESS-B--TTGGGGG
T ss_pred eeeEEeecccchHHHHHHhhhhccccCCCCCCccc--cchheeeeecccccC-c-ccCceEEEEEEcCCccccccccccc
Confidence 2234566778888888887542 24453 44444444442 22 1 134677888875411
Q ss_pred ----------------------CCCccCHHHHHHHHHhCCcEE-EEEEecchHHHHHHHHHhhCCeEEEecCH--hHHHH
Q 014401 202 ----------------------TCDPGDIMETIQKCKESKIRC-SVIGLSAEMFICKHLCQDTGGSYSVALDE--SHFKE 256 (425)
Q Consensus 202 ----------------------t~dp~~i~~ti~~akk~~I~V-~vIglg~e~~iLk~iA~~TGG~Y~~~~d~--~~L~~ 256 (425)
.-|+..+-+..+.+.+++|.+ ++| -.....+.+++++.-+|.....+.. ..+-+
T Consensus 254 gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~IFAV-t~~~~~~Y~~L~~~i~~s~vg~L~~dSsNIv~ 332 (426)
T PF00362_consen 254 GIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINPIFAV-TKDVYSIYEELSNLIPGSSVGELSSDSSNIVQ 332 (426)
T ss_dssp T--S---SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEEEEEE-EGGGHHHHHHHHHHSTTEEEEEESTTSHTHHH
T ss_pred eeeecCCCceEECCCCcccccccccCCCHHHHHHHHHHcCCEEEEEE-chhhhhHHHHHhhcCCCceecccccCchhHHH
Confidence 124555668899999999864 433 3334678999999999998865444 34444
Q ss_pred HH
Q 014401 257 LI 258 (425)
Q Consensus 257 lL 258 (425)
|+
T Consensus 333 LI 334 (426)
T PF00362_consen 333 LI 334 (426)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 75
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=96.78 E-value=0.024 Score=57.71 Aligned_cols=153 Identities=19% Similarity=0.252 Sum_probs=108.9
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhc
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT--~d~~~~i~~L~~~l~ 164 (425)
.++.+++|.|.||.... +..++.....++..+ ++.+.+.++++. +.+..+.|.+ .+...+..++.....
T Consensus 38 ~~~~~~~~~~~s~~~~~-----~~~~~~~~~~~v~~~---~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~ 108 (399)
T COG2304 38 ANLTLAIDTSGSMTGAL-----LELAKSAAIELVNGL---NPGDLLSIVTFA-GSADVLIPPTGATNKESITAAIDQSLQ 108 (399)
T ss_pred cceEEEeccCCCccchh-----HHHHHHHHHHHhccc---CCCCceEEEEec-CCcceecCcccccCHHHHHHHHhhhhc
Confidence 48999999999997643 555666666666654 567889999996 5888888888 566777777777667
Q ss_pred CCCcchHHHHHHHHHHHHhCC-CCCCCcEEEEEEeCCCCC---CccCHHHHHHHHHhCCcEEEEEEecchH--HHHHHHH
Q 014401 165 CSGDSSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTC---DPGDIMETIQKCKESKIRCSVIGLSAEM--FICKHLC 238 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~-p~~~sreILVI~~s~~t~---dp~~i~~ti~~akk~~I~V~vIglg~e~--~iLk~iA 238 (425)
+.|.+.+..++..+...+... +......+++..++.... |+..+....+...+.+|.++++|+|.+. ..+..+.
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tdg~~~~~~~d~~~~~~~~~~~~~~~i~~~~~g~~~~~n~~~~~~~~ 188 (399)
T COG2304 109 AGGATAVEASLSLAVELAAKALPRGTLNRILLLTDGENNLGLVDPSRLSALAKLAAGKGIVLDTLGLGDDVNEDELTGIA 188 (399)
T ss_pred cccccHHHHHHHHHHHHhhhcCCccceeeEeeeccCccccCCCCHHHHHHHhcccccCceEEEEEecccccchhhhhhhh
Confidence 788899999999999988763 222333466666654433 3333334455555569999999999873 4556777
Q ss_pred HhhCCeEEEe
Q 014401 239 QDTGGSYSVA 248 (425)
Q Consensus 239 ~~TGG~Y~~~ 248 (425)
..++|.+...
T Consensus 189 ~~~~g~l~~~ 198 (399)
T COG2304 189 AAANGNLAFI 198 (399)
T ss_pred hccCcccccc
Confidence 8877776654
No 76
>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=96.57 E-value=0.067 Score=52.70 Aligned_cols=155 Identities=13% Similarity=0.158 Sum_probs=99.5
Q ss_pred hccccceEEEEEeCCHhhhcC----------CCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCce--EEeeCCC
Q 014401 82 QKGLIRYLYIVIDLSRAAAEM----------DFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA--NCLTDLG 149 (425)
Q Consensus 82 r~GiiR~lvlvLD~S~SM~a~----------D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A--~~lspLT 149 (425)
+-|.--+++++||.|.|=... --.||-.++|++.+..-+..|-++ .++-+..|++... ..++++-
T Consensus 27 ~~G~~~nl~vaIDfT~SNg~p~~~~SLHy~~~~~~N~Yq~aI~~vg~il~~yD~D---~~ip~~GFGa~~~~~~~v~~~f 103 (254)
T cd01459 27 SAGLESNLIVAIDFTKSNGWPGEKRSLHYISPGRLNPYQKAIRIVGEVLQPYDSD---KLIPAFGFGAIVTKDQSVFSFF 103 (254)
T ss_pred hCCCeeeEEEEEEeCCCCCCCCCCCCcccCCCCCccHHHHHHHHHHHHHHhcCCC---CceeeEeecccCCCCCcccccc
Confidence 345444999999999983211 114788999999999988887654 5789999964311 1233331
Q ss_pred -CC--------HHHHHHHHhhh---hcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh
Q 014401 150 -GS--------PESHIKALMGK---LGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 150 -~d--------~~~~i~~L~~~---l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk 217 (425)
++ .+.++++-... ....|.|.+...|..|.+.-++....++--||+|++++.-.|.....++|-.|.+
T Consensus 104 ~~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i~D~~~t~~aIv~AS~ 183 (254)
T cd01459 104 PGYSESPECQGFEGVLRAYREALPNVSLSGPTNFAPVIRAAANIAKASNSQSKYHILLIITDGEITDMNETIKAIVEASK 183 (254)
T ss_pred CCCCCCCcccCHHHHHHHHHHHhceeeecCcchHHHHHHHHHHHHHHhcCCCceEEEEEECCCCcccHHHHHHHHHHHhc
Confidence 11 13444443332 2467889999999999887765422222347777776554454445566777777
Q ss_pred CCcEEEEEEecch-HHHHHHHHH
Q 014401 218 SKIRCSVIGLSAE-MFICKHLCQ 239 (425)
Q Consensus 218 ~~I~V~vIglg~e-~~iLk~iA~ 239 (425)
.-|-|-+||+|.. -..++++-.
T Consensus 184 ~PlSIiiVGVGd~~F~~M~~LD~ 206 (254)
T cd01459 184 YPLSIVIVGVGDGPFDAMERLDD 206 (254)
T ss_pred CCeEEEEEEeCCCChHHHHHhcC
Confidence 8888888888854 466777654
No 77
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=96.43 E-value=0.066 Score=57.76 Aligned_cols=186 Identities=19% Similarity=0.270 Sum_probs=103.4
Q ss_pred eEEEEEeCCHhhhcCCC-CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC-----------CHHHH
Q 014401 88 YLYIVIDLSRAAAEMDF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-----------SPESH 155 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~-~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~-----------d~~~~ 155 (425)
=++++||.|.||..+-. .-+-|+.||.+++.|++..-. +| .- -|.-+.+..+-. +.+.+
T Consensus 3 i~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~R~r------~~--~~-~gdryml~TfeepP~~vk~~~~~~~a~~ 73 (888)
T KOG3768|consen 3 IFLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQRTR------VG--RE-TGDRYMLTTFEEPPKNVKVACEKLGAVV 73 (888)
T ss_pred eEEEEEecccchhhhccCCchhhHHHHHHHHHHHHHHhc------cc--cc-cCceEEEEecccCchhhhhHHhhcccHH
Confidence 36899999999987654 346788888888888875432 21 11 134444443332 22456
Q ss_pred HHHHhhhhcCCCcchHHHHHHHHHHHHhC------CCCCCCcE---------EEEEEeCCC-CCCcc---CH--------
Q 014401 156 IKALMGKLGCSGDSSLQNALDLVQGLLSQ------IPSYGHRE---------VLILYSALS-TCDPG---DI-------- 208 (425)
Q Consensus 156 i~~L~~~l~~~G~tsL~~AL~~A~~~L~~------~p~~~sre---------ILVI~~s~~-t~dp~---~i-------- 208 (425)
++.|+++..+.|.+-+++++..|..+|+- ..+++.+| ||+|+++.. +.-.| ++
T Consensus 74 ~~eik~l~a~~~s~~~~~~~t~AFdlLnlnR~qtGID~yGqGR~pf~lEP~~iI~iTDG~r~s~~~GV~~e~~Lpl~~p~ 153 (888)
T KOG3768|consen 74 IEEIKKLHAPYGSCQLHHAITEAFDLLNLNRVQTGIDGYGQGRLPFNLEPVTIILITDGGRYSGVAGVPIEFRLPLDPPF 153 (888)
T ss_pred HHHHHhhcCccchhhhhHHHHHHhhhhhhhhhhhcccccccccCccccCceEEEEEecCCccccccCCceeEEeccCCCC
Confidence 77777665566667788888889888852 12344433 444444311 10000 00
Q ss_pred --HHHHHHHHhCCcEEEEEEec---c-------------hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcC--------
Q 014401 209 --METIQKCKESKIRCSVIGLS---A-------------EMFICKHLCQDTGGSYSVALDESHFKELIMEHA-------- 262 (425)
Q Consensus 209 --~~ti~~akk~~I~V~vIglg---~-------------e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~-------- 262 (425)
.+.-+..-+..=|.+++.|- + +...+..+|+.|||+-|.+.+...|.+-+..++
T Consensus 154 pGse~TkepFRWDQrlftlVlRiPgt~~~~~~qlt~Vp~Dds~IermCevTGGRSysV~Spr~lnqciesLvqkvQ~gVv 233 (888)
T KOG3768|consen 154 PGSEMTKEPFRWDQRLFTLVLRIPGTPYPTISQLTAVPIDDSVIERMCEVTGGRSYSVVSPRQLNQCIESLVQKVQYGVV 233 (888)
T ss_pred CccccccccchhhhhhheeeEecCCCCCccHhhhcCCCCCchhhHHhhhhcCCceeeeeCHHHHHHHHHHHHHhhccCeE
Confidence 01111111222234444432 1 236899999999999998877776655443332
Q ss_pred ------CCCccchhhhhhceeeecCC
Q 014401 263 ------PPPPAIAEFAIANLIKMGFP 282 (425)
Q Consensus 263 ------~pp~~~~~~~~~~Li~mGFP 282 (425)
.|-++.....+..+|.|-|-
T Consensus 234 v~FE~~~p~papi~s~~~~~Is~~fg 259 (888)
T KOG3768|consen 234 VRFECLPPIPAPITSDEVNLISMKFG 259 (888)
T ss_pred EEeeecCCCCCCcccCcccccccccc
Confidence 23222212334678888773
No 78
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=96.36 E-value=0.082 Score=58.55 Aligned_cols=149 Identities=19% Similarity=0.288 Sum_probs=95.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHH-HHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH--------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRM-AVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP-------------- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL-~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~-------------- 152 (425)
+.|+.||+|-.-.. +|+ .++.+.+.+=+..+.+-.|..+||+|.| |..-+.+.+..+..
T Consensus 278 ~yvFlIDVS~~a~~-----~g~~~a~~r~Il~~l~~~~~~dpr~kIaii~f-D~sl~ffk~s~d~~~~~~~vsdld~pFl 351 (861)
T COG5028 278 VYVFLIDVSFEAIK-----NGLVKAAIRAILENLDQIPNFDPRTKIAIICF-DSSLHFFKLSPDLDEQMLIVSDLDEPFL 351 (861)
T ss_pred EEEEEEEeehHhhh-----cchHHHHHHHHHhhccCCCCCCCcceEEEEEE-cceeeEEecCCCCccceeeecccccccc
Confidence 89999999955332 243 4566666666655556668899999999 45555444332221
Q ss_pred -----------HHH---HHHHhh----hhcC--CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC----------
Q 014401 153 -----------ESH---IKALMG----KLGC--SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST---------- 202 (425)
Q Consensus 153 -----------~~~---i~~L~~----~l~~--~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t---------- 202 (425)
+.. ++.|-. .... .....+++||..|..++... .++|+++++++-+
T Consensus 352 Pf~s~~fv~pl~~~k~~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~----GGkii~~~stlPn~G~Gkl~~r~ 427 (861)
T COG5028 352 PFPSGLFVLPLKSCKQIIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGT----GGKIIVFLSTLPNMGIGKLQLRE 427 (861)
T ss_pred cCCcchhcccHHHHHHHHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhcc----CceEEEEeecCCCcccccccccc
Confidence 001 111111 1111 23468999999999988754 3457777755222
Q ss_pred --------CCccCHHHHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEE
Q 014401 203 --------CDPGDIMETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYS 246 (425)
Q Consensus 203 --------~dp~~i~~ti~~akk~~I~V~vIglg~---e~~iLk~iA~~TGG~Y~ 246 (425)
|+.+=+.+....+.+.+|.|++--..+ ++..|-.+++.|||.-+
T Consensus 428 d~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~ 482 (861)
T COG5028 428 DKESSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTY 482 (861)
T ss_pred cchhhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceE
Confidence 221112355778899999999988865 58999999999999654
No 79
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=96.35 E-value=0.015 Score=51.13 Aligned_cols=78 Identities=13% Similarity=0.256 Sum_probs=52.0
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh-hcCCC
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK-LGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~-l~~~G 167 (425)
|+++||.|+||...+ |.+.+..+..+.+.+ ..++-||.+ |........+... ...+... ....|
T Consensus 1 i~vaiDtSGSis~~~-----l~~fl~ev~~i~~~~-----~~~v~vi~~-D~~v~~~~~~~~~----~~~~~~~~~~GgG 65 (126)
T PF09967_consen 1 IVVAIDTSGSISDEE-----LRRFLSEVAGILRRF-----PAEVHVIQF-DAEVQDVQVFRSL----EDELRDIKLKGGG 65 (126)
T ss_pred CEEEEECCCCCCHHH-----HHHHHHHHHHHHHhC-----CCCEEEEEE-CCEeeeeeEEecc----cccccccccCCCC
Confidence 589999999997643 555566666655544 256889987 6766666665541 1112211 35678
Q ss_pred cchHHHHHHHHHHH
Q 014401 168 DSSLQNALDLVQGL 181 (425)
Q Consensus 168 ~tsL~~AL~~A~~~ 181 (425)
||+++-+++-+.+.
T Consensus 66 GTdf~pvf~~~~~~ 79 (126)
T PF09967_consen 66 GTDFRPVFEYLEEN 79 (126)
T ss_pred CCcchHHHHHHHhc
Confidence 99999999987764
No 80
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.11 E-value=0.099 Score=58.31 Aligned_cols=148 Identities=22% Similarity=0.325 Sum_probs=96.8
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH---------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--------------- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~--------------- 152 (425)
-.+++||+|-+-.+.. -|+.+.+.+.+=++.+- .+|..|||+|+| |..-+... +.++.
T Consensus 296 vy~FliDVS~~a~ksG----~L~~~~~slL~~LD~lp-gd~Rt~igfi~f-Ds~ihfy~-~~~~~~qp~mm~vsdl~d~f 368 (887)
T KOG1985|consen 296 VYVFLIDVSISAIKSG----YLETVARSLLENLDALP-GDPRTRIGFITF-DSTIHFYS-VQGDLNQPQMMIVSDLDDPF 368 (887)
T ss_pred eEEEEEEeehHhhhhh----HHHHHHHHHHHhhhcCC-CCCcceEEEEEe-eceeeEEe-cCCCcCCCceeeeccccccc
Confidence 5789999997754322 57788888887777665 678899999999 44433322 11110
Q ss_pred ------------------HHHHHHHhhhhc--CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCC---------
Q 014401 153 ------------------ESHIKALMGKLG--CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTC--------- 203 (425)
Q Consensus 153 ------------------~~~i~~L~~~l~--~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~--------- 203 (425)
++.++.|..... -.-+.+|+.||+.|..+|... .++|+|+.+++-+-
T Consensus 369 lp~pd~lLv~L~~ck~~i~~lL~~lp~~F~~~~~t~~alGpALkaaf~li~~~----GGri~vf~s~lPnlG~G~L~~rE 444 (887)
T KOG1985|consen 369 LPMPDSLLVPLKECKDLIETLLKTLPEMFQDTRSTGSALGPALKAAFNLIGST----GGRISVFQSTLPNLGAGKLKPRE 444 (887)
T ss_pred cCCchhheeeHHHHHHHHHHHHHHHHHHHhhccCcccccCHHHHHHHHHHhhc----CCeEEEEeccCCCCCcccccccc
Confidence 112222222221 233579999999999999864 34688887653221
Q ss_pred Cc---------------cCHH-HHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEE
Q 014401 204 DP---------------GDIM-ETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYS 246 (425)
Q Consensus 204 dp---------------~~i~-~ti~~akk~~I~V~vIglg~---e~~iLk~iA~~TGG~Y~ 246 (425)
|| .++. +-+-.+.+.+|.|+...+.. ++..|..|++-|||.-+
T Consensus 445 dp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~~y 506 (887)
T KOG1985|consen 445 DPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQVY 506 (887)
T ss_pred ccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCceeE
Confidence 11 0222 23556788999999999984 68999999999999533
No 81
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.75 E-value=0.52 Score=51.99 Aligned_cols=162 Identities=17% Similarity=0.238 Sum_probs=102.4
Q ss_pred EEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC-----------CH----HH
Q 014401 90 YIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-----------SP----ES 154 (425)
Q Consensus 90 vlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~-----------d~----~~ 154 (425)
++|||. -| .+.+|+..+..+..++.-. .|...||+|+| |+--.+..|+. +. +.
T Consensus 125 ~fVvDt--c~-----~eeeL~~LkssL~~~l~lL---P~~alvGlItf--g~~v~v~el~~~~~sk~~VF~G~ke~s~~q 192 (745)
T KOG1986|consen 125 VFVVDT--CM-----DEEELQALKSSLKQSLSLL---PENALVGLITF--GTMVQVHELGFEECSKSYVFSGNKEYSAKQ 192 (745)
T ss_pred EEEEee--cc-----ChHHHHHHHHHHHHHHhhC---CCcceEEEEEe--cceEEEEEcCCCcccceeEEeccccccHHH
Confidence 677775 23 3479999999999888653 34477999999 44444555521 10 00
Q ss_pred HHH------------------------------HHhhh---hc------CCCc---chHHHHHHHHHHHHhCCCCCCCcE
Q 014401 155 HIK------------------------------ALMGK---LG------CSGD---SSLQNALDLVQGLLSQIPSYGHRE 192 (425)
Q Consensus 155 ~i~------------------------------~L~~~---l~------~~G~---tsL~~AL~~A~~~L~~~p~~~sre 192 (425)
+.+ .|.++ +. +.|. -+.+.||..|..+|...-.....+
T Consensus 193 ~~~~L~~~~~~~~~~~~~~~~~rFL~P~~~c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~r 272 (745)
T KOG1986|consen 193 LLDLLGLSGGAGKGSENQSASNRFLLPAQECEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGAR 272 (745)
T ss_pred HHHHhcCCcccccCCcccccchhhhccHHHHHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcce
Confidence 000 01111 11 2332 478999999999998753334456
Q ss_pred EEEEEeCCCCCCccC---------------H---------------HHHHHHHHhCCcEEEEEEecch---HHHHHHHHH
Q 014401 193 VLILYSALSTCDPGD---------------I---------------METIQKCKESKIRCSVIGLSAE---MFICKHLCQ 239 (425)
Q Consensus 193 ILVI~~s~~t~dp~~---------------i---------------~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~ 239 (425)
|+.+.|+.-|.-||- | ...++.+..+|..|++.+=+.+ +..+|.+++
T Consensus 273 Iv~f~gGPcT~GpG~vv~~el~~piRshhdi~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~ 352 (745)
T KOG1986|consen 273 IVLFAGGPCTRGPGTVVSRELKEPIRSHHDIEKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVE 352 (745)
T ss_pred EEEeccCCCCcCCceecchhhcCCCcCcccccCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhh
Confidence 888887744333331 1 1346777888988888776654 578999999
Q ss_pred hhCCeEEEecC--HhHHHHHHHhcCC
Q 014401 240 DTGGSYSVALD--ESHFKELIMEHAP 263 (425)
Q Consensus 240 ~TGG~Y~~~~d--~~~L~~lL~~~~~ 263 (425)
.|||.-....+ .+-|+.-+..++.
T Consensus 353 ~TGG~lvl~dsF~~s~Fk~sfqR~f~ 378 (745)
T KOG1986|consen 353 STGGVLVLGDSFNTSIFKQSFQRIFT 378 (745)
T ss_pred cCCcEEEEecccchHHHHHHHHHHhc
Confidence 99998776544 3457777777765
No 82
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=95.25 E-value=0.085 Score=56.44 Aligned_cols=91 Identities=18% Similarity=0.151 Sum_probs=61.5
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC--CC-cc------CHHHHHHHHHhCCcEEEEEEecchHHHH
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST--CD-PG------DIMETIQKCKESKIRCSVIGLSAEMFIC 234 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t--~d-p~------~i~~ti~~akk~~I~V~vIglg~e~~iL 234 (425)
+|.-.|..+.||..|-+.|.+.| ..++.||+++++.- .| +. |-.+++..+.+.||.|.-|-|..+..
T Consensus 528 ePg~ytR~G~AIR~As~kL~~rp--q~qklLivlSDGkPnd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld~ea~-- 603 (637)
T COG4548 528 EPGYYTRDGAAIRHASAKLMERP--QRQKLLIVLSDGKPNDFDHYEGRFGIEDTREAVIEARKSGIEVFNVTLDREAI-- 603 (637)
T ss_pred CccccccccHHHHHHHHHHhcCc--ccceEEEEecCCCcccccccccccchhhHHHHHHHHHhcCceEEEEEecchhh--
Confidence 56667999999999999998874 35568888876543 22 21 22367888999999999999986532
Q ss_pred HHHHHhhC-CeEEEecCHhHHHHHH
Q 014401 235 KHLCQDTG-GSYSVALDESHFKELI 258 (425)
Q Consensus 235 k~iA~~TG-G~Y~~~~d~~~L~~lL 258 (425)
..+-..|| +.|..+.+.++|-..|
T Consensus 604 ~y~p~~fgqngYa~V~~v~~LP~~L 628 (637)
T COG4548 604 SYLPALFGQNGYAFVERVAQLPGAL 628 (637)
T ss_pred hhhHHHhccCceEEccchhhcchhH
Confidence 22223333 5677666666554443
No 83
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=95.19 E-value=0.48 Score=51.37 Aligned_cols=170 Identities=18% Similarity=0.143 Sum_probs=106.6
Q ss_pred EEEEEeCCHhhhcCCCC-CCHHHHHHHHHHHHHHH-HhccCCCCcEEEEeec---------CCceE----EeeCCCC-CH
Q 014401 89 LYIVIDLSRAAAEMDFR-PSRMAVVAKQVEAFVRE-FFDQNPLSQIGLVTVK---------DGVAN----CLTDLGG-SP 152 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~-P~RL~~a~~~l~~FI~~-~~~qnP~sqlGvI~~~---------~g~A~----~lspLT~-d~ 152 (425)
+++++|++.+|...+-. -+-++.|+.++..|+.. +|..+-.+-+|+|+|. .|.++ ++.|++. +.
T Consensus 7 ttfilDvG~~Ms~~~~~~~S~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~ten~legg~~fqnisvl~p~~tpaf 86 (669)
T KOG2326|consen 7 TTFILDVGPSMSKNNETGKSNFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTENSLEGGNVFQNISVLAPVTTPAF 86 (669)
T ss_pred eEEEEecCccccccCCCccccHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCccCccccccccceeEEeecccchhh
Confidence 46677999999988822 36899999999988854 4555366889999986 12222 3344432 23
Q ss_pred HHHHHHHhhhhcC-CCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec
Q 014401 153 ESHIKALMGKLGC-SGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 153 ~~~i~~L~~~l~~-~G~tsL~~AL~~A~~~L~~---~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg 228 (425)
-.++..+.+...+ .-..++-.||.+...++.+ .+....+++|++...+.+ |-.+-.-.++.+.+.+|-.-++||.
T Consensus 87 ~~l~k~~~~~~qqns~q~Df~gal~vs~dL~~qhe~~~k~~~kr~Il~~~~l~~-dfsd~~~ive~l~~~didL~~~gld 165 (669)
T KOG2326|consen 87 IGLIKRLKQYCQQNSHQSDFEGALSVSQDLLVQHEDIKKQFQKRKILKQIVLFT-DFSDDLFIVEDLTDEDIDLLTEGLD 165 (669)
T ss_pred HHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhccchhhceEEEEeecccc-cchhhHHHHHHHhhcCcceeEeecc
Confidence 3455555544322 2234688899988886643 233334556666655443 2222223899999999999999997
Q ss_pred chH-----------------H-HHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCC
Q 014401 229 AEM-----------------F-ICKHLCQDTGGSYSVALDESHFKELIMEHAPPP 265 (425)
Q Consensus 229 ~e~-----------------~-iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp 265 (425)
... + .+|..-..-.|+|+. +.++|..+..|-
T Consensus 166 f~~e~id~s~dl~e~~kk~n~~~~q~~e~l~~~q~~~------~~eiYn~i~spa 214 (669)
T KOG2326|consen 166 FRIELIDCSKDLQEERKKSNYTWLQLVEALPNSQIYN------MNEIYNEITSPA 214 (669)
T ss_pred CCccccccCccccccccccchHHHHHHHhcchhhHHh------HHHHHHhhcCcc
Confidence 531 2 344444445566554 477888877653
No 84
>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=95.09 E-value=0.39 Score=43.45 Aligned_cols=121 Identities=12% Similarity=0.224 Sum_probs=72.8
Q ss_pred CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCce-----EEeeCCCCCH--------HHHHHHHhhh---hcCCCc
Q 014401 105 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-----NCLTDLGGSP--------ESHIKALMGK---LGCSGD 168 (425)
Q Consensus 105 ~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A-----~~lspLT~d~--------~~~i~~L~~~---l~~~G~ 168 (425)
.+|..+.|+..+.+.+..|-.++ ++-+..|++... .-..||++|+ +.++++-.+. +...|.
T Consensus 9 ~~N~Y~~ai~~vg~il~~Yd~dk---~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v~l~GP 85 (146)
T PF07002_consen 9 QPNPYQQAIRAVGEILQDYDSDK---MIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKVQLSGP 85 (146)
T ss_pred CCCHHHHHHHHHHHHHHhhccCC---ccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhheEECCC
Confidence 48999999999999999886544 577777754322 1235666543 3344443332 256888
Q ss_pred chHHHHHHHHHHHHhCC-CCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec
Q 014401 169 SSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~-p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg 228 (425)
|.+.--|..|.+.-+.. .....=-||+|++++.-.|-....++|-.|.+.-+.|-+||+|
T Consensus 86 T~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~D~~~T~~aIv~AS~~PlSIIiVGVG 146 (146)
T PF07002_consen 86 TNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQITDMEETIDAIVEASKLPLSIIIVGVG 146 (146)
T ss_pred ccHHHHHHHHHHHHhhhccCCceEEEEEEecccccccHHHHHHHHHHHccCCeEEEEEEeC
Confidence 99998888888887731 1111224788877654333322233444444455555566654
No 85
>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=95.08 E-value=0.51 Score=51.49 Aligned_cols=78 Identities=18% Similarity=0.270 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCC-------ccCH-----HHHHHHHHhC-CcEEEEEEecchHHHHHHHH
Q 014401 172 QNALDLVQGLLSQIPSYGHREVLILYSALSTCD-------PGDI-----METIQKCKES-KIRCSVIGLSAEMFICKHLC 238 (425)
Q Consensus 172 ~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~d-------p~~i-----~~ti~~akk~-~I~V~vIglg~e~~iLk~iA 238 (425)
+.||.-|...|...| ..++||+++|++.-.| ++++ ..+|+...+. +|.+-.||||.++.-+
T Consensus 499 GeAl~wa~~rL~~R~--e~rKiL~ViSDG~P~D~~TlsvN~~~~l~~hLr~vi~~~e~~~~vel~aigIg~Dv~r~---- 572 (600)
T TIGR01651 499 GEALMWAHQRLIARP--EQRRILMMISDGAPVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGHDVTRY---- 572 (600)
T ss_pred hHHHHHHHHHHhcCc--ccceEEEEEeCCCcCCccccccCchhHHHHHHHHHHHHHhccCCceEEEeeccccHHHH----
Confidence 678999999888763 4677999987643222 3333 3678888775 8999999999884211
Q ss_pred HhhCCeEEEecCHhHHHHHH
Q 014401 239 QDTGGSYSVALDESHFKELI 258 (425)
Q Consensus 239 ~~TGG~Y~~~~d~~~L~~lL 258 (425)
- ..++.+.+...|-..+
T Consensus 573 --Y-~~~v~i~~~~eL~~~~ 589 (600)
T TIGR01651 573 --Y-RRAVTIVDAEELAGAM 589 (600)
T ss_pred --c-cccceecCHHHHHHHH
Confidence 1 3344556655554433
No 86
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=95.01 E-value=0.81 Score=44.12 Aligned_cols=58 Identities=24% Similarity=0.370 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCC-------CccCH-----HHHHHHHHh-CCcEEEEEEecchH
Q 014401 172 QNALDLVQGLLSQIPSYGHREVLILYSALSTC-------DPGDI-----METIQKCKE-SKIRCSVIGLSAEM 231 (425)
Q Consensus 172 ~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~-------dp~~i-----~~ti~~akk-~~I~V~vIglg~e~ 231 (425)
+.||.-|...|...| ..++||+++|++.-. +++++ .++++.... .+|.+-.||||.++
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 568888888887763 456799988754322 22333 256776665 47999999999874
No 87
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=94.70 E-value=0.55 Score=49.24 Aligned_cols=61 Identities=15% Similarity=0.214 Sum_probs=49.9
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~ 150 (425)
+++|++|.|.+|.-.|...++++.+...+..+.-..+.++ +++|+.++.++.-..+.|-.+
T Consensus 226 ~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la~~~l~~g--d~vg~~~~~~~~~~~~~p~~G 286 (416)
T COG1721 226 TVVLVLDASRSMLFGSGVASKFEEAVRAAASLAYAALKNG--DRVGLLIFGGGGPKWIPPSRG 286 (416)
T ss_pred eEEEEEeCCccccCCCCCccHHHHHHHHHHHHHHHHHhCC--CeeEEEEECCCcceeeCCCcc
Confidence 9999999999999888889999999999999988877765 899999995334444555443
No 88
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=94.53 E-value=0.27 Score=50.61 Aligned_cols=118 Identities=12% Similarity=0.148 Sum_probs=64.8
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhh-
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKL- 163 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT--~d~~~~i~~L~~~l- 163 (425)
+.+|+++|+|+||.. +.. ....|+...-.+.+.++ +.+|. .+-..++++- .|++..++.+....
T Consensus 219 ~~lvvL~DVSGSm~~-------ys~---~~L~l~hAl~q~~~R~~--~F~F~-TRLt~vT~~l~~rD~~~Al~~~~a~v~ 285 (395)
T COG3552 219 PPLVVLCDVSGSMSG-------YSR---IFLHLLHALRQQRSRVH--VFLFG-TRLTRVTHMLRERDLEDALRRLSAQVK 285 (395)
T ss_pred CCeEEEEecccchhh-------hHH---HHHHHHHHHHhccccee--EEEee-chHHHHHHHhccCCHHHHHHHHHhhcc
Confidence 389999999999962 222 23344555555554444 66773 3222223221 45566666665433
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEe-CCCCCCccCHHHHHHHHHhC
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYS-ALSTCDPGDIMETIQKCKES 218 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~-s~~t~dp~~i~~ti~~akk~ 218 (425)
.-.|+|.+++++..=+...... .-+.+-+|+|++ +.+..|.......+..+.+.
T Consensus 286 dw~ggTrig~tl~aF~~~~~~~-~L~~gA~VlilsDg~drd~~~~l~~~~~rl~rr 340 (395)
T COG3552 286 DWDGGTRIGNTLAAFLRRWHGN-VLSGGAVVLILSDGLDRDDIPELVTAMARLRRR 340 (395)
T ss_pred cccCCcchhHHHHHHHcccccc-ccCCceEEEEEecccccCCchHHHHHHHHHHHh
Confidence 4679999999998755543332 223334555555 44443333334445555543
No 89
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=94.14 E-value=0.057 Score=53.32 Aligned_cols=40 Identities=33% Similarity=0.722 Sum_probs=33.6
Q ss_pred eEEcCCCCccccCCC-----------------CCCCCCCceecCchhHHhhhc-ccCC
Q 014401 304 GYTCPRCKARVCELP-----------------TDCRICGLQLVSSPHLARSYH-HLFP 343 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-----------------~~C~~C~l~Lvs~phLarsyh-hlfp 343 (425)
-|.|+.|+..|-... -.|++||...||-|-|+.-.. |-.|
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 799999999887665 489999999999999998765 6544
No 90
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=91.37 E-value=0.15 Score=50.34 Aligned_cols=75 Identities=27% Similarity=0.656 Sum_probs=46.5
Q ss_pred eEEcCCCCccccC------------CCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccc
Q 014401 304 GYTCPRCKARVCE------------LPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQ 371 (425)
Q Consensus 304 Gy~Cp~C~s~~C~------------lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~ 371 (425)
.+.|+.|.-.|=+ ||-+|.+||..|-- |-|-.. |+ . + -.-...-.|.-|.+
T Consensus 161 a~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR-PWLLQG--Hi-------R--T-----HTGEKPF~C~hC~k 223 (279)
T KOG2462|consen 161 AFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR-PWLLQG--HI-------R--T-----HTGEKPFSCPHCGK 223 (279)
T ss_pred cccCCCCCceeeehHHHhhHhhccCCCcccccccccccc-hHHhhc--cc-------c--c-----ccCCCCccCCcccc
Confidence 7899999987774 67799999987521 111000 10 0 0 00001236999999
Q ss_pred cccCCCC--------CCCcceeCCCCCccccc
Q 014401 372 SLLSSGN--------KPGLYVACPKCKKHFCL 395 (425)
Q Consensus 372 ~~~~~~~--------~~~~~~~C~~C~~~fC~ 395 (425)
.|.+..+ .....|+|++|++.|=.
T Consensus 224 AFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 224 AFADRSNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred hhcchHHHHHHHHhhcCCccccCcchhhHHHH
Confidence 9976521 12236999999998843
No 91
>KOG1327 consensus Copine [Signal transduction mechanisms]
Probab=91.17 E-value=2.6 Score=45.51 Aligned_cols=153 Identities=13% Similarity=0.166 Sum_probs=93.3
Q ss_pred ceEEEEEeCCHhh---------hcCC-CCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCC--c---eEEeeCCCCC
Q 014401 87 RYLYIVIDLSRAA---------AEMD-FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG--V---ANCLTDLGGS 151 (425)
Q Consensus 87 R~lvlvLD~S~SM---------~a~D-~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g--~---A~~lspLT~d 151 (425)
-++.+.||.+.|= ...| -.||-++.|+..+-.-+..|..+ .++.-..|++. . ..-...|.++
T Consensus 286 lnf~vgIDfTaSNg~p~~~sSLHyi~p~~~N~Y~~Ai~~vG~~lq~ydsd---k~fpa~GFGakip~~~~vs~~f~ln~~ 362 (529)
T KOG1327|consen 286 LNFTVGIDFTASNGDPRNPSSLHYIDPHQPNPYEQAIRSVGETLQDYDSD---KLFPAFGFGAKIPPDGQVSHEFVLNFN 362 (529)
T ss_pred eeeEEEEEEeccCCCCCCCCcceecCCCCCCHHHHHHHHHhhhhcccCCC---CccccccccccCCCCcccccceeecCC
Confidence 3899999999982 2223 56899999999999999887554 56676677533 1 1112233333
Q ss_pred H--------HHHHHHHhhhh---cCCCcchHHHHHHHHHHHHhCCCCCC-CcEEEEEEeCCCCCCccCHHHHHHHHHhCC
Q 014401 152 P--------ESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQIPSYG-HREVLILYSALSTCDPGDIMETIQKCKESK 219 (425)
Q Consensus 152 ~--------~~~i~~L~~~l---~~~G~tsL~~AL~~A~~~L~~~p~~~-sreILVI~~s~~t~dp~~i~~ti~~akk~~ 219 (425)
+ +.++++-...+ .+.|.|++..-|..|...-++...++ +=-||+|++++.-.|-....++|-.|-+.-
T Consensus 363 ~~~~~c~Gi~gVl~aY~~~lp~v~l~GPTnFaPII~~va~~a~~~~~~~~qY~VLlIitDG~vTdm~~T~~AIV~AS~lP 442 (529)
T KOG1327|consen 363 PEDPECRGIEGVLEAYRKALPNVQLYGPTNFSPIINHVARIAQQSGNTAGQYHVLLIITDGVVTDMKETRDAIVSASDLP 442 (529)
T ss_pred CCCCccccHHHHHHHHHhhcccccccCCCccHHHHHHHHHHHHHhccCCcceEEEEEEeCCccccHHHHHHHHHhhccCC
Confidence 2 33444444332 56788998888888877776542111 225888887654334323334555555666
Q ss_pred cEEEEEEecch-HHHHHHHHHhhC
Q 014401 220 IRCSVIGLSAE-MFICKHLCQDTG 242 (425)
Q Consensus 220 I~V~vIglg~e-~~iLk~iA~~TG 242 (425)
+.|-+||+|.. -..++++-...+
T Consensus 443 lSIIiVGVGd~df~~M~~lD~d~~ 466 (529)
T KOG1327|consen 443 LSIIIVGVGDADFDMMRELDGDDP 466 (529)
T ss_pred eEEEEEEeCCCCHHHHHHhhcCCc
Confidence 77777788743 355555554433
No 92
>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=90.66 E-value=0.13 Score=39.90 Aligned_cols=36 Identities=19% Similarity=0.461 Sum_probs=20.4
Q ss_pred CCCCccccccccccCCCCCCCcceeCCCCCcccccccchh
Q 014401 361 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY 400 (425)
Q Consensus 361 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f 400 (425)
.....|..|.+.|.- ...++.|..|+..||.+|-.+
T Consensus 7 ~~~~~C~~C~~~F~~----~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSL----FRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BS----SS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCC----ceeeEccCCCCCEECCchhCC
Confidence 346789999999953 234799999999999999753
No 93
>PRK04023 DNA polymerase II large subunit; Validated
Probab=90.39 E-value=0.18 Score=57.60 Aligned_cols=69 Identities=29% Similarity=0.585 Sum_probs=44.2
Q ss_pred cccCCCCCCcccCccCCCCC-------CCCCCCccccccccccCCCCCCCcceeCCCCCcc-----cccccchhhhccCC
Q 014401 339 HHLFPIAPFDEVTPLCLNDP-------RNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHESLH 406 (425)
Q Consensus 339 hhlfp~~~f~~~~~~~~~~~-------~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----fC~dCD~fiHe~lh 406 (425)
|-|||+-..--...++..+. -..+..+|..|.... ..+.||+|+.. ||.+|-.-... -
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 77999876643221110010 112456999998553 24789999975 99999766553 4
Q ss_pred CCCCCCCCCCC
Q 014401 407 NCPGCESLRHS 417 (425)
Q Consensus 407 ~CPgC~~~~~~ 417 (425)
.||.|.....+
T Consensus 665 ~CPKCG~El~~ 675 (1121)
T PRK04023 665 ECEKCGREPTP 675 (1121)
T ss_pred cCCCCCCCCCc
Confidence 49999875543
No 94
>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 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=89.88 E-value=0.21 Score=45.74 Aligned_cols=26 Identities=31% Similarity=0.534 Sum_probs=22.2
Q ss_pred eEEcCCCCccccC-----CCCCCCCCCceec
Q 014401 304 GYTCPRCKARVCE-----LPTDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~-----lP~~C~~C~l~Lv 329 (425)
+|+||+|+.+|-. .--.||.||.+|+
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 9999999998863 4569999999986
No 96
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=89.08 E-value=3.4 Score=46.27 Aligned_cols=164 Identities=18% Similarity=0.178 Sum_probs=90.4
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCce-------------------------
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA------------------------- 142 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A------------------------- 142 (425)
+||.++|+|.||.. -|...++.-.++.+++-..-..-|||+=.|-++..
T Consensus 134 DLYyLMDlS~SM~D------Dl~~l~~LG~~L~~~m~~lT~nfrlGFGSFVDK~v~P~i~~~pekl~npc~~~~~C~ppf 207 (783)
T KOG1226|consen 134 DLYYLMDLSYSMKD------DLENLKSLGTDLAREMRKLTSNFRLGFGSFVDKTVSPYISTTPEKLRNPCPNYKNCAPPF 207 (783)
T ss_pred eEEEEeecchhhhh------hHHHHHHHHHHHHHHHHHHhccCCccccchhccccccccccCcHHhcCCCCCcccCCCCc
Confidence 99999999999974 33444443333333333333334566655543211
Q ss_pred --EEeeCCCCCHHHHHHHHhhh-----h-cCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEeCCC------------
Q 014401 143 --NCLTDLGGSPESHIKALMGK-----L-GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALS------------ 201 (425)
Q Consensus 143 --~~lspLT~d~~~~i~~L~~~-----l-~~~G~tsL~~AL~~A~~~L~~~p-~~~sreILVI~~s~~------------ 201 (425)
.-+-+||.|.+.+.+++.+. + .|.||++ .-++.|++- ..+. -+..++.||++++..
T Consensus 208 gfkhvLsLT~~~~~F~~~V~~q~ISgNlDaPEGGfD--AimQaavC~-~~IGWR~~a~~lLVF~td~~~H~a~DgkLaGi 284 (783)
T KOG1226|consen 208 GFKHVLSLTNDAEEFNEEVGKQRISGNLDAPEGGFD--AIMQAAVCT-EKIGWRNDATRLLVFSTDAGFHFAGDGKLAGI 284 (783)
T ss_pred ccceeeecCCChHHHHHHHhhceeccCCCCCCchHH--HHHhhhhcc-ccccccccceeEEEEEcCcceeeecccceeeE
Confidence 12345677877777777643 1 3666532 223333321 1110 022345666653210
Q ss_pred --------------------CCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEe--cCHhHHHHHHH
Q 014401 202 --------------------TCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA--LDESHFKELIM 259 (425)
Q Consensus 202 --------------------t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~--~d~~~L~~lL~ 259 (425)
+-|+..+-.....+.+++|.+..-.-.....+.++++..--|.+.-. .|...+.+|+.
T Consensus 285 v~pnDG~CHL~~~g~Yt~S~~qdyPSia~l~~kl~~~ni~~IFAVt~~~~~~Y~~l~~lip~s~vg~l~~DSsNi~qLI~ 364 (783)
T KOG1226|consen 285 VQPNDGQCHLDKNGEYTQSTTQDYPSIAQLAQKLADNNINTIFAVTKNSQSLYEELSNLIPGSAVGVLSEDSSNIVQLII 364 (783)
T ss_pred ecCCCCccccCCCCccceecCCCCCcHHHHHHHHhhhcchhHHHHhhhhhhHHHhhhhhCCcccccccccchhhHHHHHH
Confidence 12333556778889999987654444455678899998888888743 44445555544
Q ss_pred h
Q 014401 260 E 260 (425)
Q Consensus 260 ~ 260 (425)
.
T Consensus 365 ~ 365 (783)
T KOG1226|consen 365 E 365 (783)
T ss_pred H
Confidence 3
No 97
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=88.68 E-value=0.27 Score=45.91 Aligned_cols=27 Identities=30% Similarity=0.618 Sum_probs=22.9
Q ss_pred eEEcCCCCccccC-----CCCCCCCCCceecC
Q 014401 304 GYTCPRCKARVCE-----LPTDCRICGLQLVS 330 (425)
Q Consensus 304 Gy~Cp~C~s~~C~-----lP~~C~~C~l~Lvs 330 (425)
+|+||+|+.+|-. .--.||.||.+|+-
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 9999999999863 45699999999874
No 98
>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=88.08 E-value=0.39 Score=32.71 Aligned_cols=24 Identities=33% Similarity=0.778 Sum_probs=19.7
Q ss_pred eEEcCCCCccccC--CCCCCCCCCce
Q 014401 304 GYTCPRCKARVCE--LPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~--lP~~C~~C~l~ 327 (425)
-|+|+.|+-++=. .|..||+||..
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCc
Confidence 4899999998653 57899999963
No 99
>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=86.38 E-value=0.41 Score=35.57 Aligned_cols=34 Identities=26% Similarity=0.729 Sum_probs=27.8
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcccccccchhh
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI 401 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fi 401 (425)
..|..|.+.|... ...+.|..|+..||.+|..+-
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 245889999999999998764
No 100
>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=84.65 E-value=0.46 Score=40.95 Aligned_cols=28 Identities=36% Similarity=0.859 Sum_probs=24.4
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceecCc
Q 014401 304 GYTCPRCKARVCEL---PTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lvs~ 331 (425)
-.+||-|++||=.| |..||-||..+..+
T Consensus 9 KR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 46899999999876 68899999998766
No 101
>COG3864 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.49 E-value=3.2 Score=42.13 Aligned_cols=79 Identities=10% Similarity=0.241 Sum_probs=47.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
.+++++|.|+||.+. -+.++...+.+.+ .||.-++-+|-. |..+.....+..- ..+...+...|
T Consensus 263 ~i~vaVDtSGS~~d~-----ei~a~~~Ei~~Il-----~~~~~eltli~~-D~~v~~~~~~r~g-----~~~~~~~~ggG 326 (396)
T COG3864 263 KIVVAVDTSGSMTDA-----EIDAAMTEIFDIL-----KNKNYELTLIEC-DNIVRRMYRVRKG-----RDMKKKLDGGG 326 (396)
T ss_pred heEEEEecCCCccHH-----HHHHHHHHHHHHH-----hCCCcEEEEEEe-cchhhhhhccCCc-----ccCCcccCCCC
Confidence 488999999999753 3344444444333 577788888876 5555543333211 00112234567
Q ss_pred cchHHHHHHHHHHHH
Q 014401 168 DSSLQNALDLVQGLL 182 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L 182 (425)
+|+++-+++..-+.+
T Consensus 327 ~Tdf~Pvfeylek~~ 341 (396)
T COG3864 327 GTDFSPVFEYLEKNR 341 (396)
T ss_pred CccccHHHHHHHhhc
Confidence 799999888755443
No 102
>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=83.60 E-value=0.95 Score=30.47 Aligned_cols=22 Identities=36% Similarity=0.827 Sum_probs=18.4
Q ss_pred EEcCCCCccccCC--CCCCCCCCc
Q 014401 305 YTCPRCKARVCEL--PTDCRICGL 326 (425)
Q Consensus 305 y~Cp~C~s~~C~l--P~~C~~C~l 326 (425)
|+|+.|+-++=.- |-.||+||.
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCC
Confidence 8999999887654 679999986
No 103
>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins.
Probab=83.07 E-value=18 Score=39.44 Aligned_cols=134 Identities=12% Similarity=0.160 Sum_probs=77.4
Q ss_pred ccccceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCC-HHHHHHHHhh
Q 014401 83 KGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS-PESHIKALMG 161 (425)
Q Consensus 83 ~GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d-~~~~i~~L~~ 161 (425)
.|-+.+.+.|.|+|+||... -+..+..... ++.+. .+.| =+=.+|+|. .....+ .++++ ..+-++.+.+
T Consensus 337 ~g~l~n~iav~DvSGSM~~~-----pm~vaiaLgl-l~ae~-~~~p-f~~~~ITFs-~~P~~~-~i~g~~l~ekv~~~~~ 406 (534)
T PF11443_consen 337 SGSLENCIAVCDVSGSMSGP-----PMDVAIALGL-LIAEL-NKGP-FKGRFITFS-ENPQLH-KIKGDTLREKVRFIRR 406 (534)
T ss_pred cCCccceEEEEecCCccCcc-----HHHHHHHHHH-HHHHh-cccc-cCCeEEeec-CCceEE-EecCCCHHHHHHHHHh
Confidence 46678999999999999865 4555555444 44444 2333 345788884 554433 33444 3444444433
Q ss_pred hhcCCCcchHHHHHHHHHHHHhC--CC-CCCCcEEEEEEeCC-C--CCC-----ccCHHHHHHHHHhCCcEEEEEEe
Q 014401 162 KLGCSGDSSLQNALDLVQGLLSQ--IP-SYGHREVLILYSAL-S--TCD-----PGDIMETIQKCKESKIRCSVIGL 227 (425)
Q Consensus 162 ~l~~~G~tsL~~AL~~A~~~L~~--~p-~~~sreILVI~~s~-~--t~d-----p~~i~~ti~~akk~~I~V~vIgl 227 (425)
..-.++|+|+...++-+..-.. .+ ..--++|+||.+=. + +.. ..++..+-+..++.|..+=-|-+
T Consensus 407 -~~wg~nTn~~aVFdlIL~~Av~~~l~~e~M~k~lfV~SDMeFD~a~~~~~~~w~T~~e~i~~~f~~aGY~~P~iVF 482 (534)
T PF11443_consen 407 -MDWGMNTNFQAVFDLILETAVKNKLKQEDMPKRLFVFSDMEFDQASNSSDRPWETNFEAIKRKFEEAGYELPEIVF 482 (534)
T ss_pred -CCcccCCcHHHHHHHHHHHHHHcCCChHHCCceEEEEeccccccccccccCccccHHHHHHHHHHHhCCCCCceEE
Confidence 2446789999999887776432 11 12235577776411 1 111 12344567777888876544444
No 104
>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=82.85 E-value=0.69 Score=40.87 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=26.2
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceecCchhHH
Q 014401 304 GYTCPRCKARVCEL---PTDCRICGLQLVSSPHLA 335 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lvs~phLa 335 (425)
-.+||-|++||=.| |+.||-||...-.+|-+.
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCccCcchhhc
Confidence 57999999999866 899999999976664443
No 105
>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=82.64 E-value=0.89 Score=32.31 Aligned_cols=30 Identities=27% Similarity=0.544 Sum_probs=25.0
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
-|+|++|++.|=.---+-= +....||.|..
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 5899999999988866544 58889999987
No 106
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=82.48 E-value=0.71 Score=41.57 Aligned_cols=27 Identities=33% Similarity=0.760 Sum_probs=22.4
Q ss_pred eEEcCCCCccccC-----CC-----CCCCCCCceecC
Q 014401 304 GYTCPRCKARVCE-----LP-----TDCRICGLQLVS 330 (425)
Q Consensus 304 Gy~Cp~C~s~~C~-----lP-----~~C~~C~l~Lvs 330 (425)
+|+||.|+.+|=. +. -.||.||..|+.
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 43 689999999864
No 107
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=82.37 E-value=0.89 Score=42.08 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=19.1
Q ss_pred eEEcCCCCcccc-CCCCCCCCCCce
Q 014401 304 GYTCPRCKARVC-ELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C-~lP~~C~~C~l~ 327 (425)
-|+||+|+-.+= +-|-.||+||.+
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 599999997654 466799999964
No 108
>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=81.91 E-value=0.44 Score=53.74 Aligned_cols=68 Identities=29% Similarity=0.681 Sum_probs=0.0
Q ss_pred hcccCCCCCCcccCccCCCCCC--------CCCCCccccccccccCCCCCCCcceeCCCCCcc-----cccccchhhhcc
Q 014401 338 YHHLFPIAPFDEVTPLCLNDPR--------NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHES 404 (425)
Q Consensus 338 yhhlfp~~~f~~~~~~~~~~~~--------~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----fC~dCD~fiHe~ 404 (425)
-|-|||+-..--...++..+.. ..+.+.|-.|... +....||.|+.+ +|.+|..-+-+.
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 4779998765332211111111 1134689999722 335689999988 999999987766
Q ss_pred CCCCCCCCCCC
Q 014401 405 LHNCPGCESLR 415 (425)
Q Consensus 405 lh~CPgC~~~~ 415 (425)
.||-|...+
T Consensus 694 --~C~~C~~~~ 702 (900)
T PF03833_consen 694 --ECPKCGRET 702 (900)
T ss_dssp -----------
T ss_pred --ccccccccC
Confidence 999998643
No 109
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.80 E-value=1.1 Score=32.39 Aligned_cols=26 Identities=31% Similarity=0.764 Sum_probs=20.5
Q ss_pred eEEcCCCCccccCC----CCCCCCCCceec
Q 014401 304 GYTCPRCKARVCEL----PTDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l----P~~C~~C~l~Lv 329 (425)
-|.||.|++.+=.- ...||-||..++
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 59999999976322 578999998775
No 110
>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=81.51 E-value=1.1 Score=28.31 Aligned_cols=24 Identities=21% Similarity=0.715 Sum_probs=16.5
Q ss_pred cccccccccCCCCCCCcceeCCCCCc
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~ 391 (425)
|..|...+... .....|.||+|+.
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 2256799999974
No 111
>TIGR02877 spore_yhbH sporulation protein YhbH. This protein family, typified by YhbH in Bacillus subtilis, is found in nearly every endospore-forming bacterium and in no other genome (but note that the trusted cutoff score is set high to exclude a single high-scoring sequence from Nitrosococcus oceani ATCC 19707, which is classified in the Gammaproteobacteria). The gene in Bacillus subtilis was shown to be in the regulon of the sporulation sigma factor, sigma-E, and its mutation was shown to create a sporulation defect.
Probab=80.67 E-value=12 Score=38.88 Aligned_cols=110 Identities=14% Similarity=0.196 Sum_probs=59.4
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHH-HHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVA-KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~-~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
++.++|+|+||.+. .-.|.+.. -.+-.|+..-++ | -.+-.|+ ++-.|.-+.. +++ .. ..-+|
T Consensus 205 ~fc~MDvSGSM~~~---~K~lak~ff~~ly~FL~~~Y~-~--VeivFI~-H~t~AkEVdE-----eeF---F~--~~EsG 267 (371)
T TIGR02877 205 VIAMMDTSGSMGQF---KKYIARSFFFWMVKFLRTKYE-N--VEICFIS-HHTEAKEVTE-----EEF---FH--KGESG 267 (371)
T ss_pred EEEEEeCCCCCCHH---HHHHHHHHHHHHHHHHHhccC-c--eEEEEEe-ecCeeEEcCH-----HHh---cc--cCCCC
Confidence 56789999999642 11122111 135566665442 1 2334444 3455655442 111 11 14679
Q ss_pred cchHHHHHHHHHHHHhC-CCCCCCcEEEEEE-eCCCCCCccCHHHHHHHHHh
Q 014401 168 DSSLQNALDLVQGLLSQ-IPSYGHREVLILY-SALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~-~p~~~sreILVI~-~s~~t~dp~~i~~ti~~akk 217 (425)
||-+..|+++|++.+.. .|+ ..=.|-..- |++++-+ .|-..+++.+++
T Consensus 268 GT~vSSA~~l~~eII~~rYpp-~~wNIY~f~aSDGDNw~-~D~~~c~~ll~~ 317 (371)
T TIGR02877 268 GTYCSSGYKKALEIIDERYNP-ARYNIYAFHFSDGDNLT-SDNERAVKLVRK 317 (371)
T ss_pred CeEehHHHHHHHHHHHhhCCh-hhCeeEEEEcccCCCcc-CCcHHHHHHHHH
Confidence 99999999999999985 332 222365554 4444422 333455655554
No 112
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=80.25 E-value=1.9 Score=33.17 Aligned_cols=47 Identities=21% Similarity=0.583 Sum_probs=36.3
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcc---cccccchhhhccCCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH---FCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~---fC~dCD~fiHe~lh~CPgC~~ 413 (425)
...|.+|...+...+ ....|.||.|+.. .|..|-.+- ....||-|..
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 447999998885432 2457999999977 899998854 6788999975
No 113
>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=80.18 E-value=1.2 Score=33.27 Aligned_cols=42 Identities=26% Similarity=0.639 Sum_probs=25.7
Q ss_pred Ccccc--ccccccCCCCCCCcceeCCCCCcccccccchhhhccC
Q 014401 364 STCFG--CQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 405 (425)
Q Consensus 364 ~~C~~--C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~l 405 (425)
..|.. |...+............|+.|+..||..|..-.|+.+
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 9877765432222236899999999999999888754
No 114
>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=79.89 E-value=1 Score=33.01 Aligned_cols=30 Identities=33% Similarity=0.651 Sum_probs=21.9
Q ss_pred eEEcCCCCccccCC-------CCCCCCCCc----eecCchh
Q 014401 304 GYTCPRCKARVCEL-------PTDCRICGL----QLVSSPH 333 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l-------P~~C~~C~l----~Lvs~ph 333 (425)
-|.|+.|+..|=.+ ++.||.||. .++|+|.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~s~~~ 45 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLLSAVG 45 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEecccc
Confidence 58999999855433 457999997 3666664
No 115
>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=79.69 E-value=1.5 Score=37.76 Aligned_cols=34 Identities=26% Similarity=0.604 Sum_probs=25.7
Q ss_pred CCCCCccccccccccCCCCCCCcceeCCCCCcccccc
Q 014401 360 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 396 (425)
Q Consensus 360 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~d 396 (425)
.+.++.|..|.+.|..-... .-.||+|+..|=++
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 45688999999999876543 23599999987544
No 116
>PRK05325 hypothetical protein; Provisional
Probab=79.41 E-value=11 Score=39.58 Aligned_cols=109 Identities=14% Similarity=0.232 Sum_probs=59.1
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHH-HHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCC
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVA-KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~-~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G 167 (425)
++.++|+|+||... .-.|.+.. -.+-.|+..-+++ -.+-.|. ++..|.-+.. +++ .. ..-+|
T Consensus 225 mfclMDvSGSM~~~---~K~lakrff~lly~fL~r~Y~~---vEvvFI~-H~t~AkEVdE-----eeF---F~--~~esG 287 (401)
T PRK05325 225 MFCLMDVSGSMDEA---EKDLAKRFFFLLYLFLRRKYEN---VEVVFIR-HHTEAKEVDE-----EEF---FY--SRESG 287 (401)
T ss_pred EEEEEeCCCCCchH---HHHHHHHHHHHHHHHHHhccCc---eEEEEEe-ecCceeEcCH-----HHc---cc--cCCCC
Confidence 56789999999642 11222211 1345566554421 2334444 4456665443 111 11 14679
Q ss_pred cchHHHHHHHHHHHHhC-CCCCCCcEEEEEE-eCCCCCCccCHHHHHHHHH
Q 014401 168 DSSLQNALDLVQGLLSQ-IPSYGHREVLILY-SALSTCDPGDIMETIQKCK 216 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~-~p~~~sreILVI~-~s~~t~dp~~i~~ti~~ak 216 (425)
||-+..|+++|++.+.. .|. ..=.|-+.- |++++-+ .|-..+++.++
T Consensus 288 GT~vSSA~~l~~eIi~~rYpp-~~wNIY~f~aSDGDNw~-~D~~~~~~ll~ 336 (401)
T PRK05325 288 GTIVSSAYKLALEIIEERYPP-AEWNIYAFQASDGDNWS-SDNPRCVELLR 336 (401)
T ss_pred CeEehHHHHHHHHHHHhhCCH-hHCeeEEEEcccCCCcC-CCCHHHHHHHH
Confidence 99999999999999986 332 222366664 3444422 33344555554
No 117
>PF04285 DUF444: Protein of unknown function (DUF444); InterPro: IPR006698 This entry is represented by Thermus phage phiYS40, Orf56. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches [].
Probab=78.82 E-value=19 Score=38.22 Aligned_cols=107 Identities=14% Similarity=0.251 Sum_probs=59.2
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHH---HHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcC
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVA---KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGC 165 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~---~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~ 165 (425)
++.++|+|+||... +-..|+ -.+..|+...++ .-.+-.|+ ++..|.-+.. +++ .. ..-
T Consensus 249 v~~lmDvSGSM~~~-----~K~lak~ff~~l~~fL~~~Y~---~Ve~vfI~-H~t~A~EVdE-----e~F---F~--~~e 309 (421)
T PF04285_consen 249 VFCLMDVSGSMGEF-----KKDLAKRFFFWLYLFLRRKYE---NVEIVFIR-HHTEAKEVDE-----EEF---FH--SRE 309 (421)
T ss_pred EEEEEeCCCCCchH-----HHHHHHHHHHHHHHHHHhccC---ceEEEEEe-ecCceEEecH-----HHh---cc--cCC
Confidence 67789999999752 112222 235566665443 13344455 3566655442 111 11 246
Q ss_pred CCcchHHHHHHHHHHHHhC-CCCCCCcEEEEEE-eCCCCCCccCHHHHHHHHH
Q 014401 166 SGDSSLQNALDLVQGLLSQ-IPSYGHREVLILY-SALSTCDPGDIMETIQKCK 216 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~-~p~~~sreILVI~-~s~~t~dp~~i~~ti~~ak 216 (425)
+|||-+..|+++|++++.. .|.. .=.|-++- |++++-+ .|-..+++.|+
T Consensus 310 sGGT~vSSA~~l~~~ii~erypp~-~wNiY~~~~SDGDN~~-~D~~~~~~ll~ 360 (421)
T PF04285_consen 310 SGGTRVSSAYELALEIIEERYPPS-DWNIYVFHASDGDNWS-SDNERCVELLE 360 (421)
T ss_pred CCCeEehHHHHHHHHHHHhhCChh-hceeeeEEcccCcccc-CCCHHHHHHHH
Confidence 7999999999999999986 4322 22355553 4444422 23234454444
No 118
>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=78.75 E-value=0.88 Score=32.13 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=29.4
Q ss_pred ccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCC
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 411 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC 411 (425)
.|.-|+..|... ......+ |++.||.+|=.-.=+.-..||-|
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 488899888542 2345677 99999999965444445699988
No 119
>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=78.65 E-value=6.1 Score=34.64 Aligned_cols=63 Identities=14% Similarity=0.185 Sum_probs=41.9
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec-chHHHHHHHHH
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQ 239 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg-~e~~iLk~iA~ 239 (425)
.+.++.-++++......+ .-. .+||++++ +|+..+++.+++.|.+|.+++.. ....-|+..|+
T Consensus 81 ~~~D~~l~~d~~~~~~~~----~~d-~ivLvSgD-----~Df~~~i~~lr~~G~~V~v~~~~~~~s~~L~~~~d 144 (149)
T cd06167 81 KGVDVALAIDALELAYKR----RID-TIVLVSGD-----SDFVPLVERLRELGKRVIVVGFEAKTSRELRKAAD 144 (149)
T ss_pred cCccHHHHHHHHHHhhhc----CCC-EEEEEECC-----ccHHHHHHHHHHcCCEEEEEccCccChHHHHHhCC
Confidence 345666666654444433 122 45555442 36888999999999999999998 45667777665
No 120
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=78.47 E-value=1.9 Score=50.69 Aligned_cols=23 Identities=26% Similarity=0.732 Sum_probs=18.0
Q ss_pred eEEcCCCCccccCCCCCCCCCCcee
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
-+.||.|++.. ....|+.||..+
T Consensus 667 ~rkCPkCG~~t--~~~fCP~CGs~t 689 (1337)
T PRK14714 667 RRRCPSCGTET--YENRCPDCGTHT 689 (1337)
T ss_pred EEECCCCCCcc--ccccCcccCCcC
Confidence 47899999964 335999999875
No 121
>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=78.44 E-value=2.2 Score=35.84 Aligned_cols=31 Identities=19% Similarity=0.477 Sum_probs=18.6
Q ss_pred CCcccccccc--------ccCCCCCCCcceeCCCCCccc
Q 014401 363 RSTCFGCQQS--------LLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 363 ~~~C~~C~~~--------~~~~~~~~~~~~~C~~C~~~f 393 (425)
...|..|... ..+.+......|.|.+|+..+
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 5689999422 222223345578999998653
No 122
>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=78.16 E-value=0.9 Score=30.17 Aligned_cols=14 Identities=64% Similarity=1.483 Sum_probs=10.1
Q ss_pred eEEcCCCCccccCC
Q 014401 304 GYTCPRCKARVCEL 317 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l 317 (425)
-|.||+|+.++|++
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 79999999999986
No 123
>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=77.80 E-value=1.4 Score=28.38 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=19.5
Q ss_pred EcCCCCccccCCCCCCCCCCcee
Q 014401 306 TCPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 306 ~Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
.||.|.+.+=.--..||.||-.+
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 49999999877778999999765
No 124
>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=77.20 E-value=1.2 Score=32.23 Aligned_cols=23 Identities=35% Similarity=1.026 Sum_probs=17.1
Q ss_pred eEEcCCCCc-cccCCCC----CCCCCCc
Q 014401 304 GYTCPRCKA-RVCELPT----DCRICGL 326 (425)
Q Consensus 304 Gy~Cp~C~s-~~C~lP~----~C~~C~l 326 (425)
|++||.|++ ++..+.. .|.-|+-
T Consensus 18 g~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 18 GFVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 899999999 5665555 6777753
No 125
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=76.86 E-value=2.1 Score=44.83 Aligned_cols=46 Identities=20% Similarity=0.455 Sum_probs=33.0
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRH 416 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~ 416 (425)
...|..|...|..+ .-..|++.||..|-...=+.-..||.|.....
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 13589999999997644344457999986444
No 126
>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=76.78 E-value=0.94 Score=32.20 Aligned_cols=24 Identities=33% Similarity=0.785 Sum_probs=14.9
Q ss_pred EEcCCCCcccc--C---CCCCCCCCCcee
Q 014401 305 YTCPRCKARVC--E---LPTDCRICGLQL 328 (425)
Q Consensus 305 y~Cp~C~s~~C--~---lP~~C~~C~l~L 328 (425)
|.||.|++..= . --..|+.||+.|
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 127
>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=76.65 E-value=3.6 Score=35.58 Aligned_cols=61 Identities=13% Similarity=0.190 Sum_probs=33.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEe-cchHHHHHHHHH
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGL-SAEMFICKHLCQ 239 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIgl-g~e~~iLk~iA~ 239 (425)
..+.-++++....+.+. + ..++|++|+ +|+..+++.+++.|++|.+++. ......|++.|+
T Consensus 79 ~D~~l~~d~~~~~~~~~--~--d~ivLvSgD------~Df~~~v~~l~~~g~~V~v~~~~~~~s~~L~~~ad 140 (146)
T PF01936_consen 79 VDVALAVDILELAYENP--P--DTIVLVSGD------SDFAPLVRKLRERGKRVIVVGAEDSASEALRSAAD 140 (146)
T ss_dssp -HHHHHHHHHHHG--GG-----SEEEEE---------GGGHHHHHHHHHH--EEEEEE-GGGS-HHHHHHSS
T ss_pred cHHHHHHHHHHHhhccC--C--CEEEEEECc------HHHHHHHHHHHHcCCEEEEEEeCCCCCHHHHHhcC
Confidence 34444444444443332 2 335555543 4678899999999999999995 344677887775
No 128
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=76.18 E-value=1.4 Score=27.42 Aligned_cols=22 Identities=36% Similarity=0.844 Sum_probs=15.8
Q ss_pred cCCCCccccCCCCCCCCCCcee
Q 014401 307 CPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 307 Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
||.|++..=+--..|+.||..|
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 7778777666666788887654
No 129
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=75.88 E-value=2.2 Score=47.41 Aligned_cols=6 Identities=50% Similarity=1.735 Sum_probs=2.5
Q ss_pred cCCCCc
Q 014401 307 CPRCKA 312 (425)
Q Consensus 307 Cp~C~s 312 (425)
||+|+.
T Consensus 4 Cp~Cg~ 9 (645)
T PRK14559 4 CPQCQF 9 (645)
T ss_pred CCCCCC
Confidence 444443
No 130
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=75.77 E-value=1.7 Score=32.88 Aligned_cols=24 Identities=42% Similarity=1.020 Sum_probs=18.7
Q ss_pred eEEcCCCCccccCCC-------CCCCCCCcee
Q 014401 304 GYTCPRCKARVCELP-------TDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-------~~C~~C~l~L 328 (425)
-|.||.|++.+ ++| +.|+.||..|
T Consensus 2 ~~~CP~CG~~i-ev~~~~~GeiV~Cp~CGael 32 (54)
T TIGR01206 2 QFECPDCGAEI-ELENPELGELVICDECGAEL 32 (54)
T ss_pred ccCCCCCCCEE-ecCCCccCCEEeCCCCCCEE
Confidence 36899999866 554 4899999876
No 131
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=75.77 E-value=37 Score=42.58 Aligned_cols=174 Identities=17% Similarity=0.146 Sum_probs=93.9
Q ss_pred hhhhhccccceEEEEEeCCHhhhcCCC---CCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH--
Q 014401 78 TARIQKGLIRYLYIVIDLSRAAAEMDF---RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP-- 152 (425)
Q Consensus 78 ~~~~r~GiiR~lvlvLD~S~SM~a~D~---~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~-- 152 (425)
+.|.+|.- .+||.||-|.||.+..- .-.-|..+-+++. +=-.+|++|+-|+ ...+.+.|+....
T Consensus 4386 ~kpskr~y--qvmisiddsksmses~~~~la~etl~lvtkals--------~le~g~iav~kfg-e~~~~lh~fdkqfs~ 4454 (4600)
T COG5271 4386 VKPSKRTY--QVMISIDDSKSMSESGSTVLALETLALVTKALS--------LLEVGQIAVMKFG-EQPELLHPFDKQFSS 4454 (4600)
T ss_pred cCCcccee--EEEEEecccccccccCceeeehHHHHHHHHHHH--------HHhhccEEEEecC-CChhhhCchhhhhcc
Confidence 33444544 89999999999986542 2233333333332 2224789999994 7888888874321
Q ss_pred HHHHHHHhhhhcCCCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEec-
Q 014401 153 ESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS- 228 (425)
Q Consensus 153 ~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~---~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg- 228 (425)
+.-.++..-..-....|+...-...+++.+.. +.-|..+..=||++++--.|-..|.+.+..|++++|-+-.|-|.
T Consensus 4455 esg~~~f~~f~feqs~tnv~~l~~~s~k~f~~a~t~~h~d~~qleiiisdgicedhdsi~kllrra~e~kvmivfvild~ 4534 (4600)
T COG5271 4455 ESGVQMFSHFTFEQSNTNVLALADASMKCFNYANTASHHDIRQLEIIISDGICEDHDSIRKLLRRAQEEKVMIVFVILDN 4534 (4600)
T ss_pred hHHHHHHHhhchhcccccHHHHHHHHHHHHHHhhhhcccchheeEEEeecCcccchHHHHHHHHHhhhcceEEEEEEecC
Confidence 11122222111112234333222233333332 21233454555555544445567888899999999875555554
Q ss_pred --chHHH--HHHHHHhhC------------------CeEEEecCHhHHHHHHHhcC
Q 014401 229 --AEMFI--CKHLCQDTG------------------GSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 229 --~e~~i--Lk~iA~~TG------------------G~Y~~~~d~~~L~~lL~~~~ 262 (425)
+...| ++++-..|. --|.|+.|-..|-++|..++
T Consensus 4535 v~t~~sildi~kv~y~~~e~g~~~lki~~yid~f~fd~ylvv~ni~elpqlls~~l 4590 (4600)
T COG5271 4535 VNTQKSILDIKKVYYDTKEDGTMDLKIQPYIDEFAFDYYLVVRNIEELPQLLSSAL 4590 (4600)
T ss_pred CccchhhhhhHhhccccccCCCcceeeeechhcccceeEEEeccHHHHHHHHHHHH
Confidence 22222 233333332 24557888888888876654
No 132
>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=75.17 E-value=1.3 Score=30.56 Aligned_cols=39 Identities=33% Similarity=0.643 Sum_probs=26.6
Q ss_pred cccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCC
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 411 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC 411 (425)
|.-|...+.+ ...-..|++.||.+|=.-..+.-..||.|
T Consensus 1 C~iC~~~~~~-------~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD-------PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS-------EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC-------cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 4456544432 34678999999999977666667788877
No 133
>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=74.59 E-value=2.9 Score=28.94 Aligned_cols=26 Identities=31% Similarity=0.646 Sum_probs=20.3
Q ss_pred EEcCCCCccccC------CCCCCCCCCceecC
Q 014401 305 YTCPRCKARVCE------LPTDCRICGLQLVS 330 (425)
Q Consensus 305 y~Cp~C~s~~C~------lP~~C~~C~l~Lvs 330 (425)
++||.|+++|=. .+..|..||-.||.
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 589999998753 34689999998873
No 134
>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=74.51 E-value=2 Score=30.79 Aligned_cols=28 Identities=32% Similarity=0.942 Sum_probs=21.7
Q ss_pred ccccccccccCCCCCCCcceeCCCC-Ccccccccc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECD 398 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dCD 398 (425)
.|-+|..++. +.+|+|..| .-.+|.+|-
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 5999997553 258999999 577888883
No 135
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=73.77 E-value=2 Score=50.55 Aligned_cols=45 Identities=24% Similarity=0.668 Sum_probs=31.5
Q ss_pred CccccccccccCCCCCCCcceeCCCCCccc-----ccccchhhhcc---CCCCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHF-----CLECDIYIHES---LHNCPGCESLRH 416 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f-----C~dCD~fiHe~---lh~CPgC~~~~~ 416 (425)
..|-.|....+ ...||+|+.+. |.+|..-+... --.||.|.....
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 57999975432 23699999774 99998876543 236999986443
No 136
>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=73.06 E-value=2.7 Score=28.98 Aligned_cols=30 Identities=27% Similarity=0.594 Sum_probs=21.9
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
.|+|+.|++.|=..-.+-. +.+..||.|..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 5899999998754443322 66788999987
No 137
>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=72.82 E-value=6.5 Score=33.53 Aligned_cols=55 Identities=13% Similarity=0.151 Sum_probs=37.0
Q ss_pred EEEEEEe-CCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHh
Q 014401 192 EVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES 252 (425)
Q Consensus 192 eILVI~~-s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~ 252 (425)
-++|+++ ++.+ .++.++++.+++.|++|-+|. ... -|.++|+..|+.-+...+..
T Consensus 45 dl~I~iS~SG~t---~e~i~~~~~a~~~g~~iI~IT--~~~-~l~~~~~~~~~~~~~~p~~~ 100 (119)
T cd05017 45 TLVIAVSYSGNT---EETLSAVEQAKERGAKIVAIT--SGG-KLLEMAREHGVPVIIIPKGL 100 (119)
T ss_pred CEEEEEECCCCC---HHHHHHHHHHHHCCCEEEEEe--CCc-hHHHHHHHcCCcEEECCCCC
Confidence 3666665 4433 467889999999998665444 333 38889998877777654433
No 138
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=72.58 E-value=3 Score=32.11 Aligned_cols=47 Identities=21% Similarity=0.655 Sum_probs=35.4
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCc---ccccccchhhhccCCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKK---HFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
...|.+|...+... .....|.||+|++ ..|.-|-. |-+...||.|.+
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 45899999888322 2235799999994 57888887 567788999975
No 139
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=72.53 E-value=1.9 Score=29.78 Aligned_cols=29 Identities=38% Similarity=0.776 Sum_probs=20.9
Q ss_pred ccccccccccCCCC---CCCcceeCCCCCccc
Q 014401 365 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 393 (425)
Q Consensus 365 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~f 393 (425)
.|-.|+..|.-+++ ......+|++|++.|
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 58899888765432 234467999999987
No 140
>PLN03086 PRLI-interacting factor K; Provisional
Probab=72.00 E-value=5.1 Score=43.88 Aligned_cols=18 Identities=17% Similarity=0.080 Sum_probs=10.7
Q ss_pred EEEeecCCceEEeeCCCC
Q 014401 133 GLVTVKDGVANCLTDLGG 150 (425)
Q Consensus 133 GvI~~~~g~A~~lspLT~ 150 (425)
--+..--|+.-.+.|++.
T Consensus 177 ~~~~Lpkgt~vklqP~~~ 194 (567)
T PLN03086 177 RYIWLPKGTYAKLQPDGV 194 (567)
T ss_pred EEeecCCCCEEEEeeccC
Confidence 333444566777777764
No 141
>PRK12496 hypothetical protein; Provisional
Probab=71.72 E-value=2.7 Score=38.71 Aligned_cols=95 Identities=19% Similarity=0.223 Sum_probs=51.3
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCCccchhhhhhceeeecCCCCCC
Q 014401 207 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAG 286 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~~~ 286 (425)
.+..+.+.|++.| +.-.|+....-+..+|.+.+| ....|+-.++.+...+-.+.... ...|
T Consensus 59 ~i~~v~~~a~~tg---d~~~Ls~~D~~~iaLA~el~~--~lvtDD~~~~~vA~~lgi~v~~~--------~~~~------ 119 (164)
T PRK12496 59 SIEKVEEAAIKTG---DLMRLSNTDIEVLALALELNG--TLYTDDYGIQNVAKKLNIKFENI--------KTKG------ 119 (164)
T ss_pred HHHHHHHHHHhcC---CccccchhhHHHHHHHHHhCC--cEECcHHHHHHHHHHcCCeEecc--------cccc------
Confidence 3445566666555 222244323333446666666 34556666666655444321110 0000
Q ss_pred CCCcceeeecCCccccCeEEcCCCCccccCCC--CCCCCCCceecC
Q 014401 287 EGSISICSCHKEVKVGVGYTCPRCKARVCELP--TDCRICGLQLVS 330 (425)
Q Consensus 287 ~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP--~~C~~C~l~Lvs 330 (425)
. .+.... .|.|+-|+..|=+-+ ..||+||..|.-
T Consensus 120 i---------~~~~~w-~~~C~gC~~~~~~~~~~~~C~~CG~~~~r 155 (164)
T PRK12496 120 I---------KKVIKW-RKVCKGCKKKYPEDYPDDVCEICGSPVKR 155 (164)
T ss_pred c---------hhheee-eEECCCCCccccCCCCCCcCCCCCChhhh
Confidence 0 112234 799999999987544 469999988754
No 142
>COG0528 PyrH Uridylate kinase [Nucleotide transport and metabolism]
Probab=71.66 E-value=26 Score=34.29 Aligned_cols=45 Identities=20% Similarity=0.374 Sum_probs=35.6
Q ss_pred cceEEEEEeCCHhhhcCC----CCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEe
Q 014401 86 IRYLYIVIDLSRAAAEMD----FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVT 136 (425)
Q Consensus 86 iR~lvlvLD~S~SM~a~D----~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~ 136 (425)
++..-++|.+|++..+.| +.|+++....+.+++.++. .-+||||+
T Consensus 3 ~~~~rillkLsGe~l~g~~~~gid~~~i~~~a~~i~~~~~~------g~eV~iVv 51 (238)
T COG0528 3 PKYMRILLKLSGEALAGEQGFGIDPEVLDRIANEIKELVDL------GVEVAVVV 51 (238)
T ss_pred cceEEEEEEeecceecCCCCCCCCHHHHHHHHHHHHHHHhc------CcEEEEEE
Confidence 356678999999988775 6788999988888877764 24799998
No 143
>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=70.58 E-value=3.9 Score=36.78 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=8.4
Q ss_pred ceeCCCCCccc
Q 014401 383 YVACPKCKKHF 393 (425)
Q Consensus 383 ~~~C~~C~~~f 393 (425)
.|+||.|+++|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 47888888876
No 144
>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=69.90 E-value=17 Score=33.17 Aligned_cols=65 Identities=12% Similarity=0.043 Sum_probs=46.2
Q ss_pred CCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc------hHHHHHHHHHhhCCeEEEecCHhHH
Q 014401 188 YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA------EMFICKHLCQDTGGSYSVALDESHF 254 (425)
Q Consensus 188 ~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~------e~~iLk~iA~~TGG~Y~~~~d~~~L 254 (425)
+..++|+|+.|+..+ -+|=..++..|.+.|++|.++.++. +...-.++++.+|+.+....+...+
T Consensus 23 ~~~~~v~il~G~GnN--GgDgl~~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 93 (169)
T PF03853_consen 23 PKGPRVLILCGPGNN--GGDGLVAARHLANRGYNVTVYLVGPPEKLSEDAKQQLEILKKMGIKIIELDSDEDL 93 (169)
T ss_dssp CTT-EEEEEE-SSHH--HHHHHHHHHHHHHTTCEEEEEEEESSSSTSHHHHHHHHHHHHTT-EEESSCCGSGG
T ss_pred cCCCeEEEEECCCCC--hHHHHHHHHHHHHCCCeEEEEEEeccccCCHHHHHHHHHHHhcCCcEeeccccchh
Confidence 456679999987543 4667788999999999999977764 2466778888899888865554443
No 145
>PF01882 DUF58: Protein of unknown function DUF58; InterPro: IPR002881 This domain is found in a family of prokaryotic proteins that have no known function. Proteins belonging to this family include hypothetical proteins from eubacteria and archaebacteria. Some of these proteins also contain the Von Willebrand factor, type A domain (see IPR002035 from INTERPRO).
Probab=69.53 E-value=8.9 Score=30.58 Aligned_cols=41 Identities=17% Similarity=0.180 Sum_probs=35.0
Q ss_pred ceEEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccC
Q 014401 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQN 127 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qn 127 (425)
.+++|+||.+.+|...+-....++.++..+..++..+..++
T Consensus 41 ~~~~i~ld~~~~~~~~~~~~~~~e~~l~~a~~l~~~~~~~g 81 (86)
T PF01882_consen 41 QPVWIVLDLSPSMYFGSNGRSKFERALSAAASLANQALRQG 81 (86)
T ss_pred CcEEEEEECCCccccCcCCCCHHHHHHHHHHHHHHHHHhcC
Confidence 38999999999998777667899999999999888877654
No 146
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=69.32 E-value=2.7 Score=39.28 Aligned_cols=28 Identities=36% Similarity=0.785 Sum_probs=23.3
Q ss_pred eEEcCCCCcccc-----CCCCCCCCCCceecCc
Q 014401 304 GYTCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 331 (425)
+|+||+|..+|- ++--.||.||-.|+-.
T Consensus 113 ~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L~~~ 145 (176)
T COG1675 113 YYVCPNCHVKYSFDEAMELGFTCPKCGEDLEEY 145 (176)
T ss_pred ceeCCCCCCcccHHHHHHhCCCCCCCCchhhhc
Confidence 999999999985 5667899999888643
No 147
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=68.98 E-value=4.8 Score=30.05 Aligned_cols=43 Identities=26% Similarity=0.671 Sum_probs=30.6
Q ss_pred CCccc--cccccccCCCCCCCcceeCCCCCcccccccchhhhccC
Q 014401 363 RSTCF--GCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 405 (425)
Q Consensus 363 ~~~C~--~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~l 405 (425)
-..|- +|...+..........-.|+.|+..||..|-.--|+-.
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~ 62 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPV 62 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCC
Confidence 44688 99766654321123456899999999999988888644
No 148
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=68.75 E-value=2.6 Score=42.61 Aligned_cols=40 Identities=33% Similarity=0.708 Sum_probs=31.1
Q ss_pred CccccccccccCCCCCCCcce-eCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
.+|--|..++. .| +=--|+.+||+||-. -|+...||+|-.
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 48999987663 34 555799999999976 355889999964
No 149
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=68.60 E-value=2.2 Score=43.06 Aligned_cols=28 Identities=36% Similarity=0.648 Sum_probs=21.3
Q ss_pred ceeeecCCccccCeEEcCCCCccccCCC
Q 014401 291 SICSCHKEVKVGVGYTCPRCKARVCELP 318 (425)
Q Consensus 291 a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP 318 (425)
++=+||--.+...-|.||||...||+|+
T Consensus 6 ~~~~C~ic~vq~~~YtCPRCn~~YCsl~ 33 (383)
T KOG4317|consen 6 SFLACGICGVQKREYTCPRCNLLYCSLK 33 (383)
T ss_pred ceeeccccccccccccCCCCCccceeee
Confidence 3457886444444799999999999997
No 150
>PRK04023 DNA polymerase II large subunit; Validated
Probab=68.27 E-value=3.8 Score=47.34 Aligned_cols=23 Identities=26% Similarity=0.743 Sum_probs=19.0
Q ss_pred CeEEcCCCCccccCCCCCCCCCCce
Q 014401 303 VGYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 303 ~Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
+...||.|+... .-..||.||..
T Consensus 625 g~RfCpsCG~~t--~~frCP~CG~~ 647 (1121)
T PRK04023 625 GRRKCPSCGKET--FYRRCPFCGTH 647 (1121)
T ss_pred cCccCCCCCCcC--CcccCCCCCCC
Confidence 367899999985 55689999986
No 151
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.26 E-value=4.1 Score=38.11 Aligned_cols=29 Identities=28% Similarity=0.705 Sum_probs=26.1
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCCC
Q 014401 386 CPKCKKHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
=.+|+++||..|=.=.-..-|.||-|-..
T Consensus 148 sTkCGHvFC~~Cik~alk~~~~CP~C~kk 176 (187)
T KOG0320|consen 148 STKCGHVFCSQCIKDALKNTNKCPTCRKK 176 (187)
T ss_pred ccccchhHHHHHHHHHHHhCCCCCCcccc
Confidence 46999999999999999999999999753
No 152
>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=66.70 E-value=3.1 Score=28.50 Aligned_cols=25 Identities=32% Similarity=0.709 Sum_probs=17.8
Q ss_pred EEcCCCCccccC----CC-----CCCCCCCceec
Q 014401 305 YTCPRCKARVCE----LP-----TDCRICGLQLV 329 (425)
Q Consensus 305 y~Cp~C~s~~C~----lP-----~~C~~C~l~Lv 329 (425)
+.||.|++.|-- ++ +.|+.||..+.
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 679999986652 21 57999988763
No 153
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=66.60 E-value=1.9 Score=46.06 Aligned_cols=33 Identities=24% Similarity=0.633 Sum_probs=26.2
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccc
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECD 398 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD 398 (425)
....|.+|+++|..- ..+.-|..|+.+||..|.
T Consensus 900 ~a~~cmacq~pf~af----rrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 900 DAEQCMACQMPFNAF----RRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred cchhhhhccCcHHHH----HHhhhhcccCceeecccc
Confidence 345799999999632 235789999999999985
No 154
>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=65.86 E-value=4.7 Score=35.73 Aligned_cols=34 Identities=12% Similarity=0.186 Sum_probs=25.1
Q ss_pred CCCCCccccccccccCCCCCCCcceeCCCCCcccccc
Q 014401 360 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 396 (425)
Q Consensus 360 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~d 396 (425)
.+.++.|..|.+.|..-... .-.||+|+..|=.+
T Consensus 6 lGtKr~Cp~cg~kFYDLnk~---p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 6 LGTKRICPNTGSKFYDLNRR---PAVSPYTGEQFPPE 39 (129)
T ss_pred hCccccCCCcCccccccCCC---CccCCCcCCccCcc
Confidence 35678999999999876432 34699999887443
No 155
>PHA02929 N1R/p28-like protein; Provisional
Probab=65.72 E-value=5.9 Score=38.80 Aligned_cols=51 Identities=22% Similarity=0.543 Sum_probs=35.6
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
...|.-|...+..+.......-.=+.|++.||.+|=.--.+.-..||-|-.
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 458999997765321100001134689999999998777788889999964
No 156
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=65.63 E-value=3.3 Score=35.18 Aligned_cols=24 Identities=33% Similarity=0.751 Sum_probs=19.0
Q ss_pred eEEcCCCCccccC-------CCCCCCCCCce
Q 014401 304 GYTCPRCKARVCE-------LPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~-------lP~~C~~C~l~ 327 (425)
-|.||+|++..-. .-..|+.||..
T Consensus 21 ~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y 51 (99)
T PRK14892 21 IFECPRCGKVSISVKIKKNIAIITCGNCGLY 51 (99)
T ss_pred EeECCCCCCeEeeeecCCCcceEECCCCCCc
Confidence 7999999976443 35799999986
No 157
>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=65.15 E-value=4.2 Score=30.24 Aligned_cols=22 Identities=36% Similarity=0.851 Sum_probs=16.5
Q ss_pred EEcCCCCccccC-----------------CCC--CCCCCCc
Q 014401 305 YTCPRCKARVCE-----------------LPT--DCRICGL 326 (425)
Q Consensus 305 y~Cp~C~s~~C~-----------------lP~--~C~~C~l 326 (425)
|+|+.|+-+|=+ ||. .||+|+.
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 7888875
No 158
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=64.30 E-value=3.2 Score=31.95 Aligned_cols=27 Identities=26% Similarity=0.721 Sum_probs=22.3
Q ss_pred EcCCCCccc-----cCCCCCCCCCCceecCch
Q 014401 306 TCPRCKARV-----CELPTDCRICGLQLVSSP 332 (425)
Q Consensus 306 ~Cp~C~s~~-----C~lP~~C~~C~l~Lvs~p 332 (425)
.||.|.... -..++.|.+||.+|.-+.
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 599999887 577889999999986543
No 159
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.87 E-value=4.7 Score=27.73 Aligned_cols=29 Identities=34% Similarity=0.651 Sum_probs=20.3
Q ss_pred ccccccccccCCCC---CCCcceeCCCCCccc
Q 014401 365 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 393 (425)
Q Consensus 365 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~f 393 (425)
.|-.|+..|.-++. ......+|++|++.|
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 58899888754431 223457999999887
No 160
>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=63.08 E-value=26 Score=32.28 Aligned_cols=76 Identities=21% Similarity=0.280 Sum_probs=49.4
Q ss_pred HHHHHHhhh-h---cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 154 SHIKALMGK-L---GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 154 ~~i~~L~~~-l---~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
.+.+.|... + ...|.+.++-+++. ++++.. + + =..++|++++ +|+...+..+++.|.+|.++|...
T Consensus 70 ~l~~~l~~~Gf~pv~~kG~~Dv~laIDa-me~~~~-~-~--iD~~vLvSgD-----~DF~~Lv~~lre~G~~V~v~g~~~ 139 (160)
T TIGR00288 70 KLIEAVVNQGFEPIIVAGDVDVRMAVEA-MELIYN-P-N--IDAVALVTRD-----ADFLPVINKAKENGKETIVIGAEP 139 (160)
T ss_pred HHHHHHHHCCceEEEecCcccHHHHHHH-HHHhcc-C-C--CCEEEEEecc-----HhHHHHHHHHHHCCCEEEEEeCCC
Confidence 344555443 1 24677787777764 444421 1 1 1256666553 478889999999999999999754
Q ss_pred -hHHHHHHHHH
Q 014401 230 -EMFICKHLCQ 239 (425)
Q Consensus 230 -e~~iLk~iA~ 239 (425)
-..-|++.|+
T Consensus 140 ~ts~~L~~acd 150 (160)
T TIGR00288 140 GFSTALQNSAD 150 (160)
T ss_pred CChHHHHHhcC
Confidence 3567888885
No 161
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=62.51 E-value=84 Score=34.63 Aligned_cols=89 Identities=12% Similarity=0.109 Sum_probs=59.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----~------------ 232 (425)
.+++.||-.|+..=-.. ..|.++.|.|++.- . .+ ...+.++++.+++|-+|-+.... .
T Consensus 434 g~mG~glpaAiGA~lA~---p~r~Vv~i~GDG~f-~-m~-~~eL~Ta~r~~lpvi~vV~NN~~~g~i~~~q~~~~~~~~~ 507 (616)
T PRK07418 434 GTMGFGMPAAMGVKVAL---PDEEVICIAGDASF-L-MN-IQELGTLAQYGINVKTVIINNGWQGMVRQWQESFYGERYS 507 (616)
T ss_pred cccccHHHHHHHHHHhC---CCCcEEEEEcchHh-h-hh-HHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCCce
Confidence 34555555444432222 24668888886432 1 12 24578899999999888886431 1
Q ss_pred ---------HHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 233 ---------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 233 ---------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
-+.++|+.-|+.++.+.+.++|.+.|.....
T Consensus 508 ~~~~~~~~~d~~~~A~a~G~~g~~V~~~~el~~al~~a~~ 547 (616)
T PRK07418 508 ASNMEPGMPDFVKLAEAFGVKGMVISERDQLKDAIAEALA 547 (616)
T ss_pred eecCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 1457899999999999999999998877653
No 162
>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=62.44 E-value=4.8 Score=29.45 Aligned_cols=30 Identities=27% Similarity=0.770 Sum_probs=22.6
Q ss_pred ccccccccccCCCCCCCcceeCCCC-Ccccccccch
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECDI 399 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dCD~ 399 (425)
.|.+|.+.+.. ..+|+|..| .-..|.+|=.
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 58999876642 258999999 6677888854
No 163
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=62.41 E-value=2.1 Score=43.47 Aligned_cols=22 Identities=36% Similarity=0.730 Sum_probs=18.0
Q ss_pred cccccccchhhhcc--CCCCCCCC
Q 014401 391 KHFCLECDIYIHES--LHNCPGCE 412 (425)
Q Consensus 391 ~~fC~dCD~fiHe~--lh~CPgC~ 412 (425)
+.+|.-||++||.+ |++++.+-
T Consensus 50 ~~~CP~C~i~ih~t~pl~ni~~Dr 73 (331)
T KOG2660|consen 50 SKYCPTCDIVIHKTHPLLNIRSDR 73 (331)
T ss_pred hccCCccceeccCccccccCCcch
Confidence 56788889999999 88888764
No 164
>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=61.27 E-value=5.8 Score=26.67 Aligned_cols=41 Identities=27% Similarity=0.510 Sum_probs=27.8
Q ss_pred cccccccccCCCCCCCcceeCCCCCcccccccchhhhcc-CCCCCCCCC
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCES 413 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~-lh~CPgC~~ 413 (425)
|..|...+. ..+.-+.|+..||.+|-.-.-+. --.||.|..
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 165
>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=60.99 E-value=1e+02 Score=28.25 Aligned_cols=92 Identities=12% Similarity=0.022 Sum_probs=60.5
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH--------------
Q 014401 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-------------- 231 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~-------------- 231 (425)
.|..+++-+|-.|+..=-..| .++++.|+|++.- . .. ...+.++++.+++|-+|-+....
T Consensus 45 ~~~g~mG~~lp~aiGa~la~~---~~~vv~i~GDG~f-~-m~-~~eL~ta~~~~l~vi~vV~NN~~~g~~~~~~~~~~~~ 118 (177)
T cd02010 45 NGLATMGVALPGAIGAKLVYP---DRKVVAVSGDGGF-M-MN-SQELETAVRLKIPLVVLIWNDNGYGLIKWKQEKEYGR 118 (177)
T ss_pred CCChhhhhHHHHHHHHHHhCC---CCcEEEEEcchHH-H-hH-HHHHHHHHHHCCCeEEEEEECCcchHHHHHHHHhcCC
Confidence 344466666666655322222 4568888876431 0 11 14566788889998888775320
Q ss_pred --------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 --------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 --------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.++.+.+.++|++.|.+...
T Consensus 119 ~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~~ 158 (177)
T cd02010 119 DSGVDFGNPDFVKYAESFGAKGYRIESADDLLPVLERALA 158 (177)
T ss_pred cccCcCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 13457999999999999999999999887764
No 166
>KOG4465 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.72 E-value=53 Score=34.25 Aligned_cols=125 Identities=15% Similarity=0.184 Sum_probs=65.3
Q ss_pred eEEEEEeCCHhhhcCCCCCCHHHHHHHH--HHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCH--HHHHHHHhhhh
Q 014401 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQ--VEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--ESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~--l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~--~~~i~~L~~~l 163 (425)
...+++|+|.||...=+ -+-|. +..+ ..-+|+ .+-....-.|+|.+.- +-.|+|.|- ..++.++.+
T Consensus 429 r~~laldvs~sm~~rv~-~s~ln-~reaaa~m~lin----lhnead~~~vaf~d~l--te~pftkd~kigqv~~~~nn-- 498 (598)
T KOG4465|consen 429 RFCLALDVSASMNQRVL-GSILN-AREAAAAMCLIN----LHNEADSRCVAFCDEL--TECPFTKDMKIGQVLDAMNN-- 498 (598)
T ss_pred eEEEEEecchhhhhhhh-ccccc-hHHHHhhhheee----eccccceeEEEecccc--ccCCCcccccHHHHHHHHhc--
Confidence 67999999999976432 12221 2222 222233 2333557788885433 346888773 344444443
Q ss_pred cCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHH--HHHHHHHh-CCcE---EEEEEecc
Q 014401 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKE-SKIR---CSVIGLSA 229 (425)
Q Consensus 164 ~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~--~ti~~akk-~~I~---V~vIglg~ 229 (425)
.+.|+|.-+.-+--|.+ .+ ..-.|.||+.+.++- .|.|+ ++|+..++ .+|. +-|+++.+
T Consensus 499 i~~g~tdcglpm~wa~e--nn----lk~dvfii~tdndt~-ageihp~~aik~yrea~~i~dakliv~amqa 563 (598)
T KOG4465|consen 499 IDAGGTDCGLPMIWAQE--NN----LKADVFIIFTDNDTF-AGEIHPAEAIKEYREAMDIHDAKLIVCAMQA 563 (598)
T ss_pred CCCCCCccCCceeehhh--cC----CCccEEEEEecCccc-ccccCHHHHHHHHHHhcCCCcceEEEEEeec
Confidence 25566643322221211 11 223488888776653 35555 56666644 4554 66666643
No 167
>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=59.79 E-value=60 Score=29.26 Aligned_cols=88 Identities=9% Similarity=0.023 Sum_probs=59.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.||-.|+..--..| .++++.++|++.-. .. .+.+.++.+.++++-+|-+-...
T Consensus 48 g~mG~~lp~AiGa~la~~---~~~vv~i~GDG~f~--~~-~~el~ta~~~~lpv~ivv~NN~~~~~~~~~~~~~~~~~~~ 121 (172)
T cd02004 48 GTLGVGLGYAIAAALARP---DKRVVLVEGDGAFG--FS-GMELETAVRYNLPIVVVVGNNGGWYQGLDGQQLSYGLGLP 121 (172)
T ss_pred CcccchHHHHHHHHHhCC---CCeEEEEEcchhhc--CC-HHHHHHHHHcCCCEEEEEEECcccccchhhhhhhccCCCc
Confidence 445656655554322222 46788888875431 22 25577889999998888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|..+..+.+.++|++.|.+..
T Consensus 122 ~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 159 (172)
T cd02004 122 VTTLLPDTRYDLVAEAFGGKGELVTTPEELKPALKRAL 159 (172)
T ss_pred eeccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1256788889999998889889988887765
No 168
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=59.63 E-value=63 Score=34.00 Aligned_cols=79 Identities=13% Similarity=0.032 Sum_probs=44.9
Q ss_pred HHHHHHHHHh-CCcEEEEEEecchH--HHHHHHHHhhCCeEEE-ecCHhHHHHHHHhcCCCCccc-hhhhhhceeeecCC
Q 014401 208 IMETIQKCKE-SKIRCSVIGLSAEM--FICKHLCQDTGGSYSV-ALDESHFKELIMEHAPPPPAI-AEFAIANLIKMGFP 282 (425)
Q Consensus 208 i~~ti~~akk-~~I~V~vIglg~e~--~iLk~iA~~TGG~Y~~-~~d~~~L~~lL~~~~~pp~~~-~~~~~~~Li~mGFP 282 (425)
....+..+.+ .|+.+-.++.+... ..-+.+....+|.-.+ ..|..++.+++...- |.-.- .......|+++|||
T Consensus 302 ~~~la~~L~eelGm~~v~v~t~~~~~~~~~~~~~~l~~~~~v~~~~D~~~l~~~i~~~~-pDllig~~~~~~pl~r~GfP 380 (427)
T PRK02842 302 EIPLARFLSRECGMELVEVGTPYLNRRFLAAELALLPDGVRIVEGQDVERQLDRIRALR-PDLVVCGLGLANPLEAEGIT 380 (427)
T ss_pred HHHHHHHHHHhCCCEEEEeCCCCCCHHHHHHHHHhccCCCEEEECCCHHHHHHHHHHcC-CCEEEccCccCCchhhcCCc
Confidence 3456777877 99999777775432 2122344444454332 245556666665532 32222 11233589999999
Q ss_pred CCCCC
Q 014401 283 QRAGE 287 (425)
Q Consensus 283 ~~~~~ 287 (425)
.+...
T Consensus 381 ~~dr~ 385 (427)
T PRK02842 381 TKWSI 385 (427)
T ss_pred eeEEE
Confidence 97543
No 169
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=59.22 E-value=6.3 Score=27.64 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=17.2
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPG 410 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPg 410 (425)
.|.|..|++.||.+ =-+-.-|.|++
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 11224566653
No 170
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=59.16 E-value=6.4 Score=30.01 Aligned_cols=25 Identities=28% Similarity=0.740 Sum_probs=20.2
Q ss_pred EEcCCCCccccCCCCCCCCCCceecCc
Q 014401 305 YTCPRCKARVCELPTDCRICGLQLVSS 331 (425)
Q Consensus 305 y~Cp~C~s~~C~lP~~C~~C~l~Lvs~ 331 (425)
-.||.|+... |-..||.||..+.++
T Consensus 6 r~C~~CgvYT--Lk~~CP~CG~~t~~~ 30 (56)
T PRK13130 6 RKCPKCGVYT--LKEICPVCGGKTKNP 30 (56)
T ss_pred eECCCCCCEE--ccccCcCCCCCCCCC
Confidence 5799999884 578999999986654
No 171
>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=58.97 E-value=5.7 Score=28.56 Aligned_cols=29 Identities=24% Similarity=0.768 Sum_probs=21.8
Q ss_pred ccccccccccCCCCCCCcceeCCCCC-cccccccch
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCK-KHFCLECDI 399 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~-~~fC~dCD~ 399 (425)
.|.+|.+++.. .+|+|..|. -..|.+|=.
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 567777744
No 172
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=58.17 E-value=9.2 Score=27.71 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=16.6
Q ss_pred ccccccccccCCCCCCCcceeCCCCCccc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 393 (425)
+|--|...+.........+|.||.|+.++
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~ 30 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEE 30 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeE
Confidence 57777655543221112378888888664
No 173
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=57.98 E-value=10 Score=42.33 Aligned_cols=21 Identities=24% Similarity=0.729 Sum_probs=14.1
Q ss_pred ccccchhhhccCCCCCCCCCC
Q 014401 394 CLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 394 C~dCD~fiHe~lh~CPgC~~~ 414 (425)
|..|-.-+...-.+||.|...
T Consensus 30 Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 30 CPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CCCCCCCCCcccccccccCCc
Confidence 444444477777888888763
No 174
>PF14369 zf-RING_3: zinc-finger
Probab=57.87 E-value=7.1 Score=26.78 Aligned_cols=28 Identities=29% Similarity=0.673 Sum_probs=13.0
Q ss_pred ccccccccccCCCCCCCcceeCCCCCccc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 393 (425)
.|+.|++.+.......+ .-.||.|++-|
T Consensus 4 wCh~C~~~V~~~~~~~~-~~~CP~C~~gF 31 (35)
T PF14369_consen 4 WCHQCNRFVRIAPSPDS-DVACPRCHGGF 31 (35)
T ss_pred eCccCCCEeEeCcCCCC-CcCCcCCCCcE
Confidence 47777655532211111 11477776654
No 175
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=57.76 E-value=6.8 Score=39.25 Aligned_cols=52 Identities=17% Similarity=0.483 Sum_probs=39.4
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCCCCCccc
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIV 421 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~~ 421 (425)
....|.-|...-..+ .|.-|++.||..|=.=--..---||=|-....++.|+
T Consensus 238 a~~kC~LCLe~~~~p--------SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP--------SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCceEEEecCCCCC--------CcCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 356899998443222 3889999999999888888888899998766665543
No 176
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=56.63 E-value=3.3 Score=43.51 Aligned_cols=27 Identities=41% Similarity=1.005 Sum_probs=22.5
Q ss_pred eEEcCCCCccccCC-----------CCCCCCCCceecC
Q 014401 304 GYTCPRCKARVCEL-----------PTDCRICGLQLVS 330 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l-----------P~~C~~C~l~Lvs 330 (425)
||.||.|+++|-.| --.|..|+..||-
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelve 165 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELVE 165 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCchhc
Confidence 99999999998754 2379999998873
No 177
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=56.35 E-value=3.2 Score=35.95 Aligned_cols=47 Identities=26% Similarity=0.598 Sum_probs=31.9
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhh-hccCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI-HESLHNCPGC 411 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fi-He~lh~CPgC 411 (425)
+...|.-|..+|.-..+ ..-.|..|+..+|..|-++. .+..-.|.-|
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 23689999999999999983 3444445444
No 178
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.62 E-value=14 Score=37.13 Aligned_cols=35 Identities=29% Similarity=0.844 Sum_probs=25.5
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
..|| |-..+-+ ..|.||.|...||.-- -.||-|..
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 5544432 3599999999999654 38999975
No 179
>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=54.14 E-value=5.8 Score=27.50 Aligned_cols=34 Identities=24% Similarity=0.610 Sum_probs=25.7
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccccccchhhhcc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 404 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~ 404 (425)
...|.-|..+. ..|-|..|+..+|.+|....|..
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 35779999999999999998865
No 180
>COG3958 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]
Probab=54.05 E-value=59 Score=33.02 Aligned_cols=67 Identities=22% Similarity=0.403 Sum_probs=48.8
Q ss_pred CHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecCH-------hHHHHHHHhcCCCCccchhhhhhc
Q 014401 207 DIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDE-------SHFKELIMEHAPPPPAIAEFAIAN 275 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~----e~~iLk~iA~~TGG~Y~~~~d~-------~~L~~lL~~~~~pp~~~~~~~~~~ 275 (425)
...++++.|+++||.+-||-+.+ +..++.+.|++| |.-..+.+- +...++|.+..+ ++
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 34588999999999999999986 578899999999 544444332 236777777765 33
Q ss_pred eeeecCCCC
Q 014401 276 LIKMGFPQR 284 (425)
Q Consensus 276 Li~mGFP~~ 284 (425)
+.+||.|..
T Consensus 275 ~~riGvp~~ 283 (312)
T COG3958 275 MRRIGVPDT 283 (312)
T ss_pred eEEecCCch
Confidence 357888854
No 181
>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=53.85 E-value=63 Score=33.80 Aligned_cols=79 Identities=14% Similarity=0.015 Sum_probs=42.9
Q ss_pred HHHHHHHHHhCCcEEEEEEecchH-HH-HHHHHHhhCCeEE-EecCHhHHHHHHHhcCCCCccch-hhhhhceeeecCCC
Q 014401 208 IMETIQKCKESKIRCSVIGLSAEM-FI-CKHLCQDTGGSYS-VALDESHFKELIMEHAPPPPAIA-EFAIANLIKMGFPQ 283 (425)
Q Consensus 208 i~~ti~~akk~~I~V~vIglg~e~-~i-Lk~iA~~TGG~Y~-~~~d~~~L~~lL~~~~~pp~~~~-~~~~~~Li~mGFP~ 283 (425)
....+..+.+.|+.+-.++-+... .. -+.+....++.-. ...|..++.+++... .|.-.-. ......|+++|||.
T Consensus 286 ~~~l~~~L~elGm~~v~~~t~~~~~~~~~~~~~~l~~~~~v~~~~d~~~l~~~i~~~-~pDllig~~~~~~pl~r~GfP~ 364 (407)
T TIGR01279 286 ELPLARFLKRCGMEVVECGTPYIHRRFHAAELALLEGGVRIVEQPDFHRQLQRIRAT-RPDLVVTGLGTANPLEAQGFTT 364 (407)
T ss_pred HHHHHHHHHHCCCEEEEecCCCCChHHHHHHHhhcCCCCeEEeCCCHHHHHHHHHhc-CCCEEecCccCCCcHhhCCcce
Confidence 456688888999998777776532 12 2222222233222 224545555555443 2322221 12346899999998
Q ss_pred CCCC
Q 014401 284 RAGE 287 (425)
Q Consensus 284 ~~~~ 287 (425)
+...
T Consensus 365 ~dr~ 368 (407)
T TIGR01279 365 KWSI 368 (407)
T ss_pred eEee
Confidence 7543
No 182
>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=53.72 E-value=47 Score=29.30 Aligned_cols=70 Identities=11% Similarity=0.014 Sum_probs=52.7
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH--------------------------HHHHHHHHhhCC
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------------------FICKHLCQDTGG 243 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------------------~iLk~iA~~TGG 243 (425)
.+++++|.|+..- .-....+..+.+.+++|-+|-+..+. .-+.++|+.-|+
T Consensus 46 ~~~vv~i~GDG~f---~~~~~el~ta~~~~~~v~~vv~nN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~ 122 (153)
T PF02775_consen 46 DRPVVAITGDGSF---LMSLQELATAVRYGLPVVIVVLNNGGYGMTGGQQTPFGGGRFSGVDGKTFPNPDFAALAEAFGI 122 (153)
T ss_dssp TSEEEEEEEHHHH---HHHGGGHHHHHHTTSSEEEEEEESSBSHHHHHHHHHTTSTCHHSTBTTTSTTCGHHHHHHHTTS
T ss_pred cceeEEecCCcce---eeccchhHHHhhccceEEEEEEeCCcceEeccccccCcCcccccccccccccCCHHHHHHHcCC
Confidence 5679999986421 11125688899999999999886420 137899999999
Q ss_pred eEEEecCH--hHHHHHHHhcC
Q 014401 244 SYSVALDE--SHFKELIMEHA 262 (425)
Q Consensus 244 ~Y~~~~d~--~~L~~lL~~~~ 262 (425)
.+..+.+. ++|++.+.+..
T Consensus 123 ~~~~v~~~~~~el~~al~~a~ 143 (153)
T PF02775_consen 123 KGARVTTPDPEELEEALREAL 143 (153)
T ss_dssp EEEEESCHSHHHHHHHHHHHH
T ss_pred cEEEEccCCHHHHHHHHHHHH
Confidence 98888777 99999988776
No 183
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=53.61 E-value=3.2 Score=40.96 Aligned_cols=32 Identities=34% Similarity=0.810 Sum_probs=21.4
Q ss_pred CCCCCCCceecCc-hhHHhhh---cccCCCCCCc-cc
Q 014401 319 TDCRICGLQLVSS-PHLARSY---HHLFPIAPFD-EV 350 (425)
Q Consensus 319 ~~C~~C~l~Lvs~-phLarsy---hhlfp~~~f~-~~ 350 (425)
+.|.+|+..|.-. =..+|-| ||..|+..|+ +.
T Consensus 196 ~vC~vC~fdF~k~YGe~gKgyIeVHH~~piae~e~~~ 232 (272)
T COG3183 196 TVCDVCEFDFQKKYGEIGKGYIEVHHKIPIAEFEGEY 232 (272)
T ss_pred ceeeecCccHHHHhhhhccCeEEEeeccchhhhcCcc
Confidence 3466677665432 3356665 8999999998 54
No 184
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=53.12 E-value=1.5e+02 Score=32.68 Aligned_cols=78 Identities=15% Similarity=0.064 Sum_probs=48.6
Q ss_pred CCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--HHHH----HHHHHhhCCeEEE-ecCHhHHHHHHH
Q 014401 187 SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFIC----KHLCQDTGGSYSV-ALDESHFKELIM 259 (425)
Q Consensus 187 ~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e--~~iL----k~iA~~TGG~Y~~-~~d~~~L~~lL~ 259 (425)
++....|.||+||.+ |-.-..+++..|++.||...+--.++. ..-+ ++.....--.+.. +--..||-.++.
T Consensus 407 ~~~~~~v~i~~gs~s--d~~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~~~a 484 (577)
T PLN02948 407 PKGTPLVGIIMGSDS--DLPTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPGMVA 484 (577)
T ss_pred CCCCCeEEEEECchh--hHHHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchHHHh
Confidence 445567999998743 443345789999999999775444443 2223 3333222234443 455678999998
Q ss_pred hcCCCCc
Q 014401 260 EHAPPPP 266 (425)
Q Consensus 260 ~~~~pp~ 266 (425)
.+++-|.
T Consensus 485 ~~t~~pv 491 (577)
T PLN02948 485 SMTPLPV 491 (577)
T ss_pred hccCCCE
Confidence 8886654
No 185
>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=52.61 E-value=5.9 Score=29.74 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=16.5
Q ss_pred CCCCCCCCCCceecCchhHHhhhc
Q 014401 316 ELPTDCRICGLQLVSSPHLARSYH 339 (425)
Q Consensus 316 ~lP~~C~~C~l~Lvs~phLarsyh 339 (425)
+-|..||+|+.++-++=.|.|-.+
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 457899999999999999999753
No 186
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=52.44 E-value=3.7 Score=45.85 Aligned_cols=43 Identities=28% Similarity=0.622 Sum_probs=31.3
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcccccccchhhhcc-CCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCESL 414 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~-lh~CPgC~~~ 414 (425)
-+|..|+....+. .=++|.+.||.+|--=--|+ -.-||+|...
T Consensus 644 LkCs~Cn~R~Kd~--------vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~a 687 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA--------VITKCGHVFCEECVQTRYETRQRKCPKCNAA 687 (698)
T ss_pred eeCCCccCchhhH--------HHHhcchHHHHHHHHHHHHHhcCCCCCCCCC
Confidence 3799999665432 24599999999997654454 4589999853
No 187
>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=52.40 E-value=49 Score=30.23 Aligned_cols=66 Identities=14% Similarity=0.128 Sum_probs=47.0
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----------------------HHHHHHHHhhCCeEEE
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------------FICKHLCQDTGGSYSV 247 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------------~iLk~iA~~TGG~Y~~ 247 (425)
.++|+.|+|+..-. .+..+.+..+.+.++++-+|-+.... .-+.++|+.-|..|..
T Consensus 69 ~~~Vv~i~GDG~f~--~~g~~eL~ta~~~~l~i~vvV~nN~~~g~~~~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~~~ 146 (178)
T cd02008 69 DKKVVAVIGDSTFF--HSGILGLINAVYNKANITVVILDNRTTAMTGGQPHPGTGKTLTEPTTVIDIEALVRAIGVKRVV 146 (178)
T ss_pred CCCEEEEecChHHh--hccHHHHHHHHHcCCCEEEEEECCcceeccCCCCCCCCcccccCCCCccCHHHHHHHCCCCEEE
Confidence 45688888875421 11135677788899998888775321 2478899999999999
Q ss_pred ecCHhHHHHH
Q 014401 248 ALDESHFKEL 257 (425)
Q Consensus 248 ~~d~~~L~~l 257 (425)
+.+.++|+++
T Consensus 147 v~~~~~l~~~ 156 (178)
T cd02008 147 VVDPYDLKAI 156 (178)
T ss_pred ecCccCHHHH
Confidence 9888888743
No 188
>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=52.15 E-value=8.4 Score=28.34 Aligned_cols=28 Identities=25% Similarity=0.762 Sum_probs=21.4
Q ss_pred ccccccc-cccCCCCCCCcceeCCCCC---cccccccc
Q 014401 365 TCFGCQQ-SLLSSGNKPGLYVACPKCK---KHFCLECD 398 (425)
Q Consensus 365 ~C~~C~~-~~~~~~~~~~~~~~C~~C~---~~fC~dCD 398 (425)
.|-+|.. ++. +.||.|..|. -.+|.+|-
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 4888986 553 2589999998 67888883
No 189
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=52.11 E-value=37 Score=31.60 Aligned_cols=65 Identities=17% Similarity=0.272 Sum_probs=45.9
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHH
Q 014401 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQ 239 (425)
Q Consensus 165 ~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-~~iLk~iA~ 239 (425)
..|+.+...|+++.....+.. -. .++|++++ +|+.-+++.++..|.+|.+++++.- ..-|+..|+
T Consensus 90 ~k~~vDv~la~D~~~l~~~~~----~D-~ivl~SgD-----~DF~p~v~~~~~~G~rv~v~~~~~~~s~~L~~~aD 155 (181)
T COG1432 90 TKGDVDVELAVDAMELADKKN----VD-TIVLFSGD-----GDFIPLVEAARDKGKRVEVAGIEPMTSSDLRNAAD 155 (181)
T ss_pred cccCcchhhHHHHHHhhcccC----CC-EEEEEcCC-----ccHHHHHHHHHHcCCEEEEEecCCcCHHHHHHhhc
Confidence 457778888888776665432 22 45555542 4677789999999999999999973 345666664
No 190
>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=51.79 E-value=6.2 Score=23.58 Aligned_cols=13 Identities=38% Similarity=0.899 Sum_probs=9.7
Q ss_pred eeCCCCCcccccc
Q 014401 384 VACPKCKKHFCLE 396 (425)
Q Consensus 384 ~~C~~C~~~fC~d 396 (425)
|+|+.|+..|=.-
T Consensus 1 y~C~~C~~~f~~~ 13 (23)
T PF00096_consen 1 YKCPICGKSFSSK 13 (23)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCccCCH
Confidence 6899998887433
No 191
>PTZ00260 dolichyl-phosphate beta-glucosyltransferase; Provisional
Probab=51.76 E-value=1.5e+02 Score=30.13 Aligned_cols=96 Identities=13% Similarity=0.128 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh----------hcCCCcchHHHHHHH
Q 014401 108 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----------LGCSGDSSLQNALDL 177 (425)
Q Consensus 108 RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~----------l~~~G~tsL~~AL~~ 177 (425)
++..+++.+...+.+...++|....=||+.-||+ +.+..++++.+... +....+...+.|+..
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 7888888777777777777776667777776664 33344444444221 111222335666666
Q ss_pred HHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh
Q 014401 178 VQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 178 A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk 217 (425)
++.. +++++|++++++...++.++...++.+.+
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 6553 13468888887777778777777777654
No 192
>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=51.57 E-value=9.1 Score=27.75 Aligned_cols=29 Identities=24% Similarity=0.834 Sum_probs=21.6
Q ss_pred ccccccc-cccCCCCCCCcceeCCCC-Ccccccccch
Q 014401 365 TCFGCQQ-SLLSSGNKPGLYVACPKC-KKHFCLECDI 399 (425)
Q Consensus 365 ~C~~C~~-~~~~~~~~~~~~~~C~~C-~~~fC~dCD~ 399 (425)
.|-+|.. ++. +.||+|..| .-.+|.+|-.
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 5889983 332 358999999 5778988854
No 193
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=51.52 E-value=38 Score=35.53 Aligned_cols=91 Identities=15% Similarity=0.280 Sum_probs=48.4
Q ss_pred EEEEEeCCHhhhc--CCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCC
Q 014401 89 LYIVIDLSRAAAE--MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 89 lvlvLD~S~SM~a--~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~ 166 (425)
++-++|+|+||.. +|+.- ...-.+.-|+..-.+ | -.|..|.- .-.|..+..- ++ .- ...+
T Consensus 249 mfclMDvSGSM~~~~KdlAk----rFF~lL~~FL~~kYe-n--veivfIrH-ht~A~EVdE~-----dF---F~--~~es 310 (423)
T COG2718 249 MFCLMDVSGSMDQSEKDLAK----RFFFLLYLFLRRKYE-N--VEIVFIRH-HTEAKEVDET-----DF---FY--SQES 310 (423)
T ss_pred EEEEEecCCCcchHHHHHHH----HHHHHHHHHHhcccc-e--eEEEEEee-cCcceecchh-----hc---ee--ecCC
Confidence 5667899999964 23211 111234445544332 1 22333442 3444433321 11 10 1467
Q ss_pred CcchHHHHHHHHHHHHhC-CCCCCCcEEEEEEe
Q 014401 167 GDSSLQNALDLVQGLLSQ-IPSYGHREVLILYS 198 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~-~p~~~sreILVI~~ 198 (425)
|||-+..||+++++.++. .|. +.=.|-....
T Consensus 311 GGTivSSAl~~m~evi~ErYp~-aeWNIY~fqa 342 (423)
T COG2718 311 GGTIVSSALKLMLEVIKERYPP-AEWNIYAFQA 342 (423)
T ss_pred CCeEeHHHHHHHHHHHHhhCCh-hheeeeeeee
Confidence 999999999999999987 332 2223555543
No 194
>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=50.92 E-value=10 Score=27.05 Aligned_cols=30 Identities=20% Similarity=0.641 Sum_probs=20.5
Q ss_pred CCccccccccccCCCCCCCcceeCCCC-Ccccccccc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECD 398 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dCD 398 (425)
...|.+|..++.. .+|+|..| +-..|.+|=
T Consensus 4 ~~~C~~C~~~i~g------~ry~C~~C~d~dlC~~Cf 34 (44)
T smart00291 4 SYSCDTCGKPIVG------VRYHCLVCPDYDLCQSCF 34 (44)
T ss_pred CcCCCCCCCCCcC------CEEECCCCCCccchHHHH
Confidence 3479999976532 48999998 344566663
No 195
>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=50.90 E-value=2.1e+02 Score=26.79 Aligned_cols=91 Identities=13% Similarity=0.032 Sum_probs=59.2
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H------------
Q 014401 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------ 232 (425)
Q Consensus 166 ~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~-~------------ 232 (425)
.|..+++-||-.|+..=-..| .++++.|+|++.- . .. ...+.++.+.+++|-+|-+.... .
T Consensus 45 ~~~gsmG~~lpaAiGa~la~p---~~~vv~i~GDGsf-~-m~-~~eL~Ta~~~~lpv~ivV~NN~~~g~~~~~q~~~~~~ 118 (205)
T cd02003 45 YGYSCMGYEIAAGLGAKLAKP---DREVYVLVGDGSY-L-ML-HSEIVTAVQEGLKIIIVLFDNHGFGCINNLQESTGSG 118 (205)
T ss_pred CCcchhhhHHHHHHHHHHhCC---CCeEEEEEccchh-h-cc-HHHHHHHHHcCCCCEEEEEECCccHHHHHHHHHhcCc
Confidence 344567777776666432222 4568888876532 1 12 24577788999998888886431 0
Q ss_pred -----------------------HHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 233 -----------------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 -----------------------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
-+.++|+.-|..+..+.+.++|++.|....
T Consensus 119 ~~~~~~~~~~~~~~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 171 (205)
T cd02003 119 SFGTEFRDRDQESGQLDGALLPVDFAANARSLGARVEKVKTIEELKAALAKAK 171 (205)
T ss_pred cccchhcccccccccccCCCCCCCHHHHHHhCCCEEEEECCHHHHHHHHHHHH
Confidence 134577777888888888888888887765
No 196
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=50.15 E-value=6.1 Score=27.96 Aligned_cols=11 Identities=36% Similarity=1.035 Sum_probs=6.6
Q ss_pred CCCcccccccc
Q 014401 388 KCKKHFCLECD 398 (425)
Q Consensus 388 ~C~~~fC~dCD 398 (425)
.|++.||..|=
T Consensus 15 ~CGH~FC~~Cl 25 (42)
T PF15227_consen 15 PCGHSFCRSCL 25 (42)
T ss_dssp SSSSEEEHHHH
T ss_pred CCcCHHHHHHH
Confidence 46666666663
No 197
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=49.99 E-value=10 Score=28.02 Aligned_cols=44 Identities=30% Similarity=0.650 Sum_probs=21.6
Q ss_pred cccccccccCCCCCCCcceeCCCCCcccccccchhhhc-cCCCCCCCCC
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHE-SLHNCPGCES 413 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe-~lh~CPgC~~ 413 (425)
|-+|..++.. .....+-| .|+-..|.+|-.-|-+ .-..||||..
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 4567666622 22345678 7999999999777775 5789999953
No 198
>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=49.79 E-value=1.6e+02 Score=27.36 Aligned_cols=89 Identities=10% Similarity=0.073 Sum_probs=57.2
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-+|-.|+-.=-..| .|++++|+|+..- . .++ ..+.++++.+++|-+|-+....
T Consensus 53 g~mG~~lpaaiGa~la~p---~r~vv~i~GDG~f-~-m~~-~eL~Ta~~~~lpvi~vV~NN~~yg~~~~~q~~~~~~~~~ 126 (196)
T cd02013 53 GNCGYALPAIIGAKAAAP---DRPVVAIAGDGAW-G-MSM-MEIMTAVRHKLPVTAVVFRNRQWGAEKKNQVDFYNNRFV 126 (196)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcchHH-h-ccH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHHcCCCcc
Confidence 344545544444321122 4568888886432 1 122 4466788889998888775321
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+..|..+..+.+.++|...|.+...
T Consensus 127 ~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 164 (196)
T cd02013 127 GTELESESFAKIAEACGAKGITVDKPEDVGPALQKAIA 164 (196)
T ss_pred cccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 12467888899999999999999988887663
No 199
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=49.52 E-value=1.2e+02 Score=32.84 Aligned_cols=58 Identities=22% Similarity=0.408 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC-------CCccCHH-----HHHHHHH-hCCcEEEEEEecchH
Q 014401 172 QNALDLVQGLLSQIPSYGHREVLILYSALST-------CDPGDIM-----ETIQKCK-ESKIRCSVIGLSAEM 231 (425)
Q Consensus 172 ~~AL~~A~~~L~~~p~~~sreILVI~~s~~t-------~dp~~i~-----~ti~~ak-k~~I~V~vIglg~e~ 231 (425)
+.||.-|.+.|-..| -.|+|+.+++++.- .+||++. .+|+... +.-|-+-.||||.++
T Consensus 520 GEal~wah~rl~gRp--EqrkIlmmiSDGAPvddstlsvnpGnylerHLRaVieeIEtrSpveLlAIGighDv 590 (620)
T COG4547 520 GEALMWAHQRLIGRP--EQRKILMMISDGAPVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGHDV 590 (620)
T ss_pred hHHHHHHHHHHhcCh--hhceEEEEecCCCcccccccccCCchHHHHHHHHHHHHHhcCCchhheeeeccccc
Confidence 457777888777653 36779888875432 4468775 3455443 345778888898876
No 200
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.28 E-value=27 Score=30.41 Aligned_cols=69 Identities=20% Similarity=0.167 Sum_probs=35.8
Q ss_pred CHhHHHHHHHhcCCCCccchhhhh-------hceeeecCCCCCCCCCcceeeecCCccccCeEEcCCCCcccc-------
Q 014401 250 DESHFKELIMEHAPPPPAIAEFAI-------ANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVC------- 315 (425)
Q Consensus 250 d~~~L~~lL~~~~~pp~~~~~~~~-------~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C------- 315 (425)
...||...+..+.+.+++.+...+ ..-=...||.....+.. ++...+.|.|++|+..||
T Consensus 27 ss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~-------~~~~~~~y~C~~C~~~FC~dCD~fi 99 (112)
T TIGR00622 27 LSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFD-------ELKDSHRYVCAVCKNVFCVDCDVFV 99 (112)
T ss_pred ccchHHHhhhccCCCcccccccccccCCCCcccCcCCCCCCccccccc-------ccccccceeCCCCCCccccccchhh
Confidence 445888888888877766421000 00001123332111000 012233899999999999
Q ss_pred -CCCCCCCCCC
Q 014401 316 -ELPTDCRICG 325 (425)
Q Consensus 316 -~lP~~C~~C~ 325 (425)
+.=-.||.|.
T Consensus 100 He~Lh~CPGC~ 110 (112)
T TIGR00622 100 HESLHCCPGCI 110 (112)
T ss_pred hhhccCCcCCC
Confidence 2223577765
No 201
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=49.15 E-value=2.5e+02 Score=29.78 Aligned_cols=94 Identities=10% Similarity=0.046 Sum_probs=60.4
Q ss_pred CcchHHHHHHHHHHHHhCC-C-----CCCCcEEEEEEeCCCCCCcc-CHHHHHHHHHhCCcEEEEEEecch----HHHHH
Q 014401 167 GDSSLQNALDLVQGLLSQI-P-----SYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSAE----MFICK 235 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~-p-----~~~sreILVI~~s~~t~dp~-~i~~ti~~akk~~I~V~vIglg~e----~~iLk 235 (425)
+..++.......+..|... | ....++|++|+|.... ... -+...+..+.+.+.+|-+|...+- ...|+
T Consensus 176 ~~~~~~~v~~~~~~~L~~~l~~~~~~~~~~~~ii~lvGptGv-GKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk 254 (407)
T PRK12726 176 ETAHLDDITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTGV-GKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQ 254 (407)
T ss_pred ccccHHHHHHHHHHHhcCcEeeCCCceecCCeEEEEECCCCC-CHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHH
Confidence 3345677777777777652 1 1234578888874221 111 122334556677888888888643 56899
Q ss_pred HHHHhhCCeEEEecCHhHHHHHHHhc
Q 014401 236 HLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 236 ~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
..++..|=-++++.+..++.+.+..+
T Consensus 255 ~yae~lgvpv~~~~dp~dL~~al~~l 280 (407)
T PRK12726 255 GYADKLDVELIVATSPAELEEAVQYM 280 (407)
T ss_pred HHhhcCCCCEEecCCHHHHHHHHHHH
Confidence 99998886667788888887776544
No 202
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.02 E-value=8.3 Score=38.21 Aligned_cols=51 Identities=24% Similarity=0.615 Sum_probs=36.7
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchh--hhccCCCCCCCCCCCCCCcc
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--IHESLHNCPGCESLRHSNPI 420 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f--iHe~lh~CPgC~~~~~~~~~ 420 (425)
+...|+-|..... ...|.-|+++||.-|=+- --+.-.+||=|-....+..|
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 3568999984432 346999999999999654 23455679999876665554
No 203
>PRK06260 threonine synthase; Validated
Probab=48.35 E-value=12 Score=38.97 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=30.2
Q ss_pred eEEcCCCCccccC--CCCCCCCCCceecCchhHH-----------hhhcccCCCC
Q 014401 304 GYTCPRCKARVCE--LPTDCRICGLQLVSSPHLA-----------RSYHHLFPIA 345 (425)
Q Consensus 304 Gy~Cp~C~s~~C~--lP~~C~~C~l~Lvs~phLa-----------rsyhhlfp~~ 345 (425)
.|.|++|+..|=. ++..||.||-.|-....+. +.|++++|++
T Consensus 3 ~~~C~~cg~~~~~~~~~~~Cp~cg~~l~~~y~~~~~~~~~~~~~~wry~~~lp~~ 57 (397)
T PRK06260 3 WLKCIECGKEYDPDEIIYTCPECGGLLEVIYDLDKIFDKLRGRGVWRYKELLPVK 57 (397)
T ss_pred EEEECCCCCCCCCCCccccCCCCCCeEEEEecchhhhhccCCcceeeehhhcCCC
Confidence 5899999998753 4467999987766554433 2378888884
No 204
>PRK08611 pyruvate oxidase; Provisional
Probab=47.64 E-value=93 Score=34.01 Aligned_cols=89 Identities=9% Similarity=0.051 Sum_probs=61.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++.||-.|+..=-.. ..|++|.|+|++.- . .++ +.+.++.+.|+++-+|-+....
T Consensus 408 g~mG~glpaaiGa~la~---p~~~Vv~i~GDGsf-~-m~~-~eL~Ta~r~~l~~iivV~NN~~~g~i~~~q~~~~~~~~~ 481 (576)
T PRK08611 408 GTMGCGLPGAIAAKIAF---PDRQAIAICGDGGF-S-MVM-QDFVTAVKYKLPIVVVVLNNQQLAFIKYEQQAAGELEYA 481 (576)
T ss_pred hhhhhhHHHHHHHHHhC---CCCcEEEEEcccHH-h-hhH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCccc
Confidence 35555665555432222 24678889886532 1 122 4567899999999888885320
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+..|+.|..+.+.++|+..|.+...
T Consensus 482 ~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 518 (576)
T PRK08611 482 IDLSDMDYAKFAEACGGKGYRVEKAEELDPAFEEALA 518 (576)
T ss_pred ccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 12677999999999999999999999887763
No 205
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=47.40 E-value=9.7 Score=24.16 Aligned_cols=20 Identities=35% Similarity=0.934 Sum_probs=9.4
Q ss_pred cccccchhhhccCCCCCCCC
Q 014401 393 FCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 393 fC~dCD~fiHe~lh~CPgC~ 412 (425)
+|..|-..+.+.-.+||.|.
T Consensus 4 ~Cp~Cg~~~~~~~~fC~~CG 23 (26)
T PF13248_consen 4 FCPNCGAEIDPDAKFCPNCG 23 (26)
T ss_pred CCcccCCcCCcccccChhhC
Confidence 34444444445555555554
No 206
>PRK00420 hypothetical protein; Validated
Probab=47.02 E-value=11 Score=32.80 Aligned_cols=26 Identities=27% Similarity=0.604 Sum_probs=19.1
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceec
Q 014401 304 GYTCPRCKARVCEL---PTDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lv 329 (425)
+..||.|++..=.+ ...||.||-.++
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVYI 51 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCeee
Confidence 56799998866653 368999998654
No 207
>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=46.91 E-value=2.2e+02 Score=26.41 Aligned_cols=88 Identities=11% Similarity=0.062 Sum_probs=56.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----~------------ 232 (425)
-+++-+|-.|+-.=-..| .|+++.|.|++.- -.++ ..+.++++.+++|-+|-+-... .
T Consensus 57 GsmG~~lpaaiGa~la~p---~~~vv~i~GDG~f--~m~~-~eL~Ta~~~~lpviivV~NN~~yg~~~~~q~~~~~~~~~ 130 (202)
T cd02006 57 GPLGWTVPAALGVAAADP---DRQVVALSGDYDF--QFMI-EELAVGAQHRIPYIHVLVNNAYLGLIRQAQRAFDMDYQV 130 (202)
T ss_pred cchhhhhHHHHhHHhhCC---CCeEEEEEeChHh--hccH-HHHHHHHHhCCCeEEEEEeCchHHHHHHHHHHhcCcccc
Confidence 345555554444311112 4678888886432 1122 4566789999999998886431 0
Q ss_pred -----------------HHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 233 -----------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 -----------------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
-+.++|+.-|..+..+.+.++|+..|.+..
T Consensus 131 ~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 177 (202)
T cd02006 131 NLAFENINSSELGGYGVDHVKVAEGLGCKAIRVTKPEELAAAFEQAK 177 (202)
T ss_pred ccccccccccccCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 134678888888888888999988887765
No 208
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=46.46 E-value=8.5 Score=42.56 Aligned_cols=45 Identities=22% Similarity=0.674 Sum_probs=34.3
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccccccchh--------hhccCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--------IHESLHNCPGC 411 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f--------iHe~lh~CPgC 411 (425)
+..|+.|...|..... -+-|-.|+.+||..|-.+ |-+-...|-.|
T Consensus 165 ~~~C~rCr~~F~~~~r----kHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTNR----KHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccceeeeeeeeccc----cccccccchhhccCccccccCcccccccccceehhhh
Confidence 4589999999975432 367999999999999754 43445778888
No 209
>PRK05978 hypothetical protein; Provisional
Probab=46.15 E-value=12 Score=34.15 Aligned_cols=23 Identities=26% Similarity=0.761 Sum_probs=19.4
Q ss_pred EcCCCCc-----cccCCCCCCCCCCcee
Q 014401 306 TCPRCKA-----RVCELPTDCRICGLQL 328 (425)
Q Consensus 306 ~Cp~C~s-----~~C~lP~~C~~C~l~L 328 (425)
.||+|+. .|=++...|+.||+.+
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 4558899999999986
No 210
>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=45.81 E-value=9.2 Score=27.65 Aligned_cols=44 Identities=25% Similarity=0.517 Sum_probs=32.6
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcc-cccccchhhhccCCCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKH-FCLECDIYIHESLHNCPGCESLR 415 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-fC~dCD~fiHe~lh~CPgC~~~~ 415 (425)
..|.-|...... ..--.|++. ||.+|-.-+...-..||.|....
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 468889855432 233468999 99999999999999999997644
No 211
>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=45.71 E-value=15 Score=26.91 Aligned_cols=10 Identities=40% Similarity=0.999 Sum_probs=6.0
Q ss_pred EEcCCCCccc
Q 014401 305 YTCPRCKARV 314 (425)
Q Consensus 305 y~Cp~C~s~~ 314 (425)
|.|+.|+.+|
T Consensus 2 y~C~~CgyvY 11 (47)
T PF00301_consen 2 YQCPVCGYVY 11 (47)
T ss_dssp EEETTTSBEE
T ss_pred cCCCCCCEEE
Confidence 5666666554
No 212
>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=45.44 E-value=8.5 Score=26.87 Aligned_cols=14 Identities=36% Similarity=0.994 Sum_probs=6.0
Q ss_pred cccccccchhh-hcc
Q 014401 391 KHFCLECDIYI-HES 404 (425)
Q Consensus 391 ~~fC~dCD~fi-He~ 404 (425)
..||.-||+|+ |++
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 213
>smart00355 ZnF_C2H2 zinc finger.
Probab=45.07 E-value=6 Score=23.41 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=18.0
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 014401 384 VACPKCKKHFCLECDIYIHESLH 406 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD~fiHe~lh 406 (425)
|+|+.|+..|-..-+...|...|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57889999988888887776544
No 214
>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=44.79 E-value=9.2 Score=24.91 Aligned_cols=28 Identities=25% Similarity=0.755 Sum_probs=9.5
Q ss_pred ccccccccccCCCCCCCcceeCCCCCccccccc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLEC 397 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dC 397 (425)
.|.+|..+... ...|.|+.|+-.+..+|
T Consensus 2 ~C~~C~~~~~~-----~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDG-----GWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S-------EEE-TTT-----HHH
T ss_pred cCCcCCCcCCC-----CceEECccCCCccChhc
Confidence 58899866642 24687777665554444
No 215
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=44.68 E-value=14 Score=33.03 Aligned_cols=29 Identities=38% Similarity=0.884 Sum_probs=24.2
Q ss_pred eE-EcCCCCc---cccCCCCCCCCCCceecCch
Q 014401 304 GY-TCPRCKA---RVCELPTDCRICGLQLVSSP 332 (425)
Q Consensus 304 Gy-~Cp~C~s---~~C~lP~~C~~C~l~Lvs~p 332 (425)
|| +|--|-+ ++|.+-+.||+|.+.+-||-
T Consensus 103 gY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 103 GYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred chHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 66 6777765 89999999999999988764
No 216
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=44.40 E-value=81 Score=30.21 Aligned_cols=56 Identities=21% Similarity=0.276 Sum_probs=41.5
Q ss_pred HHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH
Q 014401 174 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 174 AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~ 231 (425)
|...|...++..|....++|+|+-|.+++ -||=.-++..|+..|..|.++-++.+.
T Consensus 33 G~aVa~~i~~~~~~~~~~~v~vlcG~GnN--GGDG~VaAR~L~~~G~~V~v~~~~~~~ 88 (203)
T COG0062 33 GLAVARAILREYPLGRARRVLVLCGPGNN--GGDGLVAARHLKAAGYAVTVLLLGDPK 88 (203)
T ss_pred HHHHHHHHHHHcCcccCCEEEEEECCCCc--cHHHHHHHHHHHhCCCceEEEEeCCCC
Confidence 44455555566553326679999887653 577788999999999999999999664
No 217
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.07 E-value=13 Score=37.19 Aligned_cols=31 Identities=23% Similarity=0.477 Sum_probs=14.7
Q ss_pred eeCCCCCcccccccchhhhc--cCCCCCCCCCC
Q 014401 384 VACPKCKKHFCLECDIYIHE--SLHNCPGCESL 414 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD~fiHe--~lh~CPgC~~~ 414 (425)
|.=.+|++.||.-|-.---+ .--.||-|...
T Consensus 253 ~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 253 HVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN 285 (298)
T ss_pred eeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence 44445555555555432222 22456666543
No 218
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=43.64 E-value=1e+02 Score=31.17 Aligned_cols=108 Identities=19% Similarity=0.279 Sum_probs=70.3
Q ss_pred HHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCH-------H-HHHHHHHhCCcEEEEEEecc----hHHHHHHHH
Q 014401 171 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-------M-ETIQKCKESKIRCSVIGLSA----EMFICKHLC 238 (425)
Q Consensus 171 L~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i-------~-~ti~~akk~~I~V~vIglg~----e~~iLk~iA 238 (425)
-.|+++.+-+.|... +.+..+|-+|+.+ ||-.. . ..++.+.+.+.+|.++-=++ +..+|++++
T Consensus 65 k~n~~e~l~~el~~~---~~k~~~i~is~~T--Dpyqp~E~~~~ltR~ilei~~~~~~~v~I~TKS~lv~RDld~l~~~~ 139 (297)
T COG1533 65 KENLLELLERELRKP---GPKRTVIAISSVT--DPYQPIEKEYRLTRKILEILLKYGFPVSIVTKSALVLRDLDLLLELA 139 (297)
T ss_pred chhHHHHHHHHHhhc---cCCceEEEEecCC--CCCCcchHHHHHHHHHHHHHHHcCCcEEEEECCcchhhhHHHHHhhh
Confidence 356777777777642 2334555565433 44322 2 46888899999998887776 789999999
Q ss_pred Hh--hCCeEEEecCHhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014401 239 QD--TGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 239 ~~--TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~ 284 (425)
.. +.-.+.+..++..+...+.-.+++|..+ -..-..|..-|.|..
T Consensus 140 ~~~~v~V~~Sitt~d~~l~k~~EP~apsp~~R-i~al~~l~eaGi~~~ 186 (297)
T COG1533 140 ERGKVRVAVSITTLDEELAKILEPRAPSPEER-LEALKELSEAGIPVG 186 (297)
T ss_pred hccceEEEEEeecCcHHHHHhcCCCCcCHHHH-HHHHHHHHHCCCeEE
Confidence 98 5556666666666888887777777655 222234555566554
No 219
>PF10221 DUF2151: Cell cycle and development regulator; InterPro: IPR019355 This entry represents the cell cycle regulator Mat89b, which plays an evolutionarily conserved role as a crucial regulator of both cell cycle and development []. Mat89Bb is a PNG kinase substrate that is essential for S-M cycles of early Drosophila embryogenesis, Xenopus embryonic cell cycles and morphogenesis, and cell division in cultured mammalian cells.
Probab=43.47 E-value=3.5e+02 Score=30.79 Aligned_cols=112 Identities=20% Similarity=0.167 Sum_probs=71.3
Q ss_pred eEEEEEeCCHhhhcC-------CC-----------CCCHHHHHHHHHHHHHHHHhccCCCCcE-EEEeecCCceEEeeCC
Q 014401 88 YLYIVIDLSRAAAEM-------DF-----------RPSRMAVVAKQVEAFVREFFDQNPLSQI-GLVTVKDGVANCLTDL 148 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~-------D~-----------~P~RL~~a~~~l~~FI~~~~~qnP~sql-GvI~~~~g~A~~lspL 148 (425)
-.|+|||=|+-|... |+ ..+=-+++.+++.+|-+=.+|--|..++ -+|+ .|..|..+..-
T Consensus 7 KTVfVLDh~p~f~~ss~~~i~~d~~~~~~~~~~~i~KSLWTc~vEa~~EYcRIV~DlFP~~k~Irfiv-sD~~a~~lntW 85 (695)
T PF10221_consen 7 KTVFVLDHSPYFAESSNQPIDFDIVKKSRQQKAPISKSLWTCAVEASIEYCRIVWDLFPDGKLIRFIV-SDTAAHILNTW 85 (695)
T ss_pred cEEEEEcCCchhhhhccCcEEEeeecCCCCCcCcccchHHHHHHHHHHHHHHHHhhccCCCceEEEEE-EccccccccCc
Confidence 579999999998531 22 2345677888888777666666666665 4455 48889988875
Q ss_pred CCC---HHHHHHHHhhhhcC------CCcchHHHHHHHHHHHHhCC------------C-----CCCCcEEEEEEeCC
Q 014401 149 GGS---PESHIKALMGKLGC------SGDSSLQNALDLVQGLLSQI------------P-----SYGHREVLILYSAL 200 (425)
Q Consensus 149 T~d---~~~~i~~L~~~l~~------~G~tsL~~AL~~A~~~L~~~------------p-----~~~sreILVI~~s~ 200 (425)
+.+ ...+++.|...-.| .++.++-.||.+|++.|... + -.+.++||+|+..-
T Consensus 86 ~~~~Qsl~~L~~~la~vG~P~~~~~~~~d~svi~GL~~AIEaL~e~td~Q~e~~~~~~~~~~~~~~N~GrIIciT~~k 163 (695)
T PF10221_consen 86 STSQQSLSHLMNALATVGPPPRSDPENSDYSVIHGLRMAIEALAEPTDSQKEQRASRVNEELKKVENRGRIICITSAK 163 (695)
T ss_pred ChhhccHHHHHHHHHhcCCCCCCCcccccchhHHHHHHHHHHHhcCCHHHHHHhhcccchhhhhccCCccEEEEEeec
Confidence 542 23344444433223 12337889999999988531 0 13556899998643
No 220
>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=43.47 E-value=12 Score=25.59 Aligned_cols=26 Identities=31% Similarity=0.662 Sum_probs=19.4
Q ss_pred CCCCCcccccccchhhhc--cCCCCCCC
Q 014401 386 CPKCKKHFCLECDIYIHE--SLHNCPGC 411 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe--~lh~CPgC 411 (425)
=..|++.||.+|=.-.-+ .-..||.|
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 568999999999765555 55667766
No 221
>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=43.03 E-value=12 Score=38.11 Aligned_cols=26 Identities=23% Similarity=0.735 Sum_probs=13.7
Q ss_pred CCCcccccccchhhhc-cCCCCCCCCC
Q 014401 388 KCKKHFCLECDIYIHE-SLHNCPGCES 413 (425)
Q Consensus 388 ~C~~~fC~dCD~fiHe-~lh~CPgC~~ 413 (425)
.|++.||..|=.-+.. .-..||.|..
T Consensus 25 ~CGH~~C~sCv~~l~~~~~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRGSGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCCCCCCCCCCC
Confidence 4666666666433221 1235777754
No 222
>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=42.92 E-value=1.2e+02 Score=27.19 Aligned_cols=70 Identities=10% Similarity=-0.055 Sum_probs=47.9
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhC-CcEEEEEEecch-------------HHHHHHHHHhhCCeEEEecCHhHHHH
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSAE-------------MFICKHLCQDTGGSYSVALDESHFKE 256 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~-~I~V~vIglg~e-------------~~iLk~iA~~TGG~Y~~~~d~~~L~~ 256 (425)
++|++|.|++.-. .++ ..+.++.+. +++|-+|-+... ..-+.++|+.-|..+..+.+.++|++
T Consensus 60 ~~Vv~i~GDG~f~--m~~-~el~t~~~~~~~~i~~vV~nN~~~g~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~ 136 (157)
T cd02001 60 RKVIVVDGDGSLL--MNP-GVLLTAGEFTPLNLILVVLDNRAYGSTGGQPTPSSNVNLEAWAAACGYLVLSAPLLGGLGS 136 (157)
T ss_pred CcEEEEECchHHH--hcc-cHHHHHHHhcCCCEEEEEEeCccccccCCcCCCCCCCCHHHHHHHCCCceEEcCCHHHHHH
Confidence 5688888864320 111 234555565 577766665432 13478899999999999999999999
Q ss_pred HHHhcCC
Q 014401 257 LIMEHAP 263 (425)
Q Consensus 257 lL~~~~~ 263 (425)
.+.+...
T Consensus 137 al~~a~~ 143 (157)
T cd02001 137 EFAGLLA 143 (157)
T ss_pred HHHHHHh
Confidence 9887763
No 223
>TIGR03472 HpnI hopanoid biosynthesis associated glycosyl transferase protein HpnI. This family of genes include a glycosyl transferase, group 2 domain (pfam00535) which are responsible, generally for the transfer of nucleotide-diphosphate sugars to substrates such as polysaccharides and lipids. The member of this clade from Acidithiobacillus ferrooxidans ATCC 23270 (AFE_0974) is found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. Similarly, in Ralstonia eutropha JMP134 (Reut_B4902) this gene is adjacent to HpnAB, IspH and HpnH (TIGR03470), although SHC itself is elsewhere in the genome. Notably, this gene (here named HpnI) and three others form a conserved set (HpnIJKL) which occur in a subset of all genomes containing the SHC enzyme. This relationship was discerned using the method of partial phylogenetic profiling. This group includes Zymomonas mobilis, the organism where the initial hopano
Probab=42.90 E-value=1.5e+02 Score=30.21 Aligned_cols=69 Identities=9% Similarity=0.105 Sum_probs=40.1
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhC--CcEEEEEEec------chHHHHHHHHHhhCCeEEEecCHh------HHH
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKES--KIRCSVIGLS------AEMFICKHLCQDTGGSYSVALDES------HFK 255 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~--~I~V~vIglg------~e~~iLk~iA~~TGG~Y~~~~d~~------~L~ 255 (425)
.-||||+.++ +.|+ ..++++.+++. +++|.+|.-+ .....+.++.+...|.|++..|.| -|+
T Consensus 70 ~~EIivvdd~--s~D~--t~~iv~~~~~~~p~~~i~~v~~~~~~G~~~K~~~l~~~~~~a~ge~i~~~DaD~~~~p~~L~ 145 (373)
T TIGR03472 70 GFQMLFGVQD--PDDP--ALAVVRRLRADFPDADIDLVIDARRHGPNRKVSNLINMLPHARHDILVIADSDISVGPDYLR 145 (373)
T ss_pred CeEEEEEeCC--CCCc--HHHHHHHHHHhCCCCceEEEECCCCCCCChHHHHHHHHHHhccCCEEEEECCCCCcChhHHH
Confidence 4578775433 2232 23455555543 4566666322 234567777888899999877765 355
Q ss_pred HHHHhcC
Q 014401 256 ELIMEHA 262 (425)
Q Consensus 256 ~lL~~~~ 262 (425)
.+...+.
T Consensus 146 ~lv~~~~ 152 (373)
T TIGR03472 146 QVVAPLA 152 (373)
T ss_pred HHHHHhc
Confidence 5554443
No 224
>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=42.68 E-value=14 Score=26.17 Aligned_cols=26 Identities=38% Similarity=0.768 Sum_probs=15.9
Q ss_pred cceeCCCCCcccccccchhhhccCCCCCC
Q 014401 382 LYVACPKCKKHFCLECDIYIHESLHNCPG 410 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe~lh~CPg 410 (425)
..+.|+.|+..||.+- .+-.-|.|++
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 3689999999999864 3456677764
No 225
>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=42.30 E-value=2.7e+02 Score=27.00 Aligned_cols=72 Identities=11% Similarity=0.009 Sum_probs=49.4
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------------HHHHHHHHHhhCCeEEEec--CHhHH
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------------MFICKHLCQDTGGSYSVAL--DESHF 254 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-------------~~iLk~iA~~TGG~Y~~~~--d~~~L 254 (425)
.++|++|+|+.. .+.+...+++..+...++..-++-+... ..-+.++++.-|..++.+. |.+.+
T Consensus 127 ~~~v~~i~GDG~-~~~G~~~eal~~a~~~~l~~li~vvdnN~~~~~~~~~~~~~~~~~~~~~~a~G~~~~~v~G~d~~~l 205 (255)
T cd02012 127 DYRVYVLLGDGE-LQEGSVWEAASFAGHYKLDNLIAIVDSNRIQIDGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEI 205 (255)
T ss_pred CCEEEEEECccc-ccccHHHHHHHHHHHcCCCcEEEEEECCCccccCcHhhccCchhHHHHHHHcCCeEEEECCCCHHHH
Confidence 467888888754 4556678889999998886333333311 2446788888888888776 77777
Q ss_pred HHHHHhcC
Q 014401 255 KELIMEHA 262 (425)
Q Consensus 255 ~~lL~~~~ 262 (425)
.+.+.+..
T Consensus 206 ~~al~~a~ 213 (255)
T cd02012 206 LAALEEAK 213 (255)
T ss_pred HHHHHHHH
Confidence 77765543
No 226
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=42.00 E-value=11 Score=29.79 Aligned_cols=27 Identities=30% Similarity=0.714 Sum_probs=21.1
Q ss_pred EcCCCCccccC-----CCCCCCCCCceecCch
Q 014401 306 TCPRCKARVCE-----LPTDCRICGLQLVSSP 332 (425)
Q Consensus 306 ~Cp~C~s~~C~-----lP~~C~~C~l~Lvs~p 332 (425)
.||-|+-..+- ..+.|.+||.+|+-++
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 59999987764 3478999999997653
No 227
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=41.82 E-value=16 Score=34.68 Aligned_cols=51 Identities=20% Similarity=0.403 Sum_probs=33.9
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhh-hc---------------cCCCCCCCCCCCCCCcc
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI-HE---------------SLHNCPGCESLRHSNPI 420 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fi-He---------------~lh~CPgC~~~~~~~~~ 420 (425)
+...|.-|...+.++ .-..|++.||..|=.-. +- .-..||-|........+
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 456899998666432 24679999999997522 21 13479999876654443
No 228
>cd04192 GT_2_like_e Subfamily of Glycosyltransferase Family GT2 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=41.54 E-value=2.4e+02 Score=25.33 Aligned_cols=69 Identities=13% Similarity=0.194 Sum_probs=38.8
Q ss_pred cEEEEEEeCCCCCCccCHHHHHH-HHHhCCcEEEEEEec-----chHHHHHHHHHhhCCeEEEecCHh------HHHHHH
Q 014401 191 REVLILYSALSTCDPGDIMETIQ-KCKESKIRCSVIGLS-----AEMFICKHLCQDTGGSYSVALDES------HFKELI 258 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~-~akk~~I~V~vIglg-----~e~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL 258 (425)
-||||+-++ ++ | +..+.++ .++..+.+|.++-.. .....+....+..+|.|+...|.+ -|+.++
T Consensus 29 ~eiivvdd~-s~-d--~t~~~~~~~~~~~~~~v~~~~~~~~~~~g~~~a~n~g~~~~~~d~i~~~D~D~~~~~~~l~~l~ 104 (229)
T cd04192 29 FEVILVDDH-ST-D--GTVQILEFAAAKPNFQLKILNNSRVSISGKKNALTTAIKAAKGDWIVTTDADCVVPSNWLLTFV 104 (229)
T ss_pred eEEEEEcCC-CC-c--ChHHHHHHHHhCCCcceEEeeccCcccchhHHHHHHHHHHhcCCEEEEECCCcccCHHHHHHHH
Confidence 467766543 22 1 2334444 445555666666443 123456667777889999877665 355555
Q ss_pred HhcCC
Q 014401 259 MEHAP 263 (425)
Q Consensus 259 ~~~~~ 263 (425)
..+..
T Consensus 105 ~~~~~ 109 (229)
T cd04192 105 AFIQK 109 (229)
T ss_pred HHhhc
Confidence 54443
No 229
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=41.52 E-value=20 Score=25.83 Aligned_cols=25 Identities=28% Similarity=0.602 Sum_probs=19.0
Q ss_pred eEEcCCCCccccC---CCCCCCCCCcee
Q 014401 304 GYTCPRCKARVCE---LPTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~---lP~~C~~C~l~L 328 (425)
-|+|..|+..+=- -+..||-||--+
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rI 29 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRI 29 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceE
Confidence 4899999986653 357899998654
No 230
>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=41.47 E-value=21 Score=24.06 Aligned_cols=24 Identities=38% Similarity=0.825 Sum_probs=16.9
Q ss_pred EEcCCCCccccC---CCCCCCCCCcee
Q 014401 305 YTCPRCKARVCE---LPTDCRICGLQL 328 (425)
Q Consensus 305 y~Cp~C~s~~C~---lP~~C~~C~l~L 328 (425)
|+|..|++.+=- -|+.|+-||-..
T Consensus 1 Y~C~~Cg~~~~~~~~~~irC~~CG~RI 27 (32)
T PF03604_consen 1 YICGECGAEVELKPGDPIRCPECGHRI 27 (32)
T ss_dssp EBESSSSSSE-BSTSSTSSBSSSS-SE
T ss_pred CCCCcCCCeeEcCCCCcEECCcCCCeE
Confidence 889999987752 346899998654
No 231
>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=41.04 E-value=1.8e+02 Score=26.45 Aligned_cols=90 Identities=10% Similarity=-0.030 Sum_probs=56.7
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------- 231 (425)
+..+++.||-.|+..=-.. ..+++|+|+|++.. . .+. ..+..+.+.++.+-+|-+-...
T Consensus 49 ~~g~mG~~~~~aiGa~~a~---~~~~vv~i~GDG~f-~-~~~-~el~t~~~~~lp~~~iv~NN~~~~~~~~~~~~~~~~~ 122 (178)
T cd02014 49 LLATMGNGLPGAIAAKLAY---PDRQVIALSGDGGF-A-MLM-GDLITAVKYNLPVIVVVFNNSDLGFIKWEQEVMGQPE 122 (178)
T ss_pred CCchhhhHHHHHHHHHHhC---CCCcEEEEEcchHH-H-hhH-HHHHHHHHhCCCcEEEEEECCchhHHHHHHHHhcCCc
Confidence 3345666666555432111 24568888886532 1 122 3466688888887777664321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.|+.+.+.+.+++.+.+..
T Consensus 123 ~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~~l~~a~ 160 (178)
T cd02014 123 FGVDLPNPDFAKIAEAMGIKGIRVEDPDELEAALDEAL 160 (178)
T ss_pred eeccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1256788888999888888888888777654
No 232
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=41.01 E-value=19 Score=27.45 Aligned_cols=23 Identities=30% Similarity=0.813 Sum_probs=17.2
Q ss_pred EcCCCCccccC-CCCCCCCCCcee
Q 014401 306 TCPRCKARVCE-LPTDCRICGLQL 328 (425)
Q Consensus 306 ~Cp~C~s~~C~-lP~~C~~C~l~L 328 (425)
.||+|+++.|. ..-+||-||++.
T Consensus 1 ~Cpv~~~~~~~~v~~~Cp~cGipt 24 (55)
T PF13824_consen 1 LCPVCKKDLPAHVNFECPDCGIPT 24 (55)
T ss_pred CCCCCccccccccCCcCCCCCCcC
Confidence 38888888775 345899999874
No 233
>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=40.88 E-value=2.5e+02 Score=24.57 Aligned_cols=90 Identities=12% Similarity=0.052 Sum_probs=57.9
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------- 231 (425)
+..+++.++..|+-.=...| .+++++++|+..-. .. .+.+..+.+.++++-+|-+....
T Consensus 44 ~~g~~G~~~~~a~Gaa~a~~---~~~vv~~~GDG~~~--~~-~~~l~ta~~~~~~~~~iv~nN~~~~~~~~~~~~~~~~~ 117 (168)
T cd00568 44 GFGAMGYGLPAAIGAALAAP---DRPVVCIAGDGGFM--MT-GQELATAVRYGLPVIVVVFNNGGYGTIRMHQEAFYGGR 117 (168)
T ss_pred CchhhhhhHHHHHHHHHhCC---CCcEEEEEcCcHHh--cc-HHHHHHHHHcCCCcEEEEEECCccHHHHHHHHHHcCCC
Confidence 33456666666555433222 35688888765431 12 36777788889988888886431
Q ss_pred --------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 --------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 --------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++++.-|..|..+.+.+++++.+.+..
T Consensus 118 ~~~~~~~~~d~~~~a~~~G~~~~~v~~~~~l~~a~~~a~ 156 (168)
T cd00568 118 VSGTDLSNPDFAALAEAYGAKGVRVEDPEDLEAALAEAL 156 (168)
T ss_pred cccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1256677778888888877888887776654
No 234
>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=40.77 E-value=2.8e+02 Score=25.29 Aligned_cols=88 Identities=10% Similarity=0.038 Sum_probs=55.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-+|-.|+-.--.. ..+++++|+|++.- . .++ +.+.++.+.++++-+|-+-...
T Consensus 50 g~mG~~lp~aiGa~la~---~~~~vv~i~GDG~f-~-~~~-~eL~ta~~~~lpi~ivV~nN~~~~~~~~~~~~~~~~~~~ 123 (186)
T cd02015 50 GTMGFGLPAAIGAKVAR---PDKTVICIDGDGSF-Q-MNI-QELATAAQYNLPVKIVILNNGSLGMVRQWQELFYEGRYS 123 (186)
T ss_pred cchhchHHHHHHHHHhC---CCCeEEEEEcccHH-h-ccH-HHHHHHHHhCCCeEEEEEECCccHHHHHHHHHHcCCcee
Confidence 34555555554432212 24568888876532 1 222 4477788889998888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|++.+....
T Consensus 124 ~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 161 (186)
T cd02015 124 HTTLDSNPDFVKLAEAYGIKGLRVEKPEELEAALKEAL 161 (186)
T ss_pred eccCCCCCCHHHHHHHCCCceEEeCCHHHHHHHHHHHH
Confidence 1245678888888888888888888876654
No 235
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=40.66 E-value=26 Score=26.80 Aligned_cols=45 Identities=22% Similarity=0.526 Sum_probs=27.8
Q ss_pred CccccccccccCCC-CCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSG-NKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 415 (425)
Q Consensus 364 ~~C~~C~~~~~~~~-~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~ 415 (425)
..|.-|.+.|+... ....-.|+| .||.+|-.-+- -+.||.|....
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfEC-----TFC~~C~e~~l--~~~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFEC-----TFCADCAETML--NGVCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeC-----cccHHHHHHHh--cCcCcCCCCcc
Confidence 36999999997542 111223555 47888854221 37899997643
No 236
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=40.62 E-value=14 Score=31.90 Aligned_cols=9 Identities=33% Similarity=0.996 Sum_probs=4.4
Q ss_pred ccccccccc
Q 014401 365 TCFGCQQSL 373 (425)
Q Consensus 365 ~C~~C~~~~ 373 (425)
.|..|...|
T Consensus 72 ~C~~Cg~~~ 80 (113)
T PRK12380 72 WCWDCSQVV 80 (113)
T ss_pred EcccCCCEE
Confidence 455555444
No 237
>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=40.62 E-value=19 Score=26.76 Aligned_cols=45 Identities=7% Similarity=-0.152 Sum_probs=31.2
Q ss_pred ccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCCCC
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHS 417 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~ 417 (425)
.|.-|...+.++ ....|++.||.+|=.-.-+.-..||-|......
T Consensus 3 ~Cpi~~~~~~~P--------v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 3 LCPISLEVMKDP--------VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred CCcCCCCcCCCC--------EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 477787666543 134688999999976554556789999765443
No 238
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=40.14 E-value=19 Score=25.35 Aligned_cols=42 Identities=21% Similarity=0.478 Sum_probs=29.4
Q ss_pred cccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
|-.|..++... ..+.=..|+..||..|=.-....-..||.|.
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 66777666211 1244568999999999776666777899885
No 239
>PHA02768 hypothetical protein; Provisional
Probab=39.98 E-value=21 Score=27.15 Aligned_cols=19 Identities=21% Similarity=0.606 Sum_probs=15.0
Q ss_pred CCCCCCceecCchhHHhhh
Q 014401 320 DCRICGLQLVSSPHLARSY 338 (425)
Q Consensus 320 ~C~~C~l~Lvs~phLarsy 338 (425)
+|+.||..+..+.||.+..
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~ 25 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHL 25 (55)
T ss_pred CcchhCCeeccHHHHHHHH
Confidence 5667888999999997653
No 240
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=39.86 E-value=1.5e+02 Score=32.54 Aligned_cols=91 Identities=8% Similarity=0.017 Sum_probs=61.7
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------- 231 (425)
|..+++-||-.|+..--..| .|++|+|+|++.- . .+. ..+.++.+.+++|-+|-+....
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---DRPVVGFAGDGAW-G-ISM-NEVMTAVRHNWPVTAVVFRNYQWGAEKKNQVDFYNNR 506 (588)
T ss_pred cccccccHHHHHHHHHHhCC---CCcEEEEEcCchH-h-ccH-HHHHHHHHhCCCeEEEEEeCchhHHHHHHHHHHhCCC
Confidence 33456666666655433222 4568888886532 1 222 4566899999998888875321
Q ss_pred ---------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 ---------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 ---------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.+||+..|+.+..+.+.++|+..+...+.
T Consensus 507 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 547 (588)
T PRK07525 507 FVGTELDNNVSYAGIAEAMGAEGVVVDTQEELGPALKRAID 547 (588)
T ss_pred cccccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 13466999999999999999999998877664
No 241
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=39.56 E-value=12 Score=33.30 Aligned_cols=23 Identities=26% Similarity=0.813 Sum_probs=17.7
Q ss_pred eEEcCCCCccccCC--CCCCCCCCc
Q 014401 304 GYTCPRCKARVCEL--PTDCRICGL 326 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l--P~~C~~C~l 326 (425)
++.||.|++..=+- -+.||+||.
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 89999999865542 258999994
No 242
>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=39.42 E-value=15 Score=31.77 Aligned_cols=24 Identities=25% Similarity=0.621 Sum_probs=11.8
Q ss_pred CccccccccccCCCCCCCcceeCCCCCc
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 391 (425)
..|..|...++... ..+.||+|++
T Consensus 71 ~~C~~Cg~~~~~~~----~~~~CP~Cgs 94 (115)
T TIGR00100 71 CECEDCSEEVSPEI----DLYRCPKCHG 94 (115)
T ss_pred EEcccCCCEEecCC----cCccCcCCcC
Confidence 35666665554221 1345665554
No 243
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=39.26 E-value=23 Score=40.20 Aligned_cols=37 Identities=19% Similarity=0.507 Sum_probs=26.1
Q ss_pred CCccccccccccCCCCC-CCcceeCCCCCcccccccch
Q 014401 363 RSTCFGCQQSLLSSGNK-PGLYVACPKCKKHFCLECDI 399 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~-~~~~~~C~~C~~~fC~dCD~ 399 (425)
...|..|.+.|..-... ..-++-|-+|+.+||..|--
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSS 497 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCIT 497 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCccccCccccC
Confidence 35799999999531100 01246799999999999974
No 244
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=38.92 E-value=36 Score=38.67 Aligned_cols=131 Identities=16% Similarity=0.315 Sum_probs=72.9
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCCccchhhhhhceeeec--CCCCC--
Q 014401 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMG--FPQRA-- 285 (425)
Q Consensus 210 ~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mG--FP~~~-- 285 (425)
-++..+++.+++ |.||+...-|...+..-.|.|-... |..=.. ...+|...--.++.....-| |+...
T Consensus 340 vA~~Ra~~~~~p---vvLgSATPSLES~~~~~~g~y~~~~----L~~R~~-~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~ 411 (730)
T COG1198 340 VAVLRAKKENAP---VVLGSATPSLESYANAESGKYKLLR----LTNRAG-RARLPRVEIIDMRKEPLETGRSLSPALLE 411 (730)
T ss_pred HHHHHHHHhCCC---EEEecCCCCHHHHHhhhcCceEEEE----cccccc-ccCCCcceEEeccccccccCccCCHHHHH
Confidence 357788888886 4678888888888888889777431 111111 12233322112222222222 33221
Q ss_pred ------CCCCcceeeecCCccccCeEE----cCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCC
Q 014401 286 ------GEGSISICSCHKEVKVGVGYT----CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCL 355 (425)
Q Consensus 286 ------~~~~~a~C~CH~~~~~~~Gy~----Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~ 355 (425)
..+-+++=|=.+ . ||. |..|+.+ .+||-|...|+ ||--
T Consensus 412 ~i~~~l~~geQ~llflnR----R-Gys~~l~C~~Cg~v-----~~Cp~Cd~~lt--------~H~~-------------- 459 (730)
T COG1198 412 AIRKTLERGEQVLLFLNR----R-GYAPLLLCRDCGYI-----AECPNCDSPLT--------LHKA-------------- 459 (730)
T ss_pred HHHHHHhcCCeEEEEEcc----C-CccceeecccCCCc-----ccCCCCCcceE--------EecC--------------
Confidence 113344433332 2 664 9888877 56999998863 3311
Q ss_pred CCCCCCCCCccccccccccCCCCCCCcceeCCCCCcc
Q 014401 356 NDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 356 ~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
...-.|--|..+-+ ....||.|++.
T Consensus 460 -----~~~L~CH~Cg~~~~-------~p~~Cp~Cgs~ 484 (730)
T COG1198 460 -----TGQLRCHYCGYQEP-------IPQSCPECGSE 484 (730)
T ss_pred -----CCeeEeCCCCCCCC-------CCCCCCCCCCC
Confidence 13447999985532 23679999875
No 245
>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=38.89 E-value=23 Score=35.38 Aligned_cols=36 Identities=28% Similarity=0.614 Sum_probs=27.2
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
..||-..+.+. ..|.|+.|.++||.-++. ..||-|.
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 47998886664 359999999999987652 1288884
No 246
>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=38.88 E-value=10 Score=31.54 Aligned_cols=37 Identities=30% Similarity=0.645 Sum_probs=26.7
Q ss_pred CCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccccccc
Q 014401 318 PTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLL 374 (425)
Q Consensus 318 P~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~ 374 (425)
++.|+.|+.+| ++.+|.|+-.|.-. .+.|.-|..+++
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 46788898886 45667777666542 568999987775
No 247
>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=38.70 E-value=20 Score=38.81 Aligned_cols=40 Identities=33% Similarity=0.820 Sum_probs=30.0
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCC----------cccccccchhhhccCCCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
....|..|.. ..+||.|. ...|..|. |-...-..||.|.+
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 34699998 45688888 55666789999986
No 248
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=38.62 E-value=69 Score=30.43 Aligned_cols=33 Identities=21% Similarity=0.414 Sum_probs=23.1
Q ss_pred eeeecCCccccCeEEcCCCCcccc----------CCCCCCCCCCce
Q 014401 292 ICSCHKEVKVGVGYTCPRCKARVC----------ELPTDCRICGLQ 327 (425)
Q Consensus 292 ~C~CH~~~~~~~Gy~Cp~C~s~~C----------~lP~~C~~C~l~ 327 (425)
..-+|+.+.. ..|+.|...+- ...+.|+.||-.
T Consensus 100 v~elHG~~~~---~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cg~~ 142 (218)
T cd01407 100 VIELHGSLFR---VRCTKCGKEYPRDELQADIDREEVPRCPKCGGL 142 (218)
T ss_pred EEECcCCcCc---ceeCCCcCCCcHHHHhHhhccCCCCcCCCCCCc
Confidence 6778876643 46888887653 245789999865
No 249
>cd02005 TPP_PDC_IPDC Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of pyruvate to acetaldehyde and CO2. It is able to utilize other 2-oxo acids as substrates. In plants and various plant-associated bacteria, IPDC plays a role in the indole-3-pyruvic acid (IPA) pathway, a tryptophan-dependent biosynthetic route to indole-3-acetaldehyde (IAA). IPDC catalyzes the decarboxylation of IPA to IAA. Both PDC and IPDC depend on TPP and Mg2+ as cofactors.
Probab=38.40 E-value=1.9e+02 Score=26.61 Aligned_cols=91 Identities=14% Similarity=0.092 Sum_probs=60.2
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch----------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---------------- 230 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e---------------- 230 (425)
+..+++.+|-.|+..=-..| .+.+++++|++.- -.+.++ +.++++.++++-+|-+-..
T Consensus 48 ~~g~mG~~l~~aiGaala~~---~~~vv~i~GDG~f--~~~~~e-l~ta~~~~~p~~ivV~nN~~~~~~~~~~~~~~~~~ 121 (183)
T cd02005 48 LWGSIGYSVPAALGAALAAP---DRRVILLVGDGSF--QMTVQE-LSTMIRYGLNPIIFLINNDGYTIERAIHGPEASYN 121 (183)
T ss_pred chhhHhhhHHHHHHHHHhCC---CCeEEEEECCchh--hccHHH-HHHHHHhCCCCEEEEEECCCcEEEEEeccCCcCcc
Confidence 33456666665555422222 3568888886543 234444 5678888888777766421
Q ss_pred ---HHHHHHHHHhhC----CeEEEecCHhHHHHHHHhcCC
Q 014401 231 ---MFICKHLCQDTG----GSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 231 ---~~iLk~iA~~TG----G~Y~~~~d~~~L~~lL~~~~~ 263 (425)
..-+.++|+..| +.|..+.+.++|.+.|.+...
T Consensus 122 ~~~~~d~~~ia~a~G~~~~~~~~~v~~~~el~~al~~a~~ 161 (183)
T cd02005 122 DIANWNYTKLPEVFGGGGGGLSFRVKTEGELDEALKDALF 161 (183)
T ss_pred cCCCCCHHHHHHHhCCCccccEEEecCHHHHHHHHHHHHh
Confidence 123678999998 588889999999999888764
No 250
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=38.37 E-value=1.1e+02 Score=25.58 Aligned_cols=73 Identities=19% Similarity=0.270 Sum_probs=46.9
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEecCHh------HHHHHHHh
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDES------HFKELIME 260 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL~~ 260 (425)
.-||||+-++. + .+..+.++.+.+.+.+|.+|-.... ...+....+...|.|+...|.+ .|..++..
T Consensus 27 ~~eiivvdd~s-~---d~~~~~~~~~~~~~~~i~~i~~~~n~g~~~~~n~~~~~a~~~~i~~ld~D~~~~~~~l~~l~~~ 102 (169)
T PF00535_consen 27 DFEIIVVDDGS-T---DETEEILEEYAESDPNIRYIRNPENLGFSAARNRGIKHAKGEYILFLDDDDIISPDWLEELVEA 102 (169)
T ss_dssp EEEEEEEECS--S---SSHHHHHHHHHCCSTTEEEEEHCCCSHHHHHHHHHHHH--SSEEEEEETTEEE-TTHHHHHHHH
T ss_pred CEEEEEecccc-c---cccccccccccccccccccccccccccccccccccccccceeEEEEeCCCceEcHHHHHHHHHH
Confidence 44676665442 2 2456777777777778888877754 4667777888888899766655 47777766
Q ss_pred cCCCCc
Q 014401 261 HAPPPP 266 (425)
Q Consensus 261 ~~~pp~ 266 (425)
+..+|+
T Consensus 103 ~~~~~~ 108 (169)
T PF00535_consen 103 LEKNPP 108 (169)
T ss_dssp HHHCTT
T ss_pred HHhCCC
Confidence 665443
No 251
>PHA00733 hypothetical protein
Probab=38.27 E-value=25 Score=31.03 Aligned_cols=33 Identities=24% Similarity=0.612 Sum_probs=26.4
Q ss_pred eEEcCCCCcccc------------CCCCCCCCCCceecCchhHHh
Q 014401 304 GYTCPRCKARVC------------ELPTDCRICGLQLVSSPHLAR 336 (425)
Q Consensus 304 Gy~Cp~C~s~~C------------~lP~~C~~C~l~Lvs~phLar 336 (425)
-|.|++|+..|- +-|-.|+.|+-.+....+|.+
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 689999986654 235699999999999988865
No 252
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=38.01 E-value=16 Score=31.89 Aligned_cols=26 Identities=31% Similarity=0.638 Sum_probs=17.0
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
...|.-|+..+.. +...|.||+|++.
T Consensus 70 ~~~C~~C~~~~~~----e~~~~~CP~C~s~ 95 (115)
T COG0375 70 ECWCLDCGQEVEL----EELDYRCPKCGSI 95 (115)
T ss_pred EEEeccCCCeecc----hhheeECCCCCCC
Confidence 4568888766642 2345668888864
No 253
>KOG2327 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku70 autoantigen) [Replication, recombination and repair]
Probab=37.90 E-value=5.2e+02 Score=28.83 Aligned_cols=51 Identities=16% Similarity=0.377 Sum_probs=40.4
Q ss_pred eEEEEEeCCHhhhcCC---CCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeec
Q 014401 88 YLYIVIDLSRAAAEMD---FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVK 138 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D---~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~ 138 (425)
.+.+++|+|+||...+ +.++-|..++..+....-...-.||...+|++-+.
T Consensus 20 ~ilfvi~~~~s~~~~~~~e~~lspl~~~L~~~~~l~~~~vitn~~~~~~v~~y~ 73 (602)
T KOG2327|consen 20 AILFVIDVNPSMKAEEPDEFKLSPLKMILDCIDRLCIQLVITNPIDSVGVLFYG 73 (602)
T ss_pred ceEEEEecCHHhhccCcccchhhhHHHHHHHHHHHHhheeecCCCCccceEeec
Confidence 4689999999997654 35777888888877777677778999999998874
No 254
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=37.78 E-value=15 Score=27.23 Aligned_cols=27 Identities=22% Similarity=0.575 Sum_probs=17.0
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
.|.|-.|+..| +.---...--||.|.+
T Consensus 6 ~Y~C~~Cg~~~----~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 6 EYKCARCGREV----ELDQETRGIRCPYCGS 32 (49)
T ss_pred EEEhhhcCCee----ehhhccCceeCCCCCc
Confidence 47777777777 3333444556777765
No 255
>PRK06450 threonine synthase; Validated
Probab=37.64 E-value=21 Score=36.48 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=28.7
Q ss_pred eEEcCCCCccccCC-CCCCCCCCceecCchhHHh---hhcccCCCC
Q 014401 304 GYTCPRCKARVCEL-PTDCRICGLQLVSSPHLAR---SYHHLFPIA 345 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l-P~~C~~C~l~Lvs~phLar---syhhlfp~~ 345 (425)
+|.|++|+..|=.. +..|+-||-.|....++.+ ..+.++|+.
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 113566764
No 256
>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=36.97 E-value=1.4e+02 Score=27.04 Aligned_cols=69 Identities=13% Similarity=0.198 Sum_probs=46.3
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------------------------HHHHHHHHHhhCCeE
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------------------------MFICKHLCQDTGGSY 245 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-------------------------~~iLk~iA~~TGG~Y 245 (425)
|+|+.|+|++.- -.+ ...+.++.+.+++|-+|-+... ..-..++|+.-|+.+
T Consensus 69 ~~Vv~i~GDGsf--~m~-~~eL~ta~~~~l~v~ivVlNN~~~g~~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~ 145 (175)
T cd02009 69 KPTVLLTGDLSF--LHD-LNGLLLGKQEPLNLTIVVINNNGGGIFSLLPQASFEDEFERLFGTPQGLDFEHLAKAYGLEY 145 (175)
T ss_pred CCEEEEEehHHH--HHh-HHHHHhccccCCCeEEEEEECCCCchheeccCCcccchhhhhhcCCCCCCHHHHHHHcCCCe
Confidence 457777775321 011 1455666777887777766421 012567899999999
Q ss_pred EEecCHhHHHHHHHhcC
Q 014401 246 SVALDESHFKELIMEHA 262 (425)
Q Consensus 246 ~~~~d~~~L~~lL~~~~ 262 (425)
..+.+.++|+..|.+..
T Consensus 146 ~~v~~~~el~~al~~a~ 162 (175)
T cd02009 146 RRVSSLDELEQALESAL 162 (175)
T ss_pred eeCCCHHHHHHHHHHHH
Confidence 99999999999888775
No 257
>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=36.57 E-value=3.1e+02 Score=24.51 Aligned_cols=88 Identities=15% Similarity=0.064 Sum_probs=55.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H---------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~-~--------------- 232 (425)
.+++.+|-.|+-.--..| .+++++++|+..- . ... +.+..+.+.++++-+|-+.... .
T Consensus 49 g~mG~~lp~aiGaala~~---~~~vv~i~GDG~f-~-~~~-~el~ta~~~~~p~~~iV~nN~~~~~~~~~~~~~~~~~~~ 122 (178)
T cd02002 49 GGLGWGLPAAVGAALANP---DRKVVAIIGDGSF-M-YTI-QALWTAARYGLPVTVVILNNRGYGALRSFLKRVGPEGPG 122 (178)
T ss_pred ccccchHHHHHHHHhcCC---CCeEEEEEcCchh-h-ccH-HHHHHHHHhCCCeEEEEEcCccHHHHHHHHHHHcCCCcc
Confidence 555555555554432222 4568888886542 1 222 4677788889988888775431 1
Q ss_pred --------------HHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 233 --------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 --------------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
-+.++|+.-|..|..+.+.++|.+.+.+..
T Consensus 123 ~~~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 166 (178)
T cd02002 123 ENAPDGLDLLDPGIDFAAIAKAFGVEAERVETPEELDEALREAL 166 (178)
T ss_pred cccccccccCCCCCCHHHHHHHcCCceEEeCCHHHHHHHHHHHH
Confidence 144577777788887777778877776654
No 258
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=36.52 E-value=12 Score=38.55 Aligned_cols=15 Identities=60% Similarity=1.382 Sum_probs=14.0
Q ss_pred eEEcCCCCccccCCC
Q 014401 304 GYTCPRCKARVCELP 318 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP 318 (425)
+|.||||++.+|+|-
T Consensus 29 KYkCPRCl~rtCsLe 43 (390)
T KOG2858|consen 29 KYKCPRCLARTCSLE 43 (390)
T ss_pred cccCcchhhhheecc
Confidence 899999999999884
No 259
>PRK05580 primosome assembly protein PriA; Validated
Probab=36.51 E-value=32 Score=38.58 Aligned_cols=63 Identities=21% Similarity=0.423 Sum_probs=40.3
Q ss_pred cceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccc
Q 014401 290 ISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGC 369 (425)
Q Consensus 290 ~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C 369 (425)
+++-+..++--.. ...|..|+.. ..|+-|+..| +||.- . ..-.|.-|
T Consensus 368 qvll~~nrrGy~~-~~~C~~Cg~~-----~~C~~C~~~l--------~~h~~------~-------------~~l~Ch~C 414 (679)
T PRK05580 368 QVLLFLNRRGYAP-FLLCRDCGWV-----AECPHCDASL--------TLHRF------Q-------------RRLRCHHC 414 (679)
T ss_pred eEEEEEcCCCCCC-ceEhhhCcCc-----cCCCCCCCce--------eEECC------C-------------CeEECCCC
Confidence 5566666543333 5579888765 7899999987 34421 0 23369999
Q ss_pred cccccCCCCCCCcceeCCCCCcc
Q 014401 370 QQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 370 ~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
....+. ...||.|++.
T Consensus 415 g~~~~~-------~~~Cp~Cg~~ 430 (679)
T PRK05580 415 GYQEPI-------PKACPECGST 430 (679)
T ss_pred cCCCCC-------CCCCCCCcCC
Confidence 755432 3569999875
No 260
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=36.43 E-value=19 Score=36.57 Aligned_cols=25 Identities=24% Similarity=0.579 Sum_probs=20.3
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCccccc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 395 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 395 (425)
-..|-.|.+++. .|.||+|+-.||-
T Consensus 7 ~~~C~ic~vq~~--------~YtCPRCn~~YCs 31 (383)
T KOG4317|consen 7 FLACGICGVQKR--------EYTCPRCNLLYCS 31 (383)
T ss_pred eeeccccccccc--------cccCCCCCcccee
Confidence 347899987763 5999999999994
No 261
>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=36.31 E-value=24 Score=38.20 Aligned_cols=49 Identities=24% Similarity=0.586 Sum_probs=32.7
Q ss_pred EEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcce
Q 014401 305 YTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYV 384 (425)
Q Consensus 305 y~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~ 384 (425)
..|..|+.. ..|+-|+..|+ ||-- ...-.|.-|....+- ..
T Consensus 214 ~~C~~Cg~~-----~~C~~C~~~l~--------~h~~-------------------~~~l~Ch~Cg~~~~~-------~~ 254 (505)
T TIGR00595 214 LLCRSCGYI-----LCCPNCDVSLT--------YHKK-------------------EGKLRCHYCGYQEPI-------PK 254 (505)
T ss_pred eEhhhCcCc-----cCCCCCCCceE--------EecC-------------------CCeEEcCCCcCcCCC-------CC
Confidence 379988765 78999998773 4411 023369999755432 35
Q ss_pred eCCCCCcc
Q 014401 385 ACPKCKKH 392 (425)
Q Consensus 385 ~C~~C~~~ 392 (425)
.||.|++.
T Consensus 255 ~Cp~C~s~ 262 (505)
T TIGR00595 255 TCPQCGSE 262 (505)
T ss_pred CCCCCCCC
Confidence 79999874
No 262
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=36.28 E-value=2.4e+02 Score=27.39 Aligned_cols=60 Identities=8% Similarity=0.065 Sum_probs=35.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I~V~vIglg~ 229 (425)
..+.+|+++|++.++...+-..+.|.++..+ +..||....+.++.+... +|..-+.+.+.
T Consensus 18 ~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D-~~~d~~~~~~~~~~l~~~~~v~avig~~~s 78 (336)
T cd06326 18 RAYRAGAQAYFDAVNAAGGVNGRKIELVTLD-DGYEPERTVANTRKLIEDDKVFALFGYVGT 78 (336)
T ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEEeC-CCCChHHHHHHHHHHHhhcCcEEEEeCCCc
Confidence 4567888888888876544334556666544 233555555667777764 66544443443
No 263
>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=36.16 E-value=9.8 Score=25.35 Aligned_cols=8 Identities=38% Similarity=1.356 Sum_probs=3.7
Q ss_pred ceeCCCCC
Q 014401 383 YVACPKCK 390 (425)
Q Consensus 383 ~~~C~~C~ 390 (425)
.|.||.|+
T Consensus 19 ~~vCp~C~ 26 (30)
T PF08274_consen 19 LLVCPECG 26 (30)
T ss_dssp SEEETTTT
T ss_pred EEeCCccc
Confidence 34444444
No 264
>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=36.02 E-value=2.2e+02 Score=31.12 Aligned_cols=88 Identities=9% Similarity=0.001 Sum_probs=58.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+|+-||-.|+..=-. ...|++++|.|++.- . .+ ...+.++.+++++|-+|-+-...
T Consensus 408 gsmG~glpaAiGa~la---~p~r~Vv~i~GDGsf-~-m~-~~eL~Tavr~~lpi~~VV~NN~~yg~i~~~~~~~~~~~~~ 481 (575)
T TIGR02720 408 ATMGVGVPGAIAAKLN---YPDRQVFNLAGDGAF-S-MT-MQDLLTQVQYHLPVINIVFSNCTYGFIKDEQEDTNQPLIG 481 (575)
T ss_pred chhhchHHHHHHHHHh---CCCCcEEEEEcccHH-H-hh-HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhCCCccc
Confidence 4555555555543222 224668888886532 1 11 24578899999999888665321
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-..++|+..|+.+..+.+.++|.+.+.+..
T Consensus 482 ~~~~~~df~~iA~a~G~~~~~v~~~~el~~al~~a~ 517 (575)
T TIGR02720 482 VDFNDADFAKIAEGVGAVGFRVNKIEQLPAVFEQAK 517 (575)
T ss_pred ccCCCCCHHHHHHHCCCEEEEeCCHHHHHHHHHHHH
Confidence 1156788888889888888888888887765
No 265
>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=36.00 E-value=9.8 Score=32.76 Aligned_cols=10 Identities=20% Similarity=0.644 Sum_probs=4.9
Q ss_pred cccccccccc
Q 014401 365 TCFGCQQSLL 374 (425)
Q Consensus 365 ~C~~C~~~~~ 374 (425)
.|..|...|+
T Consensus 72 ~C~~Cg~~~~ 81 (113)
T PF01155_consen 72 RCRDCGHEFE 81 (113)
T ss_dssp EETTTS-EEE
T ss_pred ECCCCCCEEe
Confidence 4555655553
No 266
>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=35.90 E-value=2e+02 Score=31.54 Aligned_cols=88 Identities=10% Similarity=0.060 Sum_probs=59.7
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----~------------ 232 (425)
.+++-||-.|+..--..| .|+|+.|+|++.- . .. ...+.++++.|++|-+|-+.... .
T Consensus 418 gsmG~glpaaiGa~lA~p---dr~Vv~i~GDG~f-~-m~-~~EL~Ta~r~~lpvv~iV~NN~~yg~i~~~q~~~~~~~~~ 491 (588)
T TIGR01504 418 GPLGWTIPAALGVCAADP---KRNVVALSGDYDF-Q-FM-IEELAVGAQHNIPYIHVLVNNAYLGLIRQAQRAFDMDYCV 491 (588)
T ss_pred ccccchHhHHHhhhhhCC---CCcEEEEEcchHh-h-cc-HHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcccccc
Confidence 455555555555432222 4678888886431 0 11 25688999999999999886421 0
Q ss_pred -----------------HHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 233 -----------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 -----------------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
-+.++|+.-|+.+..+.+.++|+..|...+
T Consensus 492 ~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 538 (588)
T TIGR01504 492 QLAFENINSSEVNGYGVDHVKVAEGLGCKAIRVFKPEEIAPAFEQAK 538 (588)
T ss_pred eeeccccccccccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 145688888999999999999998888775
No 267
>PTZ00062 glutaredoxin; Provisional
Probab=35.64 E-value=4e+02 Score=25.40 Aligned_cols=96 Identities=8% Similarity=0.179 Sum_probs=57.2
Q ss_pred EEeecCCceEEeeCCCC-CHHHHHHHHhhhhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEE-eCCC--CCCccCHH
Q 014401 134 LVTVKDGVANCLTDLGG-SPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILY-SALS--TCDPGDIM 209 (425)
Q Consensus 134 vI~~~~g~A~~lspLT~-d~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~-~s~~--t~dp~~i~ 209 (425)
+|.|++|+ .+--+++ |+.++...|.......+. +...+...++++. ..|+|++ |+.+ .| +.-.
T Consensus 66 fv~~~~g~--~i~r~~G~~~~~~~~~~~~~~~~~~~---~~~~~~v~~li~~------~~Vvvf~Kg~~~~p~C--~~C~ 132 (204)
T PTZ00062 66 FEFYQNSQ--LINSLEGCNTSTLVSFIRGWAQKGSS---EDTVEKIERLIRN------HKILLFMKGSKTFPFC--RFSN 132 (204)
T ss_pred EEEEECCE--EEeeeeCCCHHHHHHHHHHHcCCCCH---HHHHHHHHHHHhc------CCEEEEEccCCCCCCC--hhHH
Confidence 55666554 3455555 788888888765433221 2233333334433 2366665 4332 23 2345
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhC
Q 014401 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 242 (425)
Q Consensus 210 ~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TG 242 (425)
.+.+.+++.+|....+-+..+..+-+.+-+.||
T Consensus 133 ~~k~~L~~~~i~y~~~DI~~d~~~~~~l~~~sg 165 (204)
T PTZ00062 133 AVVNMLNSSGVKYETYNIFEDPDLREELKVYSN 165 (204)
T ss_pred HHHHHHHHcCCCEEEEEcCCCHHHHHHHHHHhC
Confidence 789999999999999888877666666666655
No 268
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=35.54 E-value=32 Score=33.31 Aligned_cols=40 Identities=25% Similarity=0.646 Sum_probs=27.9
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCCCCCCCCCCccccCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVANE 424 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~~~~~ 424 (425)
.++|.+|+..+-. +-++...+..||.|....+++++.-+|
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 3568888777643 345555677799999888888775544
No 269
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=35.28 E-value=17 Score=44.16 Aligned_cols=24 Identities=46% Similarity=1.043 Sum_probs=18.7
Q ss_pred eEEcCCCCccccCCC-------------CCCCCCCceec
Q 014401 304 GYTCPRCKARVCELP-------------TDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-------------~~C~~C~l~Lv 329 (425)
.|+||.|+ +.++. -.||.||..|.
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 66653 36999999853
No 270
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=35.27 E-value=2.3e+02 Score=30.66 Aligned_cols=90 Identities=12% Similarity=0.041 Sum_probs=61.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| ..|+||+|+|++.- . .+ .+.+.++++.++++-+|-+....
T Consensus 396 g~mG~glpaaiGa~la~p--~~~~Vv~i~GDGsf-~-~~-~~eL~Ta~~~~lpi~ivV~NN~~~g~i~~~q~~~~~~~~~ 470 (549)
T PRK06457 396 GSMGIGVPGSVGASFAVE--NKRQVISFVGDGGF-T-MT-MMELITAKKYDLPVKIIIYNNSKLGMIKFEQEVMGYPEWG 470 (549)
T ss_pred chhhhhHHHHHHHHhcCC--CCCeEEEEEcccHH-h-hh-HHHHHHHHHHCCCeEEEEEECCccchHHHHHHHhcCCccc
Confidence 456556655555432222 14679999887532 0 11 24577899999998888775321
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.|..+.+.++|+..+...+.
T Consensus 471 ~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 507 (549)
T PRK06457 471 VDLYNPDFTKIAESIGFKGFRLEEPKEAEEIIEEFLN 507 (549)
T ss_pred ccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 12678999999999999999999998887763
No 271
>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=35.24 E-value=12 Score=29.77 Aligned_cols=33 Identities=27% Similarity=0.600 Sum_probs=19.3
Q ss_pred ecCCccccC-eEEcCCCCccccCCCCCCCCCCcee
Q 014401 295 CHKEVKVGV-GYTCPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 295 CH~~~~~~~-Gy~Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
||..+...+ .|.|+.|..-|= +-..||.|+-.|
T Consensus 7 C~~~L~~~~~~~~C~~C~~~~~-~~a~CPdC~~~L 40 (70)
T PF07191_consen 7 CQQELEWQGGHYHCEACQKDYK-KEAFCPDCGQPL 40 (70)
T ss_dssp S-SBEEEETTEEEETTT--EEE-EEEE-TTT-SB-
T ss_pred CCCccEEeCCEEECccccccce-ecccCCCcccHH
Confidence 676665443 899999999764 346799998764
No 272
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=35.14 E-value=23 Score=30.55 Aligned_cols=24 Identities=29% Similarity=0.775 Sum_probs=17.5
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCCC
Q 014401 386 CPKCKKHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
||+|.+.|-. -...+..||-|..-
T Consensus 5 CP~C~seytY-----~dg~~~iCpeC~~E 28 (109)
T TIGR00686 5 CPKCNSEYTY-----HDGTQLICPSCLYE 28 (109)
T ss_pred CCcCCCcceE-----ecCCeeECcccccc
Confidence 8888888754 36667888888763
No 273
>PF11181 YflT: Heat induced stress protein YflT
Probab=35.02 E-value=66 Score=26.93 Aligned_cols=75 Identities=16% Similarity=0.161 Sum_probs=46.0
Q ss_pred cCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014401 206 GDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 206 ~~i~~ti~~akk~~I~V~vIglg~-e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~mGFP~~ 284 (425)
..+..+|+.|+.+|..=+=|.|=+ +..-+..|++.|+ ..-+...+..+-+-+..+++. .....+..|..||||..
T Consensus 10 ~E~~~~I~~L~~~Gy~~ddI~Vva~d~~~~~~l~~~t~-~~~~~~~~~~~~d~~~~~f~~---~~d~~~~~l~~lGl~~~ 85 (103)
T PF11181_consen 10 EEALSAIEELKAQGYSEDDIYVVAKDKDRTERLADQTD-TNTVGASEESFWDKIKNFFTS---GGDELRSKLESLGLSED 85 (103)
T ss_pred HHHHHHHHHHHHcCCCcccEEEEEcCchHHHHHHHhcC-CceeccccccHHHHHHHhccC---CcHHHHHHHHHcCCCHH
Confidence 356678888888888644333333 5566788888883 333333445566656666651 11345578889999864
No 274
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=34.97 E-value=18 Score=41.26 Aligned_cols=44 Identities=27% Similarity=0.622 Sum_probs=30.7
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccccccchhh------hccCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI------HESLHNCPGCE 412 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fi------He~lh~CPgC~ 412 (425)
...|..|.+.+-. ..|+|++|+..+|.+|---- -|..-.|++|-
T Consensus 229 ~~mC~~C~~tlfn------~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~ 278 (889)
T KOG1356|consen 229 REMCDRCETTLFN------IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSW 278 (889)
T ss_pred chhhhhhcccccc------eeEEccccCCeeeecchhhccccchHhHhhhhhhHHH
Confidence 4589999865531 36999999999999996433 24444555553
No 275
>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=34.94 E-value=3.1e+02 Score=24.29 Aligned_cols=63 Identities=14% Similarity=0.231 Sum_probs=45.2
Q ss_pred EEEEeCCCCCCccCHH-HHHHHHHhCC--cEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhc
Q 014401 194 LILYSALSTCDPGDIM-ETIQKCKESK--IRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~-~ti~~akk~~--I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
|.|+|+- |+|= +|++-++++. ++|..++-+.....|.+.+++-+=.|.+..|+..+..+-...
T Consensus 1 i~ILGsT-----GSIG~qtLdVi~~~~d~f~v~~Lsa~~n~~~L~~q~~~f~p~~v~i~~~~~~~~l~~~~ 66 (129)
T PF02670_consen 1 IAILGST-----GSIGTQTLDVIRKHPDKFEVVALSAGSNIEKLAEQAREFKPKYVVIADEEAYEELKKAL 66 (129)
T ss_dssp EEEESTT-----SHHHHHHHHHHHHCTTTEEEEEEEESSTHHHHHHHHHHHT-SEEEESSHHHHHHHHHHH
T ss_pred CEEEcCC-----cHHHHHHHHHHHhCCCceEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHHHHHh
Confidence 4566652 4553 6788888877 666666667788999999999999999998887665554433
No 276
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=34.73 E-value=18 Score=42.89 Aligned_cols=40 Identities=38% Similarity=0.755 Sum_probs=27.3
Q ss_pred eEEcCCCCcccc----------CCC-CCCCCCCceecCchhHHhhhcccCCCCCCccc
Q 014401 304 GYTCPRCKARVC----------ELP-TDCRICGLQLVSSPHLARSYHHLFPIAPFDEV 350 (425)
Q Consensus 304 Gy~Cp~C~s~~C----------~lP-~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~ 350 (425)
.|+||.|+---+ .|| -.||.||..|. ---|-.|-..|--.
T Consensus 914 HY~Cp~Cky~Ef~~d~svgsGfDLpdK~CPkCg~pl~-------kDG~dIPFETFlGF 964 (1444)
T COG2176 914 HYLCPECKYSEFIDDGSVGSGFDLPDKDCPKCGTPLK-------KDGHDIPFETFLGF 964 (1444)
T ss_pred cccCCCCceeeeecCCCcCCCCCCCCCCCCcCCCccc-------cCCCCCChhhhcCC
Confidence 899999964222 244 38999999863 33567787777543
No 277
>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=34.71 E-value=18 Score=22.47 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=19.2
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 014401 384 VACPKCKKHFCLECDIYIHESLH 406 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD~fiHe~lh 406 (425)
|+|..|++.|-..=+...|-..|
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 78999999998888888887555
No 278
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=34.65 E-value=21 Score=31.02 Aligned_cols=9 Identities=22% Similarity=0.818 Sum_probs=4.7
Q ss_pred ccccccccc
Q 014401 365 TCFGCQQSL 373 (425)
Q Consensus 365 ~C~~C~~~~ 373 (425)
.|..|...|
T Consensus 73 ~C~~Cg~~~ 81 (117)
T PRK00564 73 ECKDCSHVF 81 (117)
T ss_pred EhhhCCCcc
Confidence 455555444
No 279
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=34.64 E-value=18 Score=25.28 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=14.9
Q ss_pred cccccccccCCCCCCCcceeCCCCCccc
Q 014401 366 CFGCQQSLLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 366 C~~C~~~~~~~~~~~~~~~~C~~C~~~f 393 (425)
|-.|...+..........+.|++|+-.+
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 6666655533222223356788887654
No 280
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=34.62 E-value=3.6e+02 Score=25.89 Aligned_cols=117 Identities=15% Similarity=0.232 Sum_probs=68.8
Q ss_pred EEEEeCCHhhhcCCCCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCCcc
Q 014401 90 YIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDS 169 (425)
Q Consensus 90 vlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G~t 169 (425)
||+||.|+. . | -.........||.+|-++||.++|-..-.. .+.+--|+ .+.+.+......+.+.+
T Consensus 4 vL~I~as~~-~--~-----~S~S~~l~~~Fi~~yk~~~P~dev~~~DL~---~e~iP~ld---~~~~~a~~~~~~~~~t~ 69 (202)
T COG1182 4 VLVIKASPL-G--E-----NSVSRKLADEFIETYKEKHPNDEVIERDLA---AEPIPHLD---EELLAAWFKPQAGEGTA 69 (202)
T ss_pred EEEEecCCC-c--c-----ccHHHHHHHHHHHHHHHhCCCCeEEEeecc---cCCCcccC---HHHHhcccCCccCCCCH
Confidence 677887765 2 2 234566788999999999999998766553 22222222 12222222211222346
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCC-ccCHHHHHHHHHhCCcEEE
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCD-PGDIMETIQKCKESKIRCS 223 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~d-p~~i~~ti~~akk~~I~V~ 223 (425)
+-+..++.+-.++...- ..- .+||.....+.. |..+.+-|+.+...|....
T Consensus 70 ~~~~~~~~sd~l~~ef~--aAD-~vVi~~PM~Nf~iPa~LK~yiD~i~~aGkTFk 121 (202)
T COG1182 70 EEKEALARSDKLLEEFL--AAD-KVVIAAPMYNFNIPAQLKAYIDHIAVAGKTFK 121 (202)
T ss_pred HHHHHHHHHHHHHHHHH--hcC-eEEEEecccccCCCHHHHHHHHHHhcCCceEE
Confidence 78888888888887641 122 455544444422 3334455888888888766
No 281
>PLN02470 acetolactate synthase
Probab=34.49 E-value=1.7e+02 Score=31.99 Aligned_cols=87 Identities=10% Similarity=0.045 Sum_probs=58.2
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~------------------ 231 (425)
+++-||-.|+..=-..| .|+|++|.|++.- . .+ .+.+.++.+.|++|-+|-+....
T Consensus 427 ~mG~glpaaiGa~la~p---~~~Vv~i~GDG~f-~-m~-~~eL~Ta~~~~l~v~ivV~NN~~yg~i~~~~~~~~~~~~~~ 500 (585)
T PLN02470 427 AMGFGLPAAIGAAAANP---DAIVVDIDGDGSF-I-MN-IQELATIHVENLPVKIMVLNNQHLGMVVQWEDRFYKANRAH 500 (585)
T ss_pred cccchHHHHHHHHHhCC---CCcEEEEEccchh-h-cc-HHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHHhCCceee
Confidence 44445544444322222 4568888886431 1 11 25688899999998888775321
Q ss_pred -------------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.+..+.+.++|...|....
T Consensus 501 ~~~~~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~el~~al~~a~ 544 (585)
T PLN02470 501 TYLGDPDAEAEIFPDFLKFAEGCKIPAARVTRKSDLREAIQKML 544 (585)
T ss_pred eecCccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1357789999999999999999998887775
No 282
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.07 E-value=16 Score=36.77 Aligned_cols=50 Identities=26% Similarity=0.527 Sum_probs=40.9
Q ss_pred ccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCCCCCCCcccc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVA 422 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~~~ 422 (425)
.|+-|...|..+. =.+|+++||--|-+-=+-.---|+-|..+++++--+|
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 3489999999999888887789999998888765444
No 283
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=33.76 E-value=17 Score=31.62 Aligned_cols=22 Identities=27% Similarity=0.839 Sum_probs=9.2
Q ss_pred cCCCCccccCCCCCCCCCCcee
Q 014401 307 CPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 307 Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
||+|+...=----.|+.|++++
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 4444443222223444555443
No 284
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=33.73 E-value=21 Score=30.84 Aligned_cols=6 Identities=50% Similarity=1.686 Sum_probs=3.2
Q ss_pred CCCCCC
Q 014401 408 CPGCES 413 (425)
Q Consensus 408 CPgC~~ 413 (425)
||.|.+
T Consensus 90 CP~Cgs 95 (114)
T PRK03681 90 CPQCHG 95 (114)
T ss_pred CcCcCC
Confidence 555553
No 285
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=33.71 E-value=3.9e+02 Score=28.77 Aligned_cols=91 Identities=14% Similarity=0.069 Sum_probs=50.3
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--------HHHHHHHHHhhC--CeEEE-ecCHhHHHHHH
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--------MFICKHLCQDTG--GSYSV-ALDESHFKELI 258 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e--------~~iLk~iA~~TG--G~Y~~-~~d~~~L~~lL 258 (425)
.|++. ++++ |.-....+..+.+.|+.+-.+|.... ...++++++..| |...+ -.|..++.+.+
T Consensus 314 GKrva-i~Gd-----p~~~i~LarfL~elGmevV~vgt~~~~~~~~~~d~~~l~~~~~~~~~~~~vive~~D~~el~~~i 387 (457)
T CHL00073 314 GKSVF-FMGD-----NLLEISLARFLIRCGMIVYEIGIPYMDKRYQAAELALLEDTCRKMNVPMPRIVEKPDNYNQIQRI 387 (457)
T ss_pred CCEEE-EECC-----CcHHHHHHHHHHHCCCEEEEEEeCCCChhhhHHHHHHHHHHhhhcCCCCcEEEeCCCHHHHHHHH
Confidence 34565 6654 23345678899999999888877642 123333333221 44433 34555555554
Q ss_pred HhcCCCCccch-hhhhhceeeecCCCCCCC
Q 014401 259 MEHAPPPPAIA-EFAIANLIKMGFPQRAGE 287 (425)
Q Consensus 259 ~~~~~pp~~~~-~~~~~~Li~mGFP~~~~~ 287 (425)
... .|.-.-. -...-+|++.|||.+...
T Consensus 388 ~~~-~pDLlIgG~~~~~Pl~~~G~p~~d~~ 416 (457)
T CHL00073 388 REL-QPDLAITGMAHANPLEARGINTKWSV 416 (457)
T ss_pred hhC-CCCEEEccccccCchhhcCCcceEec
Confidence 332 2222211 123358999999998654
No 286
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=33.70 E-value=2e+02 Score=31.05 Aligned_cols=88 Identities=9% Similarity=0.004 Sum_probs=60.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-.. ..++|++|+|++.- . .+ .+.+.++++.+++|-+|-+-...
T Consensus 401 g~mG~glpaAiGa~la~---p~~~vv~i~GDG~f-~-~~-~~eL~ta~~~~l~v~ivV~NN~~~~~~~~~~~~~~~~~~~ 474 (548)
T PRK08978 401 GTMGFGLPAAIGAQVAR---PDDTVICVSGDGSF-M-MN-VQELGTIKRKQLPVKIVLLDNQRLGMVRQWQQLFFDERYS 474 (548)
T ss_pred hhhhchHHHHHHHHHhC---CCCcEEEEEccchh-h-cc-HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCcce
Confidence 45555666555542222 24579999887532 1 11 25678889999998888875320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.|+.+.+.++|++.|....
T Consensus 475 ~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (548)
T PRK08978 475 ETDLSDNPDFVMLASAFGIPGQTITRKDQVEAALDTLL 512 (548)
T ss_pred ecCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1267789999999999999999999887775
No 287
>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=33.69 E-value=21 Score=20.78 Aligned_cols=20 Identities=30% Similarity=0.668 Sum_probs=11.4
Q ss_pred eeCCCCCcccccccchhhhc
Q 014401 384 VACPKCKKHFCLECDIYIHE 403 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD~fiHe 403 (425)
|.|+.|+..|=.--++--|.
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 67888888775555444443
No 288
>PHA00616 hypothetical protein
Probab=33.56 E-value=12 Score=27.11 Aligned_cols=15 Identities=20% Similarity=0.479 Sum_probs=12.0
Q ss_pred eeCCCCCcccccccc
Q 014401 384 VACPKCKKHFCLECD 398 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD 398 (425)
|+|+.|+..|..-=+
T Consensus 2 YqC~~CG~~F~~~s~ 16 (44)
T PHA00616 2 YQCLRCGGIFRKKKE 16 (44)
T ss_pred CccchhhHHHhhHHH
Confidence 899999999975433
No 289
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=33.48 E-value=1.8e+02 Score=28.64 Aligned_cols=36 Identities=11% Similarity=0.112 Sum_probs=17.9
Q ss_pred EEEEEeCCCCCCccCHH---HHHHHHHhCCcEEEEEEec
Q 014401 193 VLILYSALSTCDPGDIM---ETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 193 ILVI~~s~~t~dp~~i~---~ti~~akk~~I~V~vIglg 228 (425)
|.||+|+.++.....+. .+++.+++.|.++..|...
T Consensus 3 v~v~~gg~s~e~~~sl~s~~~i~~al~~~g~~~~~i~~~ 41 (299)
T PRK14571 3 VALLMGGVSREREISLRSGERVKKALEKLGYEVTVFDVD 41 (299)
T ss_pred EEEEeCCCCCCccchHHHHHHHHHHHHHcCCeEEEEccC
Confidence 55666554432222222 3455556666666655543
No 290
>PRK06112 acetolactate synthase catalytic subunit; Validated
Probab=33.07 E-value=1.9e+02 Score=31.46 Aligned_cols=88 Identities=8% Similarity=0.061 Sum_probs=60.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.+|-.|+..-... ..+++++|+|++.- . .. .+.+.++++.|++|-+|-+....
T Consensus 437 gsmG~~l~~aiGa~la~---~~~~vv~i~GDGsf-~-~~-~~el~ta~~~~l~~~~vv~NN~~~g~~~~~~~~~~~~~~~ 510 (578)
T PRK06112 437 AGLGWGVPMAIGAKVAR---PGAPVICLVGDGGF-A-HV-WAELETARRMGVPVTIVVLNNGILGFQKHAETVKFGTHTD 510 (578)
T ss_pred cccccHHHHHHHHHhhC---CCCcEEEEEcchHH-H-hH-HHHHHHHHHhCCCeEEEEEeCCccCCEEeccccccCCccc
Confidence 45666666665542222 24568888887532 1 11 25677789999998888775320
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|+..|....
T Consensus 511 ~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 547 (578)
T PRK06112 511 ACHFAAVDHAAIARACGCDGVRVEDPAELAQALAAAM 547 (578)
T ss_pred cCcCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1257899999999999999999999888765
No 291
>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=32.95 E-value=20 Score=42.96 Aligned_cols=24 Identities=50% Similarity=1.161 Sum_probs=18.3
Q ss_pred eEEcCCCCccccCC------------C-CCCCCCCceec
Q 014401 304 GYTCPRCKARVCEL------------P-TDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l------------P-~~C~~C~l~Lv 329 (425)
.|+||.|+ +.++ | -.||.||..|.
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 5544 4 36999998864
No 292
>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=32.68 E-value=2.9e+02 Score=28.24 Aligned_cols=54 Identities=9% Similarity=0.043 Sum_probs=31.8
Q ss_pred cchHHHHHHHHHHHHhCCCCC-CCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEE
Q 014401 168 DSSLQNALDLVQGLLSQIPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRC 222 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~-~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V 222 (425)
+....+|+++|++.++..++- ..++|-+++-+. .+||..-.+++..+.+.+|..
T Consensus 18 G~~~~~a~~lAv~~IN~~ggil~g~~l~l~~~D~-~~~~~~a~~~~~~li~~~v~a 72 (404)
T cd06370 18 GLPISGALTLAVEDVNADPNLLPGYKLQFEWVDT-HGDEVLSIRAVSDWWKRGVVA 72 (404)
T ss_pred cccHHHHHHHHHHHHhCCCCCCCCCEEEEEEEec-CCChHHHHHHHHHHHhcCceE
Confidence 356778999999998875433 244555555432 355655555555555555433
No 293
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=32.63 E-value=25 Score=32.92 Aligned_cols=23 Identities=26% Similarity=0.707 Sum_probs=14.8
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcc
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
..|.||-+.|+.+. -.||.|++.
T Consensus 140 ~rC~GC~~~f~~~~------~~Cp~CG~~ 162 (177)
T COG1439 140 LRCHGCKRIFPEPK------DFCPICGSP 162 (177)
T ss_pred EEEecCceecCCCC------CcCCCCCCc
Confidence 36888888887321 247777764
No 294
>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=32.54 E-value=23 Score=25.50 Aligned_cols=31 Identities=29% Similarity=0.749 Sum_probs=20.1
Q ss_pred CCccccccc-cccCCCCCCCcceeCCCCC-cccccccch
Q 014401 363 RSTCFGCQQ-SLLSSGNKPGLYVACPKCK-KHFCLECDI 399 (425)
Q Consensus 363 ~~~C~~C~~-~~~~~~~~~~~~~~C~~C~-~~fC~dCD~ 399 (425)
...|-+|.. ++. ..||.|..|. -.+|.+|-.
T Consensus 4 ~~~C~~C~~~~i~------g~Ry~C~~C~d~dLC~~C~~ 36 (46)
T PF00569_consen 4 GYTCDGCGTDPII------GVRYHCLVCPDYDLCEDCFS 36 (46)
T ss_dssp SCE-SSS-SSSEE------SSEEEESSSSS-EEEHHHHH
T ss_pred CeECcCCCCCcCc------CCeEECCCCCCCchhhHHHh
Confidence 457999986 443 2589999998 457877743
No 295
>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=32.51 E-value=3.2e+02 Score=23.76 Aligned_cols=74 Identities=8% Similarity=0.071 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhCCCCCCCcEEEEE-EeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------HHHHHHHHHhhC
Q 014401 171 LQNALDLVQGLLSQIPSYGHREVLIL-YSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQDTG 242 (425)
Q Consensus 171 L~~AL~~A~~~L~~~p~~~sreILVI-~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-------~~iLk~iA~~TG 242 (425)
...|+.....++.. .....++|| +|+.+.....++.+.++.++ .+.+|..++.-.. ...++++|+...
T Consensus 34 ~~~~~~~l~~~~~~---~~~~d~vvi~lGtNd~~~~~nl~~ii~~~~-~~~~ivlv~~~~~~~~~~~~n~~~~~~a~~~~ 109 (150)
T cd01840 34 MSEAPDLIRQLKDS---GKLRKTVVIGLGTNGPFTKDQLDELLDALG-PDRQVYLVNPHVPRPWEPDVNAYLLDAAKKYK 109 (150)
T ss_pred HHHHHHHHHHHHHc---CCCCCeEEEEecCCCCCCHHHHHHHHHHcC-CCCEEEEEECCCCcchHHHHHHHHHHHHHHCC
Confidence 35666655554442 122335555 56544333456667777774 4688888777532 267888998887
Q ss_pred CeEEEe
Q 014401 243 GSYSVA 248 (425)
Q Consensus 243 G~Y~~~ 248 (425)
+..++.
T Consensus 110 ~v~~id 115 (150)
T cd01840 110 NVTIID 115 (150)
T ss_pred CcEEec
Confidence 766654
No 296
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=32.45 E-value=2.6e+02 Score=28.69 Aligned_cols=74 Identities=11% Similarity=0.060 Sum_probs=40.6
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHH-hCCcEEEEEEecch-HHHHHHHHHhhC
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCK-ESKIRCSVIGLSAE-MFICKHLCQDTG 242 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~ak-k~~I~V~vIglg~e-~~iLk~iA~~TG 242 (425)
+....+|.++|++.++...+-..|+|-++..+.. .+|....+.++.+. +.+|.+-+=++++. ...+..++++.+
T Consensus 17 G~~~~~G~~lAv~~iNa~GGi~Gr~ielv~~D~~-~~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~ 92 (374)
T TIGR03669 17 GTPKWHASQLAIEEINKSGGILGRQIELIDPDPQ-SDNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDRNE 92 (374)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCceeEEEEeCCC-CCHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHhcC
Confidence 3567788999999988654444566776665432 34543344444444 56776643344443 223344444433
No 297
>PLN00209 ribosomal protein S27; Provisional
Probab=32.45 E-value=20 Score=29.63 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=20.6
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014401 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 331 (425)
.||.|..+.- ..++.|..||.+|.-+
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 5999998765 4568999999998654
No 298
>cd02520 Glucosylceramide_synthase Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis. UDP-glucose:N-acylsphingosine D-glucosyltransferase (glucosylceramide synthase or ceramide glucosyltransferase) catalyzes the first glycosylation step of glycosphingolipid synthesis. Its product, glucosylceramide, serves as the core of more than 300 glycosphingolipids (GSL). GSLs are a group of membrane components that have the lipid portion embedded in the outer plasma membrane leaflet and the sugar chains extended to the outer environment. Several lines of evidence suggest the importance of GSLs in various cellular processes such as differentiation, adhesion, proliferation, and cell-cell recognition. In pathogenic fungus Cryptococcus neoformans, glucosylceramide serves as an antigen that elicits an antibody response in patients and it is essential for fungal growth in host extracellular environment.
Probab=32.29 E-value=1.7e+02 Score=26.38 Aligned_cols=59 Identities=10% Similarity=0.047 Sum_probs=31.0
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhC--CcEEEEEEe----c--chHHHHHHHHHhhCCeEEEecCHh
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKES--KIRCSVIGL----S--AEMFICKHLCQDTGGSYSVALDES 252 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~--~I~V~vIgl----g--~e~~iLk~iA~~TGG~Y~~~~d~~ 252 (425)
.-||||+.++.+ | +..+.++.+.+. ++++.++-. | .....+....+...|.|+...|.+
T Consensus 30 ~~eiivVdd~s~--d--~t~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~g~~~a~~d~i~~~D~D 96 (196)
T cd02520 30 KYEILFCVQDED--D--PAIPVVRKLIAKYPNVDARLLIGGEKVGINPKVNNLIKGYEEARYDILVISDSD 96 (196)
T ss_pred CeEEEEEeCCCc--c--hHHHHHHHHHHHCCCCcEEEEecCCcCCCCHhHHHHHHHHHhCCCCEEEEECCC
Confidence 357777765422 2 223444444332 244443322 2 233456667777889999876655
No 299
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=32.26 E-value=34 Score=25.99 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=18.0
Q ss_pred EEcCCCCccc----------cCCCCCCCCCCce
Q 014401 305 YTCPRCKARV----------CELPTDCRICGLQ 327 (425)
Q Consensus 305 y~Cp~C~s~~----------C~lP~~C~~C~l~ 327 (425)
..||.|+.|. =.+|.-||-|...
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCKQE 37 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCCce
Confidence 5799999654 3689999999753
No 300
>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=32.20 E-value=1.3e+02 Score=21.56 Aligned_cols=41 Identities=12% Similarity=0.013 Sum_probs=29.5
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecch------------HHHHHHHHHhhCCe
Q 014401 204 DPGDIMETIQKCKESKIRCSVIGLSAE------------MFICKHLCQDTGGS 244 (425)
Q Consensus 204 dp~~i~~ti~~akk~~I~V~vIglg~e------------~~iLk~iA~~TGG~ 244 (425)
++..+...-..+.+.++.|.-..++.. ..+.++|++.|+|+
T Consensus 4 ~Y~~~~~v~~~l~~~~~~i~~~~y~~~V~~~v~v~~~~~~~f~~~l~~~t~G~ 56 (56)
T PF09186_consen 4 DYSQYGKVERLLEQNGIEIVDEDYTDDVTLTVAVPEEEVEEFKAQLTDLTSGR 56 (56)
T ss_dssp -CCCHHHHHHHHHHTTTEEEEEEECTTEEEEEEEECCCHHHHHHHHHHHTTT-
T ss_pred chhhHHHHHHHHHHCCCEEEcceecceEEEEEEECHHHHHHHHHHHHHHcCCC
Confidence 445555666777888888866666654 47899999999995
No 301
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.08 E-value=9.2 Score=38.50 Aligned_cols=44 Identities=30% Similarity=0.811 Sum_probs=37.2
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
..|-+|...|..... -..|..|++.||.-|- -+-++|..|--|.
T Consensus 45 p~ckacg~~f~~~~~----k~~c~dckk~fc~tcs-~v~~~lr~c~~c~ 88 (350)
T KOG4275|consen 45 PHCKACGEEFEDAQS----KSDCEDCKKEFCATCS-RVSISLRTCTSCR 88 (350)
T ss_pred chhhhhchhHhhhhh----hhhhhhhhHHHHHHHH-HhcccchhhhHHH
Confidence 389999988865322 2569999999999999 8999999999996
No 302
>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=31.94 E-value=3.3e+02 Score=28.82 Aligned_cols=75 Identities=12% Similarity=0.041 Sum_probs=48.4
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCCCCccch--------hhhhhceee
Q 014401 207 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIA--------EFAIANLIK 278 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~pp~~~~--------~~~~~~Li~ 278 (425)
.....++.+.+.|+.|..+..+.....++++ ..+. ....|..++.+++...- |...-. ....-.|++
T Consensus 322 ~~~~l~~~l~elGm~v~~~~~~~~~~~~~~~---~~~~-~~~~D~~~l~~~i~~~~-~dliig~s~~k~~A~~l~ip~ir 396 (432)
T TIGR01285 322 LLAAWATFFTSMGAQIVAAVTTTGSPLLQKL---PVET-VVIGDLEDLEDLACAAG-ADLLITNSHGRALAQRLALPLVR 396 (432)
T ss_pred HHHHHHHHHHHCCCEEEEEEeCCCCHHHHhC---CcCc-EEeCCHHHHHHHHhhcC-CCEEEECcchHHHHHHcCCCEEE
Confidence 3456788899999999999998776655443 2333 33466667777665542 332211 123458999
Q ss_pred ecCCCCCC
Q 014401 279 MGFPQRAG 286 (425)
Q Consensus 279 mGFP~~~~ 286 (425)
+|||....
T Consensus 397 ~g~Pi~dr 404 (432)
T TIGR01285 397 AGFPLFDQ 404 (432)
T ss_pred ecCCcccc
Confidence 99998654
No 303
>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=31.77 E-value=21 Score=27.11 Aligned_cols=26 Identities=27% Similarity=0.700 Sum_probs=16.8
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014401 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 331 (425)
.||.|..+.- ..++.|..||.+|.-+
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 5899987654 4568999999998754
No 304
>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=31.57 E-value=3.6e+02 Score=24.54 Aligned_cols=90 Identities=14% Similarity=0.179 Sum_probs=47.5
Q ss_pred HHHHHHHhccCCC-CcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh-----hcCCCcchHHHHHHHHHHHHhCCCCCCC
Q 014401 117 EAFVREFFDQNPL-SQIGLVTVKDGVANCLTDLGGSPESHIKALMGK-----LGCSGDSSLQNALDLVQGLLSQIPSYGH 190 (425)
Q Consensus 117 ~~FI~~~~~qnP~-sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~-----l~~~G~tsL~~AL~~A~~~L~~~p~~~s 190 (425)
...++++..|... ...-||+.-++. +.+..+.++.+... +....+.....|+..|++.. +
T Consensus 16 ~~~l~sl~~q~~~~~~~evivvd~~s-------~d~~~~~~~~~~~~~~~v~~i~~~~~~~~~a~N~g~~~a-------~ 81 (249)
T cd02525 16 EELLESLLNQSYPKDLIEIIVVDGGS-------TDGTREIVQEYAAKDPRIRLIDNPKRIQSAGLNIGIRNS-------R 81 (249)
T ss_pred HHHHHHHHhccCCCCccEEEEEeCCC-------CccHHHHHHHHHhcCCeEEEEeCCCCCchHHHHHHHHHh-------C
Confidence 3344454445432 445566554442 22345555555431 11111223556677666653 2
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCc
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKI 220 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I 220 (425)
.++|++++++...+|+-+.+.++.+.+.++
T Consensus 82 ~d~v~~lD~D~~~~~~~l~~~~~~~~~~~~ 111 (249)
T cd02525 82 GDIIIRVDAHAVYPKDYILELVEALKRTGA 111 (249)
T ss_pred CCEEEEECCCccCCHHHHHHHHHHHhcCCC
Confidence 358888887666677766677766666554
No 305
>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=31.51 E-value=25 Score=22.06 Aligned_cols=11 Identities=45% Similarity=0.993 Sum_probs=9.3
Q ss_pred ceeCCCCCccc
Q 014401 383 YVACPKCKKHF 393 (425)
Q Consensus 383 ~~~C~~C~~~f 393 (425)
.|.|+.|+..|
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 59999999876
No 306
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=31.42 E-value=14 Score=35.54 Aligned_cols=78 Identities=23% Similarity=0.466 Sum_probs=0.0
Q ss_pred ecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccccccc
Q 014401 295 CHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLL 374 (425)
Q Consensus 295 CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~ 374 (425)
||+.+..- -|..||.-+-.+=+|.|-..----+.||+ |..|.+.|.
T Consensus 139 ch~~vkr~-----------------lct~cgkgfndtfdlkrh~rthtgvrpyk-----------------c~~c~kaft 184 (267)
T KOG3576|consen 139 CHSDVKRH-----------------LCTFCGKGFNDTFDLKRHTRTHTGVRPYK-----------------CSLCEKAFT 184 (267)
T ss_pred hccHHHHH-----------------HHhhccCcccchhhhhhhhccccCccccc-----------------hhhhhHHHH
Q ss_pred CCCC-------------------CCCcceeCCCCCcccccccchhhhccCC
Q 014401 375 SSGN-------------------KPGLYVACPKCKKHFCLECDIYIHESLH 406 (425)
Q Consensus 375 ~~~~-------------------~~~~~~~C~~C~~~fC~dCD~fiHe~lh 406 (425)
..-. .-...|.|+.|+..-|.-=+.|.|-.+|
T Consensus 185 qrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 185 QRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred hhccHHHHHHHHcCchHHHHHHHhhhheeeecccCCCCCChhHHHHHHHhc
No 307
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=31.40 E-value=2.7e+02 Score=30.24 Aligned_cols=88 Identities=14% Similarity=0.125 Sum_probs=59.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.+|-.|+..--..| .+++++|.|++.- . .++ +.+.++.+.+++|-+|-+....
T Consensus 421 g~mG~~lp~aiGa~la~p---~~~vv~i~GDG~f-~-~~~-~eL~ta~~~~lpv~~vV~NN~~~~~i~~~q~~~~~~~~~ 494 (574)
T PRK06882 421 GTMGFGLPAAIGVKFAHP---EATVVCVTGDGSI-Q-MNI-QELSTAKQYDIPVVIVSLNNRFLGMVKQWQDLIYSGRHS 494 (574)
T ss_pred ccccchhHHHHHHHhhcC---CCcEEEEEcchhh-h-ccH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHhcCCccc
Confidence 345555555544322122 4568888886532 1 122 5677889999998888775331
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.++.+.+.++|+..|....
T Consensus 495 ~~~~~~~~d~~~la~a~G~~~~~v~~~~eL~~al~~a~ 532 (574)
T PRK06882 495 QVYMNSLPDFAKLAEAYGHVGIQIDTPDELEEKLTQAF 532 (574)
T ss_pred ccCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1156789999999999999999999887775
No 308
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=31.34 E-value=20 Score=24.50 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=14.7
Q ss_pred ccccccccccCC--CCCCCcceeCCCCCcc
Q 014401 365 TCFGCQQSLLSS--GNKPGLYVACPKCKKH 392 (425)
Q Consensus 365 ~C~~C~~~~~~~--~~~~~~~~~C~~C~~~ 392 (425)
+|..|..++... .+....|+.|+.|+.+
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 688886655321 1234568999999865
No 309
>cd04196 GT_2_like_d Subfamily of Glycosyltransferase Family GT2 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=31.22 E-value=3.7e+02 Score=23.78 Aligned_cols=86 Identities=19% Similarity=0.210 Sum_probs=45.4
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCC-cEEEEEEecch---HHHHHHHHHhhCCeEEEecC
Q 014401 175 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESK-IRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~-I~V~vIglg~e---~~iLk~iA~~TGG~Y~~~~d 250 (425)
|..++..+.+. .+..-||||+-++ ++ | +..++++.+.+.. ..+..+-.... ...+.......+|.|+...|
T Consensus 13 l~~~l~sl~~q-~~~~~eiiVvddg-S~-d--~t~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~n~g~~~~~g~~v~~ld 87 (214)
T cd04196 13 LREQLDSILAQ-TYKNDELIISDDG-ST-D--GTVEIIKEYIDKDPFIIILIRNGKNLGVARNFESLLQAADGDYVFFCD 87 (214)
T ss_pred HHHHHHHHHhC-cCCCeEEEEEeCC-CC-C--CcHHHHHHHHhcCCceEEEEeCCCCccHHHHHHHHHHhCCCCEEEEEC
Confidence 44455555443 1224467777543 22 2 2345555555443 34444433322 34555567778899998776
Q ss_pred Hh------HHHHHHHhcCCCC
Q 014401 251 ES------HFKELIMEHAPPP 265 (425)
Q Consensus 251 ~~------~L~~lL~~~~~pp 265 (425)
.+ .|..++..+...|
T Consensus 88 ~Dd~~~~~~l~~~~~~~~~~~ 108 (214)
T cd04196 88 QDDIWLPDKLERLLKAFLKDD 108 (214)
T ss_pred CCcccChhHHHHHHHHHhcCC
Confidence 55 3666666644333
No 310
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=31.18 E-value=26 Score=34.63 Aligned_cols=90 Identities=29% Similarity=0.622 Sum_probs=59.3
Q ss_pred cceee-ecCCcc--ccCeEEcCCCCccccCCC------------CCCCCCCceecCchhHHhhhc-ccCCCCCCcccCcc
Q 014401 290 ISICS-CHKEVK--VGVGYTCPRCKARVCELP------------TDCRICGLQLVSSPHLARSYH-HLFPIAPFDEVTPL 353 (425)
Q Consensus 290 ~a~C~-CH~~~~--~~~Gy~Cp~C~s~~C~lP------------~~C~~C~l~Lvs~phLarsyh-hlfp~~~f~~~~~~ 353 (425)
+++|+ ||.+.. ..+-|+|-.|+..+=+=| -.|.+||..|-|. ||..- -||=|+=|...
T Consensus 120 r~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sd---aRevk~eLyClrChD~m--- 193 (332)
T KOG2272|consen 120 RALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSD---AREVKGELYCLRCHDKM--- 193 (332)
T ss_pred hHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccch---hhhhccceecccccccc---
Confidence 55554 565432 234799999999876533 4799999999876 45544 57777766654
Q ss_pred CCCCCCCCCCCccccccccccCCC----CC--CCcceeCCCCCccc
Q 014401 354 CLNDPRNRSRSTCFGCQQSLLSSG----NK--PGLYVACPKCKKHF 393 (425)
Q Consensus 354 ~~~~~~~~~~~~C~~C~~~~~~~~----~~--~~~~~~C~~C~~~f 393 (425)
+-..|++|.+++.... ++ -.-.|+|.+|.+.|
T Consensus 194 --------gipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPF 231 (332)
T KOG2272|consen 194 --------GIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPF 231 (332)
T ss_pred --------CCcccccccCchHHHHHHHhccccchhheeehhcCCcc
Confidence 3447999988875321 00 01148899998876
No 311
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=31.18 E-value=2.1e+02 Score=31.27 Aligned_cols=88 Identities=14% Similarity=0.138 Sum_probs=61.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++.||-.|+..--..| .|+|+.|.|++.- . .+ ...+.++.+.+++|-+|-+....
T Consensus 437 gsmG~glpaaiGa~lA~p---~r~Vv~i~GDGsf-~-m~-~~eL~Ta~r~~lpviivV~NN~~~~~i~~~q~~~~~~~~~ 510 (587)
T PRK06965 437 GTMGVGLPYAMGIKMAHP---DDDVVCITGEGSI-Q-MC-IQELSTCLQYDTPVKIISLNNRYLGMVRQWQEIEYSKRYS 510 (587)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchhh-h-cC-HHHHHHHHHcCCCeEEEEEECCcchHHHHHHHHhcCCCcc
Confidence 466666666665433222 4678888886432 1 11 15678889999999988885320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.++.+.+.++|.+.|...+
T Consensus 511 ~~~~~~~~d~~~iA~a~G~~~~~v~~~~eL~~al~~a~ 548 (587)
T PRK06965 511 HSYMDALPDFVKLAEAYGHVGMRIEKTSDVEPALREAL 548 (587)
T ss_pred ccCCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 1246799999999999999999999888765
No 312
>PLN02235 ATP citrate (pro-S)-lyase
Probab=30.97 E-value=2.2e+02 Score=30.43 Aligned_cols=126 Identities=14% Similarity=0.153 Sum_probs=66.0
Q ss_pred cCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHH------hhhhcCCCcch---HHHHHHHHHHHHhCCCCCCCcEEEEE
Q 014401 126 QNPLSQIGLVTVKDGVANCLTDLGGSPESHIKAL------MGKLGCSGDSS---LQNALDLVQGLLSQIPSYGHREVLIL 196 (425)
Q Consensus 126 qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L------~~~l~~~G~ts---L~~AL~~A~~~L~~~p~~~sreILVI 196 (425)
-++..+||.++.++|-+.. +-+.+... .+.++-.|+++ ...|+.+-+.++.+.| ....-+|.|
T Consensus 266 v~ldG~Ig~mvnGAGlama-------TmD~I~~~G~~g~pANFlDvGG~a~~e~v~~a~~iil~~~~~~~-~vk~ilvnI 337 (423)
T PLN02235 266 LNPKGRIWTMVAGGGASVI-------YADTVGDLGYASELGNYAEYSGAPNEEEVLQYARVVIDCATANP-DGRKRALLI 337 (423)
T ss_pred eCCCCeEEEEecCcHHHHH-------HHHHHHHcCCCCCCceeeecCCCCCHHHHHHHHHHHHhhhhcCC-CCcEEEEEE
Confidence 4677889999987664432 11222221 12234455543 4444444443333433 233334556
Q ss_pred EeCCCCCCccCH--HHHHHHHHhC-------CcEEEEEEec-ch----HHHHHHHHHhhCCeEEEecCHhHHHHHHHh
Q 014401 197 YSALSTCDPGDI--METIQKCKES-------KIRCSVIGLS-AE----MFICKHLCQDTGGSYSVALDESHFKELIME 260 (425)
Q Consensus 197 ~~s~~t~dp~~i--~~ti~~akk~-------~I~V~vIglg-~e----~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~ 260 (425)
+|+...||.... .-.++.+++. +|+|.| -++ +. ..+|+++.+.+|=...+...+.++.+....
T Consensus 338 fGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivV-Rl~GtN~eeG~~il~e~~~~~gl~i~~~~~~~~m~~a~~~ 414 (423)
T PLN02235 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHIFV-RRGGPNYQKGLAKMRALGEEIGVPIEVYGPEATMTGICKQ 414 (423)
T ss_pred ecccccchhhhhhhhHHHHHHHHhhhccccCCccEEE-ECCCCCHHHHHHHHHHhHHhcCCcEEEeCCCCCHHHHHHH
Confidence 677777775321 2345555553 578744 554 43 378888877877545555434455555443
No 313
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=30.95 E-value=19 Score=26.84 Aligned_cols=30 Identities=33% Similarity=0.678 Sum_probs=19.5
Q ss_pred CCccccccccccCCC----CCCCcceeCCCCCcc
Q 014401 363 RSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 392 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 392 (425)
.+.|.||...++... ........||.|+..
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcCCCeEECcCCCcc
Confidence 568999998887542 111234668888753
No 314
>PRK08322 acetolactate synthase; Reviewed
Probab=30.83 E-value=1.9e+02 Score=31.17 Aligned_cols=91 Identities=10% Similarity=0.001 Sum_probs=61.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------- 231 (425)
|..+++.||-.|+..=-..| .|+|+.|+|++.- . .++ ..+.++++.+++|-+|-+....
T Consensus 404 ~~g~mG~~lpaaiGa~la~p---~~~vv~i~GDGsf-~-m~~-~eL~Ta~~~~lpv~iiV~NN~~~g~~~~~~~~~~~~~ 477 (547)
T PRK08322 404 ALATMGAGLPSAIAAKLVHP---DRKVLAVCGDGGF-M-MNS-QELETAVRLGLPLVVLILNDNAYGMIRWKQENMGFED 477 (547)
T ss_pred CcccccchhHHHHHHHHhCC---CCcEEEEEcchhH-h-ccH-HHHHHHHHhCCCeEEEEEeCCCcchHHHHHHhhcCCc
Confidence 33466666666655422222 4568888886532 1 122 4577788999999888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|..|..+.+.++|++.|.....
T Consensus 478 ~~~~~~~~df~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 516 (547)
T PRK08322 478 FGLDFGNPDFVKYAESYGAKGYRVESADDLLPTLEEALA 516 (547)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 12567899999999999999999999988763
No 315
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=30.65 E-value=36 Score=34.64 Aligned_cols=41 Identities=20% Similarity=0.535 Sum_probs=24.2
Q ss_pred ccccccccccCCCCCCCcceeCCCCCcccccccchh-h-----hccCCCCCCCCC
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY-I-----HESLHNCPGCES 413 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f-i-----He~lh~CPgC~~ 413 (425)
+|..|...-.- .|-.|+.|++.-=+ +.| + +..+..|-.|.+
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 25578888875211 112 1 224578888875
No 316
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=30.57 E-value=23 Score=29.22 Aligned_cols=26 Identities=27% Similarity=0.570 Sum_probs=20.6
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014401 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 331 (425)
.||.|..+.- ..++.|..||.+|.-+
T Consensus 37 kCp~C~n~q~VFShA~t~V~C~~Cg~~L~~P 67 (85)
T PTZ00083 37 KCPGCSQITTVFSHAQTVVLCGGCSSQLCQP 67 (85)
T ss_pred ECCCCCCeeEEEecCceEEEccccCCEeecc
Confidence 5999998765 3568999999998654
No 317
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=30.39 E-value=35 Score=33.68 Aligned_cols=54 Identities=24% Similarity=0.385 Sum_probs=33.9
Q ss_pred CccccccccccCCCC-C--CCcceeCCCCCcccccccchhhhccCCCCCCCCCCCCCCcc
Q 014401 364 STCFGCQQSLLSSGN-K--PGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 420 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~-~--~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~ 420 (425)
..|.+|.+.+...+. + ...-|.||+|++.|=.-+- -++-.-|-||.+..-+.-|
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 369999988754331 1 2235999999999953322 2445567777765555444
No 318
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=30.29 E-value=2.3e+02 Score=30.90 Aligned_cols=88 Identities=11% Similarity=0.126 Sum_probs=60.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.||-.|+..--..| .|+++.|.|++.- . .. ...+.++.+.|++|-+|-+....
T Consensus 421 g~mG~glpaaiGa~la~p---~~~vv~i~GDG~f-~-m~-~~EL~Ta~r~~lpv~~vV~NN~~y~~i~~~q~~~~~~~~~ 494 (572)
T PRK08979 421 GTMGFGLPAAMGVKFAMP---DETVVCVTGDGSI-Q-MN-IQELSTALQYDIPVKIINLNNRFLGMVKQWQDMIYQGRHS 494 (572)
T ss_pred ccccchhhHHHhhhhhCC---CCeEEEEEcchHh-h-cc-HHHHHHHHHcCCCeEEEEEeCCccHHHHHHHHHHhCCccc
Confidence 456666666655432222 4678888886431 0 11 25688999999999888885320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.+..+.+.++|...|...+
T Consensus 495 ~~~~~~~~d~~~~A~a~G~~~~~v~~~~eL~~al~~a~ 532 (572)
T PRK08979 495 HSYMDSVPDFAKIAEAYGHVGIRISDPDELESGLEKAL 532 (572)
T ss_pred ccCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1145788999999999999999999888765
No 319
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=30.14 E-value=2.9e+02 Score=27.99 Aligned_cols=52 Identities=10% Similarity=0.020 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEE
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRC 222 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V 222 (425)
...++.++|++.++...+-..++|=+++-+. ..+|..-.+.++.+.+.+|.+
T Consensus 44 ~~~~g~~~av~~iNa~GGi~G~~ielv~~D~-~~~p~~a~~~~~~Li~~~V~~ 95 (369)
T PRK15404 44 MEFTGARQAIEDINAKGGIKGDKLEGVEYDD-ACDPKQAVAVANKVVNDGIKY 95 (369)
T ss_pred hHHHHHHHHHHHHHhcCCCCCeEEEEEeecC-CCCHHHHHHHHHHHHhCCceE
Confidence 4455555665555543222233444443321 123433334445555554433
No 320
>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=30.11 E-value=27 Score=25.58 Aligned_cols=29 Identities=28% Similarity=0.756 Sum_probs=20.6
Q ss_pred cccccc-ccccCCCCCCCcceeCCCCCc-ccccccch
Q 014401 365 TCFGCQ-QSLLSSGNKPGLYVACPKCKK-HFCLECDI 399 (425)
Q Consensus 365 ~C~~C~-~~~~~~~~~~~~~~~C~~C~~-~fC~dCD~ 399 (425)
.|.+|. .++. +.||+|..|.. ..|.+|-.
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 46777743
No 321
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.09 E-value=34 Score=38.82 Aligned_cols=39 Identities=28% Similarity=0.717 Sum_probs=27.0
Q ss_pred CccccccccccCCCCCCCcceeCCCCC----------cccccccchhhhccCCCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
..|..|.. ..+||.|. ..+|.-|+-= -..-+.||-|.+.
T Consensus 436 l~C~~Cg~-----------v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~-~~~p~~Cp~Cgs~ 484 (730)
T COG1198 436 LLCRDCGY-----------IAECPNCDSPLTLHKATGQLRCHYCGYQ-EPIPQSCPECGSE 484 (730)
T ss_pred eecccCCC-----------cccCCCCCcceEEecCCCeeEeCCCCCC-CCCCCCCCCCCCC
Confidence 35777762 34688885 5678888763 3567789999875
No 322
>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=30.03 E-value=1.4e+02 Score=22.01 Aligned_cols=36 Identities=17% Similarity=0.075 Sum_probs=26.0
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
|-+.|..-..+++-..+.++.+.+.||+|+.|+-++
T Consensus 4 isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~~ 39 (66)
T cd04919 4 LSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQGA 39 (66)
T ss_pred EEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEecC
Confidence 444554444456666688999999999999997654
No 323
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=29.86 E-value=2.6e+02 Score=30.82 Aligned_cols=89 Identities=12% Similarity=0.029 Sum_probs=60.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++-||-.|+..--.. ..|+|+.|.|++.- . .+ .+.+.++.+.+++|-+|-+....
T Consensus 447 G~mG~glpaaiGa~la~---p~~~Vv~i~GDG~f-~-m~-~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~q~~~~~~~~~ 520 (612)
T PRK07789 447 GTMGYAVPAAMGAKVGR---PDKEVWAIDGDGCF-Q-MT-NQELATCAIEGIPIKVALINNGNLGMVRQWQTLFYEERYS 520 (612)
T ss_pred ccccchhhhHHhhhccC---CCCcEEEEEcchhh-h-cc-HHHHHHHHHcCCCeEEEEEECCchHHHHHHHHHhhCCCcc
Confidence 35666666665432222 24668888876431 1 11 25688899999998888875320
Q ss_pred -----------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -----------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.|+.+.+.++|...|...+.
T Consensus 521 ~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~~ 563 (612)
T PRK07789 521 NTDLHTHSHRIPDFVKLAEAYGCVGLRCEREEDVDAVIEKARA 563 (612)
T ss_pred eeecCcCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 02677999999999999999999998877653
No 324
>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=29.81 E-value=2.2e+02 Score=28.00 Aligned_cols=30 Identities=20% Similarity=0.350 Sum_probs=15.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEe
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYS 198 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~ 198 (425)
....+|+++|.+.++...+-..++|-+++-
T Consensus 17 ~~~~~g~~~a~~~iN~~ggi~G~~i~l~~~ 46 (340)
T cd06349 17 TQWKRAFDLALDEINAAGGVGGRPLNIVFE 46 (340)
T ss_pred ccHHHHHHHHHHHHHhhCCcCCeEEEEEEe
Confidence 455566666666665443333445555543
No 325
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=29.77 E-value=29 Score=34.78 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=21.1
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
.|+|+.|+.+.=+.-..||.||..
T Consensus 354 ~~~c~~cg~~~~~~~~~c~~c~~~ 377 (389)
T PRK11788 354 RYRCRNCGFTARTLYWHCPSCKAW 377 (389)
T ss_pred CEECCCCCCCCccceeECcCCCCc
Confidence 799999999999999999999853
No 326
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=29.69 E-value=2.5e+02 Score=30.50 Aligned_cols=88 Identities=11% Similarity=0.041 Sum_probs=58.4
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~------------------ 231 (425)
+++.+|-.|+..--.. ..|++++|+|++.- . .++ ..+.++++.+++|-+|-+....
T Consensus 409 ~mG~~lpaAiGa~la~---p~r~vv~i~GDGsf-~-m~~-~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~~~~~~~~~~~~ 482 (574)
T PRK09124 409 SMANAMPQALGAQAAH---PGRQVVALSGDGGF-S-MLM-GDFLSLVQLKLPVKIVVFNNSVLGFVAMEMKAGGYLTDGT 482 (574)
T ss_pred cccchHHHHHHHHHhC---CCCeEEEEecCcHH-h-ccH-HHHHHHHHhCCCeEEEEEeCCccccHHHHHHhcCCccccC
Confidence 4444555544432222 24578989887532 1 222 4577889999999888775320
Q ss_pred ----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 ----FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 ----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|..++.+.+.++|...|.+...
T Consensus 483 ~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 518 (574)
T PRK09124 483 DLHNPDFAAIAEACGITGIRVEKASELDGALQRAFA 518 (574)
T ss_pred cCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 12567889999999999999999998887653
No 327
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=29.42 E-value=1.5e+02 Score=29.96 Aligned_cols=43 Identities=12% Similarity=0.097 Sum_probs=37.3
Q ss_pred ccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014401 205 PGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 205 p~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~ 247 (425)
+.++.++++.+++.+|++-..--.......+.|++.||.....
T Consensus 238 ~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ 280 (311)
T PRK09545 238 AQRLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGT 280 (311)
T ss_pred HHHHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEE
Confidence 4678899999999999988887777789999999999988654
No 328
>PF03660 PHF5: PHF5-like protein; InterPro: IPR005345 Phf5 is a member of a novel murine multigene family that is highly conserved during evolution and belongs to the superfamily of PHD-finger proteins. At least one example, from Mus musculus (Mouse), may act as a chromatin-associated protein []. The Schizosaccharomyces pombe (Fission yeast) ini1 gene is essential, required for splicing []. It is localised in the nucleus, but not detected in the nucleolus and can be complemented by human ini1 []. The proteins of this family contain five CXXC motifs.; PDB: 2K0A_A.
Probab=29.36 E-value=17 Score=31.18 Aligned_cols=28 Identities=29% Similarity=0.899 Sum_probs=11.7
Q ss_pred eeeecCCccccCeEEcCCCCccccCCCCCCCCCCc
Q 014401 292 ICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGL 326 (425)
Q Consensus 292 ~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l 326 (425)
+=+|.+......|++|..|--+ |++|..
T Consensus 8 LvmC~KqpG~~iG~lC~kCdGk-------CpiCDS 35 (106)
T PF03660_consen 8 LVMCRKQPGTAIGRLCEKCDGK-------CPICDS 35 (106)
T ss_dssp --B----EEEEE-EE-GGGTT---------TTT--
T ss_pred HhhhccCCcchhhhhhhhcCCc-------ccccCC
Confidence 3456665533239999999876 999994
No 329
>PRK05858 hypothetical protein; Provisional
Probab=29.35 E-value=2.4e+02 Score=30.46 Aligned_cols=89 Identities=7% Similarity=0.003 Sum_probs=59.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++.||-.|+..--.. ..|++|.|.|++.- . ..+ ..+.++.+.+++|-+|-+-...
T Consensus 407 gsmG~~lp~aiGa~la~---p~r~vv~i~GDG~f-~-~~~-~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~~~ 480 (542)
T PRK05858 407 GCLGTGPGYALAARLAR---PSRQVVLLQGDGAF-G-FSL-MDVDTLVRHNLPVVSVIGNNGIWGLEKHPMEALYGYDVA 480 (542)
T ss_pred cccccchhHHHHHHHhC---CCCcEEEEEcCchh-c-CcH-HHHHHHHHcCCCEEEEEEeCCchhhHHHHHHHhcCCccc
Confidence 35555555554432222 24678888886532 1 122 4577777899999998886421
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.+..+.+.++|.+.|...+.
T Consensus 481 ~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 518 (542)
T PRK05858 481 ADLRPGTRYDEVVRALGGHGELVTVPAELGPALERAFA 518 (542)
T ss_pred cccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 12357999999999999999999999877653
No 330
>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=29.34 E-value=1.5e+02 Score=29.17 Aligned_cols=44 Identities=23% Similarity=0.348 Sum_probs=37.2
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014401 204 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 204 dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~ 247 (425)
.+.++.++++.+++.+|++-++--.......+.||+.+|.....
T Consensus 205 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ 248 (282)
T cd01017 205 SPKQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLLV 248 (282)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEEE
Confidence 35577899999999999988887777889999999999987653
No 331
>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=29.20 E-value=3.6e+02 Score=25.99 Aligned_cols=89 Identities=9% Similarity=0.013 Sum_probs=58.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+......| .|.||.|.|+....+ .. .+.+..+.+.+++|-+|-+....
T Consensus 62 gsmG~GlpaAiGa~~a~p---~r~VV~i~GDG~~~~-m~-~~eL~ta~~~~~pv~~vVlNN~~yg~tg~q~~~~~~~~~~ 136 (235)
T cd03376 62 AAVASGIEAALKALGRGK---DITVVAFAGDGGTAD-IG-FQALSGAAERGHDILYICYDNEAYMNTGIQRSGSTPYGAW 136 (235)
T ss_pred HHHHHHHHHHHHHhccCC---CCeEEEEEcCchHHh-hH-HHHHHHHHHcCCCeEEEEECCcccccCCCCCCCCCCCCCE
Confidence 378888888877643322 456888887643111 12 24567888999999888775321
Q ss_pred -----------------HHHHHHHHhhCCeEE---EecCHhHHHHHHHhcC
Q 014401 232 -----------------FICKHLCQDTGGSYS---VALDESHFKELIMEHA 262 (425)
Q Consensus 232 -----------------~iLk~iA~~TGG~Y~---~~~d~~~L~~lL~~~~ 262 (425)
.-+.+||+..|..|. .+.+.++|.+.+.+..
T Consensus 137 ~~~~~~g~~~~~~~~~~~d~~~iA~a~G~~~~~~~~v~~~~el~~al~~a~ 187 (235)
T cd03376 137 TTTTPVGKVSFGKKQPKKDLPLIMAAHNIPYVATASVAYPEDLYKKVKKAL 187 (235)
T ss_pred eecCCCCccccccccccCCHHHHHHHcCCcEEEEEcCCCHHHHHHHHHHHH
Confidence 135678888887775 3677788887777665
No 332
>PRK03815 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=29.06 E-value=5.2e+02 Score=26.98 Aligned_cols=43 Identities=9% Similarity=0.124 Sum_probs=22.4
Q ss_pred EEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHH
Q 014401 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLC 238 (425)
Q Consensus 192 eILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA 238 (425)
+|++|+|+... ..+.++..+.+++..+. ++-+|.....+++..
T Consensus 300 ~ii~IlGG~~k--~~~~~~l~~~~~~~~~~--v~~~G~~~~~~~~~~ 342 (401)
T PRK03815 300 KIHLILGGDDK--GVDLTPLFEFMKNLNIE--LYAIGSNTEKIQALA 342 (401)
T ss_pred CEEEEECCCCC--CCCHHHHHHHHHhhCcE--EEEECCCHHHHHHHH
Confidence 46666665321 23445666666666653 444555444444443
No 333
>PF12773 DZR: Double zinc ribbon
Probab=29.06 E-value=47 Score=23.83 Aligned_cols=39 Identities=23% Similarity=0.514 Sum_probs=24.9
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 411 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC 411 (425)
...+|..|..++... ......|++|+. -+...-..||.|
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 356888888887611 112345766665 467777777777
No 334
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=28.96 E-value=21 Score=35.03 Aligned_cols=55 Identities=25% Similarity=0.385 Sum_probs=32.3
Q ss_pred CchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCC----CCCCcceeCCCCCcc
Q 014401 330 SSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 392 (425)
Q Consensus 330 s~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 392 (425)
..|+|.--|+++- ..++-+. .-......|.||...+|... ......-.||.|+.+
T Consensus 172 l~~ell~~yeri~--~~~kg~g------vvpl~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRI 230 (239)
T COG1579 172 LDPELLSEYERIR--KNKKGVG------VVPLEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRI 230 (239)
T ss_pred cCHHHHHHHHHHH--hcCCCce------EEeecCCcccCCeeeecHHHHHHHhcCCCCccCCccchH
Confidence 4788988899873 3332210 00113568999999998653 112223458888754
No 335
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=28.63 E-value=1.2e+02 Score=22.82 Aligned_cols=43 Identities=12% Similarity=0.223 Sum_probs=30.3
Q ss_pred EEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------HHHHHHHHHh
Q 014401 195 ILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQD 240 (425)
Q Consensus 195 VI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e-------~~iLk~iA~~ 240 (425)
+|+++.+ ...+.+.++.+++.||++-.-++-++ ..+++++.++
T Consensus 4 ll~~g~~---~~el~~~l~~~r~~~~~~~~kAvlT~tN~~Wt~~~L~~El~~E 53 (58)
T PF12646_consen 4 LLFSGFS---GEELDKFLDALRKAGIPIPLKAVLTPTNINWTLKDLLEELKEE 53 (58)
T ss_pred EEECCCC---HHHHHHHHHHHHHcCCCcceEEEECCCcccCcHHHHHHHHHHH
Confidence 4444443 24678999999999998887777766 3566766653
No 336
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=28.51 E-value=68 Score=32.95 Aligned_cols=69 Identities=26% Similarity=0.681 Sum_probs=43.2
Q ss_pred eeeecCCccccCeEEcCCCCcccc-----CCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcc
Q 014401 292 ICSCHKEVKVGVGYTCPRCKARVC-----ELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTC 366 (425)
Q Consensus 292 ~C~CH~~~~~~~Gy~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C 366 (425)
.=+||.-+..+ .|+||-|..-=- .-|..|+.|-= | +| -..+....|
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-V--PP-------------------------PKIGTHDLC 237 (406)
T ss_pred hhhhhcccCCC-ceeccCcCCCCccccccCcceecccccC-C--CC-------------------------CCCCccchh
Confidence 35788877777 999999976321 23678887732 0 11 112356789
Q ss_pred ccccccccCCCCCCCcceeCCCCC---cccccccc
Q 014401 367 FGCQQSLLSSGNKPGLYVACPKCK---KHFCLECD 398 (425)
Q Consensus 367 ~~C~~~~~~~~~~~~~~~~C~~C~---~~fC~dCD 398 (425)
+-|. .. +.-+|+.|+ +.-|-.||
T Consensus 238 ~~C~----G~-----G~~~C~tC~grG~k~C~TC~ 263 (406)
T KOG2813|consen 238 YMCH----GR-----GIKECHTCKGRGKKPCTTCS 263 (406)
T ss_pred hhcc----CC-----CcccCCcccCCCCccccccc
Confidence 9997 21 235688875 45666665
No 337
>PF14949 ARF7EP_C: ARF7 effector protein C-terminus
Probab=28.46 E-value=31 Score=29.55 Aligned_cols=19 Identities=42% Similarity=1.114 Sum_probs=15.9
Q ss_pred CccccccccccCCCCCCCcceeCCCCCccccc
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 395 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 395 (425)
..|-||- |-||+|++..|.
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 779999999995
No 338
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=28.41 E-value=58 Score=24.81 Aligned_cols=21 Identities=38% Similarity=0.950 Sum_probs=12.9
Q ss_pred eEEcCCCCccccCCC-CCCCCCCc
Q 014401 304 GYTCPRCKARVCELP-TDCRICGL 326 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-~~C~~C~l 326 (425)
-..||.|++. .+| ..|+.||.
T Consensus 27 l~~C~~CG~~--~~~H~vC~~CG~ 48 (57)
T PRK12286 27 LVECPNCGEP--KLPHRVCPSCGY 48 (57)
T ss_pred ceECCCCCCc--cCCeEECCCCCc
Confidence 4567777776 333 45677764
No 339
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=28.30 E-value=3.7e+02 Score=26.80 Aligned_cols=75 Identities=12% Similarity=0.049 Sum_probs=42.6
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHH-hCCcEEEEEEecch-HHHHHHHHHhhCC
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCK-ESKIRCSVIGLSAE-MFICKHLCQDTGG 243 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~ak-k~~I~V~vIglg~e-~~iLk~iA~~TGG 243 (425)
+....+|+++|.+.++...+-..++|=++.-+.. .||....+.++.|. +.+|.+-+=++++. ...+..+++..+.
T Consensus 16 G~~~~~g~~la~~~iN~~GGi~G~~ielv~~D~~-~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~ 92 (348)
T cd06355 16 ETTLKDAELLAIEEINAAGGVLGRKIEAVVEDGA-SDWPTFAEKARKLLTQDKVAAVFGCWTSASRKAVLPVFERHNG 92 (348)
T ss_pred chhHHHHHHHHHHHHHhcCCCCCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCCCcEEEeccchhhHHHHHHHHhccCC
Confidence 4678899999999998754444566666664422 35544445555555 45665443334443 2334445555443
No 340
>PHA02926 zinc finger-like protein; Provisional
Probab=28.25 E-value=40 Score=32.89 Aligned_cols=52 Identities=25% Similarity=0.565 Sum_probs=32.1
Q ss_pred CCCccccccccccCCCCCCCcce-eCCCCCcccccccchhhhcc------CCCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHES------LHNCPGCES 413 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~fC~dCD~fiHe~------lh~CPgC~~ 413 (425)
....|.-|.-....+......+| .=+.|++.||+.|=.--.++ ...||-|-.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~ 227 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcc
Confidence 35689999855432210000111 24589999999997655543 467999975
No 341
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.19 E-value=31 Score=30.25 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=4.8
Q ss_pred Cccccccccc
Q 014401 364 STCFGCQQSL 373 (425)
Q Consensus 364 ~~C~~C~~~~ 373 (425)
..| .|+..|
T Consensus 71 ~~C-~Cg~~~ 79 (124)
T PRK00762 71 IEC-ECGYEG 79 (124)
T ss_pred EEe-eCcCcc
Confidence 356 665444
No 342
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=28.18 E-value=7.3e+02 Score=26.16 Aligned_cols=97 Identities=12% Similarity=0.201 Sum_probs=70.7
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCC-CCcc---CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeE
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPG---DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 245 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t-~dp~---~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y 245 (425)
++..-|+.-+..|++...+.+..|++|++..+. +.+. =..+.++..+....+|-+||+.+.-.+|.-+-++-..+|
T Consensus 116 sfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRF 195 (408)
T KOG2228|consen 116 SFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRF 195 (408)
T ss_pred ccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhc
Confidence 677778888888887655666668888764333 1121 234788899999999999999999888888888888766
Q ss_pred E------E-ecCHhHHHHHHHhcCCCCc
Q 014401 246 S------V-ALDESHFKELIMEHAPPPP 266 (425)
Q Consensus 246 ~------~-~~d~~~L~~lL~~~~~pp~ 266 (425)
. . ..+-+++.+++.+.+.-|.
T Consensus 196 shr~I~m~~~~~l~~yv~l~r~ll~v~~ 223 (408)
T KOG2228|consen 196 SHRVIFMLPSLPLGDYVDLYRKLLSVPA 223 (408)
T ss_pred ccceeeccCCCChHHHHHHHHHHhcCCc
Confidence 5 1 3556788888888885443
No 343
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=27.79 E-value=60 Score=25.58 Aligned_cols=46 Identities=26% Similarity=0.565 Sum_probs=18.3
Q ss_pred ccccccccccCCCCCCCcceeC-CCCCcccccccchhhhccCCCCCCCCCCCCCCcc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVAC-PKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 420 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C-~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~ 420 (425)
.|.-|..-|..+ .| ..|.+.||..|--=--. -.||-|.....-..+
T Consensus 9 rCs~C~~~l~~p--------v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 9 RCSICFDILKEP--------VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDI 55 (65)
T ss_dssp S-SSS-S--SS---------B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS-
T ss_pred CCcHHHHHhcCC--------ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHH
Confidence 588887666543 24 57999999999532111 249999765543333
No 344
>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=27.75 E-value=1.5e+02 Score=21.52 Aligned_cols=36 Identities=14% Similarity=0.142 Sum_probs=25.2
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
|=+.|..-..+++-..+..+.+.+.||+|+.|+-++
T Consensus 4 isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~~ 39 (66)
T cd04922 4 LALVGDGMAGTPGVAATFFSALAKANVNIRAIAQGS 39 (66)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 334454333355556688999999999999997653
No 345
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=27.71 E-value=4.2e+02 Score=28.76 Aligned_cols=88 Identities=19% Similarity=0.147 Sum_probs=58.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch----H-------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE----M------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e----~------------- 231 (425)
-+++.||-.|+..=-..| .+++++|.|++.- . .++++ +.++.+.|++|-+|-+... .
T Consensus 414 g~mG~~l~~aiGa~la~p---~~~vv~i~GDG~f-~-m~~~e-L~Ta~~~~lpvi~vV~NN~~~~~i~~~~~~~~~~~~~ 487 (563)
T PRK08527 414 GTMGYGLPAALGAKLAVP---DKVVINFTGDGSI-L-MNIQE-LMTAVEYKIPVINIILNNNFLGMVRQWQTFFYEERYS 487 (563)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEecCchh-c-ccHHH-HHHHHHhCCCeEEEEEECCcchhHHHHHHhhcCCcee
Confidence 355555555554322222 4568888886542 1 23333 6778889999888877532 0
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.++.+.+.++|.+.|....
T Consensus 488 ~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 525 (563)
T PRK08527 488 ETDLSTQPDFVKLAESFGGIGFRVTTKEEFDKALKEAL 525 (563)
T ss_pred eccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 0246799999999999999999999987765
No 346
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=27.67 E-value=53 Score=21.99 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=12.3
Q ss_pred cceeCCCCCcccccc
Q 014401 382 LYVACPKCKKHFCLE 396 (425)
Q Consensus 382 ~~~~C~~C~~~fC~d 396 (425)
..|.|..|+...|.+
T Consensus 15 T~~~C~~C~v~lC~~ 29 (32)
T PF13842_consen 15 TRYMCSKCDVPLCVE 29 (32)
T ss_pred eEEEccCCCCcccCC
Confidence 579999998887765
No 347
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. 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 transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=27.55 E-value=2.9e+02 Score=27.45 Aligned_cols=51 Identities=12% Similarity=0.117 Sum_probs=30.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-Cc
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KI 220 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I 220 (425)
..+.+|+++|++.++...+-..++|-++.-+.. .||....+.++.|.+. +|
T Consensus 17 ~~~~~g~~la~~~iN~~gGi~G~~i~lv~~D~~-~~p~~a~~~a~~Li~~~~V 68 (347)
T cd06335 17 VSIRRGARLAIDEINAAGGVLGRKLELVERDDR-GNPARGLQNAQELAADEKV 68 (347)
T ss_pred HHHHHHHHHHHHHHHhcCCcCCeEEEEEeccCC-CCcHHHHHHHHHHhccCCe
Confidence 456778888888887653333455665554322 3555555666666654 65
No 348
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=27.51 E-value=3.2e+02 Score=30.02 Aligned_cols=88 Identities=13% Similarity=0.092 Sum_probs=60.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| .|+++.|.|++.- . ..+ ..+.++.+.+++|-+|-+....
T Consensus 430 gsmG~glpaaiGa~lA~p---~r~Vv~i~GDG~f-~-m~~-~EL~Ta~r~~lpvi~vV~NN~~y~~i~~~q~~~~~~~~~ 503 (595)
T PRK09107 430 GTMGYGLPAALGVQIAHP---DALVIDIAGDASI-Q-MCI-QEMSTAVQYNLPVKIFILNNQYMGMVRQWQQLLHGNRLS 503 (595)
T ss_pred hhhhhhHHHHHHHHHhCC---CCeEEEEEcCchh-h-ccH-HHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCccc
Confidence 456666666665433222 4678888886432 0 111 4588999999999999886321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.++.+.+.++|++.|....
T Consensus 504 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 541 (595)
T PRK09107 504 HSYTEAMPDFVKLAEAYGAVGIRCEKPGDLDDAIQEMI 541 (595)
T ss_pred cccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1245788889998888889999988887765
No 349
>cd04195 GT2_AmsE_like GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis. AmsE is a glycosyltransferase involved in exopolysaccharide amylovora biosynthesis in Erwinia amylovora. Amylovara is one of the three exopolysaccharide produced by E. amylovora. Amylovara-deficient mutants are non-pathogenic. It is a subfamily of Glycosyltransferase Family GT2, which 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.
Probab=27.29 E-value=3.9e+02 Score=23.63 Aligned_cols=81 Identities=9% Similarity=0.044 Sum_probs=40.8
Q ss_pred HHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHH-hCCcEEEEEEec-chHHHHHHHHHhhCCeEEEecCHhH-
Q 014401 177 LVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCK-ESKIRCSVIGLS-AEMFICKHLCQDTGGSYSVALDESH- 253 (425)
Q Consensus 177 ~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~ak-k~~I~V~vIglg-~e~~iLk~iA~~TGG~Y~~~~d~~~- 253 (425)
.++..+... .+...+|||+-++..+ .+..+.++.+. +.+|++....-. .-...+....+..+|.|+...|.++
T Consensus 17 ~~l~Sl~~q-~~~~~eiiivdd~ss~---d~t~~~~~~~~~~~~i~~i~~~~n~G~~~a~N~g~~~a~gd~i~~lD~Dd~ 92 (201)
T cd04195 17 EALESILKQ-TLPPDEVVLVKDGPVT---QSLNEVLEEFKRKLPLKVVPLEKNRGLGKALNEGLKHCTYDWVARMDTDDI 92 (201)
T ss_pred HHHHHHHhc-CCCCcEEEEEECCCCc---hhHHHHHHHHHhcCCeEEEEcCccccHHHHHHHHHHhcCCCEEEEeCCccc
Confidence 344444332 2334577666543222 23445555443 345555443211 1134456666677899998777663
Q ss_pred -----HHHHHHhc
Q 014401 254 -----FKELIMEH 261 (425)
Q Consensus 254 -----L~~lL~~~ 261 (425)
++.++..+
T Consensus 93 ~~~~~l~~~~~~~ 105 (201)
T cd04195 93 SLPDRFEKQLDFI 105 (201)
T ss_pred cCcHHHHHHHHHH
Confidence 45555544
No 350
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=27.18 E-value=2.4e+02 Score=30.75 Aligned_cols=89 Identities=11% Similarity=0.082 Sum_probs=60.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| .+.||.|+|++.- . .+ ...+.++++.+++|-+|-+....
T Consensus 430 g~mG~~lpaaiGa~la~p---~~~Vv~i~GDG~f-~-m~-~~eL~Tavr~~lpvi~vV~NN~~yg~i~~~~~~~~~~~~~ 503 (579)
T TIGR03457 430 GNCGYAFPTIIGAKIAAP---DRPVVAYAGDGAW-G-MS-MNEIMTAVRHDIPVTAVVFRNRQWGAEKKNQVDFYNNRFV 503 (579)
T ss_pred ccccchHHHHHhhhhhCC---CCcEEEEEcchHH-h-cc-HHHHHHHHHhCCCeEEEEEECcchHHHHHHHHHhhCCcce
Confidence 456655555555322222 4568888886432 1 11 26688999999998888774320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.+..+.+.++|...|.+...
T Consensus 504 ~~~~~~~~d~~~lA~a~G~~g~~v~~~~el~~al~~a~~ 542 (579)
T TIGR03457 504 GTELESELSFAGIADAMGAKGVVVDKPEDVGPALKKAIA 542 (579)
T ss_pred eccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 13577899999999999999999999888763
No 351
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=27.16 E-value=28 Score=29.70 Aligned_cols=24 Identities=42% Similarity=1.104 Sum_probs=17.4
Q ss_pred eEEcCCCCccc---cCC-------CCCCCCCCce
Q 014401 304 GYTCPRCKARV---CEL-------PTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~---C~l-------P~~C~~C~l~ 327 (425)
-|.||+|++-- |.+ -..|.+||+.
T Consensus 22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls 55 (104)
T COG4888 22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLS 55 (104)
T ss_pred eEecCccCCeeeeEEEEEecCceeEEEcccCcce
Confidence 79999998742 322 2479999986
No 352
>cd03371 TPP_PpyrDC Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as bialaphos tripeptide in Streptomyces hygroscopicus. These proteins require TPP and divalent metal cation cofactors.
Probab=27.07 E-value=4.5e+02 Score=24.30 Aligned_cols=71 Identities=7% Similarity=-0.041 Sum_probs=45.8
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCc-EEEEEEecchH-------------HHHHHHHHhhCCeEE-EecCHhHH
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKI-RCSVIGLSAEM-------------FICKHLCQDTGGSYS-VALDESHF 254 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I-~V~vIglg~e~-------------~iLk~iA~~TGG~Y~-~~~d~~~L 254 (425)
.+++++|.|++.-. .++ +.+.++.+.++ .|-+|-+.... .-+.++|+..|..|. .+.+.++|
T Consensus 66 ~~~Vv~i~GDG~f~--m~~-~eL~ta~~~~l~~i~ivV~NN~~yg~~~~~~~~~~~~d~~~~A~a~G~~~~~~v~~~~el 142 (188)
T cd03371 66 DRKVVCIDGDGAAL--MHM-GGLATIGGLAPANLIHIVLNNGAHDSVGGQPTVSFDVSLPAIAKACGYRAVYEVPSLEEL 142 (188)
T ss_pred CCcEEEEeCCcHHH--hhc-cHHHHHHHcCCCCcEEEEEeCchhhccCCcCCCCCCCCHHHHHHHcCCceEEecCCHHHH
Confidence 45688888865320 111 34556666665 45555554321 246789999998874 67889999
Q ss_pred HHHHHhcCC
Q 014401 255 KELIMEHAP 263 (425)
Q Consensus 255 ~~lL~~~~~ 263 (425)
.+.+.+...
T Consensus 143 ~~al~~a~~ 151 (188)
T cd03371 143 VAALAKALA 151 (188)
T ss_pred HHHHHHHHh
Confidence 998877653
No 353
>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=26.89 E-value=48 Score=31.51 Aligned_cols=40 Identities=28% Similarity=0.593 Sum_probs=26.8
Q ss_pred eeCCCCCcccccccc---hhhhccCCCCCCCCCCCCCCccccCC
Q 014401 384 VACPKCKKHFCLECD---IYIHESLHNCPGCESLRHSNPIVANE 424 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD---~fiHe~lh~CPgC~~~~~~~~~~~~~ 424 (425)
.+|..|+..+-.+ + .+-+..+-.||.|....+|+++.-+|
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 4577777765433 1 12355678899999988888775554
No 354
>PRK14873 primosome assembly protein PriA; Provisional
Probab=26.83 E-value=42 Score=37.72 Aligned_cols=39 Identities=26% Similarity=0.606 Sum_probs=29.0
Q ss_pred CCccccccccccCCCCCCCcceeCCCCC----------cccccccchhhhccCCCCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
...|..|.. ..+||.|. ...|.-|.. +..-..||.|.+.
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 447999972 35699997 356999986 3467899999863
No 355
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=26.80 E-value=2.5e+02 Score=28.94 Aligned_cols=68 Identities=13% Similarity=0.116 Sum_probs=47.2
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhc
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~----e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
.+++||..+.. .....++++.|++.||++.+|.+.. +...++++.+.++-...+-.|...|...+...
T Consensus 247 ad~~iva~Gs~---~~~a~eA~~~L~~~Gi~v~vi~~~~l~Pfp~~~i~~~l~~~k~VivvE~n~g~l~~ei~~~ 318 (352)
T PRK07119 247 AELVLVAYGTS---ARIAKSAVDMAREEGIKVGLFRPITLWPFPEKALEELADKGKGFLSVEMSMGQMVEDVRLA 318 (352)
T ss_pred CCEEEEEcCcc---HHHHHHHHHHHHHcCCeEEEEeeceecCCCHHHHHHHHhCCCEEEEEeCCccHHHHHHHHH
Confidence 34666654322 2456789999999999999999975 35567787777777666666655565555543
No 356
>PRK07524 hypothetical protein; Provisional
Probab=26.80 E-value=2.4e+02 Score=30.29 Aligned_cols=89 Identities=12% Similarity=0.034 Sum_probs=58.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..--.. ..+++++|.|++.- . .+++ .+.++.+.|++|-+|-+-...
T Consensus 407 g~mG~~lp~aiGa~lA~---p~~~vv~i~GDG~f-~-~~~~-el~ta~~~~lpi~~vV~NN~~~g~i~~~~~~~~~~~~~ 480 (535)
T PRK07524 407 GTLGYGLPAAIGAALGA---PERPVVCLVGDGGL-Q-FTLP-ELASAVEADLPLIVLLWNNDGYGEIRRYMVARDIEPVG 480 (535)
T ss_pred ccccchHHHHHHHHHhC---CCCcEEEEEcchHH-h-hhHH-HHHHHHHhCCCeEEEEEECCchHHHHHHHHHhcCCccc
Confidence 34444554444432222 24568888886542 1 3333 367889999998888776421
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.+..+.+.++|++.+.+...
T Consensus 481 ~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~~ 517 (535)
T PRK07524 481 VDPYTPDFIALARAFGCAAERVADLEQLQAALRAAFA 517 (535)
T ss_pred cCCCCCCHHHHHHHCCCcEEEeCCHHHHHHHHHHHHh
Confidence 12467888889988888899999998887764
No 357
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.79 E-value=28 Score=32.26 Aligned_cols=30 Identities=30% Similarity=0.645 Sum_probs=20.7
Q ss_pred CccccccccccCCCCC-------------CCcceeCCCCCccc
Q 014401 364 STCFGCQQSLLSSGNK-------------PGLYVACPKCKKHF 393 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~-------------~~~~~~C~~C~~~f 393 (425)
..|.-|+.++-..... ....|.||+|++.|
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 12258899999876
No 358
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. 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 transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=26.67 E-value=4e+02 Score=26.09 Aligned_cols=60 Identities=17% Similarity=0.184 Sum_probs=35.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I~V~vIglg~ 229 (425)
..+.+|+++|.+.++...+-+.++|-+++-+. ..||....+.++.+.+. +|..-+...++
T Consensus 17 ~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~-~~~~~~~~~~~~~li~~~~V~~iig~~~s 77 (341)
T cd06341 17 PGARAGADAAAGYANAAGGIAGRPIEYVWCDD-QGDPASAAACARDLVEDDKVVAVVGGSSG 77 (341)
T ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEEecC-CCChhHHHHHHHHHHHhcCceEEEecccc
Confidence 57788888888888654333344555554432 23555555666666665 77665555443
No 359
>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=26.62 E-value=5.3e+02 Score=24.64 Aligned_cols=52 Identities=6% Similarity=-0.082 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEE
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVI 225 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vI 225 (425)
-++.|+..+++..... ..+.|++++++..-+++.+.+.++.+.+.+..+.++
T Consensus 57 G~a~a~N~Gi~~a~~~----~~d~i~~lD~D~~~~~~~l~~l~~~~~~~~~~~~~~ 108 (281)
T TIGR01556 57 GIAGAQNQGLDASFRR----GVQGVLLLDQDSRPGNAFLAAQWKLLSAENGQACAL 108 (281)
T ss_pred chHHHHHHHHHHHHHC----CCCEEEEECCCCCCCHHHHHHHHHHHHhcCCceEEE
Confidence 4555555555554321 235888998776666666666677766654444444
No 360
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=26.35 E-value=39 Score=34.38 Aligned_cols=46 Identities=22% Similarity=0.503 Sum_probs=0.0
Q ss_pred CCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcceeCCCCCc
Q 014401 321 CRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 321 C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 391 (425)
||+||.. |+....... .......--+|..|...-.-. |-.|+.|++
T Consensus 187 CPvCGs~---------------P~~s~~~~~----~~~~G~RyL~CslC~teW~~~------R~~C~~Cg~ 232 (305)
T TIGR01562 187 CPACGSP---------------PVASMVRQG----GKETGLRYLSCSLCATEWHYV------RVKCSHCEE 232 (305)
T ss_pred CCCCCCh---------------hhhhhhccc----CCCCCceEEEcCCCCCccccc------CccCCCCCC
No 361
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=26.23 E-value=3.5e+02 Score=29.60 Aligned_cols=88 Identities=11% Similarity=0.076 Sum_probs=59.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++-||-.|+..--..| .|+++.|.|++.- . .+ ...+.++.+.+++|-+|-+....
T Consensus 430 g~mG~glpaaiGaala~p---~~~vv~i~GDG~f-~-m~-~~eL~Ta~~~~l~~~~vV~NN~~y~~i~~~q~~~~~~~~~ 503 (585)
T CHL00099 430 GTMGYGLPAAIGAQIAHP---NELVICISGDASF-Q-MN-LQELGTIAQYNLPIKIIIINNKWQGMVRQWQQAFYGERYS 503 (585)
T ss_pred cchhhhHHHHHHHHHhCC---CCeEEEEEcchhh-h-hh-HHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCCcc
Confidence 456666666655433222 4568888886432 1 11 25678888999998887775320
Q ss_pred --------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 --------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 --------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.+..+.+.++|.+.|....
T Consensus 504 ~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 542 (585)
T CHL00099 504 HSNMEEGAPDFVKLAEAYGIKGLRIKSRKDLKSSLKEAL 542 (585)
T ss_pred cccCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1256788889999999999999999887765
No 362
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=26.15 E-value=34 Score=35.39 Aligned_cols=40 Identities=33% Similarity=0.717 Sum_probs=32.5
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcccc-cccchhhhccCCCCCCC
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFC-LECDIYIHESLHNCPGC 411 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC-~dCD~fiHe~lh~CPgC 411 (425)
...|-.|++. ..-|+||+|..-|| ++|.. .|..+.+|-|=
T Consensus 17 ~vlCgVClkn--------E~KYkCPRCl~rtCsLeCsk-kHK~~dnCsG~ 57 (390)
T KOG2858|consen 17 SVLCGVCLKN--------EPKYKCPRCLARTCSLECSK-KHKIGDNCSGS 57 (390)
T ss_pred hhhhhhcccC--------cccccCcchhhhheeccccc-cccccCCCcCC
Confidence 4689999833 23599999999997 68875 79999999885
No 363
>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=26.01 E-value=1.8e+02 Score=21.10 Aligned_cols=36 Identities=11% Similarity=0.087 Sum_probs=25.3
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
|=+.|..-..+++-..+.++.+.+.||+|+.|+-+.
T Consensus 4 isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~~ 39 (66)
T cd04924 4 VAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQGS 39 (66)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 444554433345555678999999999999998753
No 364
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=25.94 E-value=24 Score=34.99 Aligned_cols=28 Identities=32% Similarity=0.823 Sum_probs=22.9
Q ss_pred eCCCCC----cccccccchhhhccCCCCCCCCC
Q 014401 385 ACPKCK----KHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 385 ~C~~C~----~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
.|..|+ .+||.-||-|+|+- ..||.|.+
T Consensus 251 ~C~~~~~~A~~~~C~iC~~~~~~R-~~C~~~kA 282 (325)
T KOG4399|consen 251 HCSICNHCAVKHGCFICGELDHKR-STCPNIKA 282 (325)
T ss_pred eeecccchhhhcceeecccccccc-ccCccHHH
Confidence 455554 57999999999999 88999974
No 365
>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=25.88 E-value=46 Score=24.18 Aligned_cols=29 Identities=38% Similarity=0.890 Sum_probs=20.5
Q ss_pred ccccccc-cccCCCCCCCcceeCCCCCc-ccccccch
Q 014401 365 TCFGCQQ-SLLSSGNKPGLYVACPKCKK-HFCLECDI 399 (425)
Q Consensus 365 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~-~fC~dCD~ 399 (425)
.|-+|.. ++. +.||.|..|.. ..|.+|-.
T Consensus 2 ~Cd~C~~~pI~------G~RykC~~C~dyDLC~~Cf~ 32 (45)
T cd02344 2 TCDGCQMFPIN------GPRFKCRNCDDFDFCENCFK 32 (45)
T ss_pred CCCCCCCCCCc------cCeEECCCCCCccchHHhhC
Confidence 5889974 332 25899999984 57777743
No 366
>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=25.86 E-value=4.7e+02 Score=27.08 Aligned_cols=77 Identities=12% Similarity=-0.052 Sum_probs=41.4
Q ss_pred HHHHHHHHHhCCcEEEEEEecc-h----HHHHHHHHHhhCCeEEE-ecCHhHHHHHHHhcCCCCccc-hhhhhhceeeec
Q 014401 208 IMETIQKCKESKIRCSVIGLSA-E----MFICKHLCQDTGGSYSV-ALDESHFKELIMEHAPPPPAI-AEFAIANLIKMG 280 (425)
Q Consensus 208 i~~ti~~akk~~I~V~vIglg~-e----~~iLk~iA~~TGG~Y~~-~~d~~~L~~lL~~~~~pp~~~-~~~~~~~Li~mG 280 (425)
....+..+.+.|+.|-.+|-.. . ...++.+. ++.... ..|..++.+++...- |.-.- .....-.|+++|
T Consensus 288 ~~~la~~L~elGm~vv~~~t~~~~~~~~~~~~~~l~---~~~~v~~~~d~~~l~~~i~~~~-pDlli~~~~~a~pl~r~G 363 (396)
T cd01979 288 EIPLARFLTRCGMIVVEVGTPYLDKRFQAAELELLP---PMVRIVEKPDNYRQLDRIRELR-PDLVVTGLGLANPLEARG 363 (396)
T ss_pred HHHHHHHHHHCCCEEEeeCCCcCChHHHHHHHHhcC---CCCeEEECCCHHHHHHHHHhcC-CCEEEecccccCcHHhCC
Confidence 4567888888999887765432 1 12333333 343222 234444555554422 33221 112334899999
Q ss_pred CCCCCCCC
Q 014401 281 FPQRAGEG 288 (425)
Q Consensus 281 FP~~~~~~ 288 (425)
||.+....
T Consensus 364 ~P~~dr~~ 371 (396)
T cd01979 364 ITTKWSIE 371 (396)
T ss_pred Ccceeecc
Confidence 99986543
No 367
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=25.84 E-value=46 Score=29.80 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=21.8
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
|=.|+.|+++|.-.-..|+.|+..
T Consensus 29 g~kC~~CG~v~~PPr~~Cp~C~~~ 52 (140)
T COG1545 29 GTKCKKCGRVYFPPRAYCPKCGSE 52 (140)
T ss_pred EEEcCCCCeEEcCCcccCCCCCCC
Confidence 778999999999888899999976
No 368
>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=25.79 E-value=32 Score=29.55 Aligned_cols=27 Identities=26% Similarity=0.545 Sum_probs=17.9
Q ss_pred cceeCCCCCcccccccchhhhccCCCCCCCCCC
Q 014401 382 LYVACPKCKKHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
.+.+|..|+..|=.+=..|. ||.|.+.
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 46889999999876654443 9999864
No 369
>PRK07591 threonine synthase; Validated
Probab=25.75 E-value=52 Score=34.69 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=20.3
Q ss_pred eEEcCCCCcccc-CCCCCCCCCCceecCc
Q 014401 304 GYTCPRCKARVC-ELPTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C-~lP~~C~~C~l~Lvs~ 331 (425)
+|.|++|+..|= +....||.||-.|-..
T Consensus 18 ~l~C~~Cg~~~~~~~~~~C~~cg~~l~~~ 46 (421)
T PRK07591 18 ALKCRECGAEYPLGPIHVCEECFGPLEVA 46 (421)
T ss_pred EEEeCCCCCcCCCCCCccCCCCCCeEEEE
Confidence 799999998773 3336799998665444
No 370
>PF14353 CpXC: CpXC protein
Probab=25.69 E-value=41 Score=29.15 Aligned_cols=21 Identities=33% Similarity=0.819 Sum_probs=14.4
Q ss_pred ceeCCCCCcccccccchhhhc
Q 014401 383 YVACPKCKKHFCLECDIYIHE 403 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe 403 (425)
.|.||.|+..|=++=....|+
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY~D 58 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLYHD 58 (128)
T ss_pred EEECCCCCCceecCCCEEEEc
Confidence 589999998875554444444
No 371
>PRK08617 acetolactate synthase; Reviewed
Probab=25.53 E-value=2e+02 Score=31.10 Aligned_cols=70 Identities=7% Similarity=-0.044 Sum_probs=51.9
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----------------------HHHHHHHHhhCCeEEE
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------------FICKHLCQDTGGSYSV 247 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------------~iLk~iA~~TGG~Y~~ 247 (425)
.+++++|+|++.- . .++ +.+.++.+.|++|-+|-+.... .-+.++|+..|+.|..
T Consensus 432 ~~~vv~i~GDGsf-~-m~~-~eL~Ta~~~~lpv~~vV~NN~~~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~ 508 (552)
T PRK08617 432 GKKVVSVSGDGGF-L-FSA-MELETAVRLKLNIVHIIWNDGHYNMVEFQEEMKYGRSSGVDFGPVDFVKYAESFGAKGLR 508 (552)
T ss_pred CCcEEEEEechHH-h-hhH-HHHHHHHHhCCCeEEEEEECCccchHHHHHHhhcCCcccCCCCCCCHHHHHHHCCCeEEE
Confidence 4568888886532 0 122 4567899999999888775320 1256799999999999
Q ss_pred ecCHhHHHHHHHhcC
Q 014401 248 ALDESHFKELIMEHA 262 (425)
Q Consensus 248 ~~d~~~L~~lL~~~~ 262 (425)
+.+.++|++.|....
T Consensus 509 v~~~~eL~~al~~a~ 523 (552)
T PRK08617 509 VTSPDELEPVLREAL 523 (552)
T ss_pred ECCHHHHHHHHHHHH
Confidence 999999999998876
No 372
>PRK08329 threonine synthase; Validated
Probab=25.48 E-value=37 Score=34.72 Aligned_cols=41 Identities=22% Similarity=0.565 Sum_probs=26.6
Q ss_pred EEcCCCCcccc-CCCCCCCCCCceecCchhHH-----------hhhcccCCCCC
Q 014401 305 YTCPRCKARVC-ELPTDCRICGLQLVSSPHLA-----------RSYHHLFPIAP 346 (425)
Q Consensus 305 y~Cp~C~s~~C-~lP~~C~~C~l~Lvs~phLa-----------rsyhhlfp~~~ 346 (425)
|.|++|+..|= +.+..| .||-.|....++. +-|+.++|++.
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 5877665553322 34888888754
No 373
>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=25.44 E-value=87 Score=26.66 Aligned_cols=49 Identities=18% Similarity=0.232 Sum_probs=34.6
Q ss_pred EEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCC
Q 014401 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGG 243 (425)
Q Consensus 192 eILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~----e~~iLk~iA~~TGG 243 (425)
+|+||..+.. -....++++.++++||++.+|.+-. +...+.+++..++-
T Consensus 11 di~iia~G~~---~~~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~~ 63 (124)
T PF02780_consen 11 DITIIAYGSM---VEEALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTGR 63 (124)
T ss_dssp SEEEEEETTH---HHHHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHHH
T ss_pred CEEEEeehHH---HHHHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhcc
Confidence 4677754422 1345789999999999999999874 45667776666653
No 374
>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=25.43 E-value=40 Score=35.83 Aligned_cols=43 Identities=19% Similarity=0.393 Sum_probs=23.8
Q ss_pred cceeeecCCccc--c-C-eEEcCCCCccccC--CCCCCCCCCceecCch
Q 014401 290 ISICSCHKEVKV--G-V-GYTCPRCKARVCE--LPTDCRICGLQLVSSP 332 (425)
Q Consensus 290 ~a~C~CH~~~~~--~-~-Gy~Cp~C~s~~C~--lP~~C~~C~l~Lvs~p 332 (425)
..+-.|....+. . . .-.||-|+|+|.. --..|++|++.-|-.+
T Consensus 362 npF~ICa~s~tPIY~G~~~v~CP~cgA~y~~~~kG~lC~vC~l~~IG~~ 410 (422)
T PF06957_consen 362 NPFDICAASYTPIYRGSPSVKCPYCGAKYHPEYKGQLCPVCELSEIGAD 410 (422)
T ss_dssp S-EEEBTTT--EEETTS-EEE-TTT--EEEGGGTTSB-TTTTTBBTT--
T ss_pred CCceeeecccccccCCCCCeeCCCCCCccChhhCCCCCCCCcceeeCCc
Confidence 346677665532 2 1 3469999999994 3479999999877554
No 375
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=25.30 E-value=8.5e+02 Score=25.95 Aligned_cols=78 Identities=13% Similarity=0.125 Sum_probs=50.4
Q ss_pred HHHHHHHHHhCCcEEEEEEecch------HHHHHHHHHhhC--CeEEEecCHhHHHHHHHhc-CCCCccch--------h
Q 014401 208 IMETIQKCKESKIRCSVIGLSAE------MFICKHLCQDTG--GSYSVALDESHFKELIMEH-APPPPAIA--------E 270 (425)
Q Consensus 208 i~~ti~~akk~~I~V~vIglg~e------~~iLk~iA~~TG--G~Y~~~~d~~~L~~lL~~~-~~pp~~~~--------~ 270 (425)
.....+.+.+.|+.+-.+.++++ ...++++.+..+ ..-+...|..++.+++... ..|+-.-. .
T Consensus 317 ~~~l~~fl~elGm~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vi~~~d~~e~~~~i~~~~~~~dliig~s~~~~~A~ 396 (454)
T cd01973 317 VIGLAEFCLEVEMKPVLLLLGDDNSKYKKDPRIKALKEKADYDMEIVTNADLWELEKRIKNKGLELDLILGHSKGRYIAI 396 (454)
T ss_pred HHHHHHHHHHCCCeEEEEEECCCCcccchhHHHHHHHhhcCCCceEEECCCHHHHHHHHHhcCCCCCEEEECCccHHHHH
Confidence 34456666789999888888863 456777755443 3444556777888887765 33443321 1
Q ss_pred hhhhceeeecCCCCC
Q 014401 271 FAIANLIKMGFPQRA 285 (425)
Q Consensus 271 ~~~~~Li~mGFP~~~ 285 (425)
.....++++|||...
T Consensus 397 ~~gip~~~~g~Pv~d 411 (454)
T cd01973 397 DNNIPMVRVGFPTFD 411 (454)
T ss_pred HcCCCEEEecCCeee
Confidence 233479999999864
No 376
>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=25.28 E-value=4e+02 Score=27.96 Aligned_cols=57 Identities=11% Similarity=0.178 Sum_probs=33.3
Q ss_pred HHHHHHHHhCCcEEEEEEec---chHHHHHHHHHhhCCeEEEecCHh------HHHHHHHhcCCCC
Q 014401 209 METIQKCKESKIRCSVIGLS---AEMFICKHLCQDTGGSYSVALDES------HFKELIMEHAPPP 265 (425)
Q Consensus 209 ~~ti~~akk~~I~V~vIglg---~e~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL~~~~~pp 265 (425)
.+.++.+++..-++.++-+. +....|....+.+.|.|++..|.| .+++++..+...|
T Consensus 95 ~~il~~~~~~~~~v~v~~~~~~~Gka~AlN~gl~~s~g~~v~~~DaD~~~~~d~L~~l~~~f~~~~ 160 (439)
T TIGR03111 95 FQVFCRAQNEFPGLSLRYMNSDQGKAKALNAAIYNSIGKYIIHIDSDGKLHKDAIKNMVTRFENNP 160 (439)
T ss_pred HHHHHHHHHhCCCeEEEEeCCCCCHHHHHHHHHHHccCCEEEEECCCCCcChHHHHHHHHHHHhCC
Confidence 44555555543334443332 235677777788889999876665 3666666554333
No 377
>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=25.07 E-value=88 Score=25.03 Aligned_cols=49 Identities=10% Similarity=0.111 Sum_probs=20.9
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEeCCCC---CCccCHHHHHHHHHhCCcEEEEE
Q 014401 175 LDLVQGLLSQIPSYGHREVLILYSALST---CDPGDIMETIQKCKESKIRCSVI 225 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILVI~~s~~t---~dp~~i~~ti~~akk~~I~V~vI 225 (425)
+..+++.|+.. +..+++++|+|.... .+........+.+.+....|.+.
T Consensus 27 ~~a~l~~l~~~--~~~~~~i~V~G~~~d~g~~~~~~~~~~~~~~~~~~d~vi~~ 78 (91)
T PF02875_consen 27 IRALLEALKEL--YPKGRIIAVFGAMGDLGSKDKDFHEEIGELAAQLADVVILT 78 (91)
T ss_dssp HHHHHHHHHHH--CTTSEEEEEEEEBTT-HTSHHHCHHHHHHHHTTCSSEEEEE
T ss_pred HHHHHHHHHHh--ccCCcEEEEEccccccccccHHHHHHHHHHHHhcCCEEEEc
Confidence 33344444443 224556777664221 22212223444444445554443
No 378
>PRK11869 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional
Probab=24.92 E-value=3.1e+02 Score=27.48 Aligned_cols=88 Identities=11% Similarity=0.027 Sum_probs=52.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCH-HHHHHHHHhCCcEEEEEEecchHH---------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEMF--------------- 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i-~~ti~~akk~~I~V~vIglg~e~~--------------- 232 (425)
+.++.||-.|...=...| .+.||.+.|+++. ..+ .+-+..+.+.|+.|-+|-+..+..
T Consensus 60 ~~mG~alp~AiGaklA~p---d~~VVai~GDG~~---~~iG~~eL~tA~r~nl~i~~IV~NN~~Yg~t~~Q~s~~t~~g~ 133 (280)
T PRK11869 60 TLHGRAIPAATAVKATNP---ELTVIAEGGDGDM---YAEGGNHLIHAIRRNPDITVLVHNNQVYGLTKGQASPTTLKGF 133 (280)
T ss_pred cccccHHHHHHHHHHHCC---CCcEEEEECchHH---hhCcHHHHHHHHHhCcCcEEEEEECHHHhhhcceecCCCCCCc
Confidence 335555555555422222 3568888886543 223 466778888999999988864421
Q ss_pred --------------HHHHHHHhhCCeEEE---ecCHhHHHHHHHhcC
Q 014401 233 --------------ICKHLCQDTGGSYSV---ALDESHFKELIMEHA 262 (425)
Q Consensus 233 --------------iLk~iA~~TGG~Y~~---~~d~~~L~~lL~~~~ 262 (425)
-+-+||+..|..|.. +.+.++|.+.+.+..
T Consensus 134 ~~~~~p~g~~~~~~D~~~lA~a~G~~~va~~~~~~~~~l~~~i~~Al 180 (280)
T PRK11869 134 KTPTQPWGVFEEPFNPIALAIALDASFVARTFSGDIEETKEILKEAI 180 (280)
T ss_pred ccccCCCCccCCCCCHHHHHHHCCCCEEEEeCCCCHHHHHHHHHHHH
Confidence 234456666666665 445666666655544
No 379
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.86 E-value=46 Score=34.84 Aligned_cols=90 Identities=19% Similarity=0.476 Sum_probs=49.0
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCcc-CCCC----CCCCCCCccccccccccCCCC
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPL-CLND----PRNRSRSTCFGCQQSLLSSGN 378 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~-~~~~----~~~~~~~~C~~C~~~~~~~~~ 378 (425)
--.|+.|+..| |--|+.. ||-..-...|++.... .++. ..++.-+.|.-|...+...
T Consensus 258 ~~~C~~C~~~f------Cv~C~~~----------wh~~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~ie~~-- 319 (384)
T KOG1812|consen 258 RRPCVKCHELF------CVKCKVP----------WHANLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMIELS-- 319 (384)
T ss_pred ccccccCCCce------eecCCCc----------CCCCCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceeeeec--
Confidence 34688888887 5557665 5543333334333211 0000 0012245788887554321
Q ss_pred CCCcceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 379 KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 379 ~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
..=....|. |+..||..|-.=.+.--+.|..|.
T Consensus 320 ~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 320 EGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred CCcceEEee-ccccchhhcCcchhhCCccccCcc
Confidence 112357899 999999999854444444455444
No 380
>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=24.86 E-value=2.5e+02 Score=22.87 Aligned_cols=42 Identities=17% Similarity=0.250 Sum_probs=28.1
Q ss_pred cEEEEEEeCCCCCCccC---HHHHHHHHHhCCcEEEEEEecchHH
Q 014401 191 REVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSAEMF 232 (425)
Q Consensus 191 reILVI~~s~~t~dp~~---i~~ti~~akk~~I~V~vIglg~e~~ 232 (425)
+.+|+=+++....|... +.+..+.+++.|+++.++|+..++.
T Consensus 42 ~~vvlDls~v~~iDssg~~~l~~~~~~~~~~g~~l~l~g~~~~v~ 86 (109)
T cd07041 42 RGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTGIRPEVA 86 (109)
T ss_pred CEEEEECCCCchhcHHHHHHHHHHHHHHHHcCCeEEEEeCCHHHH
Confidence 33444455555444433 3467888889999999999987653
No 381
>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=24.82 E-value=20 Score=26.57 Aligned_cols=25 Identities=32% Similarity=0.733 Sum_probs=20.9
Q ss_pred eEEcCCCCccccCCCCCCCCCCcee
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~L 328 (425)
.|.|=.|++..=.....|++|+..|
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 382
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=24.75 E-value=21 Score=38.00 Aligned_cols=43 Identities=21% Similarity=0.418 Sum_probs=33.2
Q ss_pred CCCCCCCCCccccccccccCCCCCCCcceeCCCCCcccccccchhhh
Q 014401 356 NDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIH 402 (425)
Q Consensus 356 ~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiH 402 (425)
+|.....-..|-.|..+|.-. --+.-|--|+.+.|.+|..||-
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 554455566999999988532 1256799999999999999985
No 383
>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=24.66 E-value=65 Score=24.65 Aligned_cols=31 Identities=23% Similarity=0.552 Sum_probs=21.4
Q ss_pred CCCCccccccccccCCCCCCCcceeCCCCCccc
Q 014401 361 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 361 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 393 (425)
..+..|..|....... .....|.||.|+..+
T Consensus 26 ~TSq~C~~CG~~~~~~--~~~r~~~C~~Cg~~~ 56 (69)
T PF07282_consen 26 YTSQTCPRCGHRNKKR--RSGRVFTCPNCGFEM 56 (69)
T ss_pred CCccCccCcccccccc--cccceEEcCCCCCEE
Confidence 3677899998666541 123468999998764
No 384
>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=24.66 E-value=48 Score=34.79 Aligned_cols=22 Identities=18% Similarity=0.483 Sum_probs=15.8
Q ss_pred eEEcCCCCcccc-CCCCCCCCCC
Q 014401 304 GYTCPRCKARVC-ELPTDCRICG 325 (425)
Q Consensus 304 Gy~Cp~C~s~~C-~lP~~C~~C~ 325 (425)
-|.|++|+..|= +.+..|+.|+
T Consensus 2 ~l~C~~Cg~~~~~~~~~~C~~c~ 24 (398)
T TIGR03844 2 TLRCPGCGEVLPDHYTLSCPLDC 24 (398)
T ss_pred EEEeCCCCCccCCccccCCCCCC
Confidence 378999998884 2345798655
No 385
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=24.65 E-value=1.7e+02 Score=31.36 Aligned_cols=53 Identities=15% Similarity=0.110 Sum_probs=35.8
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 175 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
...|...++..+....++|+|+.|.++ +-||=.-++..|.+.|..|.++-++.
T Consensus 44 ~ava~~i~~~~~~~~~~~VlVlcG~GN--NGGDGlv~AR~L~~~G~~V~v~~~~~ 96 (462)
T PLN03049 44 LSVASAIAEVYSPSEYRRVLALCGPGN--NGGDGLVAARHLHHFGYKPSICYPKR 96 (462)
T ss_pred HHHHHHHHHhcccccCCEEEEEECCCC--CHHHHHHHHHHHHHCCCceEEEEECC
Confidence 334443344443212356888888654 35777888999999999999998874
No 386
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=24.61 E-value=72 Score=25.00 Aligned_cols=27 Identities=33% Similarity=0.476 Sum_probs=20.1
Q ss_pred CCCHHHHHHHHHHHHHHHHhccCCCCc
Q 014401 105 RPSRMAVVAKQVEAFVREFFDQNPLSQ 131 (425)
Q Consensus 105 ~P~RL~~a~~~l~~FI~~~~~qnP~sq 131 (425)
.|.........-..||+.||..+|++|
T Consensus 4 ~~~~~~k~~kK~i~~v~~FF~~DPlGq 30 (64)
T PF05596_consen 4 KPEDDKKSVKKWIEEVRNFFYEDPLGQ 30 (64)
T ss_pred chhhhHHhHHHHHHHHHHHhccCchHH
Confidence 466666666667789999999988654
No 387
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.59 E-value=62 Score=36.71 Aligned_cols=59 Identities=27% Similarity=0.792 Sum_probs=0.0
Q ss_pred cCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcceeC
Q 014401 307 CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVAC 386 (425)
Q Consensus 307 Cp~C~s~~C~lP~~C~~C~l~Lvs~phLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C 386 (425)
|+.|+.++=...+.|+-|...| |+ |-+=.+++.+. ..|-|
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 014401 387 PKCKKHFCLECDIYIHESLH--NCPGC 411 (425)
Q Consensus 387 ~~C~~~fC~dCD~fiHe~lh--~CPgC 411 (425)
|.|++- +.-||--| +||-|
T Consensus 1160 ~~CkH~------a~~~EIs~y~~CPLC 1180 (1189)
T KOG2041|consen 1160 PRCKHR------AHQHEISKYNCCPLC 1180 (1189)
T ss_pred cccccc------cccccccccccCccc
No 388
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=24.58 E-value=41 Score=20.80 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=16.9
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
.+.|+.|.-..=.--..|..|++.
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 467888876655556678888764
No 389
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=24.49 E-value=3.3e+02 Score=29.54 Aligned_cols=88 Identities=13% Similarity=0.037 Sum_probs=59.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.||-.|+..--.. ..|+++.|.|++.- . .+ ...+.++.+.|+++-+|-+....
T Consensus 414 g~mG~glpaaiGa~la~---p~~~Vv~i~GDG~f-~-m~-~~eL~Ta~~~~l~i~~vV~NN~~y~~i~~~~~~~~~~~~~ 487 (561)
T PRK06048 414 GTMGYGFPAAIGAKVGK---PDKTVIDIAGDGSF-Q-MN-SQELATAVQNDIPVIVAILNNGYLGMVRQWQELFYDKRYS 487 (561)
T ss_pred cccccHHHHHHHHHHhC---CCCcEEEEEeCchh-h-cc-HHHHHHHHHcCCCeEEEEEECCccHHHHHHHHHHcCCccc
Confidence 35555665555532222 24568888886532 1 12 24578889999998888885320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.|..+.+.++|...|.+..
T Consensus 488 ~~~~~~~~d~~~lA~a~G~~~~~v~t~~el~~al~~a~ 525 (561)
T PRK06048 488 HTCIKGSVDFVKLAEAYGALGLRVEKPSEVRPAIEEAV 525 (561)
T ss_pred ccCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1156789999999999999999999887776
No 390
>PRK08266 hypothetical protein; Provisional
Probab=24.44 E-value=4.2e+02 Score=28.49 Aligned_cols=88 Identities=8% Similarity=0.000 Sum_probs=59.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.+|-.|+..-... ..+.+++|+|++.- . .++ +.+.++.+.+++|-+|-+-...
T Consensus 402 GsmG~~lp~aiGa~la~---p~~~vv~v~GDG~f-~-~~~-~eL~ta~~~~lpv~ivv~NN~~y~~~~~~~~~~~~~~~~ 475 (542)
T PRK08266 402 GTLGYGFPTALGAKVAN---PDRPVVSITGDGGF-M-FGV-QELATAVQHNIGVVTVVFNNNAYGNVRRDQKRRFGGRVV 475 (542)
T ss_pred cccccHHHHHHHHHHhC---CCCcEEEEEcchhh-h-ccH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCCcc
Confidence 45666666665543222 24568888886532 1 223 5567789999998888765321
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|..|+.+.+.++|++.+....
T Consensus 476 ~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (542)
T PRK08266 476 ASDLVNPDFVKLAESFGVAAFRVDSPEELRAALEAAL 512 (542)
T ss_pred cCCCCCCCHHHHHHHcCCeEEEeCCHHHHHHHHHHHH
Confidence 1256788888999999999999999887765
No 391
>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=24.39 E-value=51 Score=29.90 Aligned_cols=29 Identities=28% Similarity=0.595 Sum_probs=21.8
Q ss_pred cceeCCCCCcccccccchhhhccCCCCCCCCCC
Q 014401 382 LYVACPKCKKHFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
+.|+|.+|+....+. . =+.|.-||.|...
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 368888888888875 1 3678889988764
No 392
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.31 E-value=39 Score=29.33 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=21.3
Q ss_pred eEEcCCCCccccCC---CCCCCCCCcee
Q 014401 304 GYTCPRCKARVCEL---PTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~L 328 (425)
--+||-|++||=.| |..||-||.+.
T Consensus 9 KridPetg~KFYDLNrdPiVsPytG~s~ 36 (129)
T COG4530 9 KRIDPETGKKFYDLNRDPIVSPYTGKSY 36 (129)
T ss_pred cccCccccchhhccCCCccccCcccccc
Confidence 35899999999876 78999999874
No 393
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=24.26 E-value=4.4e+02 Score=28.69 Aligned_cols=88 Identities=17% Similarity=0.084 Sum_probs=58.5
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~------------------ 231 (425)
+++-+|-.|+..-...| .+++++|.|++.- . .++ ..+.++.+.++++-+|-+....
T Consensus 425 ~mG~glpaAiGaala~p---~~~vv~i~GDGsf-~-m~~-~eL~ta~r~~lpi~ivV~NN~~~~~i~~~~~~~~~~~~~~ 498 (571)
T PRK07710 425 TMGFGLPAAIGAQLAKP---DETVVAIVGDGGF-Q-MTL-QELSVIKELSLPVKVVILNNEALGMVRQWQEEFYNQRYSH 498 (571)
T ss_pred cccchHHHHHHHHHhCC---CCcEEEEEcchHH-h-hhH-HHHHHHHHhCCCeEEEEEECchHHHHHHHHHHHhCCccee
Confidence 44445544444322222 4568888886532 1 233 3488899999999888885321
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+..|+.|..+.+.++|...+.....
T Consensus 499 ~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~~ 536 (571)
T PRK07710 499 SLLSCQPDFVKLAEAYGIKGVRIDDELEAKEQLQHAIE 536 (571)
T ss_pred ccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 12567899999999999999999888877653
No 394
>PRK06163 hypothetical protein; Provisional
Probab=24.18 E-value=3.9e+02 Score=25.25 Aligned_cols=70 Identities=17% Similarity=0.188 Sum_probs=45.4
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHh-CCcEEEEEEecchH--------------HHHHHHHHhhCCe-EEEecCHhH
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAEM--------------FICKHLCQDTGGS-YSVALDESH 253 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk-~~I~V~vIglg~e~--------------~iLk~iA~~TGG~-Y~~~~d~~~ 253 (425)
.++||.|+|++.- -..+ ..+.++.+ +++++-+|-+.... .-+.++|+.-|.. ++.+.+.++
T Consensus 75 ~r~Vv~i~GDG~f--~m~~-~eL~Ta~~~~~lpi~ivV~NN~~yg~~~~~~~~~~~~~Df~~lA~a~G~~~~~~v~~~~e 151 (202)
T PRK06163 75 KRRVIALEGDGSL--LMQL-GALGTIAALAPKNLTIIVMDNGVYQITGGQPTLTSQTVDVVAIARGAGLENSHWAADEAH 151 (202)
T ss_pred CCeEEEEEcchHH--HHHH-HHHHHHHHhcCCCeEEEEEcCCchhhcCCccCCCCCCCCHHHHHHHCCCceEEEeCCHHH
Confidence 4568888886431 0112 34455544 46777777665321 2367899999987 567889999
Q ss_pred HHHHHHhcC
Q 014401 254 FKELIMEHA 262 (425)
Q Consensus 254 L~~lL~~~~ 262 (425)
|...|.+..
T Consensus 152 l~~al~~a~ 160 (202)
T PRK06163 152 FEALVDQAL 160 (202)
T ss_pred HHHHHHHHH
Confidence 988887775
No 395
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=24.17 E-value=2.6e+02 Score=27.21 Aligned_cols=79 Identities=13% Similarity=0.185 Sum_probs=45.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHh-CCcEEEEEEecch-HHHHHHHHHhhCCeEE
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAE-MFICKHLCQDTGGSYS 246 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk-~~I~V~vIglg~e-~~iLk~iA~~TGG~Y~ 246 (425)
..+.+|+++|.+.++...+-..++|-++.-+ +..|+....+.++.+.. .+|.+-+=.++++ ...+..+++..|--++
T Consensus 19 ~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D-~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i 97 (343)
T PF13458_consen 19 QDFLRGAELAVDEINAAGGINGRKIELVVYD-DGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYI 97 (343)
T ss_dssp HHHHHHHHHHHHHHHHTTEETTEEEEEEEEE--TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEE
T ss_pred HHHHHHHHHHHHHHHHhCCcCCccceeeecc-CCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEE
Confidence 4677788888888876422234555555433 22355555667777766 7766554445543 4556666776665555
Q ss_pred Ee
Q 014401 247 VA 248 (425)
Q Consensus 247 ~~ 248 (425)
.+
T Consensus 98 ~~ 99 (343)
T PF13458_consen 98 SP 99 (343)
T ss_dssp ES
T ss_pred Ee
Confidence 43
No 396
>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=23.95 E-value=44 Score=26.72 Aligned_cols=24 Identities=33% Similarity=0.729 Sum_probs=17.6
Q ss_pred ccccccchhhhccCC--------------CCCCCCCCC
Q 014401 392 HFCLECDIYIHESLH--------------NCPGCESLR 415 (425)
Q Consensus 392 ~fC~dCD~fiHe~lh--------------~CPgC~~~~ 415 (425)
.+|..|..|.+.... +||||....
T Consensus 7 l~C~~C~~y~~~~~~~~~~~~~~~~~~~~~C~GCr~~~ 44 (78)
T PF12675_consen 7 LDCGNCPAYEAGKISDASLRLKEASPEKIRCPGCRSGG 44 (78)
T ss_pred CccccchhhhcCCccHHHHHHhhccCCCCcCcCCcCCC
Confidence 467888888877655 699997643
No 397
>PRK11823 DNA repair protein RadA; Provisional
Probab=23.89 E-value=45 Score=35.48 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=22.2
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
.|+|..|+...=+.--.||.|+.+
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 398
>PRK12496 hypothetical protein; Provisional
Probab=23.86 E-value=40 Score=31.01 Aligned_cols=25 Identities=20% Similarity=0.458 Sum_probs=16.1
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcc
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
..|.||.+.|+... ..-.||.|++.
T Consensus 128 ~~C~gC~~~~~~~~----~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPEDY----PDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCCC----CCCcCCCCCCh
Confidence 36999998886321 11348888864
No 399
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=23.85 E-value=3.4e+02 Score=27.21 Aligned_cols=54 Identities=11% Similarity=0.190 Sum_probs=30.7
Q ss_pred cchHHHHHHHHHHHHhCCCC-CCCcEEEEEEeCCCCCCccCHH-HHHHHHHhCCcEE
Q 014401 168 DSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRC 222 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~-~~sreILVI~~s~~t~dp~~i~-~ti~~akk~~I~V 222 (425)
+..+.+|+.+|++.++...+ -..++|-+++-+.. ++|.... .+.+.+.+.+|.+
T Consensus 16 g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~-~~~~~a~~~a~~l~~~~~v~a 71 (389)
T cd06352 16 LARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTE-CSESVALLAAVDLYWEHNVDA 71 (389)
T ss_pred hhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCC-CchhhhHHHHHHHHhhcCCcE
Confidence 45677888888888887541 23445555554322 3443333 4455556667654
No 400
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.83 E-value=32 Score=35.99 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=26.3
Q ss_pred ccccccccccCCCCCCCcceeCCCCCcccccccchhhhcc
Q 014401 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 404 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~ 404 (425)
.|..|.....-.....+.+..|++|+..||++|.+-=|..
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 4666654332111122345679999999999999977874
No 401
>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=23.80 E-value=2.1e+02 Score=28.30 Aligned_cols=44 Identities=16% Similarity=0.173 Sum_probs=36.7
Q ss_pred CCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEE
Q 014401 203 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 246 (425)
Q Consensus 203 ~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~ 246 (425)
-.+.++.++++.+++.+|++-+.--.....+.+.|++.||..-.
T Consensus 212 ps~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~ 255 (286)
T cd01019 212 PGAKRLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVG 255 (286)
T ss_pred CCHHHHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEE
Confidence 34567889999999999998877777788999999999997543
No 402
>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=23.77 E-value=59 Score=24.92 Aligned_cols=45 Identities=29% Similarity=0.657 Sum_probs=31.4
Q ss_pred ceeeecCCccccC--eEEcCCCCccccCC--C-CCCCCCCceecCchhHH
Q 014401 291 SICSCHKEVKVGV--GYTCPRCKARVCEL--P-TDCRICGLQLVSSPHLA 335 (425)
Q Consensus 291 a~C~CH~~~~~~~--Gy~Cp~C~s~~C~l--P-~~C~~C~l~Lvs~phLa 335 (425)
-.|+|..+.=... -=.|-.|+-|+|+. | ..|+-||..|+++....
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 4688876432211 23699999999974 3 68999998888766544
No 403
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.55 E-value=25 Score=39.97 Aligned_cols=47 Identities=19% Similarity=0.301 Sum_probs=36.2
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
....|+.|...+.+.-. -.=..|.++||..|-.-+--.-..||-|..
T Consensus 122 ~~~~CP~Ci~s~~DqL~-----~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~ 168 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLE-----ESEKHTAHYFCEECVGSWSRCAQTCPVDRG 168 (1134)
T ss_pred hhhhhhHHHHHHHHHhh-----ccccccccccHHHHhhhhhhhcccCchhhh
Confidence 45689999877764321 112379999999999999999999999964
No 404
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=23.54 E-value=34 Score=30.99 Aligned_cols=14 Identities=50% Similarity=1.490 Sum_probs=0.0
Q ss_pred EEcCCCCccccCCC
Q 014401 305 YTCPRCKARVCELP 318 (425)
Q Consensus 305 y~Cp~C~s~~C~lP 318 (425)
|.||.|..-||++|
T Consensus 18 YKCpkC~vPYCSl~ 31 (157)
T KOG2857|consen 18 YKCPKCSVPYCSLP 31 (157)
T ss_pred ccCCCCCCccccch
No 405
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.50 E-value=1e+02 Score=31.03 Aligned_cols=10 Identities=30% Similarity=0.952 Sum_probs=7.5
Q ss_pred ceeCCCCCcc
Q 014401 383 YVACPKCKKH 392 (425)
Q Consensus 383 ~~~C~~C~~~ 392 (425)
.|.||.|+..
T Consensus 276 sf~Cp~Cg~~ 285 (298)
T KOG2879|consen 276 SFTCPLCGEN 285 (298)
T ss_pred hcccCccCCC
Confidence 3789999863
No 406
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=23.34 E-value=3.9e+02 Score=28.90 Aligned_cols=88 Identities=14% Similarity=0.061 Sum_probs=58.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| .++|++|+|++.-. .+. +.+.++.+.+++|-+|-+-...
T Consensus 415 g~mG~glpaaiGa~la~p---~~~vv~i~GDGsf~--~~~-~el~ta~~~~l~i~~vv~nN~~~~~~~~~~~~~~~~~~~ 488 (557)
T PRK08199 415 GSMGYGLPAAIAAKLLFP---ERTVVAFAGDGCFL--MNG-QELATAVQYGLPIIVIVVNNGMYGTIRMHQEREYPGRVS 488 (557)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchHhh--ccH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCccc
Confidence 456656655544322222 45688888865321 122 4567788999998888775431
Q ss_pred ------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 ------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|.+.+....
T Consensus 489 ~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 525 (557)
T PRK08199 489 GTDLTNPDFAALARAYGGHGETVERTEDFAPAFERAL 525 (557)
T ss_pred cccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1246788888999999999999988887765
No 407
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. 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 transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=23.33 E-value=4.1e+02 Score=26.68 Aligned_cols=60 Identities=7% Similarity=-0.077 Sum_probs=36.8
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014401 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 168 ~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I~V~vIglg~ 229 (425)
+....+|.++|.+.++...+-..|+|=++.-+. ..||....+.++.|... +|.+ ++++++
T Consensus 16 G~~~~~g~~la~~~iNa~GGI~Gr~ielv~~D~-~~~p~~a~~~a~~Li~~~~V~~-i~~~~S 76 (351)
T cd06334 16 GIPYAAGFADYFKYINEDGGINGVKLEWEECDT-GYEVPRGVECYERLKGEDGAVA-FQGWST 76 (351)
T ss_pred ChhHHHHHHHHHHHHHHcCCcCCeEEEEEEecC-CCCcHHHHHHHHHHhccCCcEE-EecCcH
Confidence 356788899999988765444456666665432 23565555666666655 5554 445554
No 408
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=23.29 E-value=3.9e+02 Score=29.12 Aligned_cols=88 Identities=15% Similarity=0.156 Sum_probs=59.7
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| .|+||.|.|++.- . .+ .+.+.++.+.|+++-+|-+....
T Consensus 423 gsmG~glpaAiGa~la~p---~r~Vv~i~GDG~f-~-m~-~~eL~Ta~r~~lpv~ivV~NN~~y~~i~~~q~~~~~~~~~ 496 (574)
T PRK06466 423 GTMGFGLPAAMGVKLAFP---DQDVACVTGEGSI-Q-MN-IQELSTCLQYGLPVKIINLNNGALGMVRQWQDMQYEGRHS 496 (574)
T ss_pred chhhchHHHHHHHHHhCC---CCeEEEEEcchhh-h-cc-HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhcCCcee
Confidence 466666666665432222 4678888886431 1 12 25677899999999888875421
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|...|...+
T Consensus 497 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 534 (574)
T PRK06466 497 HSYMESLPDFVKLAEAYGHVGIRITDLKDLKPKLEEAF 534 (574)
T ss_pred ecCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1245788888999999999999998887665
No 409
>PRK10220 hypothetical protein; Provisional
Probab=23.26 E-value=50 Score=28.58 Aligned_cols=23 Identities=35% Similarity=1.070 Sum_probs=15.9
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCC
Q 014401 386 CPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
||+|.+.|- |-...+..||-|..
T Consensus 6 CP~C~seyt-----Y~d~~~~vCpeC~h 28 (111)
T PRK10220 6 CPKCNSEYT-----YEDNGMYICPECAH 28 (111)
T ss_pred CCCCCCcce-----EcCCCeEECCcccC
Confidence 777777764 44556777888875
No 410
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.22 E-value=54 Score=29.17 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=7.7
Q ss_pred eEEcCCCCccc
Q 014401 304 GYTCPRCKARV 314 (425)
Q Consensus 304 Gy~Cp~C~s~~ 314 (425)
-|.|+.|+..+
T Consensus 70 ~~~C~~CG~~~ 80 (135)
T PRK03824 70 VLKCRNCGNEW 80 (135)
T ss_pred EEECCCCCCEE
Confidence 57777777554
No 411
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=23.16 E-value=1.4e+02 Score=24.83 Aligned_cols=37 Identities=16% Similarity=0.289 Sum_probs=28.2
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014401 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 210 ~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~ 247 (425)
+....+++.||++-+|+.|+... +++.++.|+=.|-+
T Consensus 4 ~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~l 40 (115)
T PF13911_consen 4 RRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPL 40 (115)
T ss_pred HhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcE
Confidence 34677889999999999998866 78888777643333
No 412
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=23.16 E-value=3e+02 Score=28.65 Aligned_cols=69 Identities=9% Similarity=0.111 Sum_probs=47.0
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~----e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.+++||..+.. .+...++++.++++|++|.++.+.. ....++++++.......+-.+...|...+...+
T Consensus 274 ad~~iv~~Gs~---~~~a~eAv~~Lr~~G~~v~~l~~~~l~Pfp~~~i~~~~~~~k~VivvEe~~g~l~~el~~~~ 346 (376)
T PRK08659 274 AEVVVVAYGSV---ARSARRAVKEAREEGIKVGLFRLITVWPFPEEAIRELAKKVKAIVVPEMNLGQMSLEVERVV 346 (376)
T ss_pred CCEEEEEeCcc---HHHHHHHHHHHHhcCCceEEEEeCeecCCCHHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHh
Confidence 34666654322 3567899999999999999999985 345677777665555656566555555555444
No 413
>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=23.15 E-value=3e+02 Score=26.83 Aligned_cols=44 Identities=16% Similarity=0.266 Sum_probs=36.7
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014401 204 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 204 dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~ 247 (425)
.+.++.++++.+++.+|++-+.--.......+.||+.||-....
T Consensus 202 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ 245 (266)
T cd01018 202 SPADLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVT 245 (266)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEE
Confidence 34578899999999999987777777789999999999976654
No 414
>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=23.08 E-value=2e+02 Score=20.85 Aligned_cols=36 Identities=8% Similarity=0.061 Sum_probs=25.4
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
|=+.|..-..+++-..+.+..+.+.||.|+.|+-+.
T Consensus 4 isivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~~~ 39 (66)
T cd04916 4 IMVVGEGMKNTVGVSARATAALAKAGINIRMINQGS 39 (66)
T ss_pred EEEEcCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 334454333355556678899999999999998764
No 415
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=23.05 E-value=53 Score=23.01 Aligned_cols=15 Identities=20% Similarity=0.707 Sum_probs=11.1
Q ss_pred CCCcceeCCCCCccc
Q 014401 379 KPGLYVACPKCKKHF 393 (425)
Q Consensus 379 ~~~~~~~C~~C~~~f 393 (425)
.....|.|.+|++.|
T Consensus 24 ~mT~fy~C~~C~~~w 38 (40)
T smart00440 24 PMTVFYVCTKCGHRW 38 (40)
T ss_pred CCeEEEEeCCCCCEe
Confidence 345679999998754
No 416
>PF08459 UvrC_HhH_N: UvrC Helix-hairpin-helix N-terminal; InterPro: IPR001162 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. Proteins that contain the UvrC homology region 1, IPR000305 from INTERPRO, are listed below: Prokaryotic UvrC proteins. Bacteriophage T4 END2 protein. Small subunit of ribonucleotide reductase enzyme. T4 TEV1 protein. Endonuclease specific to the thymidylate synthase (td) gene splice junction. Found in putative intron-homing endonucleases encoded by group I introns of fungi and phage. Mycobacterium hypothetical protein Y002. Exonuclease by similarity. Bacillus subtilis hypothetical protein YURQ. ; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3C65_A 2NRZ_A 2NRR_A 2NRX_A 2NRV_A 2NRT_A 2NRW_A.
Probab=22.96 E-value=73 Score=29.18 Aligned_cols=33 Identities=30% Similarity=0.385 Sum_probs=22.4
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecch
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 230 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e 230 (425)
|||++++ .+.+..+.+.+++.|+.|.+|||+.+
T Consensus 82 LilIDGG----~gQl~aa~~~l~~lgl~i~viglaK~ 114 (155)
T PF08459_consen 82 LILIDGG----KGQLNAAKEVLKELGLNIPVIGLAKN 114 (155)
T ss_dssp EEEESSS----HHHHHHHHHHHHCTT----EEEEESS
T ss_pred EEEEcCC----HHHHHHHHHHHHHcCCCeEEEEEEec
Confidence 4555442 47888999999999999999999854
No 417
>TIGR03863 PQQ_ABC_bind ABC transporter, substrate binding protein, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are putative substrate-binding proteins of an ABC transporter family that associates, in gene neighborhood and phylogenomic profile, with pyrroloquinoline-quinone (PQQ)-dependent degradation of certain alcohols, such as 2-phenylethanol in Pseudomonas putida U.
Probab=22.95 E-value=4.4e+02 Score=26.80 Aligned_cols=78 Identities=12% Similarity=0.085 Sum_probs=46.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-HHHHHHHHhhCCeE
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGGSY 245 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~-~iLk~iA~~TGG~Y 245 (425)
.+.+-.+|.++|++.++...+-..++|-++..+ ..+|....+.++.+.+++|.+-+-++++.+ ..+.++++..+--|
T Consensus 9 ~~~~~~~ga~lAveeiNaaGGv~G~~ielv~~D--~~~p~~a~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~ 86 (347)
T TIGR03863 9 PEDRGLDGARLAIEDNNTTGRFLGQTFTLDEVA--VRTPEDLVAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALL 86 (347)
T ss_pred CcchHHHHHHHHHHHHHhhCCcCCceEEEEEcc--CCCHHHHHHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEE
Confidence 356888999999999986433334556555443 235666666677777778655444555543 22445555444333
Q ss_pred E
Q 014401 246 S 246 (425)
Q Consensus 246 ~ 246 (425)
+
T Consensus 87 i 87 (347)
T TIGR03863 87 F 87 (347)
T ss_pred E
Confidence 3
No 418
>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=22.94 E-value=37 Score=22.04 Aligned_cols=14 Identities=36% Similarity=0.873 Sum_probs=6.7
Q ss_pred CCCCCCceecCchh
Q 014401 320 DCRICGLQLVSSPH 333 (425)
Q Consensus 320 ~C~~C~l~Lvs~ph 333 (425)
.||+||..|+-.+.
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 419
>TIGR02418 acolac_catab acetolactate synthase, catabolic. Acetolactate synthase (EC 2.2.1.6) combines two molecules of pyruvate to yield 2-acetolactate with the release of CO2. This reaction may be involved in either valine biosynthesis (biosynthetic) or conversion of pyruvate to acetoin and possibly to 2,3-butanediol (catabolic). The biosynthetic type, described by TIGR00118, is also capable of forming acetohydroxybutyrate from pyruvate and 2-oxobutyrate for isoleucine biosynthesis. The family described here, part of the same larger family of thiamine pyrophosphate-dependent enzymes (pfam00205, pfam02776) is the catabolic form, generally found associated with in species with acetolactate decarboxylase and usually found in the same operon. The model may not encompass all catabolic acetolactate synthases, but rather one particular clade in the larger TPP-dependent enzyme family.
Probab=22.90 E-value=4.6e+02 Score=28.19 Aligned_cols=88 Identities=9% Similarity=-0.049 Sum_probs=59.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++.||-.|+..=-.. ..++++.|.|++.- . .++ +.+.++.+.+++|-+|-+-...
T Consensus 408 g~mG~~lpaaiGa~la~---~~~~vv~i~GDGsf-~-m~~-~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~~~ 481 (539)
T TIGR02418 408 QTLGVALPWAIGAALVR---PNTKVVSVSGDGGF-L-FSS-MELETAVRLKLNIVHIIWNDNGYNMVEFQEEMKYQRSSG 481 (539)
T ss_pred cccccHHHHHHHHHHhC---CCCcEEEEEcchhh-h-chH-HHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCccc
Confidence 35555555555432212 24568888886532 1 122 4577899999999888775321
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|..+..+.+.++|.+.|.+..
T Consensus 482 ~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 517 (539)
T TIGR02418 482 VDFGPIDFVKYAESFGAKGLRVESPDQLEPTLRQAM 517 (539)
T ss_pred ccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1267899999999999999999999887765
No 420
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=22.88 E-value=4.1e+02 Score=28.86 Aligned_cols=88 Identities=10% Similarity=-0.033 Sum_probs=58.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
-+++-||-.|+..=-..| .++++.|.|++.- . .++ +.+.++.+.+++|-+|-+....
T Consensus 421 g~mG~glpaAiGa~la~p---~~~vv~i~GDG~f-~-m~~-~eL~Ta~~~~l~i~ivV~NN~~yg~i~~~q~~~~~~~~~ 494 (572)
T PRK06456 421 GTMGFGLPAAMGAKLARP---DKVVVDLDGDGSF-L-MTG-TNLATAVDEHIPVISVIFDNRTLGLVRQVQDLFFGKRIV 494 (572)
T ss_pred ccccchhHHHHHHHHhCC---CCeEEEEEccchH-h-cch-HHHHHHHHhCCCeEEEEEECCchHHHHHHHHHhhCCCcc
Confidence 455555555555432222 4568888886532 1 122 4568889999999888775320
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|..++.+.+.++|++.|....
T Consensus 495 ~~~~~~~~d~~~~A~a~G~~~~~v~~~~eL~~al~~a~ 532 (572)
T PRK06456 495 GVDYGPSPDFVKLAEAFGALGFNVTTYEDIEKSLKSAI 532 (572)
T ss_pred cccCCCCCCHHHHHHHCCCeeEEeCCHHHHHHHHHHHH
Confidence 1267888888888888999999988887765
No 421
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.74 E-value=34 Score=32.18 Aligned_cols=43 Identities=26% Similarity=0.539 Sum_probs=34.5
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
....|..|...|..+ ..-.|++.||..|..-+-+....||.|.
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 355899999777543 3557999999999987777778999998
No 422
>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=22.71 E-value=37 Score=25.42 Aligned_cols=31 Identities=29% Similarity=0.609 Sum_probs=19.6
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCccc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 393 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 393 (425)
...|-.|++-|...+.....--.||+|+..+
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN 34 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTIN 34 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccc
Confidence 3478899887765332222345799998653
No 423
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=22.69 E-value=54 Score=30.75 Aligned_cols=27 Identities=33% Similarity=0.563 Sum_probs=21.8
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecC
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQLVS 330 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs 330 (425)
.|.|-.|..+|=.---.||+||-.++-
T Consensus 139 ~~rC~GC~~~f~~~~~~Cp~CG~~~~~ 165 (177)
T COG1439 139 RLRCHGCKRIFPEPKDFCPICGSPLKR 165 (177)
T ss_pred eEEEecCceecCCCCCcCCCCCCceEE
Confidence 789999999998545689999987653
No 424
>COG1957 URH1 Inosine-uridine nucleoside N-ribohydrolase [Nucleotide transport and metabolism]
Probab=22.66 E-value=2.7e+02 Score=28.45 Aligned_cols=100 Identities=18% Similarity=0.175 Sum_probs=56.4
Q ss_pred CHHHHHHHHHHHHHHHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhcCCCcchHHHHHHHHHHHHhCCC
Q 014401 107 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIP 186 (425)
Q Consensus 107 ~RL~~a~~~l~~FI~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~~p 186 (425)
++.... +.+.+||-+....|| ..+-||+.+ ||| +|..||...=..-++
T Consensus 96 ~~~~~~-~~A~~~ii~~l~~~~-g~vtlva~G--------PLT--------------------NiAlAl~~~P~i~~~-- 143 (311)
T COG1957 96 TRKLES-KHAVDAIIDTLMANP-GEVTLVATG--------PLT--------------------NIALALRKDPEIAKR-- 143 (311)
T ss_pred cccccC-CcHHHHHHHHHHhCC-CcEEEEecC--------ChH--------------------HHHHHHHhCcchhhh--
Confidence 343333 556667777777788 778888863 554 333333332222222
Q ss_pred CCCCcEEEEEEeCCC---CCCc---cCHH---HHHHHHHhCCcEEEEEEecch------HHHHHHHHHhh
Q 014401 187 SYGHREVLILYSALS---TCDP---GDIM---ETIQKCKESKIRCSVIGLSAE------MFICKHLCQDT 241 (425)
Q Consensus 187 ~~~sreILVI~~s~~---t~dp---~~i~---~ti~~akk~~I~V~vIglg~e------~~iLk~iA~~T 241 (425)
-|+|+|+-|+.. +..| -||. ++++..-+.+++|.+|++.-- ...++.+.+..
T Consensus 144 ---ik~iviMGGa~~~~GNvtp~AEfNi~~DPeAA~iVf~sg~~i~mv~LdvT~q~~~t~~~~~~~~~~~ 210 (311)
T COG1957 144 ---IKEIVIMGGAFFVPGNVTPAAEFNIWVDPEAAKIVFTSGWPITMVPLDVTHQVLLTPDVLARLRAAG 210 (311)
T ss_pred ---hcEEEEecCccCCCCCcCcchhhhhccCHHHHHHHHhCCCceEEechhhhhhhcCCHHHHHHHHHhC
Confidence 234555444332 1222 1332 788889999999999999732 34556665543
No 425
>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=22.66 E-value=3e+02 Score=19.86 Aligned_cols=46 Identities=13% Similarity=0.185 Sum_probs=34.4
Q ss_pred EEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhC
Q 014401 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 242 (425)
Q Consensus 194 LVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TG 242 (425)
|++++.. +| ..=..+.+.+++.||+...+-+..+....+.+.+.+|
T Consensus 1 V~vy~~~-~C--~~C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g 46 (60)
T PF00462_consen 1 VVVYTKP-GC--PYCKKAKEFLDEKGIPYEEVDVDEDEEAREELKELSG 46 (60)
T ss_dssp EEEEEST-TS--HHHHHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHS
T ss_pred cEEEEcC-CC--cCHHHHHHHHHHcCCeeeEcccccchhHHHHHHHHcC
Confidence 3455542 33 2345789999999999999999988877777777763
No 426
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=22.63 E-value=3.9e+02 Score=28.45 Aligned_cols=16 Identities=6% Similarity=0.138 Sum_probs=8.7
Q ss_pred cCHhHHHHHHHhcCCC
Q 014401 249 LDESHFKELIMEHAPP 264 (425)
Q Consensus 249 ~d~~~L~~lL~~~~~p 264 (425)
.|.+.+.+.|...+.|
T Consensus 428 ~~~~~~~~~l~~~~~~ 443 (479)
T PRK14093 428 EDAAALESQVVAAIRA 443 (479)
T ss_pred CCHHHHHHHHHHhcCC
Confidence 4555555555555543
No 427
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=22.57 E-value=9.1e+02 Score=25.34 Aligned_cols=78 Identities=15% Similarity=0.065 Sum_probs=44.8
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchH----HHHHHHHHhh-CCeEEE-ecCHhHHHHHHHhcCCCCccch--------hhh
Q 014401 207 DIMETIQKCKESKIRCSVIGLSAEM----FICKHLCQDT-GGSYSV-ALDESHFKELIMEHAPPPPAIA--------EFA 272 (425)
Q Consensus 207 ~i~~ti~~akk~~I~V~vIglg~e~----~iLk~iA~~T-GG~Y~~-~~d~~~L~~lL~~~~~pp~~~~--------~~~ 272 (425)
-.....+.+.+.|+.+-+++.+... ..|+++...- .....+ ..|..++.+++...- |+..-. ...
T Consensus 311 ~~~~l~~~L~elG~~~~~v~~~~~~~~~~~~l~~~~~~~~~~~~v~~~~d~~e~~~~l~~~~-~dliiG~s~~~~~a~~~ 389 (429)
T cd03466 311 FVVAITRFVLENGMVPVLIATGSESKKLKEKLEEDLKEYVEKCVILDGADFFDIESYAKELK-IDVLIGNSYGRRIAEKL 389 (429)
T ss_pred HHHHHHHHHHHCCCEEEEEEeCCCChHHHHHHHHHHHhcCCceEEEeCCCHHHHHHHHHhcC-CCEEEECchhHHHHHHc
Confidence 3456688888999999666665432 2333333322 233332 346677777776653 333221 123
Q ss_pred hhceeeecCCCCC
Q 014401 273 IANLIKMGFPQRA 285 (425)
Q Consensus 273 ~~~Li~mGFP~~~ 285 (425)
.-.++++|||...
T Consensus 390 ~ip~~~~~~P~~d 402 (429)
T cd03466 390 GIPLIRIGFPIHD 402 (429)
T ss_pred CCCEEEecCCcee
Confidence 3478999999764
No 428
>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=22.56 E-value=2.8e+02 Score=21.15 Aligned_cols=25 Identities=12% Similarity=0.149 Sum_probs=20.6
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEec
Q 014401 204 DPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 204 dp~~i~~ti~~akk~~I~V~vIglg 228 (425)
+++-..+.+..+.+.||.|++|...
T Consensus 12 ~~~~~a~if~~La~~~InvDmI~~~ 36 (67)
T cd04914 12 ENDLQQRVFKALANAGISVDLINVS 36 (67)
T ss_pred CccHHHHHHHHHHHcCCcEEEEEec
Confidence 3566667899999999999999654
No 429
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.55 E-value=40 Score=29.12 Aligned_cols=26 Identities=27% Similarity=0.493 Sum_probs=17.8
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 391 (425)
...|..|...|+... ...+.||.|++
T Consensus 70 ~~~C~~Cg~~~~~~~---~~~~~CP~Cgs 95 (114)
T PRK03681 70 ECWCETCQQYVTLLT---QRVRRCPQCHG 95 (114)
T ss_pred EEEcccCCCeeecCC---ccCCcCcCcCC
Confidence 558999998876431 11267999984
No 430
>PRK07586 hypothetical protein; Validated
Probab=22.52 E-value=4.9e+02 Score=27.78 Aligned_cols=88 Identities=14% Similarity=0.153 Sum_probs=55.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H---------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 232 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~-~--------------- 232 (425)
.+++-+|-.|+..--..| .|+++.|.|++.- . .. .+.+.++.+.|++|-+|-+.... .
T Consensus 385 g~mG~~lpaaiGa~lA~p---~r~Vv~i~GDGsf-~-m~-~~EL~Ta~~~~lpv~ivV~NN~~y~~~~~~~~~~~~~~~~ 458 (514)
T PRK07586 385 GAIGQGLPLATGAAVACP---DRKVLALQGDGSA-M-YT-IQALWTQARENLDVTTVIFANRAYAILRGELARVGAGNPG 458 (514)
T ss_pred cccccHHHHHHHHHHhCC---CCeEEEEEechHH-H-hH-HHHHHHHHHcCCCCEEEEEeCchhHHHHHHHHHhcCCCCC
Confidence 356666665555432222 4678888887532 1 11 25688889999998888875331 1
Q ss_pred --------------HHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 233 --------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 --------------iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
-+.++|+.-|+.+..+.+.++|...+....
T Consensus 459 ~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~el~~al~~a~ 502 (514)
T PRK07586 459 PRALDMLDLDDPDLDWVALAEGMGVPARRVTTAEEFADALAAAL 502 (514)
T ss_pred ccccccccCCCCCCCHHHHHHHCCCcEEEeCCHHHHHHHHHHHH
Confidence 134567777777777777778877776665
No 431
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=22.49 E-value=27 Score=37.15 Aligned_cols=60 Identities=18% Similarity=0.346 Sum_probs=32.3
Q ss_pred CCCCC------ceecCchhHHhhhccc---------CCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCccee
Q 014401 321 CRICG------LQLVSSPHLARSYHHL---------FPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVA 385 (425)
Q Consensus 321 C~~C~------l~Lvs~phLarsyhhl---------fp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~ 385 (425)
||+|= ++-|.+.|=-.||||- +||--|-.-+ ....+..|..|...+ ..|.
T Consensus 178 CpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~scpvcR~~q~p-------~~ve~~~c~~c~~~~--------~Lwi 242 (493)
T KOG0804|consen 178 CPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDSSCPVCRYCQSP-------SVVESSLCLACGCTE--------DLWI 242 (493)
T ss_pred cchhHhhcCccccceeeeecccccchHHHhhcccCcChhhhhhcCc-------chhhhhhhhhhcccc--------cEEE
Confidence 66663 3445555667788883 3333333221 011234566665433 2577
Q ss_pred CCCCCccccc
Q 014401 386 CPKCKKHFCL 395 (425)
Q Consensus 386 C~~C~~~fC~ 395 (425)
|=-|+++-|.
T Consensus 243 cliCg~vgcg 252 (493)
T KOG0804|consen 243 CLICGNVGCG 252 (493)
T ss_pred EEEccceecc
Confidence 8888877664
No 432
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=22.47 E-value=39 Score=30.72 Aligned_cols=39 Identities=23% Similarity=0.607 Sum_probs=27.8
Q ss_pred hhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcceeCCCCCcccccc
Q 014401 337 SYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 396 (425)
Q Consensus 337 syhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~d 396 (425)
.||--.-.++|+.. -.+|..|. +. +-|.|..|+.-+|--
T Consensus 104 ~Y~~~~a~p~~KP~------------r~fCaVCG--~~-------S~ysC~~CG~kyCsv 142 (156)
T KOG3362|consen 104 NYHTAYAKPSFKPL------------RKFCAVCG--YD-------SKYSCVNCGTKYCSV 142 (156)
T ss_pred chhhcccCCCCCCc------------chhhhhcC--CC-------chhHHHhcCCceeec
Confidence 36666666666632 45899997 32 359999999999853
No 433
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=22.41 E-value=4.6e+02 Score=25.34 Aligned_cols=50 Identities=12% Similarity=0.155 Sum_probs=24.2
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCc
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKI 220 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I 220 (425)
....|+++|.+.++...+-..++|-+++.+ +.++|....+++..+.++++
T Consensus 18 ~~~~g~~~a~~~iN~~ggi~g~~i~~~~~D-~~~~~~~~~~~~~~li~~~v 67 (334)
T cd06342 18 DIKNGAQLAVEDINAKGGGKGVKLELVVED-DQADPKQAVAVAQKLVDDGV 67 (334)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEec-CCCChHHHHHHHHHHHhCCc
Confidence 455566677777665422223345444433 22344444445555555533
No 434
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. 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 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=22.34 E-value=5.2e+02 Score=25.41 Aligned_cols=17 Identities=12% Similarity=0.202 Sum_probs=10.0
Q ss_pred chHHHHHHHHHHHHhCC
Q 014401 169 SSLQNALDLVQGLLSQI 185 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~ 185 (425)
....+|+++|++.++..
T Consensus 17 ~~~~~g~~~A~~~iN~~ 33 (344)
T cd06345 17 EAMWNGAELAAEEINAA 33 (344)
T ss_pred HHHHHHHHHHHHHHHHc
Confidence 45556666666666543
No 435
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=22.28 E-value=53 Score=27.61 Aligned_cols=27 Identities=26% Similarity=0.527 Sum_probs=18.6
Q ss_pred CccccccccccCCCCCCCcceeCCCCCcc
Q 014401 364 STCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
..|-.|...|.+... ....+||+|++-
T Consensus 59 a~CkkCGfef~~~~i--k~pSRCP~CKSE 85 (97)
T COG3357 59 ARCKKCGFEFRDDKI--KKPSRCPKCKSE 85 (97)
T ss_pred hhhcccCcccccccc--CCcccCCcchhh
Confidence 369999988875221 124579999974
No 436
>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=22.23 E-value=3e+02 Score=25.90 Aligned_cols=38 Identities=13% Similarity=0.117 Sum_probs=28.7
Q ss_pred CcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 190 sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
.++|+|+.|.+.+ -+|=..++..|.+.++.|++++...
T Consensus 45 ~~~v~vl~G~GNN--GGDGlv~AR~L~~~~v~V~~~~~~~ 82 (205)
T TIGR00197 45 AGHVIIFCGPGNN--GGDGFVVARHLKGFGVEVFLLKKEK 82 (205)
T ss_pred CCeEEEEECCCCC--ccHHHHHHHHHHhCCCEEEEEccCC
Confidence 3568888886543 5677788888888999999987654
No 437
>PHA00626 hypothetical protein
Probab=22.18 E-value=48 Score=25.42 Aligned_cols=15 Identities=13% Similarity=0.102 Sum_probs=11.8
Q ss_pred CcceeCCCCCccccc
Q 014401 381 GLYVACPKCKKHFCL 395 (425)
Q Consensus 381 ~~~~~C~~C~~~fC~ 395 (425)
+.+|.|++|+-.|=.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 457999999987744
No 438
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=22.10 E-value=44 Score=33.15 Aligned_cols=25 Identities=4% Similarity=0.106 Sum_probs=12.3
Q ss_pred ceeeecCCCCCCCC-Ccce--eeecCCc
Q 014401 275 NLIKMGFPQRAGEG-SISI--CSCHKEV 299 (425)
Q Consensus 275 ~Li~mGFP~~~~~~-~~a~--C~CH~~~ 299 (425)
-...|+.|.+...+ .+.+ |||-++.
T Consensus 216 ~~~~~~l~~P~pg~Q~r~l~CvFC~nN~ 243 (318)
T KOG4602|consen 216 REQRNNLTSPPPGNQPRPLCCVFCFNNA 243 (318)
T ss_pred cccccCCCCCCCCCCCCceeEEeecCCC
Confidence 34455555544322 2333 6786654
No 439
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=22.00 E-value=3.3e+02 Score=29.82 Aligned_cols=88 Identities=15% Similarity=0.083 Sum_probs=58.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.++-.|+..--..| .+++|+|+|++.- . ..+ ..+.++.+.+++|-+|-+....
T Consensus 408 gsmG~~~paAiGa~la~p---~~~vv~i~GDGsf-~-~~~-~el~Ta~~~~lpv~~vV~NN~~~g~i~~~q~~~~~~~~~ 481 (578)
T PRK06546 408 GSMANALPHAIGAQLADP---GRQVISMSGDGGL-S-MLL-GELLTVKLYDLPVKVVVFNNSTLGMVKLEMLVDGLPDFG 481 (578)
T ss_pred ccccchhHHHHHHHHhCC---CCcEEEEEcCchH-h-hhH-HHHHHHHHhCCCeEEEEEECCccccHHHHHHhcCCCccc
Confidence 456656655555432222 4568888887532 1 222 4467899999998888775321
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+-++|+..|..+..+.+.++|++.+....
T Consensus 482 ~~~~~~df~~lA~a~G~~~~~v~~~~el~~al~~a~ 517 (578)
T PRK06546 482 TDHPPVDYAAIAAALGIHAVRVEDPKDVRGALREAF 517 (578)
T ss_pred ccCCCCCHHHHHHHCCCeeEEeCCHHHHHHHHHHHH
Confidence 1245788888888888888888888887765
No 440
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=21.92 E-value=55 Score=26.64 Aligned_cols=21 Identities=33% Similarity=0.727 Sum_probs=14.0
Q ss_pred EEcCCCCccccCCC-----CCCCCCC
Q 014401 305 YTCPRCKARVCELP-----TDCRICG 325 (425)
Q Consensus 305 y~Cp~C~s~~C~lP-----~~C~~C~ 325 (425)
|.||-|+...=+-. -+|++|+
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~ 27 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCF 27 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCC
Confidence 67888887765322 2688886
No 441
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=21.90 E-value=35 Score=21.70 Aligned_cols=26 Identities=27% Similarity=0.644 Sum_probs=16.5
Q ss_pred CCCCCcccccccchhhhc-cCCCCCCC
Q 014401 386 CPKCKKHFCLECDIYIHE-SLHNCPGC 411 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe-~lh~CPgC 411 (425)
-..|+..||.+|=.-.-+ .-..||.|
T Consensus 13 ~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 13 VLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred EecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 346899999998543322 34458876
No 442
>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=21.87 E-value=2.1e+02 Score=21.48 Aligned_cols=36 Identities=8% Similarity=0.078 Sum_probs=26.7
Q ss_pred EEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014401 193 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 193 ILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~ 229 (425)
+|-+.|.. ..+++-..+++..+.+.||+|..|+-|+
T Consensus 3 ~VsvVG~~-~~~~~~~~~i~~aL~~~~I~v~~i~~g~ 38 (65)
T cd04918 3 IISLIGNV-QRSSLILERAFHVLYTKGVNVQMISQGA 38 (65)
T ss_pred EEEEECCC-CCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 56667763 3356644578899999999999998775
No 443
>PRK11269 glyoxylate carboligase; Provisional
Probab=21.79 E-value=5.5e+02 Score=28.11 Aligned_cols=88 Identities=10% Similarity=0.064 Sum_probs=58.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..=-..| .|++|.|+|++.- . ..+ ..+.++.+.+++|-+|-+-...
T Consensus 419 G~mG~glpaAiGa~la~p---~r~Vv~i~GDG~f-~-m~~-~eL~Ta~~~~lpv~~vV~NN~~~g~i~~~~~~~~~~~~~ 492 (591)
T PRK11269 419 GPLGWTIPAALGVRAADP---DRNVVALSGDYDF-Q-FLI-EELAVGAQFNLPYIHVLVNNAYLGLIRQAQRAFDMDYCV 492 (591)
T ss_pred ccccchhhhHHhhhhhCC---CCcEEEEEccchh-h-cCH-HHHHHHHHhCCCeEEEEEeCCchhHHHHHHHHhccCccc
Confidence 345555555554322222 4678999887532 1 122 4577789999999888775320
Q ss_pred ----------------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 ----------------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ----------------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|+..|...+
T Consensus 493 ~~~~~~~~~~~~~~~~~df~~lA~a~G~~~~~v~~~~eL~~al~~a~ 539 (591)
T PRK11269 493 QLAFENINSPELNGYGVDHVKVAEGLGCKAIRVFKPEDIAPALEQAK 539 (591)
T ss_pred eeeccccccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 0146788889999999999999999887765
No 444
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. 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 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=21.71 E-value=3.4e+02 Score=26.71 Aligned_cols=12 Identities=25% Similarity=0.351 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHH
Q 014401 171 LQNALDLVQGLL 182 (425)
Q Consensus 171 L~~AL~~A~~~L 182 (425)
-..|++.+..++
T Consensus 52 p~~a~~~~~~li 63 (344)
T cd06348 52 EAEAINAFQTLI 63 (344)
T ss_pred hHHHHHHHHHHh
Confidence 344555555544
No 445
>TIGR03394 indol_phenyl_DC indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. This model represents a clade that includes a Azospirillum brasilense member active as both phenylpyruvate decarboxylase and indolepyruvate decarboxylase.
Probab=21.70 E-value=3.7e+02 Score=29.08 Aligned_cols=89 Identities=10% Similarity=0.035 Sum_probs=60.4
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014401 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~--------------- 231 (425)
+-.+|+-||-.|+..--.. .+++|+|.|++.- .--...+.++.+.|++|-+|-+....
T Consensus 401 ~~g~mG~glpaaiGa~lA~----~~r~v~i~GDG~f---~m~~~EL~Ta~r~~lpv~~vV~NN~~y~~~~~~~~~~~~~~ 473 (535)
T TIGR03394 401 YYAGMGFGVPAGIGAQCTS----GKRILTLVGDGAF---QMTGWELGNCRRLGIDPIVILFNNASWEMLRVFQPESAFND 473 (535)
T ss_pred ccchhhhHHHHHHHHHhCC----CCCeEEEEeChHH---HhHHHHHHHHHHcCCCcEEEEEECCccceeehhccCCCccc
Confidence 3346666666666543221 2446677776421 10125688999999999988886421
Q ss_pred ---HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 ---FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ---~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.+..+.+.++|...+....
T Consensus 474 ~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 507 (535)
T TIGR03394 474 LDDWRFADMAAGMGGDGVRVRTRAELAAALDKAF 507 (535)
T ss_pred CCCCCHHHHHHHcCCCceEeCCHHHHHHHHHHHH
Confidence 2357789999999999999999999988765
No 446
>cd06437 CESA_CaSu_A2 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex. Cellulose synthase (CESA) catalyzes the polymerization reaction of cellulose using UDP-glucose as the substrate. Cellulose is an aggregate of unbranched polymers of beta-1,4-linked glucose residues, which is an abundant polysaccharide produced by plants and in varying degrees by several other organisms including algae, bacteria, fungi, and even some animals. Genomes from higher plants harbor multiple CESA genes. There are ten in Arabidopsis. At least three different CESA proteins are required to form a functional complex. In Arabidopsis, CESA1, 3 and 6 and CESA4, 7 and 8, are required for cellulose biosynthesis during primary and secondary cell wall formation. CESA2 is very closely related to CESA6 and is viewed as a prime substitute for CESA6. They functionally compensate each other. The cesa2 and cesa6 double mutant plants we
Probab=21.68 E-value=5.6e+02 Score=23.44 Aligned_cols=35 Identities=9% Similarity=0.042 Sum_probs=22.8
Q ss_pred CCcEEEEEEec----chHHHHHHHHHhhCCeEEEecCHh
Q 014401 218 SKIRCSVIGLS----AEMFICKHLCQDTGGSYSVALDES 252 (425)
Q Consensus 218 ~~I~V~vIglg----~e~~iLk~iA~~TGG~Y~~~~d~~ 252 (425)
.+++|-.+.-. .....+....+...|.|+...|.+
T Consensus 59 ~~~~i~~~~~~~~~G~k~~a~n~g~~~a~~~~i~~~DaD 97 (232)
T cd06437 59 QGVNIKHVRRADRTGYKAGALAEGMKVAKGEYVAIFDAD 97 (232)
T ss_pred cCCceEEEECCCCCCCchHHHHHHHHhCCCCEEEEEcCC
Confidence 46666655432 234557777777899999876655
No 447
>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=21.68 E-value=28 Score=36.41 Aligned_cols=10 Identities=40% Similarity=0.869 Sum_probs=8.2
Q ss_pred HhhhcccCCC
Q 014401 335 ARSYHHLFPI 344 (425)
Q Consensus 335 arsyhhlfp~ 344 (425)
+--|+|+.||
T Consensus 290 rppy~~~iPL 299 (374)
T TIGR00375 290 RPPYVHLIPL 299 (374)
T ss_pred CCCeeeeCCH
Confidence 5569999998
No 448
>TIGR00118 acolac_lg acetolactate synthase, large subunit, biosynthetic type. Several isozymes of this enzyme are found in E. coli K12, one of which contains a frameshift in the large subunit gene and is not expressed.
Probab=21.38 E-value=4.7e+02 Score=28.31 Aligned_cols=89 Identities=11% Similarity=0.042 Sum_probs=58.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++.||-.|+..=-.. ..|.++++.|++.- . .+. +.+.++.+.++++-+|-+....
T Consensus 412 g~mG~~l~aaiGa~la~---~~~~vv~~~GDG~f-~-~~~-~eL~ta~~~~l~~~~vv~NN~~~~~~~~~q~~~~~~~~~ 485 (558)
T TIGR00118 412 GTMGFGLPAAIGAKVAK---PESTVICITGDGSF-Q-MNL-QELSTAVQYDIPVKILILNNRYLGMVRQWQELFYEERYS 485 (558)
T ss_pred ccccchhhHHHhhhhhC---CCCcEEEEEcchHH-h-ccH-HHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcCCcee
Confidence 34555555555431111 23568888876532 1 122 4677889999998888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|..|+.+.+.++|++.+.....
T Consensus 486 ~~~~~~~~d~~~~a~a~G~~~~~v~~~~~l~~al~~a~~ 524 (558)
T TIGR00118 486 HTHMGSLPDFVKLAEAYGIKGIRIEKPEELDEKLKEALS 524 (558)
T ss_pred eccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 12667888889999999999999998877763
No 449
>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=21.37 E-value=30 Score=25.71 Aligned_cols=15 Identities=33% Similarity=0.893 Sum_probs=10.1
Q ss_pred CCCCCCceecCchhHHhhhcccC
Q 014401 320 DCRICGLQLVSSPHLARSYHHLF 342 (425)
Q Consensus 320 ~C~~C~l~Lvs~phLarsyhhlf 342 (425)
.||.||.| ||+++|.
T Consensus 11 ~CPgCG~t--------Ra~~~ll 25 (52)
T PF10825_consen 11 PCPGCGMT--------RAFIALL 25 (52)
T ss_pred CCCCCcHH--------HHHHHHH
Confidence 57788866 6766653
No 450
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=21.26 E-value=7e+02 Score=26.27 Aligned_cols=104 Identities=12% Similarity=0.071 Sum_probs=68.8
Q ss_pred HHHHHHHHhhhhcCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH
Q 014401 152 PESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 152 ~~~~i~~L~~~l~~~G~tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~ 231 (425)
+.+++.++..-....-++.+...+...++.|+..=...+..+++|.|+.+ ..+..++..+.+-|=+|-++.-|.=.
T Consensus 17 ~~~V~~am~~~~~~h~s~~F~~~~~~~~~~L~~v~~t~~~~~~ll~gsGt----~amEAav~sl~~pgdkVLv~~nG~FG 92 (383)
T COG0075 17 PPRVLLAMARPMVGHRSPDFVGIMKEVLEKLRKVFGTENGDVVLLSGSGT----LAMEAAVASLVEPGDKVLVVVNGKFG 92 (383)
T ss_pred CHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCCcEEEEcCCcH----HHHHHHHHhccCCCCeEEEEeCChHH
Confidence 34555555432112234677777777777777642222346788877654 34556788888888889999888878
Q ss_pred HHHHHHHHhhCCeEEEe-------cCHhHHHHHHH
Q 014401 232 FICKHLCQDTGGSYSVA-------LDESHFKELIM 259 (425)
Q Consensus 232 ~iLk~iA~~TGG~Y~~~-------~d~~~L~~lL~ 259 (425)
.-+.++|+.-|+...+. .+.+.+++.|.
T Consensus 93 ~R~~~ia~~~g~~v~~~~~~wg~~v~p~~v~~~L~ 127 (383)
T COG0075 93 ERFAEIAERYGAEVVVLEVEWGEAVDPEEVEEALD 127 (383)
T ss_pred HHHHHHHHHhCCceEEEeCCCCCCCCHHHHHHHHh
Confidence 88999999999877753 34455555555
No 451
>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=21.26 E-value=2e+02 Score=26.21 Aligned_cols=73 Identities=16% Similarity=0.247 Sum_probs=39.9
Q ss_pred CHH-HHHHHHHhCCcEEEEEEecchH--HHHHHHHHhhCCeEEEe-----cCHhHHHHHHHhcCCCCccchhhhhhceee
Q 014401 207 DIM-ETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSVA-----LDESHFKELIMEHAPPPPAIAEFAIANLIK 278 (425)
Q Consensus 207 ~i~-~ti~~akk~~I~V~vIglg~e~--~iLk~iA~~TGG~Y~~~-----~d~~~L~~lL~~~~~pp~~~~~~~~~~Li~ 278 (425)
|+. ..++.+.+++.+|+.+|=..++ .+.+.+.+.-.|.-++. .+..+..+++..+..-.| .--++-
T Consensus 33 dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~p------div~vg 106 (171)
T cd06533 33 DLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGA------DILFVG 106 (171)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCC------CEEEEE
Confidence 444 5577777778888877543332 23334555555555443 223334445555443222 236788
Q ss_pred ecCCCCC
Q 014401 279 MGFPQRA 285 (425)
Q Consensus 279 mGFP~~~ 285 (425)
||.|.+.
T Consensus 107 lG~PkQE 113 (171)
T cd06533 107 LGAPKQE 113 (171)
T ss_pred CCCCHHH
Confidence 8888874
No 452
>PRK00420 hypothetical protein; Validated
Probab=21.13 E-value=69 Score=27.87 Aligned_cols=27 Identities=26% Similarity=0.365 Sum_probs=17.5
Q ss_pred CCccccccccccCCCCCCCcceeCCCCCcc
Q 014401 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
+.+|.-|..+|-.. ..+...||.|+..
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 45788888777531 1234668888774
No 453
>PLN03086 PRLI-interacting factor K; Provisional
Probab=21.06 E-value=77 Score=34.97 Aligned_cols=48 Identities=21% Similarity=0.401 Sum_probs=26.5
Q ss_pred CccccccccccCCCC-----CCCcceeCCCCCcccccccchhhhcc------CCCCCCCCC
Q 014401 364 STCFGCQQSLLSSGN-----KPGLYVACPKCKKHFCLECDIYIHES------LHNCPGCES 413 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~-----~~~~~~~C~~C~~~fC~dCD~fiHe~------lh~CPgC~~ 413 (425)
..|--|...|....- .-...|.|| |+..| .--++--|.. .+.|++|..
T Consensus 454 ~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp-Cg~~~-~R~~L~~H~~thCp~Kpi~C~fC~~ 512 (567)
T PLN03086 454 VHCEKCGQAFQQGEMEKHMKVFHEPLQCP-CGVVL-EKEQMVQHQASTCPLRLITCRFCGD 512 (567)
T ss_pred ccCCCCCCccchHHHHHHHHhcCCCccCC-CCCCc-chhHHHhhhhccCCCCceeCCCCCC
Confidence 367777666642110 001236677 77555 4456666743 456888875
No 454
>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=20.80 E-value=76 Score=32.36 Aligned_cols=26 Identities=27% Similarity=0.726 Sum_probs=17.7
Q ss_pred CCCccccccccccCCCCCCCcceeCCCCCcc
Q 014401 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 392 (425)
+...|..|...+-..+ ...||.|+..
T Consensus 27 GH~~C~sCv~~l~~~~-----~~~CP~C~~~ 52 (309)
T TIGR00570 27 GHTLCESCVDLLFVRG-----SGSCPECDTP 52 (309)
T ss_pred CCcccHHHHHHHhcCC-----CCCCCCCCCc
Confidence 5779999987753221 2469999764
No 455
>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=20.76 E-value=81 Score=20.33 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=17.8
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014401 304 GYTCPRCKARVCELPTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~ 327 (425)
.+.|+.|.-.-=.-...|..|+..
T Consensus 4 ~W~C~~C~~~N~~~~~~C~~C~~~ 27 (30)
T PF00641_consen 4 DWKCPSCTFMNPASRSKCVACGAP 27 (30)
T ss_dssp SEEETTTTEEEESSSSB-TTT--B
T ss_pred CccCCCCcCCchHHhhhhhCcCCC
Confidence 678999998888888899999863
No 456
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=20.70 E-value=2.6e+02 Score=25.53 Aligned_cols=69 Identities=16% Similarity=0.141 Sum_probs=48.6
Q ss_pred cEEEEEEeCCCCCCccCHH-HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 191 REVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~-~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.+|+|+-+ ....|| +. .+++.++=.||+++++++......|++ ...+.-.+.+..+..++.+++..-..
T Consensus 29 ~~IvVvdD-~~A~D~--~~k~~l~ma~P~gvk~~i~sv~~a~~~l~~-~~~~~~v~il~k~~~d~~~l~~~g~~ 98 (157)
T PRK11425 29 NLVLVAND-EVAEDP--VQQNLMEMVLAEGIAVRFWTLQKVIDNIHR-AADRQKILLVCKTPADFLTLVKGGVP 98 (157)
T ss_pred CEEEEEcc-hhcCCH--HHHHHHHhhCCCCCeEEEEEHHHHHHHHhc-cCCCceEEEEECCHHHHHHHHHcCCC
Confidence 34555544 333454 55 457777779999999999988888888 33333466678999999999885554
No 457
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=20.68 E-value=28 Score=27.97 Aligned_cols=72 Identities=22% Similarity=0.295 Sum_probs=29.7
Q ss_pred EEEEEeCCHhhhcCCCCCCHHHHHHHHHHHHH----HHHhccCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhc
Q 014401 89 LYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFV----REFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG 164 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~FI----~~~~~qnP~sqlGvI~~~~g~A~~lspLT~d~~~~i~~L~~~l~ 164 (425)
-+..+|+|++|.+ ..-.|+.........++ .+.+..-+..+.=+|++. ..-+.+ .+.+..++.+.+.+.
T Consensus 22 ~~~~~D~s~~~l~--~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~~-~vl~~l----~~~~~~l~~~~~~L~ 94 (99)
T PF08242_consen 22 RYTGVDISPSMLE--RARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVAS-NVLHHL----EDIEAVLRNIYRLLK 94 (99)
T ss_dssp EEEEEESSSSTTS--TTCCCHHHCT---EEEEE--SSS---CCC----SEEEEE--TTS------S-HHHHHHHHTTT-T
T ss_pred EEEEEECCHHHHH--HHHHHhhhcCCcceeEEEeecCChhhcccccccceehhh-hhHhhh----hhHHHHHHHHHHHcC
Confidence 3669999999972 23345444332111011 111111111244455543 222222 566777777776666
Q ss_pred CCC
Q 014401 165 CSG 167 (425)
Q Consensus 165 ~~G 167 (425)
|.|
T Consensus 95 pgG 97 (99)
T PF08242_consen 95 PGG 97 (99)
T ss_dssp SS-
T ss_pred CCC
Confidence 655
No 458
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=20.60 E-value=57 Score=23.85 Aligned_cols=29 Identities=28% Similarity=0.934 Sum_probs=21.3
Q ss_pred ccccccc-cccCCCCCCCcceeCCCCCcc-cccccch
Q 014401 365 TCFGCQQ-SLLSSGNKPGLYVACPKCKKH-FCLECDI 399 (425)
Q Consensus 365 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~~-fC~dCD~ 399 (425)
.|.+|.+ ++. +.||+|..|... .|.+|-.
T Consensus 2 ~C~~C~~~~i~------g~R~~C~~C~dydLC~~Cf~ 32 (49)
T cd02345 2 SCSACRKQDIS------GIRFPCQVCRDYSLCLGCYT 32 (49)
T ss_pred cCCCCCCCCce------EeeEECCCCCCcCchHHHHh
Confidence 5999987 664 258999999763 5777744
No 459
>PF05458 Siva: Cd27 binding protein (Siva); InterPro: IPR022773 Siva binds to the CD27 cytoplasmic tail. It has a DD homology region, a box-B-like ring finger, and a zinc finger-like domain. Overexpression of Siva in various cell lines induces apoptosis, suggesting an important role for Siva in the CD27-transduced apoptotic pathway []. Siva-1 binds to and inhibits BCL-X(L)-mediated protection against UV radiation-induced apoptosis. Indeed, the unique amphipathic helical region (SAH) present in Siva-1 is required for its binding to BCL-X(L) and sensitising cells to UV radiation. Natural complexes of Siva-1/BCL-X(L) are detected in HUT78 and murine thymocyte, suggesting a potential role for Siva-1 in regulating T cell homeostasis []. This family contains both Siva-1 and the shorter Siva-2 lacking the sequence coded by exon 2. It has been suggested that Siva-2 could regulate the function of Siva-1 [].
Probab=20.59 E-value=36 Score=31.75 Aligned_cols=30 Identities=20% Similarity=0.425 Sum_probs=24.2
Q ss_pred ceeCCCCCcccccccchhhhccCCCCCCCC
Q 014401 383 YVACPKCKKHFCLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~ 412 (425)
.|.|-.|...||.-|-+..+..-+..+.|.
T Consensus 139 ~~~C~~C~~~~Cs~Cs~~~y~~~~e~~lC~ 168 (175)
T PF05458_consen 139 IRSCSSCSEVFCSLCSTVNYSDQYERVLCL 168 (175)
T ss_pred HhhhhchhhhhhcCccccccCCcccccccC
Confidence 478999999999999998886666655554
No 460
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=20.53 E-value=6.6e+02 Score=24.56 Aligned_cols=52 Identities=12% Similarity=0.216 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-CcEE
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRC 222 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I~V 222 (425)
....|+++|++.++...+-..++|=+++.+. ..|+....++++.+.+. +|.+
T Consensus 18 ~~~~g~~~a~~~iN~~ggi~G~~v~~~~~D~-~~~~~~a~~~a~~li~~~~v~a 70 (346)
T cd06330 18 PARNGAELAVEEINAAGGIGGRKIELVVRDE-AGKPDEAIREARELVENEGVDM 70 (346)
T ss_pred HHHHHHHHHHHHHhhcCCcCCeEEEEEEecC-CCCHHHHHHHHHHHHhccCCcE
Confidence 4555666666666654332333444443321 12333333444444443 5443
No 461
>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=20.53 E-value=33 Score=39.30 Aligned_cols=42 Identities=26% Similarity=0.593 Sum_probs=0.0
Q ss_pred CCccee-eecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchh
Q 014401 288 GSISIC-SCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPH 333 (425)
Q Consensus 288 ~~~a~C-~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~ph 333 (425)
.+...| .|-... .. -|.||+|+..+= +..|+-||....++-.
T Consensus 665 t~~~~Cp~CG~~T-~~-~~~Cp~C~~~~~--~~~C~~C~~~~~~~~~ 707 (900)
T PF03833_consen 665 TFYNRCPECGSHT-EP-VYVCPDCGIEVE--EDECPKCGRETTSYSK 707 (900)
T ss_dssp -----------------------------------------------
T ss_pred chhhcCcccCCcc-cc-ceeccccccccC--ccccccccccCcccce
Confidence 444455 354332 22 477777777543 3489999988665543
No 462
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=20.43 E-value=4.1e+02 Score=27.66 Aligned_cols=70 Identities=16% Similarity=0.141 Sum_probs=50.8
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~----e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.+++||.-+.. .+.+.++++.+.+.|++|.++-+.. ....++++++.......+-.|.+.|..++...+.
T Consensus 275 Ad~~IV~~GSt---~~~~keAv~~lr~~G~kvg~l~~~~~~PfP~~~i~~~l~~~k~viVvE~n~Gql~~~v~~~~~ 348 (375)
T PRK09627 275 AEILIIAYGSV---SLSAKEAIKRLREEGIKVGLFRPITLWPSPAKKLKEIGDKFEKILVIELNMGQYLEEIERVMQ 348 (375)
T ss_pred CCEEEEEeCCC---HHHHHHHHHHHHhcCCeEEEEEeCeEECCCHHHHHHHHhcCCEEEEEcCChHHHHHHHHHHhC
Confidence 34666653322 3567899999999999999999985 2456788888777777777777777777766653
No 463
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=20.41 E-value=3.4e+02 Score=29.68 Aligned_cols=88 Identities=11% Similarity=0.044 Sum_probs=58.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~----------------- 231 (425)
.+++-||-.|+..--..| .+++++|+|++.- . .+ .+.+.++.+.+++|-+|-+-...
T Consensus 419 gsmG~~lpaaiGa~la~p---~~~Vv~i~GDGsf-~-m~-~~eL~Ta~~~~lpv~~vV~NN~~~g~~~~~~~~~~~~~~~ 492 (586)
T PRK06276 419 GTMGFGFPAAIGAKVAKP---DANVIAITGDGGF-L-MN-SQELATIAEYDIPVVICIFDNRTLGMVYQWQNLYYGKRQS 492 (586)
T ss_pred cccccchhHHHhhhhhcC---CCcEEEEEcchHh-h-cc-HHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHHhCCCcc
Confidence 355555555444322112 3568888886532 1 12 25688888999998888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecCHhHHHHHHHhcC
Q 014401 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+..|+.+..+.+.++|+..|.+..
T Consensus 493 ~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 530 (586)
T PRK06276 493 EVHLGETPDFVKLAESYGVKADRVEKPDEIKEALKEAI 530 (586)
T ss_pred cccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1256789999999999999999999887765
No 464
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=20.39 E-value=57 Score=29.68 Aligned_cols=71 Identities=14% Similarity=0.187 Sum_probs=37.5
Q ss_pred HHHHHhhCCeEEEecCHhHHHHHHHhcCC----CCccchhhhhhceeeecCCCCCCCCCcceeeecCCccccCeEEcCCC
Q 014401 235 KHLCQDTGGSYSVALDESHFKELIMEHAP----PPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRC 310 (425)
Q Consensus 235 k~iA~~TGG~Y~~~~d~~~L~~lL~~~~~----pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C 310 (425)
+++-..-++.|+...-...++.+|.+... -|.-. ... .=|..+ ..+.+|+--+ ... -|.|-.|
T Consensus 69 r~~~~~~~~~~~~~~~RKnf~~~Ldea~~~~~k~~~Y~-~~~-------a~p~~K--P~r~fCaVCG--~~S-~ysC~~C 135 (156)
T KOG3362|consen 69 RKKQKSYKSEKFKLRFRKNFQALLDEALLNLMKNPNYH-TAY-------AKPSFK--PLRKFCAVCG--YDS-KYSCVNC 135 (156)
T ss_pred hhhccccccchhhhhHHHHHHHHHHccchhhhhccchh-hcc-------cCCCCC--CcchhhhhcC--CCc-hhHHHhc
Confidence 44444456677766555666666655442 11100 000 001111 2355665443 223 7999999
Q ss_pred CccccCCC
Q 014401 311 KARVCELP 318 (425)
Q Consensus 311 ~s~~C~lP 318 (425)
+++||.++
T Consensus 136 G~kyCsv~ 143 (156)
T KOG3362|consen 136 GTKYCSVR 143 (156)
T ss_pred CCceeech
Confidence 99999886
No 465
>PRK07064 hypothetical protein; Provisional
Probab=20.25 E-value=3.4e+02 Score=29.23 Aligned_cols=88 Identities=9% Similarity=0.017 Sum_probs=59.0
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014401 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~------------------ 231 (425)
+++-||-.|+..--.. ..++++.|+|++.- . .+ .+.+.++.+.+++|-+|-+....
T Consensus 406 ~mG~~lpaAiGa~lA~---p~~~vv~i~GDGsf-~-m~-~~eL~Ta~~~~lpv~ivV~NN~~yg~~~~~~~~~~~~~~~~ 479 (544)
T PRK07064 406 GIGQGLAMAIGAALAG---PGRKTVGLVGDGGL-M-LN-LGELATAVQENANMVIVLMNDGGYGVIRNIQDAQYGGRRYY 479 (544)
T ss_pred ccccccchhhhhhhhC---cCCcEEEEEcchHh-h-hh-HHHHHHHHHhCCCeEEEEEeCChhHHHHHHHHHhcCCcccc
Confidence 4555555554432211 24568888886532 1 12 25677888999998888775321
Q ss_pred -----HHHHHHHHhhCCeEEEecCHhHHHHHHHhcCC
Q 014401 232 -----FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|+.|..+.+.++|.+.+.+...
T Consensus 480 ~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 516 (544)
T PRK07064 480 VELHTPDFALLAASLGLPHWRVTSADDFEAVLREALA 516 (544)
T ss_pred ccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHc
Confidence 12567899999999999999999999988764
No 466
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=20.20 E-value=7.7e+02 Score=24.05 Aligned_cols=52 Identities=17% Similarity=0.153 Sum_probs=26.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEeCCCCCCccCHHHHHHHHHhC-CcE
Q 014401 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIR 221 (425)
Q Consensus 169 tsL~~AL~~A~~~L~~~p~~~sreILVI~~s~~t~dp~~i~~ti~~akk~-~I~ 221 (425)
..+.+++++|.+.++...+-..++|=+++-+.. .||..-.++++.|.++ +|.
T Consensus 17 ~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~-~~p~~a~~~a~~Li~~~~V~ 69 (333)
T cd06331 17 PSLRNAALLAIEEINAAGGILGRPLELVVEDPA-SDPAFAAKAARRLIRDDKVD 69 (333)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCC-CCHHHHHHHHHHHHhccCCc
Confidence 356677777777776543333344555554322 2444334455555544 543
No 467
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=20.16 E-value=7.4e+02 Score=24.69 Aligned_cols=53 Identities=11% Similarity=0.153 Sum_probs=37.0
Q ss_pred cEEEEEEeCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014401 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 191 reILVI~~s~~t~dp~~i~~ti~~akk~~I~V~vIglg~e~~iLk~iA~~TGG~Y~~ 247 (425)
.+|.|+.++.. .++...++..+...+...++++-++-.-++.+|++-|=.+++
T Consensus 90 ~ri~vl~Sg~g----snl~al~~~~~~~~~~~~i~~visn~~~~~~lA~~~gIp~~~ 142 (286)
T PRK06027 90 KRVVILVSKED----HCLGDLLWRWRSGELPVEIAAVISNHDDLRSLVERFGIPFHH 142 (286)
T ss_pred cEEEEEEcCCC----CCHHHHHHHHHcCCCCcEEEEEEEcChhHHHHHHHhCCCEEE
Confidence 45777766532 356667777777777778888877766677788888766665
Done!