Query 014385
Match_columns 425
No_of_seqs 244 out of 1181
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 04:37:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014385.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014385hhsearch_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 3E-123 6E-128 900.0 27.9 371 24-415 7-377 (378)
2 COG5151 SSL1 RNA polymerase II 100.0 2E-107 3E-112 785.4 22.3 377 24-415 34-420 (421)
3 PF04056 Ssl1: Ssl1-like; Int 100.0 2E-55 4.4E-60 410.0 21.5 191 92-282 1-193 (193)
4 TIGR00622 ssl1 transcription f 100.0 5E-49 1.1E-53 334.3 7.7 105 304-413 1-111 (112)
5 TIGR00627 tfb4 transcription f 100.0 1.5E-41 3.2E-46 333.2 23.6 233 88-328 4-279 (279)
6 cd01453 vWA_transcription_fact 100.0 1.6E-40 3.5E-45 308.4 23.4 183 84-266 1-183 (183)
7 PF03850 Tfb4: Transcription f 100.0 2.5E-36 5.4E-41 296.7 21.9 229 88-325 3-276 (276)
8 KOG2487 RNA polymerase II tran 100.0 4.2E-34 9.1E-39 272.9 15.4 234 87-329 24-298 (314)
9 cd01452 VWA_26S_proteasome_sub 100.0 5E-32 1.1E-36 252.5 21.6 156 87-243 4-163 (187)
10 COG5242 TFB4 RNA polymerase II 100.0 5.2E-28 1.1E-32 226.0 19.4 233 88-329 22-285 (296)
11 PRK13685 hypothetical protein; 99.9 9.4E-24 2E-28 212.4 21.4 170 88-262 90-287 (326)
12 cd01467 vWA_BatA_type VWA BatA 99.9 6E-20 1.3E-24 167.4 19.8 159 88-253 4-179 (180)
13 cd01455 vWA_F11C1-5a_type Von 99.9 3.3E-20 7.1E-25 173.1 18.0 167 88-263 2-187 (191)
14 PF13519 VWA_2: von Willebrand 99.9 4.9E-20 1.1E-24 164.0 18.4 165 88-261 1-172 (172)
15 PF07975 C1_4: TFIIH C1-like d 99.8 3E-22 6.6E-27 148.0 1.4 49 365-413 1-51 (51)
16 TIGR03436 acidobact_VWFA VWFA- 99.8 9.5E-18 2E-22 165.9 18.1 166 88-263 55-252 (296)
17 cd01456 vWA_ywmD_type VWA ywmD 99.8 1.4E-17 3.1E-22 156.4 17.2 156 88-250 22-202 (206)
18 cd01451 vWA_Magnesium_chelatas 99.8 4.7E-17 1E-21 149.6 18.9 158 89-253 3-169 (178)
19 cd01466 vWA_C3HC4_type VWA C3H 99.8 1.8E-17 3.8E-22 149.3 15.5 146 88-248 2-154 (155)
20 cd01465 vWA_subgroup VWA subgr 99.7 1.5E-16 3.4E-21 143.0 19.3 161 88-258 2-170 (170)
21 TIGR00868 hCaCC calcium-activa 99.7 1.2E-16 2.6E-21 176.9 20.5 160 87-257 305-469 (863)
22 cd01461 vWA_interalpha_trypsin 99.7 1.6E-16 3.4E-21 143.0 17.5 160 87-258 3-169 (171)
23 cd01472 vWA_collagen von Wille 99.7 2.3E-16 4.9E-21 142.5 17.9 154 88-249 2-161 (164)
24 cd01470 vWA_complement_factors 99.7 3.8E-16 8.2E-21 145.7 18.1 165 88-258 2-197 (198)
25 KOG2884 26S proteasome regulat 99.7 3.7E-16 8E-21 146.2 17.8 157 87-244 4-164 (259)
26 cd01480 vWA_collagen_alpha_1-V 99.7 2.9E-16 6.2E-21 145.5 16.5 166 88-263 4-181 (186)
27 smart00327 VWA von Willebrand 99.7 1.7E-15 3.7E-20 135.3 19.4 155 87-247 2-164 (177)
28 cd01474 vWA_ATR ATR (Anthrax T 99.7 1.6E-15 3.4E-20 140.2 19.6 166 88-262 6-178 (185)
29 cd01463 vWA_VGCC_like VWA Volt 99.7 4.2E-16 9E-21 144.6 15.3 151 87-251 14-189 (190)
30 cd01477 vWA_F09G8-8_type VWA F 99.7 3E-15 6.4E-20 140.6 18.3 156 83-246 18-190 (193)
31 cd01469 vWA_integrins_alpha_su 99.7 2.4E-15 5.1E-20 138.5 17.3 162 88-255 2-175 (177)
32 cd01450 vWFA_subfamily_ECM Von 99.7 2.7E-15 5.8E-20 132.5 16.9 152 88-245 2-159 (161)
33 cd01460 vWA_midasin VWA_Midasi 99.6 3E-15 6.5E-20 146.9 14.8 145 77-230 53-205 (266)
34 cd01475 vWA_Matrilin VWA_Matri 99.6 1.5E-14 3.2E-19 138.0 19.0 169 88-264 4-182 (224)
35 cd00198 vWFA Von Willebrand fa 99.6 1.8E-14 3.9E-19 124.9 17.1 152 88-245 2-160 (161)
36 COG5148 RPN10 26S proteasome r 99.6 1.7E-14 3.6E-19 132.6 16.6 170 87-257 4-181 (243)
37 cd01471 vWA_micronemal_protein 99.6 3.9E-14 8.3E-19 130.5 18.5 168 88-260 2-184 (186)
38 PRK13406 bchD magnesium chelat 99.6 4.7E-14 1E-18 152.1 20.1 166 87-260 402-581 (584)
39 cd01482 vWA_collagen_alphaI-XI 99.6 5.8E-14 1.3E-18 127.2 17.3 151 88-246 2-158 (164)
40 PTZ00441 sporozoite surface pr 99.6 1.3E-13 2.9E-18 146.3 19.5 175 80-261 38-226 (576)
41 PF00092 VWA: von Willebrand f 99.6 1.5E-13 3.3E-18 123.4 15.9 167 88-260 1-177 (178)
42 cd01473 vWA_CTRP CTRP for CS 99.5 1.8E-13 3.9E-18 128.2 16.3 167 88-259 2-184 (192)
43 cd01458 vWA_ku Ku70/Ku80 N-ter 99.5 3.3E-13 7.2E-18 128.1 14.8 144 88-231 3-174 (218)
44 TIGR03788 marine_srt_targ mari 99.5 6.1E-13 1.3E-17 144.2 18.3 161 87-259 272-439 (596)
45 PF13768 VWA_3: von Willebrand 99.5 5.9E-13 1.3E-17 118.9 15.0 145 88-246 2-154 (155)
46 cd01476 VWA_integrin_invertebr 99.5 1.7E-12 3.6E-17 116.7 17.9 146 88-242 2-158 (163)
47 cd01464 vWA_subfamily VWA subf 99.5 5E-13 1.1E-17 122.4 12.4 142 88-239 5-159 (176)
48 TIGR02442 Cob-chelat-sub cobal 99.5 1.6E-12 3.5E-17 141.9 18.5 154 88-248 467-632 (633)
49 TIGR02031 BchD-ChlD magnesium 99.4 2.8E-12 6E-17 138.9 18.6 156 88-251 409-583 (589)
50 COG1240 ChlD Mg-chelatase subu 99.4 5.9E-12 1.3E-16 121.7 16.9 161 82-251 76-247 (261)
51 cd01454 vWA_norD_type norD typ 99.4 9.9E-12 2.1E-16 113.5 17.4 135 88-231 2-154 (174)
52 cd01481 vWA_collagen_alpha3-VI 99.4 2.5E-11 5.5E-16 111.0 16.7 147 87-241 1-156 (165)
53 cd01462 VWA_YIEM_type VWA YIEM 99.4 3.7E-11 8E-16 107.0 16.7 133 88-230 2-135 (152)
54 cd01457 vWA_ORF176_type VWA OR 99.3 2.9E-11 6.3E-16 113.2 15.5 149 87-240 3-165 (199)
55 PF03731 Ku_N: Ku70/Ku80 N-ter 98.6 9.9E-07 2.1E-11 83.8 14.5 139 89-227 2-172 (224)
56 PF10138 vWA-TerF-like: vWA fo 98.6 1.7E-06 3.6E-11 81.8 14.8 150 88-242 3-157 (200)
57 COG4245 TerY Uncharacterized p 98.6 1.3E-06 2.9E-11 81.1 13.3 160 88-262 5-181 (207)
58 cd01479 Sec24-like Sec24-like: 98.4 2.1E-05 4.6E-10 76.5 18.5 152 88-249 5-219 (244)
59 cd01468 trunk_domain trunk dom 98.3 3.9E-05 8.5E-10 74.2 18.5 154 88-250 5-223 (239)
60 PF05762 VWA_CoxE: VWA domain 98.3 7.6E-06 1.7E-10 78.5 12.9 125 87-226 58-186 (222)
61 PRK10997 yieM hypothetical pro 98.3 1.9E-05 4.1E-10 83.9 15.6 139 88-239 325-468 (487)
62 PF04811 Sec23_trunk: Sec23/Se 98.3 3E-05 6.6E-10 74.9 15.4 154 88-250 5-225 (243)
63 TIGR00578 ku70 ATP-dependent D 98.1 5.8E-05 1.3E-09 82.2 16.4 142 88-229 12-183 (584)
64 COG2425 Uncharacterized protei 98.1 2.4E-05 5.3E-10 81.8 12.2 155 88-258 274-432 (437)
65 COG4867 Uncharacterized protei 98.0 0.00012 2.5E-09 75.6 15.1 156 88-261 465-646 (652)
66 smart00187 INB Integrin beta s 98.0 0.00024 5.2E-09 74.0 17.1 166 88-262 101-335 (423)
67 PF06707 DUF1194: Protein of u 97.9 0.00013 2.9E-09 69.3 11.6 169 88-258 5-194 (205)
68 cd01478 Sec23-like Sec23-like: 97.9 0.00067 1.4E-08 67.1 16.5 92 167-258 139-265 (267)
69 PLN00162 transport protein sec 97.5 0.0056 1.2E-07 68.9 19.6 97 168-264 261-392 (761)
70 PTZ00395 Sec24-related protein 97.2 0.0048 1E-07 71.6 14.2 150 88-246 954-1176(1560)
71 PF11265 Med25_VWA: Mediator c 96.9 0.071 1.5E-06 51.6 17.3 163 81-244 8-201 (226)
72 PF00362 Integrin_beta: Integr 96.9 0.031 6.8E-07 58.9 15.8 161 88-258 104-334 (426)
73 KOG2353 L-type voltage-depende 96.9 0.0087 1.9E-07 69.3 12.4 153 87-253 226-400 (1104)
74 COG2304 Uncharacterized protei 96.9 0.019 4.1E-07 58.5 13.6 153 87-248 38-198 (399)
75 cd01459 vWA_copine_like VWA Co 96.5 0.073 1.6E-06 52.5 14.3 155 82-239 27-206 (254)
76 KOG1984 Vesicle coat complex C 96.5 0.068 1.5E-06 59.9 15.2 152 88-247 419-633 (1007)
77 KOG3768 DEAD box RNA helicase 96.3 0.11 2.3E-06 56.2 15.0 185 89-282 4-259 (888)
78 PF09967 DUF2201: VWA-like dom 96.0 0.031 6.7E-07 49.1 7.7 78 89-181 1-79 (126)
79 KOG1985 Vesicle coat complex C 95.9 0.12 2.6E-06 57.7 13.5 146 88-244 296-504 (887)
80 COG5028 Vesicle coat complex C 95.6 0.22 4.7E-06 55.4 13.6 150 88-246 278-482 (861)
81 KOG1986 Vesicle coat complex C 95.1 1 2.2E-05 49.9 16.7 163 90-264 125-379 (745)
82 COG1721 Uncharacterized conser 94.7 0.57 1.2E-05 49.1 13.6 62 88-151 226-287 (416)
83 PF07002 Copine: Copine; Inte 94.6 0.54 1.2E-05 42.5 11.5 121 105-228 9-146 (146)
84 COG4548 NorD Nitric oxide redu 94.5 0.17 3.8E-06 54.2 9.0 91 164-258 528-628 (637)
85 KOG2326 DNA-binding subunit of 94.4 0.95 2.1E-05 49.2 14.4 170 89-265 7-214 (669)
86 TIGR01651 CobT cobaltochelatas 94.3 0.96 2.1E-05 49.4 14.2 78 172-258 499-589 (600)
87 KOG2462 C2H2-type Zn-finger pr 94.1 0.057 1.2E-06 53.4 4.2 40 304-343 130-187 (279)
88 PF11775 CobT_C: Cobalamin bio 93.6 3.3 7.2E-05 40.0 14.9 58 172-231 119-189 (219)
89 COG3552 CoxE Protein containin 93.4 0.53 1.2E-05 48.6 9.9 116 88-217 220-339 (395)
90 KOG2462 C2H2-type Zn-finger pr 91.6 0.16 3.4E-06 50.4 3.2 76 303-395 160-255 (279)
91 PRK04023 DNA polymerase II lar 91.3 0.13 2.8E-06 58.7 2.7 69 339-417 595-675 (1121)
92 PF01363 FYVE: FYVE zinc finge 90.8 0.14 2.9E-06 39.9 1.6 37 360-400 6-42 (69)
93 KOG1226 Integrin beta subunit 90.1 2.6 5.6E-05 47.2 11.1 166 88-262 134-367 (783)
94 smart00064 FYVE Protein presen 89.8 0.22 4.8E-06 38.6 2.1 35 362-400 9-43 (68)
95 TIGR00373 conserved hypothetic 89.8 0.21 4.6E-06 45.7 2.3 26 304-329 109-139 (158)
96 KOG1327 Copine [Signal transdu 88.8 5.2 0.00011 43.4 12.0 153 87-242 286-466 (529)
97 PRK06266 transcription initiat 88.5 0.28 6.1E-06 45.8 2.1 27 304-330 117-148 (178)
98 cd00729 rubredoxin_SM Rubredox 88.0 0.4 8.7E-06 32.7 2.1 24 304-327 2-27 (34)
99 cd00065 FYVE FYVE domain; Zinc 86.0 0.44 9.5E-06 35.4 1.5 34 364-401 3-36 (57)
100 PF09538 FYDLN_acid: Protein o 84.5 0.47 1E-05 40.9 1.2 28 304-331 9-39 (108)
101 cd00350 rubredoxin_like Rubred 83.7 0.95 2.1E-05 30.5 2.2 22 305-326 2-25 (33)
102 PF03833 PolC_DP2: DNA polymer 83.2 0.36 7.9E-06 54.4 0.0 68 338-415 622-702 (900)
103 PRK14890 putative Zn-ribbon RN 83.1 1.4 3E-05 34.0 3.1 47 363-413 7-56 (59)
104 PF07754 DUF1610: Domain of un 83.0 0.97 2.1E-05 28.7 1.9 24 366-391 1-24 (24)
105 PF09723 Zn-ribbon_8: Zinc rib 82.8 0.89 1.9E-05 32.4 1.9 31 382-413 4-34 (42)
106 TIGR02300 FYDLN_acid conserved 82.6 0.72 1.6E-05 40.8 1.6 32 304-335 9-43 (129)
107 smart00531 TFIIE Transcription 82.4 0.73 1.6E-05 41.5 1.6 27 304-330 99-135 (147)
108 PRK00398 rpoP DNA-directed RNA 81.8 1.1 2.3E-05 32.4 2.0 26 304-329 3-32 (46)
109 PF09538 FYDLN_acid: Protein o 80.7 1.3 2.9E-05 38.1 2.6 35 359-396 5-39 (108)
110 PF01485 IBR: IBR domain; Int 80.3 1.2 2.7E-05 33.3 2.0 42 364-405 19-62 (64)
111 PF11443 DUF2828: Domain of un 79.9 29 0.00063 38.0 12.9 134 83-227 337-482 (534)
112 TIGR01384 TFS_arch transcripti 79.9 2 4.3E-05 36.2 3.3 31 363-393 62-100 (104)
113 TIGR02605 CxxC_CxxC_SSSS putat 79.1 1.2 2.5E-05 32.8 1.5 30 304-333 5-45 (52)
114 COG5271 MDN1 AAA ATPase contai 78.6 21 0.00047 44.4 11.9 173 79-262 4387-4590(4600)
115 PF04438 zf-HIT: HIT zinc fing 78.6 0.86 1.9E-05 30.3 0.6 14 304-317 13-26 (30)
116 PF10571 UPF0547: Uncharacteri 78.5 1.3 2.7E-05 28.6 1.3 23 306-328 2-24 (26)
117 PF13639 zf-RING_2: Ring finge 78.2 0.98 2.1E-05 31.9 0.8 42 365-411 2-43 (44)
118 COG1592 Rubrerythrin [Energy p 77.8 1.5 3.3E-05 40.6 2.2 24 304-327 134-158 (166)
119 PRK14714 DNA polymerase II lar 77.8 2.1 4.5E-05 50.5 3.7 52 304-392 667-718 (1337)
120 TIGR00599 rad18 DNA repair pro 77.4 2 4.4E-05 45.1 3.2 47 363-417 26-72 (397)
121 cd06167 LabA_like LabA_like pr 77.3 6.9 0.00015 34.3 6.2 63 167-239 81-144 (149)
122 COG2888 Predicted Zn-ribbon RN 77.1 2.1 4.6E-05 33.0 2.4 48 363-414 9-59 (61)
123 TIGR01206 lysW lysine biosynth 77.0 1.5 3.3E-05 33.2 1.6 25 304-329 2-33 (54)
124 PF12760 Zn_Tnp_IS1595: Transp 76.6 1.2 2.7E-05 32.1 1.0 24 303-326 17-45 (46)
125 PRK14559 putative protein seri 75.6 2.3 5E-05 47.4 3.2 11 402-412 38-48 (645)
126 cd05017 SIS_PGI_PMI_1 The memb 75.6 4.9 0.00011 34.3 4.6 55 192-252 45-100 (119)
127 PF13240 zinc_ribbon_2: zinc-r 75.3 1.5 3.3E-05 27.3 1.0 22 307-328 2-23 (23)
128 cd02340 ZZ_NBR1_like Zinc fing 75.3 1.9 4.2E-05 30.9 1.7 28 365-398 2-30 (43)
129 PF01936 NYN: NYN domain; Int 75.3 4.1 8.8E-05 35.3 4.1 61 169-239 79-140 (146)
130 TIGR02877 spore_yhbH sporulati 75.1 17 0.00037 37.9 9.1 110 89-217 205-317 (371)
131 PF13923 zf-C3HC4_2: Zinc fing 75.0 1.3 2.8E-05 30.6 0.7 29 383-411 11-39 (39)
132 PRK14714 DNA polymerase II lar 74.9 1.8 4E-05 50.9 2.2 45 364-416 668-720 (1337)
133 PF03853 YjeF_N: YjeF-related 74.4 13 0.00029 34.0 7.4 66 187-254 22-93 (169)
134 PF13719 zinc_ribbon_5: zinc-r 74.3 1.8 3.9E-05 30.0 1.2 29 365-393 4-35 (37)
135 PF08271 TF_Zn_Ribbon: TFIIB z 74.1 1.2 2.5E-05 31.7 0.3 24 305-328 1-29 (43)
136 COG3864 Uncharacterized protei 73.8 13 0.00029 37.9 7.7 79 88-182 263-341 (396)
137 PF05191 ADK_lid: Adenylate ki 73.4 3.2 6.9E-05 28.7 2.3 26 305-330 2-33 (36)
138 smart00834 CxxC_CXXC_SSSS Puta 73.1 2.7 5.9E-05 29.0 2.0 31 382-413 4-34 (41)
139 PLN03086 PRLI-interacting fact 71.8 5.2 0.00011 43.9 4.7 17 135-151 179-195 (567)
140 PRK05325 hypothetical protein; 71.7 18 0.00039 38.1 8.5 109 89-216 225-336 (401)
141 KOG2932 E3 ubiquitin ligase in 71.1 2.2 4.8E-05 43.1 1.5 40 364-413 91-131 (389)
142 PF04285 DUF444: Protein of un 70.8 20 0.00042 38.1 8.5 108 89-216 249-360 (421)
143 KOG4317 Predicted Zn-finger pr 70.8 1.9 4.1E-05 43.6 1.0 28 291-318 6-33 (383)
144 PRK12496 hypothetical protein; 70.3 3 6.6E-05 38.4 2.2 28 304-331 127-156 (164)
145 smart00647 IBR In Between Ring 70.0 4.7 0.0001 30.1 2.9 43 363-405 18-62 (64)
146 COG0528 PyrH Uridylate kinase 69.9 28 0.0006 34.2 8.7 45 86-136 3-51 (238)
147 PRK07418 acetolactate synthase 69.4 55 0.0012 36.1 12.1 89 169-263 434-547 (616)
148 KOG0320 Predicted E3 ubiquitin 68.7 3.7 7.9E-05 38.5 2.3 30 386-415 148-177 (187)
149 COG1675 TFA1 Transcription ini 68.6 2.9 6.2E-05 39.2 1.6 28 304-331 113-145 (176)
150 KOG4465 Uncharacterized conser 68.5 29 0.00064 36.1 8.9 126 88-229 429-563 (598)
151 TIGR02098 MJ0042_CXXC MJ0042 f 68.4 2.7 5.9E-05 28.8 1.1 25 305-329 3-36 (38)
152 PRK04023 DNA polymerase II lar 68.0 3.8 8.3E-05 47.4 2.7 23 303-327 625-647 (1121)
153 PF01927 Mut7-C: Mut7-C RNAse 67.7 5.1 0.00011 36.0 3.0 11 383-393 124-134 (147)
154 TIGR02300 FYDLN_acid conserved 66.9 4.3 9.4E-05 36.0 2.3 34 360-396 6-39 (129)
155 PF13717 zinc_ribbon_4: zinc-r 65.4 4.6 0.0001 27.8 1.8 29 365-393 4-35 (36)
156 KOG1819 FYVE finger-containing 65.2 2 4.3E-05 45.9 -0.1 33 362-398 900-932 (990)
157 PHA02929 N1R/p28-like protein; 64.7 6.3 0.00014 38.6 3.2 51 363-413 174-224 (238)
158 cd02004 TPP_BZL_OCoD_HPCL Thia 64.5 47 0.001 30.0 8.8 88 169-262 48-159 (172)
159 PRK14892 putative transcriptio 64.4 3.6 7.8E-05 35.0 1.3 25 304-328 21-52 (99)
160 cd00730 rubredoxin Rubredoxin; 64.2 4.5 9.7E-05 30.1 1.6 22 305-326 2-42 (50)
161 cd02335 ZZ_ADA2 Zinc finger, Z 62.2 5.1 0.00011 29.3 1.6 30 365-399 2-32 (49)
162 KOG0317 Predicted E3 ubiquitin 61.9 8.2 0.00018 38.7 3.4 51 362-420 238-288 (293)
163 TIGR00288 conserved hypothetic 61.6 28 0.00061 32.1 6.7 76 154-239 70-150 (160)
164 cd00162 RING RING-finger (Real 61.5 5.7 0.00012 26.7 1.7 41 366-413 2-43 (45)
165 PRK00415 rps27e 30S ribosomal 61.5 3.9 8.5E-05 31.5 0.9 27 306-332 13-44 (59)
166 KOG2660 Locus-specific chromos 61.4 2.3 5E-05 43.2 -0.5 56 319-412 16-73 (331)
167 PLN02948 phosphoribosylaminoim 60.7 88 0.0019 34.5 11.5 79 186-266 406-491 (577)
168 KOG2593 Transcription initiati 60.2 2.7 5.8E-05 44.3 -0.3 27 304-330 128-165 (436)
169 cd02249 ZZ Zinc finger, ZZ typ 59.9 5.6 0.00012 28.6 1.5 29 365-399 2-31 (46)
170 smart00661 RPOL9 RNA polymeras 59.8 8.7 0.00019 27.9 2.5 29 365-393 2-30 (52)
171 TIGR02605 CxxC_CxxC_SSSS putat 59.8 6.6 0.00014 28.7 1.9 30 382-413 4-34 (52)
172 PRK14559 putative protein seri 58.6 9.8 0.00021 42.5 3.7 35 362-404 14-54 (645)
173 PF14369 zf-RING_3: zinc-finge 58.1 7 0.00015 26.8 1.6 28 365-393 4-31 (35)
174 cd02010 TPP_ALS Thiamine pyrop 57.9 92 0.002 28.5 9.6 92 166-263 45-158 (177)
175 PF01882 DUF58: Protein of unk 57.5 22 0.00048 28.3 4.8 41 87-127 41-81 (86)
176 TIGR00627 tfb4 transcription f 57.4 12 0.00027 37.5 3.9 35 364-413 243-277 (279)
177 PRK13130 H/ACA RNA-protein com 57.2 7.3 0.00016 29.8 1.7 25 305-331 6-30 (56)
178 smart00154 ZnF_AN1 AN1-like Zi 56.8 7.3 0.00016 27.4 1.6 25 383-410 12-36 (39)
179 PF02318 FYVE_2: FYVE-type zin 56.0 3.4 7.3E-05 35.8 -0.3 47 362-411 53-100 (118)
180 cd02008 TPP_IOR_alpha Thiamine 55.6 40 0.00087 30.8 6.8 71 190-262 69-164 (178)
181 COG3958 Transketolase, C-termi 55.6 54 0.0012 33.3 8.0 67 207-284 206-283 (312)
182 PF02775 TPP_enzyme_C: Thiamin 54.9 38 0.00083 29.9 6.3 88 169-262 28-143 (153)
183 PF00643 zf-B_box: B-box zinc 54.8 5.9 0.00013 27.5 0.9 34 363-404 3-36 (42)
184 KOG0978 E3 ubiquitin ligase in 54.6 3.3 7E-05 46.3 -0.8 43 364-414 644-687 (698)
185 PRK02842 light-independent pro 53.9 88 0.0019 33.0 9.8 79 208-287 302-385 (427)
186 cd02003 TPP_IolD Thiamine pyro 53.4 1.7E+02 0.0036 27.5 10.7 91 166-262 45-171 (205)
187 cd02341 ZZ_ZZZ3 Zinc finger, Z 53.2 8.2 0.00018 28.4 1.4 28 365-398 2-33 (48)
188 cd02339 ZZ_Mind_bomb Zinc fing 52.7 8.9 0.00019 27.8 1.5 29 365-399 2-32 (45)
189 PRK12726 flagellar biosynthesi 52.5 2E+02 0.0043 30.6 11.9 92 167-261 176-280 (407)
190 cd02013 TPP_Xsc_like Thiamine 52.5 1.3E+02 0.0028 28.0 9.8 89 169-263 53-164 (196)
191 COG1432 Uncharacterized conser 52.4 42 0.00091 31.2 6.4 65 165-239 90-155 (181)
192 COG3183 Predicted restriction 52.3 3.5 7.5E-05 40.8 -0.9 32 319-350 196-232 (272)
193 PF00096 zf-C2H2: Zinc finger, 52.1 6.2 0.00013 23.6 0.5 13 384-396 1-13 (23)
194 smart00291 ZnF_ZZ Zinc-binding 51.5 10 0.00022 27.0 1.7 30 363-398 4-34 (44)
195 PF09237 GAGA: GAGA factor; I 51.4 6.3 0.00014 29.6 0.6 24 316-339 22-45 (54)
196 cd00568 TPP_enzymes Thiamine p 51.0 1.4E+02 0.003 26.3 9.3 90 167-262 44-156 (168)
197 TIGR00622 ssl1 transcription f 50.5 24 0.00052 30.7 4.0 23 303-325 80-110 (112)
198 PTZ00260 dolichyl-phosphate be 50.5 1.5E+02 0.0032 30.1 10.6 96 108-217 84-189 (333)
199 COG1533 SplB DNA repair photol 49.9 74 0.0016 32.1 8.1 108 171-284 65-186 (297)
200 PF14570 zf-RING_4: RING/Ubox 49.7 10 0.00022 28.1 1.4 44 366-413 1-45 (48)
201 COG5574 PEX10 RING-finger-cont 49.7 7.8 0.00017 38.4 1.1 51 362-420 214-266 (271)
202 PF15227 zf-C3HC4_4: zinc fing 49.6 6.3 0.00014 27.9 0.3 12 388-399 15-26 (42)
203 COG0062 Uncharacterized conser 49.3 60 0.0013 31.1 6.9 56 174-231 33-88 (203)
204 cd02006 TPP_Gcl Thiamine pyrop 49.3 1.8E+02 0.0039 27.1 10.2 88 169-262 57-177 (202)
205 TIGR01279 DPOR_bchN light-inde 47.7 88 0.0019 32.7 8.6 79 208-287 286-368 (407)
206 PRK08611 pyruvate oxidase; Pro 47.3 91 0.002 34.1 9.0 89 169-263 408-518 (576)
207 PF06906 DUF1272: Protein of u 47.1 18 0.0004 27.6 2.5 47 364-417 6-53 (57)
208 PF13248 zf-ribbon_3: zinc-rib 46.9 10 0.00022 24.1 0.9 19 394-412 5-23 (26)
209 PF13920 zf-C3HC4_3: Zinc fing 46.8 6.6 0.00014 28.4 0.1 44 364-415 3-47 (50)
210 PF07649 C1_3: C1-like domain; 46.2 9.2 0.0002 25.0 0.7 28 365-397 2-29 (30)
211 PRK00420 hypothetical protein; 46.1 11 0.00025 32.7 1.4 26 304-329 23-51 (112)
212 cd02002 TPP_BFDC Thiamine pyro 46.1 1.7E+02 0.0037 26.3 9.3 88 169-262 49-166 (178)
213 PF00301 Rubredoxin: Rubredoxi 45.9 15 0.00033 27.0 1.8 10 305-314 2-11 (47)
214 PRK06260 threonine synthase; V 45.8 14 0.00029 38.6 2.2 42 304-345 3-57 (397)
215 PRK05978 hypothetical protein; 45.5 12 0.00026 34.1 1.5 23 306-328 35-62 (148)
216 cd02014 TPP_POX Thiamine pyrop 45.5 1.7E+02 0.0037 26.5 9.3 90 167-262 49-160 (178)
217 KOG1818 Membrane trafficking a 45.5 9 0.00019 42.4 0.8 46 363-412 165-218 (634)
218 cd04192 GT_2_like_e Subfamily 45.3 2.1E+02 0.0045 25.8 9.9 70 191-264 29-110 (229)
219 PF06220 zf-U1: U1 zinc finger 45.3 8.6 0.00019 26.9 0.4 14 391-404 3-17 (38)
220 smart00355 ZnF_C2H2 zinc finge 45.2 5.9 0.00013 23.5 -0.4 23 384-406 1-23 (26)
221 cd02015 TPP_AHAS Thiamine pyro 44.8 1.9E+02 0.0041 26.4 9.5 88 169-262 50-161 (186)
222 TIGR03472 HpnI hopanoid biosyn 44.7 1.4E+02 0.0031 30.5 9.5 69 190-262 70-152 (373)
223 cd02005 TPP_PDC_IPDC Thiamine 43.5 1.4E+02 0.003 27.5 8.3 91 167-263 48-161 (183)
224 COG1198 PriA Primosomal protei 43.2 38 0.00083 38.5 5.3 130 211-392 341-484 (730)
225 PF00097 zf-C3HC4: Zinc finger 43.1 12 0.00026 25.6 0.9 26 386-411 14-41 (41)
226 PHA02768 hypothetical protein; 42.6 18 0.0004 27.5 1.9 19 320-338 7-25 (55)
227 cd02012 TPP_TK Thiamine pyroph 42.4 2.5E+02 0.0055 27.2 10.4 72 190-262 127-213 (255)
228 PLN03208 E3 ubiquitin-protein 42.1 16 0.00034 34.8 1.8 52 362-421 17-84 (193)
229 cd02001 TPP_ComE_PpyrDC Thiami 42.0 98 0.0021 27.9 7.0 70 191-263 60-143 (157)
230 KOG2327 DNA-binding subunit of 42.0 4E+02 0.0087 29.7 12.5 139 88-228 20-183 (602)
231 PF00535 Glycos_transf_2: Glyc 41.5 77 0.0017 26.5 6.0 74 189-266 26-108 (169)
232 PRK07525 sulfoacetaldehyde ace 41.3 1.3E+02 0.0028 33.0 9.0 91 167-263 433-547 (588)
233 COG1645 Uncharacterized Zn-fin 41.1 11 0.00025 33.6 0.7 24 304-327 28-53 (131)
234 smart00659 RPOLCX RNA polymera 41.0 21 0.00046 25.8 1.9 25 304-328 2-29 (44)
235 COG1182 AcpD Acyl carrier prot 41.0 2.7E+02 0.0058 26.8 9.9 117 90-223 4-121 (202)
236 PF03604 DNA_RNApol_7kD: DNA d 40.9 22 0.00047 24.1 1.8 24 305-328 1-27 (32)
237 PHA00733 hypothetical protein 40.4 22 0.00047 31.4 2.3 33 304-336 73-117 (128)
238 KOG2879 Predicted E3 ubiquitin 40.4 15 0.00033 36.7 1.5 31 384-414 253-285 (298)
239 KOG2272 Focal adhesion protein 40.2 15 0.00033 36.3 1.4 90 290-393 120-231 (332)
240 PF07191 zinc-ribbons_6: zinc- 40.2 10 0.00022 30.3 0.2 33 295-328 7-40 (70)
241 KOG3576 Ovo and related transc 40.1 8.6 0.00019 36.9 -0.3 24 383-406 212-235 (267)
242 PF06750 DiS_P_DiS: Bacterial 40.0 9.7 0.00021 31.8 0.0 38 317-374 32-69 (92)
243 PRK12380 hydrogenase nickel in 39.9 15 0.00032 31.8 1.1 9 365-373 72-80 (113)
244 PF03850 Tfb4: Transcription f 39.3 23 0.00049 35.5 2.5 36 364-412 241-276 (276)
245 TIGR00570 cdk7 CDK-activating 39.1 14 0.00031 37.5 1.1 26 388-413 25-51 (309)
246 PF01428 zf-AN1: AN1-like Zinc 39.1 16 0.00036 25.9 1.1 26 382-410 12-37 (43)
247 cd02009 TPP_SHCHC_synthase Thi 39.0 1.2E+02 0.0026 27.5 7.2 70 190-262 68-162 (175)
248 PF10221 DUF2151: Cell cycle a 38.8 4.6E+02 0.0099 29.9 12.7 114 88-201 7-164 (695)
249 TIGR00100 hypA hydrogenase nic 38.8 16 0.00034 31.7 1.2 24 364-391 71-94 (115)
250 smart00504 Ubox Modified RING 38.7 21 0.00045 26.5 1.7 46 365-418 3-48 (63)
251 COG2051 RPS27A Ribosomal prote 38.6 13 0.00028 29.4 0.6 27 306-332 21-52 (67)
252 PRK06457 pyruvate dehydrogenas 38.1 1.9E+02 0.0041 31.4 9.6 90 169-263 396-507 (549)
253 COG2718 Uncharacterized conser 38.0 82 0.0018 33.2 6.3 91 89-198 249-342 (423)
254 TIGR01504 glyox_carbo_lig glyo 37.9 1.7E+02 0.0037 32.1 9.3 88 169-262 418-538 (588)
255 PF14634 zf-RING_5: zinc-RING 37.9 22 0.00047 25.1 1.6 42 366-412 2-43 (44)
256 PF13824 zf-Mss51: Zinc-finger 37.4 23 0.0005 27.0 1.7 23 306-328 1-24 (55)
257 TIGR02720 pyruv_oxi_spxB pyruv 37.3 2E+02 0.0042 31.5 9.6 88 169-262 408-517 (575)
258 PF11181 YflT: Heat induced st 37.2 59 0.0013 27.3 4.4 75 206-284 10-85 (103)
259 PRK06450 threonine synthase; V 36.8 22 0.00049 36.3 2.1 42 304-345 3-48 (338)
260 TIGR00595 priA primosomal prot 36.6 23 0.0005 38.3 2.3 49 305-392 214-262 (505)
261 COG0375 HybF Zn finger protein 36.5 18 0.0004 31.6 1.2 26 363-392 70-95 (115)
262 PRK05580 primosome assembly pr 36.5 32 0.00069 38.6 3.4 63 290-392 368-430 (679)
263 TIGR00595 priA primosomal prot 36.5 24 0.00051 38.2 2.3 40 362-413 212-261 (505)
264 KOG1356 Putative transcription 36.5 17 0.00036 41.5 1.2 44 363-412 229-278 (889)
265 PF12257 DUF3608: Protein of u 36.3 4.7E+02 0.01 26.4 12.9 137 88-229 72-270 (281)
266 PTZ00303 phosphatidylinositol 36.2 28 0.00061 39.6 2.8 37 363-399 460-497 (1374)
267 PF13453 zf-TFIIB: Transcripti 36.1 18 0.00038 25.4 0.9 28 366-393 2-29 (41)
268 PF01155 HypA: Hydrogenase exp 35.9 9.9 0.00021 32.8 -0.5 10 365-374 72-81 (113)
269 cd01840 SGNH_hydrolase_yrhL_li 35.8 2.8E+02 0.0061 24.2 8.8 75 171-248 34-115 (150)
270 PRK06882 acetolactate synthase 35.4 1.9E+02 0.0042 31.4 9.2 88 169-262 421-532 (574)
271 PF13912 zf-C2H2_6: C2H2-type 35.3 17 0.00037 22.6 0.6 23 384-406 2-24 (27)
272 TIGR00686 phnA alkylphosphonat 35.2 23 0.0005 30.6 1.6 24 386-414 5-28 (109)
273 KOG2858 Uncharacterized conser 35.1 13 0.00028 38.3 0.1 16 303-318 28-43 (390)
274 PRK00481 NAD-dependent deacety 35.1 33 0.00071 33.2 2.9 40 383-424 122-161 (242)
275 PF08274 PhnA_Zn_Ribbon: PhnA 34.9 11 0.00023 25.2 -0.4 8 383-390 19-26 (30)
276 KOG1813 Predicted E3 ubiquitin 34.8 16 0.00034 36.9 0.6 51 364-422 242-292 (313)
277 COG1996 RPC10 DNA-directed RNA 34.6 19 0.00041 26.8 0.8 27 383-413 6-32 (49)
278 cd06370 PBP1_Speract_GC_like L 34.5 2.5E+02 0.0054 28.8 9.5 54 168-222 18-72 (404)
279 cd02520 Glucosylceramide_synth 34.4 1.8E+02 0.0038 26.3 7.5 60 189-252 29-96 (196)
280 PLN02470 acetolactate synthase 34.4 1.7E+02 0.0037 32.0 8.6 88 170-263 427-545 (585)
281 cd06326 PBP1_STKc_like Type I 34.3 2.7E+02 0.0059 27.0 9.4 60 169-229 18-78 (336)
282 PF09862 DUF2089: Protein of u 34.2 17 0.00036 31.7 0.6 22 307-328 1-22 (113)
283 PF13894 zf-C2H2_4: C2H2-type 34.1 20 0.00044 20.8 0.8 20 384-403 1-20 (24)
284 cd03376 TPP_PFOR_porB_like Thi 33.9 2.6E+02 0.0056 27.0 8.9 89 169-262 62-187 (235)
285 PRK00564 hypA hydrogenase nick 33.7 22 0.00047 30.9 1.3 9 365-373 73-81 (117)
286 KOG4317 Predicted Zn-finger pr 33.7 22 0.00047 36.2 1.4 25 363-395 7-31 (383)
287 KOG2813 Predicted molecular ch 33.6 49 0.0011 34.0 3.8 69 292-398 187-263 (406)
288 PRK03681 hypA hydrogenase nick 33.6 21 0.00046 30.8 1.2 9 383-391 70-78 (114)
289 PRK08978 acetolactate synthase 33.4 2E+02 0.0043 31.1 8.8 88 169-262 401-512 (548)
290 cd02525 Succinoglycan_BP_ExoA 33.3 3.2E+02 0.007 24.9 9.2 91 116-220 15-111 (249)
291 PRK11869 2-oxoacid ferredoxin 33.2 1.8E+02 0.0038 29.2 7.7 88 169-262 60-180 (280)
292 cd01407 SIR2-fam SIR2 family o 33.2 96 0.0021 29.4 5.7 34 291-327 99-142 (218)
293 PRK07119 2-ketoisovalerate fer 32.9 1.7E+02 0.0036 30.2 7.8 69 191-262 247-319 (352)
294 PRK00448 polC DNA polymerase I 32.9 20 0.00044 43.7 1.2 24 304-329 908-944 (1437)
295 PRK08527 acetolactate synthase 32.8 2.9E+02 0.0062 30.0 10.0 88 169-262 414-525 (563)
296 PRK08617 acetolactate synthase 32.7 2.1E+02 0.0046 30.9 8.9 70 190-262 432-523 (552)
297 PRK11595 DNA utilization prote 32.7 22 0.00048 34.1 1.3 45 317-397 4-54 (227)
298 TIGR01562 FdhE formate dehydro 32.5 30 0.00065 35.2 2.2 44 321-391 187-232 (305)
299 PF14803 Nudix_N_2: Nudix N-te 32.3 20 0.00044 24.5 0.6 28 365-392 2-31 (34)
300 cd04196 GT_2_like_d Subfamily 32.2 3.6E+02 0.0078 23.9 10.5 86 175-265 13-108 (214)
301 PF13465 zf-H2C2_2: Zinc-finge 32.0 25 0.00053 22.2 1.0 11 383-393 14-24 (26)
302 PF00569 ZZ: Zinc finger, ZZ t 31.8 25 0.00055 25.3 1.1 31 363-399 4-36 (46)
303 PHA00616 hypothetical protein 31.7 14 0.0003 26.9 -0.3 16 384-399 2-17 (44)
304 PRK03815 murD UDP-N-acetylmura 31.7 4.3E+02 0.0094 27.6 10.7 42 192-237 300-341 (401)
305 COG2176 PolC DNA polymerase II 31.7 21 0.00046 42.3 1.1 39 304-349 914-963 (1444)
306 PRK06112 acetolactate synthase 31.6 1.7E+02 0.0037 31.9 8.0 90 167-262 435-547 (578)
307 PRK00432 30S ribosomal protein 31.4 29 0.00062 25.8 1.4 25 304-328 20-47 (50)
308 PRK07789 acetolactate synthase 31.3 2.2E+02 0.0049 31.3 8.9 89 169-263 447-563 (612)
309 PRK03564 formate dehydrogenase 31.3 35 0.00076 34.8 2.4 41 365-413 214-260 (309)
310 cd02338 ZZ_PCMF_like Zinc fing 31.2 26 0.00057 25.7 1.1 29 365-399 2-32 (49)
311 TIGR01285 nifN nitrogenase mol 31.1 3.4E+02 0.0073 28.7 9.9 75 207-286 322-404 (432)
312 TIGR01405 polC_Gram_pos DNA po 31.0 22 0.00049 42.6 1.1 24 304-329 683-719 (1213)
313 PF12646 DUF3783: Domain of un 31.0 1E+02 0.0022 23.3 4.4 44 194-240 3-53 (58)
314 COG4888 Uncharacterized Zn rib 30.9 22 0.00048 30.3 0.8 25 304-328 22-56 (104)
315 COG1439 Predicted nucleic acid 30.9 29 0.00064 32.5 1.7 23 364-392 140-162 (177)
316 COG1198 PriA Primosomal protei 30.8 33 0.00071 39.0 2.3 39 364-414 436-484 (730)
317 PRK07524 hypothetical protein; 30.7 2.4E+02 0.0053 30.3 8.9 89 169-263 407-517 (535)
318 PF15135 UPF0515: Uncharacteri 30.6 36 0.00078 33.6 2.3 54 364-420 133-189 (278)
319 PF09186 DUF1949: Domain of un 30.5 1.4E+02 0.0029 21.4 5.0 41 204-244 4-56 (56)
320 cd04195 GT2_AmsE_like GT2_AmsE 30.3 3.3E+02 0.0071 24.2 8.5 61 190-253 29-91 (201)
321 PF02670 DXP_reductoisom: 1-de 30.1 3.9E+02 0.0085 23.7 8.8 62 194-260 1-65 (129)
322 PRK06965 acetolactate synthase 30.1 2.2E+02 0.0047 31.2 8.5 89 169-263 437-549 (587)
323 TIGR01556 rhamnosyltran L-rham 30.0 4.3E+02 0.0093 25.3 9.8 52 170-225 57-108 (281)
324 PRK11788 tetratricopeptide rep 29.8 29 0.00063 34.8 1.6 24 304-327 354-377 (389)
325 PRK09107 acetolactate synthase 29.8 3.5E+02 0.0076 29.8 10.1 88 169-262 430-541 (595)
326 PRK08322 acetolactate synthase 29.8 1.9E+02 0.0042 31.1 8.0 91 167-263 404-516 (547)
327 PRK08979 acetolactate synthase 29.4 2.1E+02 0.0045 31.2 8.2 88 169-262 421-532 (572)
328 PRK09545 znuA high-affinity zi 29.3 1.4E+02 0.0031 30.1 6.4 43 205-247 238-280 (311)
329 cd03371 TPP_PpyrDC Thiamine py 29.1 3.8E+02 0.0082 24.8 8.9 71 190-263 66-151 (188)
330 PLN00209 ribosomal protein S27 29.1 26 0.00055 29.1 0.8 26 306-331 38-68 (86)
331 PRK12286 rpmF 50S ribosomal pr 28.8 57 0.0012 24.9 2.6 21 304-326 27-48 (57)
332 PF02591 DUF164: Putative zinc 28.8 23 0.00051 26.4 0.5 30 363-392 22-55 (56)
333 PRK09124 pyruvate dehydrogenas 28.7 2.4E+02 0.0052 30.7 8.6 88 170-263 409-518 (574)
334 PF14353 CpXC: CpXC protein 28.7 35 0.00077 29.6 1.7 21 383-403 38-58 (128)
335 PF14835 zf-RING_6: zf-RING of 28.7 56 0.0012 25.8 2.6 47 365-421 9-56 (65)
336 PF12773 DZR: Double zinc ribb 28.6 48 0.001 23.8 2.2 39 362-411 11-49 (50)
337 PF02780 Transketolase_C: Tran 28.4 66 0.0014 27.4 3.4 84 192-284 11-104 (124)
338 PRK15404 leucine ABC transport 28.3 3.2E+02 0.007 27.7 9.0 52 170-222 44-95 (369)
339 PRK00762 hypA hydrogenase nick 28.2 31 0.00067 30.3 1.3 9 364-373 71-79 (124)
340 cd04919 ACT_AK-Hom3_2 ACT doma 28.1 1.5E+02 0.0032 21.8 5.0 37 193-229 3-39 (66)
341 PRK08659 2-oxoglutarate ferred 28.1 2E+02 0.0044 29.9 7.5 69 191-262 274-346 (376)
342 PRK05858 hypothetical protein; 28.1 2.5E+02 0.0054 30.3 8.5 89 169-263 407-518 (542)
343 PF01667 Ribosomal_S27e: Ribos 28.0 27 0.00059 26.6 0.8 26 306-331 9-39 (55)
344 PRK14571 D-alanyl-alanine synt 28.0 2.5E+02 0.0055 27.6 7.9 37 192-228 2-41 (299)
345 PF03660 PHF5: PHF5-like prote 28.0 17 0.00038 31.1 -0.3 27 292-326 8-35 (106)
346 TIGR03669 urea_ABC_arch urea A 27.9 3.3E+02 0.0072 27.8 9.0 74 168-242 17-92 (374)
347 KOG4275 Predicted E3 ubiquitin 27.8 13 0.00027 37.6 -1.4 44 364-412 45-88 (350)
348 CHL00073 chlN photochlorophyll 27.7 5.5E+02 0.012 27.7 10.8 90 191-287 315-416 (457)
349 PLN03049 pyridoxine (pyridoxam 27.6 1.4E+02 0.0031 32.1 6.3 53 175-229 44-96 (462)
350 PRK11425 PTS system N-acetylga 27.5 1.6E+02 0.0035 26.9 5.9 45 174-229 62-106 (157)
351 PRK14873 primosome assembly pr 27.4 42 0.0009 37.7 2.4 39 363-414 383-431 (665)
352 smart00547 ZnF_RBZ Zinc finger 27.4 34 0.00073 21.2 1.0 24 304-327 2-25 (26)
353 KOG2041 WD40 repeat protein [G 27.3 53 0.0012 37.2 3.1 59 307-411 1120-1180(1189)
354 PF01155 HypA: Hydrogenase exp 27.3 31 0.00067 29.7 1.1 27 382-414 69-95 (113)
355 PF14949 ARF7EP_C: ARF7 effect 27.1 34 0.00073 29.4 1.3 19 364-395 68-86 (103)
356 cd06335 PBP1_ABC_ligand_bindin 27.0 3.1E+02 0.0067 27.2 8.4 51 169-220 17-68 (347)
357 COG1545 Predicted nucleic-acid 27.0 43 0.00092 30.0 2.0 24 304-327 29-52 (140)
358 PRK07710 acetolactate synthase 27.0 3.5E+02 0.0076 29.5 9.4 88 170-263 425-536 (571)
359 PTZ00083 40S ribosomal protein 27.0 30 0.00065 28.6 0.9 26 306-331 37-67 (85)
360 cd01017 AdcA Metal binding pro 26.9 1.7E+02 0.0038 28.7 6.5 44 204-247 205-248 (282)
361 PF07295 DUF1451: Protein of u 26.8 45 0.00098 30.3 2.1 29 382-414 111-139 (146)
362 cd01407 SIR2-fam SIR2 family o 26.8 48 0.001 31.5 2.4 40 384-424 110-152 (218)
363 cd06349 PBP1_ABC_ligand_bindin 26.8 2.7E+02 0.0058 27.4 7.9 30 169-198 17-46 (340)
364 CHL00099 ilvB acetohydroxyacid 26.8 3.2E+02 0.0069 29.9 9.1 88 169-262 430-542 (585)
365 TIGR03111 glyc2_xrt_Gpos1 puta 26.8 3.5E+02 0.0076 28.4 9.1 70 192-265 82-160 (439)
366 COG1656 Uncharacterized conser 26.7 29 0.00064 32.1 0.9 30 364-393 98-140 (165)
367 COG0075 Serine-pyruvate aminot 26.6 5.3E+02 0.011 27.2 10.2 104 152-259 17-127 (383)
368 TIGR00197 yjeF_nterm yjeF N-te 26.6 2.2E+02 0.0048 26.8 6.9 38 190-229 45-82 (205)
369 cd02342 ZZ_UBA_plant Zinc fing 26.5 37 0.00079 24.6 1.1 28 365-398 2-31 (43)
370 cd04922 ACT_AKi-HSDH-ThrA_2 AC 26.4 1.6E+02 0.0036 21.4 4.9 36 194-229 4-39 (66)
371 TIGR03457 sulphoacet_xsc sulfo 26.4 2.4E+02 0.0052 30.8 8.1 89 169-263 430-542 (579)
372 PRK09627 oorA 2-oxoglutarate-a 26.4 2.2E+02 0.0048 29.7 7.4 70 191-263 275-348 (375)
373 PF08459 UvrC_HhH_N: UvrC Heli 26.4 58 0.0013 29.9 2.7 33 194-230 82-114 (155)
374 cd02344 ZZ_HERC2 Zinc finger, 26.3 47 0.001 24.2 1.7 29 365-399 2-32 (45)
375 PF05290 Baculo_IE-1: Baculovi 26.3 33 0.00071 30.8 1.1 29 304-332 103-135 (140)
376 PRK06163 hypothetical protein; 26.3 3.2E+02 0.007 25.8 7.9 70 190-262 75-160 (202)
377 KOG4169 15-hydroxyprostaglandi 26.1 5.8E+02 0.013 25.4 9.6 92 169-265 108-217 (261)
378 cd06355 PBP1_FmdD_like Peripla 26.0 4.1E+02 0.0089 26.4 9.2 75 168-243 16-92 (348)
379 PHA02926 zinc finger-like prot 25.9 46 0.00099 32.5 2.0 53 362-414 169-228 (242)
380 cd06341 PBP1_ABC_ligand_bindin 25.9 4.1E+02 0.0089 26.0 9.0 61 168-229 16-77 (341)
381 TIGR03863 PQQ_ABC_bind ABC tra 25.9 3.6E+02 0.0078 27.4 8.8 78 167-246 9-87 (347)
382 PRK08266 hypothetical protein; 25.8 3.3E+02 0.0072 29.3 8.9 88 169-262 402-512 (542)
383 PF07282 OrfB_Zn_ribbon: Putat 25.6 64 0.0014 24.7 2.5 31 361-393 26-56 (69)
384 PRK11425 PTS system N-acetylga 25.6 1.9E+02 0.0041 26.4 6.0 70 190-263 28-98 (157)
385 PRK11269 glyoxylate carboligas 25.3 3.2E+02 0.007 29.9 8.8 88 169-262 419-539 (591)
386 PF13842 Tnp_zf-ribbon_2: DDE_ 25.2 66 0.0014 21.6 2.2 15 382-396 15-29 (32)
387 cd07041 STAS_RsbR_RsbS_like Su 25.2 2.5E+02 0.0053 23.0 6.2 41 191-231 42-85 (109)
388 PRK11823 DNA repair protein Ra 25.2 41 0.00089 35.8 1.8 24 304-327 7-30 (446)
389 cd04924 ACT_AK-Arch_2 ACT doma 25.1 1.9E+02 0.004 21.0 5.0 37 193-229 3-39 (66)
390 PRK08199 thiamine pyrophosphat 25.0 3.3E+02 0.0071 29.5 8.7 88 169-262 415-525 (557)
391 KOG4399 C2HC-type Zn-finger pr 25.0 27 0.00058 34.7 0.3 28 385-413 251-282 (325)
392 PF14205 Cys_rich_KTR: Cystein 25.0 55 0.0012 24.9 1.9 23 305-327 5-37 (55)
393 TIGR00118 acolac_lg acetolacta 25.0 3.4E+02 0.0074 29.4 8.9 89 169-263 412-524 (558)
394 PF02875 Mur_ligase_C: Mur lig 25.0 91 0.002 25.0 3.4 23 175-199 27-49 (91)
395 cd01979 Pchlide_reductase_N Pc 24.9 5.3E+02 0.011 26.7 9.9 76 208-287 288-370 (396)
396 COG1579 Zn-ribbon protein, pos 24.9 28 0.0006 34.2 0.4 55 330-392 172-230 (239)
397 KOG1812 Predicted E3 ubiquitin 24.8 30 0.00065 36.2 0.7 40 365-404 240-279 (384)
398 PF06221 zf-C2HC5: Putative zi 24.6 55 0.0012 25.1 1.9 46 290-335 2-52 (57)
399 PRK10220 hypothetical protein; 24.6 46 0.001 28.9 1.6 23 386-413 6-28 (111)
400 PRK08329 threonine synthase; V 24.5 39 0.00085 34.5 1.4 41 305-346 2-54 (347)
401 PF05596 Taeniidae_ag: Taeniid 24.4 72 0.0016 25.0 2.6 28 104-131 3-30 (64)
402 KOG2177 Predicted E3 ubiquitin 24.3 30 0.00065 32.5 0.5 43 362-412 12-54 (386)
403 KOG2858 Uncharacterized conser 24.2 39 0.00084 35.0 1.3 40 363-411 17-57 (390)
404 PRK07586 hypothetical protein; 24.2 4.1E+02 0.0088 28.4 9.2 88 169-262 385-502 (514)
405 TIGR03844 cysteate_syn cysteat 24.2 49 0.0011 34.7 2.1 22 304-325 2-24 (398)
406 COG1439 Predicted nucleic acid 24.1 49 0.0011 31.1 1.8 27 304-330 139-165 (177)
407 PF12675 DUF3795: Protein of u 24.0 44 0.00095 26.8 1.4 24 392-415 7-44 (78)
408 TIGR02418 acolac_catab acetola 24.0 4E+02 0.0087 28.7 9.1 88 169-262 408-517 (539)
409 cd01019 ZnuA Zinc binding prot 24.0 2E+02 0.0044 28.4 6.4 44 203-246 212-255 (286)
410 PF06957 COPI_C: Coatomer (COP 23.8 44 0.00096 35.5 1.7 43 290-332 362-410 (422)
411 KOG2879 Predicted E3 ubiquitin 23.8 1E+02 0.0022 31.1 4.0 10 383-392 276-285 (298)
412 PRK06048 acetolactate synthase 23.8 3.3E+02 0.0071 29.6 8.5 88 169-262 414-525 (561)
413 TIGR03254 oxalate_oxc oxalyl-C 23.8 4.4E+02 0.0096 28.5 9.4 70 190-262 434-525 (554)
414 PF03854 zf-P11: P-11 zinc fin 23.7 21 0.00046 26.5 -0.5 25 304-328 21-45 (50)
415 PRK07591 threonine synthase; V 23.6 67 0.0015 33.9 3.0 28 304-331 18-46 (421)
416 PHA00626 hypothetical protein 23.4 44 0.00095 25.7 1.1 15 381-395 21-35 (59)
417 PRK12496 hypothetical protein; 23.4 43 0.00093 30.8 1.3 25 364-392 128-152 (164)
418 PRK06466 acetolactate synthase 23.4 3.7E+02 0.008 29.3 8.8 88 169-262 423-534 (574)
419 cd06352 PBP1_NPR_GC_like Ligan 23.4 3.4E+02 0.0075 27.2 8.1 55 167-222 15-71 (389)
420 COG4530 Uncharacterized protei 23.3 42 0.00092 29.2 1.2 25 304-328 9-36 (129)
421 PRK03824 hypA hydrogenase nick 23.3 54 0.0012 29.2 1.9 11 304-314 70-80 (135)
422 PF00641 zf-RanBP: Zn-finger i 23.1 68 0.0015 20.7 1.9 24 304-327 4-27 (30)
423 KOG1842 FYVE finger-containing 23.1 22 0.00048 37.8 -0.7 43 356-402 173-215 (505)
424 PRK06456 acetolactate synthase 23.0 3.8E+02 0.0082 29.1 8.8 88 169-262 421-532 (572)
425 PRK05778 2-oxoglutarate ferred 22.8 2.9E+02 0.0062 28.0 7.2 71 190-262 88-190 (301)
426 smart00184 RING Ring finger. E 22.8 33 0.0007 21.9 0.3 26 386-411 13-39 (39)
427 KOG2857 Predicted MYND Zn-fing 22.8 36 0.00078 30.9 0.7 14 305-318 18-31 (157)
428 TIGR01053 LSD1 zinc finger dom 22.7 79 0.0017 21.2 2.1 25 365-391 3-27 (31)
429 cd03372 TPP_ComE Thiamine pyro 22.6 5.9E+02 0.013 23.2 9.4 69 191-262 60-144 (179)
430 COG1707 ACT domain-containing 22.6 2.2E+02 0.0047 26.9 5.7 54 166-229 124-178 (218)
431 COG0603 Predicted PP-loop supe 22.5 2.7E+02 0.0058 27.1 6.6 58 192-256 4-68 (222)
432 cd03375 TPP_OGFOR Thiamine pyr 22.5 5E+02 0.011 24.0 8.4 89 170-263 52-172 (193)
433 KOG0825 PHD Zn-finger protein 22.5 27 0.00058 39.7 -0.2 47 362-413 122-168 (1134)
434 COG1957 URH1 Inosine-uridine n 22.4 2.8E+02 0.0061 28.3 7.0 93 114-241 102-210 (311)
435 PF13458 Peripla_BP_6: Peripla 22.4 3.1E+02 0.0067 26.6 7.3 91 145-248 7-99 (343)
436 PF10825 DUF2752: Protein of u 22.3 28 0.00061 25.9 -0.1 15 320-342 11-25 (52)
437 PRK06546 pyruvate dehydrogenas 22.3 3.1E+02 0.0066 30.0 7.9 88 169-262 408-517 (578)
438 KOG0297 TNF receptor-associate 22.3 1.1E+02 0.0023 32.2 4.1 51 362-419 20-70 (391)
439 PF07894 DUF1669: Protein of u 22.2 2.3E+02 0.005 28.6 6.3 16 210-225 165-180 (284)
440 PF03119 DNA_ligase_ZBD: NAD-d 22.2 40 0.00086 22.0 0.6 14 320-333 1-14 (28)
441 TIGR00375 conserved hypothetic 22.2 27 0.00058 36.5 -0.3 10 335-344 290-299 (374)
442 PRK09628 oorB 2-oxoglutarate-a 22.2 4.2E+02 0.0091 26.5 8.2 71 190-262 86-188 (277)
443 PLN03050 pyridoxine (pyridoxam 22.1 2.8E+02 0.006 27.2 6.8 53 191-245 61-117 (246)
444 PRK03681 hypA hydrogenase nick 22.1 41 0.00089 29.0 0.9 26 363-391 70-95 (114)
445 KOG1812 Predicted E3 ubiquitin 22.0 58 0.0013 34.1 2.1 90 304-412 258-352 (384)
446 PF14206 Cys_rich_CPCC: Cystei 22.0 55 0.0012 26.7 1.5 21 305-325 2-27 (78)
447 cd02345 ZZ_dah Zinc finger, ZZ 22.0 54 0.0012 24.0 1.4 29 365-399 2-32 (49)
448 KOG3576 Ovo and related transc 21.9 17 0.00037 35.0 -1.6 50 364-413 146-220 (267)
449 smart00440 ZnF_C2C2 C2C2 Zinc 21.8 62 0.0013 22.7 1.6 15 379-393 24-38 (40)
450 TIGR03394 indol_phenyl_DC indo 21.8 3.5E+02 0.0077 29.3 8.2 89 167-262 401-507 (535)
451 cd01018 ZntC Metal binding pro 21.8 3.1E+02 0.0066 26.7 7.1 44 204-247 202-245 (266)
452 PF13911 AhpC-TSA_2: AhpC/TSA 21.7 1.5E+02 0.0032 24.7 4.3 41 210-251 4-44 (115)
453 cd06345 PBP1_ABC_ligand_bindin 21.6 5.4E+02 0.012 25.3 9.0 53 169-222 17-70 (344)
454 TIGR00655 PurU formyltetrahydr 21.5 8.2E+02 0.018 24.4 10.8 55 190-248 84-138 (280)
455 PRK14093 UDP-N-acetylmuramoyla 21.3 4.3E+02 0.0092 28.1 8.6 16 249-264 428-443 (479)
456 PLN02235 ATP citrate (pro-S)-l 21.3 4.1E+02 0.0089 28.4 8.2 127 126-261 266-415 (423)
457 cd04914 ACT_AKi-DapG-BS_1 ACT 21.1 3E+02 0.0065 21.0 5.5 25 204-228 12-36 (67)
458 PF00731 AIRC: AIR carboxylase 21.0 4.7E+02 0.01 23.8 7.5 73 192-266 2-81 (150)
459 cd04916 ACT_AKiii-YclM-BS_2 AC 20.9 2.3E+02 0.005 20.5 4.8 36 194-229 4-39 (66)
460 PF02887 PK_C: Pyruvate kinase 20.9 2.2E+02 0.0047 24.1 5.1 48 191-248 18-65 (117)
461 PLN02683 pyruvate dehydrogenas 20.9 1.5E+02 0.0033 30.6 4.9 39 208-246 243-285 (356)
462 PF03833 PolC_DP2: DNA polymer 20.8 33 0.00071 39.4 0.0 42 288-333 665-707 (900)
463 cd02511 Beta4Glucosyltransfera 20.8 5.8E+02 0.013 23.7 8.6 67 192-265 28-100 (229)
464 TIGR00570 cdk7 CDK-activating 20.7 73 0.0016 32.5 2.5 26 362-392 27-52 (309)
465 PRK00420 hypothetical protein; 20.6 72 0.0016 27.8 2.0 27 363-392 23-49 (112)
466 cd06348 PBP1_ABC_ligand_bindin 20.6 3.6E+02 0.0078 26.5 7.5 8 145-152 5-12 (344)
467 KOG1940 Zn-finger protein [Gen 20.5 45 0.00097 33.5 0.9 117 277-416 31-169 (276)
468 PRK07449 2-succinyl-5-enolpyru 20.5 2.8E+02 0.006 30.1 7.1 89 167-262 423-536 (568)
469 cd01973 Nitrogenase_VFe_beta_l 20.5 1E+03 0.023 25.3 12.1 77 209-285 318-411 (454)
470 PRK06276 acetolactate synthase 20.5 3.3E+02 0.0073 29.7 7.7 88 169-262 419-530 (586)
471 cd06427 CESA_like_2 CESA_like_ 20.4 6.9E+02 0.015 23.1 10.9 46 170-222 71-116 (241)
472 cd04918 ACT_AK1-AT_2 ACT domai 20.3 2.3E+02 0.005 21.3 4.7 36 193-229 3-38 (65)
473 KOG0804 Cytoplasmic Zn-finger 20.3 34 0.00073 36.5 -0.0 26 239-264 110-138 (493)
474 cd06433 GT_2_WfgS_like WfgS an 20.3 5.7E+02 0.012 22.1 8.7 59 191-253 28-86 (202)
475 PRK07064 hypothetical protein; 20.3 3.2E+02 0.0069 29.4 7.5 88 170-263 406-516 (544)
476 cd06331 PBP1_AmiC_like Type I 20.2 8.1E+02 0.018 23.9 10.1 53 169-222 17-70 (333)
477 PRK11204 N-glycosyltransferase 20.1 6.3E+02 0.014 25.8 9.4 68 190-261 83-159 (420)
478 TIGR03393 indolpyr_decarb indo 20.0 4.2E+02 0.0091 28.6 8.3 89 169-263 404-515 (539)
479 PF05458 Siva: Cd27 binding pr 20.0 38 0.00082 31.7 0.3 30 383-412 139-168 (175)
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=2.8e-123 Score=899.99 Aligned_cols=371 Identities=59% Similarity=1.031 Sum_probs=352.6
Q ss_pred cccccccccccccccccccceecCCCccccccchhHHHHHhHhhhhccccccchhhhhhccccceEEEEEeCCHhhhhCC
Q 014385 24 LNGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQKGLIRYLYIVIDLSRAAAEMD 103 (425)
Q Consensus 24 ~~~g~~~We~~y~~~~sW~~l~ed~~g~l~~~~~~~~~~~kr~~~~~~~~~~~~~~~~rrGiiR~lvlvLD~S~SM~a~D 103 (425)
..+| |+||++| +||||.|+||++|+|..+++++++.+||||+++ ..++.|+|||||++||||.|++|.++|
T Consensus 7 ~~~~-y~WE~eY--~RsWe~l~ede~Gsl~~~ia~~v~~~krk~~~~------~~t~~r~GiiRhl~iviD~S~am~e~D 77 (378)
T KOG2807|consen 7 MNKG-YTWEGEY--KRSWEILKEDESGSLEKSIASIVNEAKRKRRLR------YSTRIRKGIIRHLYIVIDCSRAMEEKD 77 (378)
T ss_pred hccc-cchhhhh--hhhHHHhhcccccchHHHHHHHHHHHHHhhhhh------ccchhhhhhheeEEEEEEhhhhhhhcc
Confidence 3455 8999999 999999999999999999999999999999985 668999999999999999999999999
Q ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCCcchHHHHHHHHHHHHh
Q 014385 104 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLS 183 (425)
Q Consensus 104 ~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~ 183 (425)
++|+|+..+.++++.||.+||+|||++|||||+++||.|++++.+|||++.|+++|+.+.++.|++||||||++|...|+
T Consensus 78 f~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~ltgnp~~hI~aL~~~~~~~g~fSLqNaLe~a~~~Lk 157 (378)
T KOG2807|consen 78 FRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLTGNPRIHIHALKGLTECSGDFSLQNALELAREVLK 157 (378)
T ss_pred CCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhcCCHHHHHHHHhcccccCCChHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999988789999999999999999999
Q ss_pred CCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 184 QIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 184 ~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
++|+|.+||||||++++.|+|||||+++|+++++.+|||++|||++|+.++|.||++|||.|.|+.|++||++||.+++.
T Consensus 158 ~~p~H~sREVLii~sslsT~DPgdi~~tI~~lk~~kIRvsvIgLsaEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~~~ 237 (378)
T KOG2807|consen 158 HMPGHVSREVLIIFSSLSTCDPGDIYETIDKLKAYKIRVSVIGLSAEVFICKELCKATGGRYSVALDEGHLKELLLEHTH 237 (378)
T ss_pred CCCcccceEEEEEEeeecccCcccHHHHHHHHHhhCeEEEEEeechhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchhhhhhceeeecCCCCCCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCC
Q 014385 264 PPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFP 343 (425)
Q Consensus 264 Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp 343 (425)
|||+.+ ..+.+||+||||++...+.+++|+||..++.. ||.||||++++|+||++||+|+|+||||||||||||||||
T Consensus 238 Pp~~~~-~~~~sLvkmGFP~~~~e~~ps~C~CH~~~~~~-Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL~P 315 (378)
T KOG2807|consen 238 PPPANK-SKECSLVKMGFPSRSPEDTPSFCACHSELSGG-GYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHLFP 315 (378)
T ss_pred CCCccc-ccCCceEEecCCCcccccCcchheeccccccC-ceeCCcccCeeecCCccCCccceeEecchHHHHHHHhhcC
Confidence 999874 44899999999999999999999999888888 9999999999999999999999999999999999999999
Q ss_pred CCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCC
Q 014385 344 IAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 415 (425)
Q Consensus 344 ~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~ 415 (425)
|++|.|+++ .+..+++.||+|+..+. .+.+|+|+.|+++||.|||+||||+||+||||+++.
T Consensus 316 L~~F~Eip~-----~~~~~~~~Cf~C~~~~~-----~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~~ 377 (378)
T KOG2807|consen 316 LKPFVEIPE-----TEYNGSRFCFACQGELL-----SSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHKP 377 (378)
T ss_pred Ccchhhccc-----cccCCCcceeeeccccC-----CCCcEEchhccceeeccchHHHHhhhhcCCCcCCCC
Confidence 999999964 56667888999964443 346899999999999999999999999999999643
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=1.5e-107 Score=785.44 Aligned_cols=377 Identities=43% Similarity=0.775 Sum_probs=357.5
Q ss_pred cccccccccccccccccccceecCCCccccccchhHHHHHhHhhhhccccccchhhhhhccccceEEEEEeCCHhhhhCC
Q 014385 24 LNGGLEAWERSYADDRSWEALQEDESGFLRPIDNSAFYHAQYRRRLRDRSLVATTARIQKGLIRYLYIVIDLSRAAAEMD 103 (425)
Q Consensus 24 ~~~g~~~We~~y~~~~sW~~l~ed~~g~l~~~~~~~~~~~kr~~~~~~~~~~~~~~~~rrGiiR~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 3455 8999999 99999999999999999999999999988776 4999999999999999999999999999
Q ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCCcchHHHHHHHHHHHHh
Q 014385 104 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLS 183 (425)
Q Consensus 104 ~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~G~tsL~nAL~~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 99999999999999999999999999999999999999999999999999999999998899999999999999999999
Q ss_pred CCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhh----CCeEEEecChhHHHHHHH
Q 014385 184 QIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDT----GGSYSVALDESHFKELIM 259 (425)
Q Consensus 184 ~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 9999999999999999999999999999999999999999999999999999999999 699999999999999999
Q ss_pred hcCCCCccchhhhhhceeeecCCCCCCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhc
Q 014385 260 EHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYH 339 (425)
Q Consensus 260 ~~~~Pp~~~~~~~~~~Li~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyh 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 9999999875567789999999999999999999999999999 999999999999999999999999999999999999
Q ss_pred ccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC------CCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 014385 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=2e-55 Score=409.95 Aligned_cols=191 Identities=53% Similarity=0.959 Sum_probs=185.6
Q ss_pred EEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh--CCCCcc
Q 014385 92 VIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDS 169 (425)
Q Consensus 92 vLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEec
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVAL 249 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 014385 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=5e-49 Score=334.33 Aligned_cols=105 Identities=50% Similarity=1.134 Sum_probs=95.1
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC-----
Q 014385 304 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN----- 378 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~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 33346789999999986531
Q ss_pred -CCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.5e-41 Score=333.15 Aligned_cols=233 Identities=16% Similarity=0.300 Sum_probs=197.1
Q ss_pred eEEEEEeCCHhhh---hCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH------------
Q 014385 88 YLYIVIDLSRAAA---EMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP------------ 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~---a~D~~P~RL~~a~~~l~~Fv~~~~~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 3232366899999999999999999999999999999999999999974100
Q ss_pred ------------HHHHHHHhhhhC-------CCCcchHHHHHHHHHHHHhCC------CCCCCcEEEEEEcCCCC-CCcc
Q 014385 153 ------------ESHIKALMGKLG-------CSGDSSLQNALDLVQGLLSQI------PSYGHREVLILYSALST-CDPG 206 (425)
Q Consensus 153 ------------~~~i~~L~~~~~-------~~G~tsL~nAL~~A~~~L~~~------p~~~sreILiI~ss~~t-~d~~ 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 123444543321 125678999999999999874 12446789999876543 7788
Q ss_pred CHHHHHHHHHhCCcEEEEEEecch--HHHHHHHHHhhCCeEEEecChhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014385 207 DIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 207 ~i~~ti~~akk~~IrV~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 999999999999999999999987 99999999999999999999999999999988887754 345765 999
Q ss_pred CCCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCcee
Q 014385 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 9999999999999999999999865
No 6
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=100.00 E-value=1.6e-40 Score=308.37 Aligned_cols=183 Identities=57% Similarity=0.974 Sum_probs=171.4
Q ss_pred cccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh
Q 014385 84 GLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL 163 (425)
Q Consensus 84 GiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 89999999999999999999999999999999999999999999999999999977999999999999999988887754
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCC
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGG 243 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 56788999999999999998766566788999998877778888888999999999999999999999999999999999
Q ss_pred eEEEecChhHHHHHHHhcCCCCc
Q 014385 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 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=2.5e-36 Score=296.69 Aligned_cols=229 Identities=21% Similarity=0.341 Sum_probs=188.0
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC----------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS---------------- 151 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 5899999999988766666899999999999999999999999999999999999999998770
Q ss_pred --H-------HHHHHHHhhhhC-------CCCcchHHHHHHHHHHHHhCC----C---CCCCcEEEE-EEcCCC-CCCcc
Q 014385 152 --P-------ESHIKALMGKLG-------CSGDSSLQNALDLVQGLLSQI----P---SYGHREVLI-LYSALS-TCDPG 206 (425)
Q Consensus 152 --~-------~~~i~~L~~~~~-------~~G~tsL~nAL~~A~~~L~~~----p---~~~sreILi-I~ss~~-t~d~~ 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 112333433321 112379999999999999986 2 234568999 665543 47788
Q ss_pred CHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhhCCeEEEecChhHHHH-HHHhcCCCCccchhhhhhceeeecCCCC
Q 014385 207 DIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKE-LIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 207 ~i~~ti~~akk~~IrV~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-----SFLI---LPTQ 234 (276)
T ss_pred HHHHHHHHHhcCCceeEEEEecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHHHH-----hhcc---CCCC
Confidence 99999999999999999999999 899999999999999998877766555 555555444443 4443 7999
Q ss_pred CCCCCcceeeecCCccccCeEEcCCCCccccCCCC--CCCCCC
Q 014385 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-34 Score=272.87 Aligned_cols=234 Identities=16% Similarity=0.275 Sum_probs=191.3
Q ss_pred ceEEEEEeCCH---hhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCC--------------C
Q 014385 87 RYLYIVIDLSR---AAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--------------G 149 (425)
Q Consensus 87 R~lvlvLD~S~---SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lspl--------------T 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 46899999999 666544444478889999999999999999999999999987788888882 2
Q ss_pred C----CH-------HHHHHHHhhhhC-----CCC-cchHHHHHHHHHHHHhCCCCCC-----CcEEEEEEcCCC-CCCcc
Q 014385 150 G----SP-------ESHIKALMGKLG-----CSG-DSSLQNALDLVQGLLSQIPSYG-----HREVLILYSALS-TCDPG 206 (425)
Q Consensus 150 ~----d~-------~~~i~~L~~~~~-----~~G-~tsL~nAL~~A~~~L~~~p~~~-----sreILiI~ss~~-t~d~~ 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 1 11 223455554431 123 6789999999999998763222 457999976543 36789
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhH-HHHHHHhcCCCCccchhhhhhceeeecCCCCC
Q 014385 207 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESH-FKELIMEHAPPPPAIAEFAIANLIKMGFPQRA 285 (425)
Q Consensus 207 ~i~~ti~~akk~~IrV~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 99999999999999999999999999999999999999998766654 666777777767665 5665 49999
Q ss_pred CCCCcceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceec
Q 014385 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=5e-32 Score=252.51 Aligned_cols=156 Identities=16% Similarity=0.242 Sum_probs=145.2
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 3589999999999999999999999999999999999999999999999998779999999999999999999864 678
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhC
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTG 242 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sr-eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 9999999999999999999888886 999999999888999999999999999999999999975 578888888875
Q ss_pred C
Q 014385 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=99.96 E-value=5.2e-28 Score=226.02 Aligned_cols=233 Identities=17% Similarity=0.227 Sum_probs=185.8
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH---------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--------------- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 47889999988765443444456778899999999999999999999998777788888876541
Q ss_pred -------HHHHHHHhhhhC-C---CCcchHHHHHHHHHHHHhCCCCCC--CcEEEEEEcCC--CCCCccCHHHHHHHHHh
Q 014385 153 -------ESHIKALMGKLG-C---SGDSSLQNALDLVQGLLSQIPSYG--HREVLILYSAL--STCDPGDIMETIQKCKE 217 (425)
Q Consensus 153 -------~~~i~~L~~~~~-~---~G~tsL~nAL~~A~~~L~~~p~~~--sreILiI~ss~--~t~d~~~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 113444444432 2 234789999999999999874432 35688886533 23567899999999999
Q ss_pred CCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhH-HHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCcceeeec
Q 014385 218 SKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESH-FKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCH 296 (425)
Q Consensus 218 ~~IrV~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 999999999999999999999999999998877665 555666666555544 4443 4999999999999999
Q ss_pred CCccccCeEEcCCCCccccCCCCCCCCCCceec
Q 014385 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=9.4e-24 Score=212.42 Aligned_cols=170 Identities=17% Similarity=0.272 Sum_probs=142.9
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 56789999999 489999999999999998888764 6778
Q ss_pred cchHHHHHHHHHHHHhCC-------CCCCCcEEEEEEcCCCCCC-----ccCHHHHHHHHHhCCcEEEEEEecc------
Q 014385 168 DSSLQNALDLVQGLLSQI-------PSYGHREVLILYSALSTCD-----PGDIMETIQKCKESKIRCSVIGLSA------ 229 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~-------p~~~sreILiI~ss~~t~d-----~~~i~~ti~~akk~~IrV~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 899999999999988632 1122455666666655422 1234568889999999999999997
Q ss_pred ----------hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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
>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=6e-20 Score=167.45 Aligned_cols=159 Identities=22% Similarity=0.276 Sum_probs=127.4
Q ss_pred eEEEEEeCCHhhhhCCC-CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh--C
Q 014385 88 YLYIVIDLSRAAAEMDF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--G 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~-~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 99999999999999988 68999999998887765 457899999999 4788999999988877666665542 3
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEc-CCCCCCccCHHHHHHHHHhCCcEEEEEEecc-------------h
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSA-------------E 230 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~s-s~~t~d~~~i~~ti~~akk~~IrV~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 2334555554 4443333345567788889999999999997 4
Q ss_pred HHHHHHHHHhhCCeEEEecChhH
Q 014385 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 67999999999999999887654
No 13
>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=99.85 E-value=3.3e-20 Score=173.11 Aligned_cols=167 Identities=17% Similarity=0.162 Sum_probs=126.8
Q ss_pred eEEEEEeCCHhhhhCC-C--C-CChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH---------HH
Q 014385 88 YLYIVIDLSRAAAEMD-F--R-PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP---------ES 154 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D-~--~-P~RL~~a~~~l~~Fv~~~~~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-GFEDKIQYDIIGH----SGDGPCVPFVKTNHPPKNNKERLET 76 (191)
T ss_pred ceEEEEECcHhHHHHhccCCccccHHHHHHHHHHHHH-HHHHhCccceeee----cCcccccCccccccCcccchhHHHH
Confidence 6899999999997544 2 3 599999999999996 4567888899993 46776677766554 33
Q ss_pred HHHHHhhhh-CCCC-cchHHHHHHHHHHHHh-CCCCCCCcEEEEEEcCCC-CCCccCHHH-HHHHHHhCCcEEEEEEecc
Q 014385 155 HIKALMGKL-GCSG-DSSLQNALDLVQGLLS-QIPSYGHREVLILYSALS-TCDPGDIME-TIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 155 ~i~~L~~~~-~~~G-~tsL~nAL~~A~~~L~-~~p~~~sreILiI~ss~~-t~d~~~i~~-ti~~akk~~IrV~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 334444332 2344 456 99999999998 653 3345777766544 333345566 4788999999999999998
Q ss_pred -hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 14
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.85 E-value=4.9e-20 Score=163.98 Aligned_cols=165 Identities=18% Similarity=0.265 Sum_probs=131.9
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh---C
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---G 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 67799999995 678999999999999988887653 4
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---HHHHHHHHhh
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---FICKHLCQDT 241 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 6788999999999999999863 33445555554332 244457899999999999999999764 5899999999
Q ss_pred CCeEEEe-cChhHHHHHHHhc
Q 014385 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=3e-22 Score=148.03 Aligned_cols=49 Identities=55% Similarity=1.338 Sum_probs=33.3
Q ss_pred ccccccccccCCCC--CCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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=9.5e-18 Score=165.89 Aligned_cols=166 Identities=16% Similarity=0.195 Sum_probs=131.0
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhC---
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG--- 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 TVGLVIDTSGSMR------NDLDRARAAAIRFLKTVL--RPNDRVFVVTF-NTRLRLLQDFTSDPRLLEAALNRLKPPLR 125 (296)
T ss_pred eEEEEEECCCCch------HHHHHHHHHHHHHHHhhC--CCCCEEEEEEe-CCceeEeecCCCCHHHHHHHHHhccCCCc
Confidence 8999999999997 368889999999998754 57899999999 48999999999999999888886522
Q ss_pred -----------CCCcchHHHHHHHHHH-HHhCCCC--CCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-
Q 014385 165 -----------CSGDSSLQNALDLVQG-LLSQIPS--YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA- 229 (425)
Q Consensus 165 -----------~~G~tsL~nAL~~A~~-~L~~~p~--~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 2689999999987754 4433211 134444444445444444567788999999999999999983
Q ss_pred --------------hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 3579999999999999988 88888888877774
No 17
>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=99.77 E-value=1.4e-17 Score=156.36 Aligned_cols=156 Identities=21% Similarity=0.243 Sum_probs=114.6
Q ss_pred eEEEEEeCCHhhhh-CCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCC-----ceEEee---CCC--------C
Q 014385 88 YLYIVIDLSRAAAE-MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG-----VANCLT---DLG--------G 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a-~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g-----~A~~ls---plT--------~ 150 (425)
+++|+||.|.||.. .+-.++||..++..+..|++.+ +|.+++|||+|.+. ....+. |++ .
T Consensus 22 ~vv~vlD~SgSM~~~~~~~~~rl~~ak~a~~~~l~~l---~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~~~~~~ 98 (206)
T cd01456 22 NVAIVLDNSGSMREVDGGGETRLDNAKAALDETANAL---PDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVNGFPSA 98 (206)
T ss_pred cEEEEEeCCCCCcCCCCCcchHHHHHHHHHHHHHHhC---CCCceEEEEEecCCCCCCccccccccccccccccCCCCcc
Confidence 89999999999985 4456899999999999999864 45689999999632 122232 332 2
Q ss_pred CHHHHHHHHhhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-----CCcEEEEE
Q 014385 151 SPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSVI 225 (425)
Q Consensus 151 d~~~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk-----~~IrV~vI 225 (425)
+.+.+.+.|..+..+.|+|+|..||+.|...|. +. ..+.||+|+++..+++. +..+.+..+.+ .+|+|++|
T Consensus 99 ~~~~l~~~i~~i~~~~G~T~l~~aL~~a~~~l~--~~-~~~~iillTDG~~~~~~-~~~~~~~~~~~~~~~~~~i~i~~i 174 (206)
T cd01456 99 QRSALDAALNSLQTPTGWTPLAAALAEAAAYVD--PG-RVNVVVLITDGEDTCGP-DPCEVARELAKRRTPAPPIKVNVI 174 (206)
T ss_pred cHHHHHHHHHhhcCCCCcChHHHHHHHHHHHhC--CC-CcceEEEEcCCCccCCC-CHHHHHHHHHHhcCCCCCceEEEE
Confidence 455566666654237899999999999999996 22 22557777766655433 44455555444 49999999
Q ss_pred Eecch--HHHHHHHHHhhCCeE-EEecC
Q 014385 226 GLSAE--MFICKHLCQDTGGSY-SVALD 250 (425)
Q Consensus 226 glg~e--~~iLk~iA~~TGG~Y-~~~~d 250 (425)
|||.+ ...|++||+.|||.| +.+.+
T Consensus 175 giG~~~~~~~l~~iA~~tgG~~~~~~~~ 202 (206)
T cd01456 175 DFGGDADRAELEAIAEATGGTYAYNQSD 202 (206)
T ss_pred EecCcccHHHHHHHHHhcCCeEeccccc
Confidence 99986 689999999999999 65544
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=99.76 E-value=4.7e-17 Score=149.63 Aligned_cols=158 Identities=23% Similarity=0.283 Sum_probs=121.1
Q ss_pred EEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCCc
Q 014385 89 LYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGD 168 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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--QRRDKVALIAFRGTEAEVLLPPTRSVELAKRRLARL-PTGGG 75 (178)
T ss_pred EEEEEECCccCCCc----cHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEeCCCCCHHHHHHHHHhC-CCCCC
Confidence 78999999999743 699999999999987654 467899999996445888999999887777777653 56789
Q ss_pred chHHHHHHHHHHHH-hCCCCCCCcEEEEEEcCC-CCC--Ccc-CH-HHHHHHHHhCCcEEEEEEecch---HHHHHHHHH
Q 014385 169 SSLQNALDLVQGLL-SQIPSYGHREVLILYSAL-STC--DPG-DI-METIQKCKESKIRCSVIGLSAE---MFICKHLCQ 239 (425)
Q Consensus 169 tsL~nAL~~A~~~L-~~~p~~~sreILiI~ss~-~t~--d~~-~i-~~ti~~akk~~IrV~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 322222333455555544 332 222 12 4568889999999999999864 579999999
Q ss_pred hhCCeEEEecChhH
Q 014385 240 DTGGSYSVALDESH 253 (425)
Q Consensus 240 ~TGG~Y~~~~d~~~ 253 (425)
.|||.|+.+.|.++
T Consensus 156 ~tgG~~~~~~d~~~ 169 (178)
T cd01451 156 ALGGQYVRLPDLSA 169 (178)
T ss_pred HcCCeEEEcCcCCH
Confidence 99999998866553
No 19
>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=99.76 E-value=1.8e-17 Score=149.33 Aligned_cols=146 Identities=18% Similarity=0.287 Sum_probs=109.9
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC----HHHHHHHHhhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d----~~~~i~~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---DADRLSIVTFS-TSAKRLSPLRRMTAKGKRSAKRVVDG-L 71 (155)
T ss_pred cEEEEEECCCCCCc-----HHHHHHHHHHHHHHHhCC---CcceEEEEEec-CCccccCCCcccCHHHHHHHHHHHHh-c
Confidence 78999999999975 399999999987776543 45799999994 789999998743 2334444444 4
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCC-CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec--chHHHHHHHHHh
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYG-HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--AEMFICKHLCQD 240 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~-sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg--~e~~iLk~iA~~ 240 (425)
.+.|+|++..||..|...+....... .+.||+|+++..+ + + ..+..+++.+|+|++||+| .+...|++||..
T Consensus 72 ~~~g~T~~~~al~~a~~~~~~~~~~~~~~~iillTDG~~~-~-~---~~~~~~~~~~v~v~~igig~~~~~~~l~~iA~~ 146 (155)
T cd01466 72 QAGGGTNVVGGLKKALKVLGDRRQKNPVASIMLLSDGQDN-H-G---AVVLRADNAPIPIHTFGLGASHDPALLAFIAEI 146 (155)
T ss_pred cCCCCccHHHHHHHHHHHHhhcccCCCceEEEEEcCCCCC-c-c---hhhhcccCCCceEEEEecCCCCCHHHHHHHHhc
Confidence 68899999999999999997642222 2334444444433 2 2 3344567789999999999 567999999999
Q ss_pred hCCeEEEe
Q 014385 241 TGGSYSVA 248 (425)
Q Consensus 241 TGG~Y~~~ 248 (425)
|||.|+.+
T Consensus 147 t~G~~~~~ 154 (155)
T cd01466 147 TGGTFSYV 154 (155)
T ss_pred cCceEEEe
Confidence 99999975
No 20
>cd01465 vWA_subgroup VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if n
Probab=99.74 E-value=1.5e-16 Score=143.05 Aligned_cols=161 Identities=16% Similarity=0.200 Sum_probs=123.7
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~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 789999999999742 5889998888888754 567899999995 77888888764 45555555654 356
Q ss_pred CCcchHHHHHHHHHHHHhCCCC-CCCcEEEEEEcCCCCCCccC---HHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHH
Q 014385 166 SGDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSA--EMFICKHLCQ 239 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~-~~sreILiI~ss~~t~d~~~---i~~ti~~akk~~IrV~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 7889999999999999976422 22355666666655444433 3355666778999999999995 4689999999
Q ss_pred hhCCeEEEecChhHHHHHH
Q 014385 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 9999999999999888763
No 21
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=99.73 E-value=1.2e-16 Score=176.91 Aligned_cols=160 Identities=22% Similarity=0.253 Sum_probs=122.0
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC-CHHHHHHHHhhhh--
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-SPESHIKALMGKL-- 163 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~-d~~~~i~~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 57999999999998654 99999999999998775 46899999999 589999999874 1112233333322
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCC-CCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHHhh
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDT 241 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~-~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 367899999999999999987532 223455555555432 345678889999999999999964 45699999999
Q ss_pred CCeEEEecChhHHHHH
Q 014385 242 GGSYSVALDESHFKEL 257 (425)
Q Consensus 242 GG~Y~~~~d~~~L~~l 257 (425)
||.|+.+.|..++..|
T Consensus 454 GG~~f~asd~~dl~~L 469 (863)
T TIGR00868 454 GGLRFYASDQADNNGL 469 (863)
T ss_pred CCEEEEeCCHHHHHHH
Confidence 9999988876654443
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=99.73 E-value=1.6e-16 Score=142.96 Aligned_cols=160 Identities=13% Similarity=0.288 Sum_probs=118.4
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC--CCHHH---HHHHHhh
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPES---HIKALMG 161 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 KEVVFVIDTSGSMS-----GTKIEQTKEALLTALKDL---PPGDYFNIIGFS-DTVEEFSPSSVSATAENVAAAIEYVNR 73 (171)
T ss_pred ceEEEEEECCCCCC-----ChhHHHHHHHHHHHHHhC---CCCCEEEEEEeC-CCceeecCcceeCCHHHHHHHHHHHHh
Confidence 68999999999996 357999999999888764 356789999995 6677666542 23222 2333333
Q ss_pred hhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHH
Q 014385 162 KLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQ 239 (425)
Q Consensus 162 ~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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-GSVPQIILLTDGE-VTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAR 150 (171)
T ss_pred -cCCCCCcCHHHHHHHHHHhhccCC-CCccEEEEEeCCC-CCCHHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHH
Confidence 356889999999999999997632 2234444444444 3344445566777766799999999995 5799999999
Q ss_pred hhCCeEEEecChhHHHHHH
Q 014385 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 9999999999988877654
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=2.3e-16 Score=142.48 Aligned_cols=154 Identities=18% Similarity=0.163 Sum_probs=123.5
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT--~d~~~~i~~L~~~~~~ 165 (425)
+||++||.|.||.. .++..++..+..+++.+...+...++|||+|. +.+..+.|++ .|.+.+.+.|..+...
T Consensus 2 Dvv~vlD~SgSm~~-----~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs-~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 75 (164)
T cd01472 2 DIVFLVDGSESIGL-----SNFNLVKDFVKRVVERLDIGPDGVRVGVVQYS-DDPRTEFYLNTYRSKDDVLEAVKNLRYI 75 (164)
T ss_pred CEEEEEeCCCCCCH-----HHHHHHHHHHHHHHhhcccCCCCeEEEEEEEc-CceeEEEecCCCCCHHHHHHHHHhCcCC
Confidence 79999999999974 57888899999999887655567899999995 8899999999 7888888888765333
Q ss_pred CCcchHHHHHHHHHHHHhCC---CCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhh
Q 014385 166 SGDSSLQNALDLVQGLLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDT 241 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~---p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 223445566666554432 234566778889999999999997 889999999999
Q ss_pred CCeEEEec
Q 014385 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 99998543
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=99.71 E-value=3.8e-16 Score=145.70 Aligned_cols=165 Identities=14% Similarity=0.204 Sum_probs=120.2
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC----CHHHHHHHHhhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~----d~~~~i~~L~~~~ 163 (425)
+++|+||.|.||. ++||..++..+..|++.+....+..++|||+|. +.+..+.|++. +...++.+|..+.
T Consensus 2 di~~vlD~SgSM~-----~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs-~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 75 (198)
T cd01470 2 NIYIALDASDSIG-----EEDFDEAKNAIKTLIEKISSYEVSPRYEIISYA-SDPKEIVSIRDFNSNDADDVIKRLEDFN 75 (198)
T ss_pred cEEEEEECCCCcc-----HHHHHHHHHHHHHHHHHccccCCCceEEEEEec-CCceEEEecccCCCCCHHHHHHHHHhCC
Confidence 7899999999995 569999999999999987655567899999995 77888888754 4566777776542
Q ss_pred ----CCCCcchHHHHHHHHHHHHhCC---CC---CCCcEEEEEEcCCCCC---CccCHHHHHHHH----------HhCCc
Q 014385 164 ----GCSGDSSLQNALDLVQGLLSQI---PS---YGHREVLILYSALSTC---DPGDIMETIQKC----------KESKI 220 (425)
Q Consensus 164 ----~~~G~tsL~nAL~~A~~~L~~~---p~---~~sreILiI~ss~~t~---d~~~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 1347899999999999877421 11 1123455555444332 222222333333 55689
Q ss_pred EEEEEEecc--hHHHHHHHHHhhCC--eEEEecChhHHHHHH
Q 014385 221 RCSVIGLSA--EMFICKHLCQDTGG--SYSVALDESHFKELI 258 (425)
Q Consensus 221 rV~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 999999995 57899999999999 467888988888876
No 25
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.71 E-value=3.7e-16 Score=146.24 Aligned_cols=157 Identities=15% Similarity=0.253 Sum_probs=139.7
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 EATMICIDNSEYMRNGDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDRGKILSKLHGI-QPH 82 (259)
T ss_pred ceEEEEEeChHHhhcCCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccchHHHHHhcCC-CcC
Confidence 3679999999999999999999999999999999999999999999999998779999999999999999888764 788
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhC
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTG 242 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sr-eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 9999999999999999998766654 688888988766667888999999999999999999953 366777777777
Q ss_pred Ce
Q 014385 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 74
No 26
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=99.71 E-value=2.9e-16 Score=145.54 Aligned_cols=166 Identities=13% Similarity=0.112 Sum_probs=127.3
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhc------CCCCcEEEEeecCCceEEeeCCC---CCHHHHHHH
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQ------NPLSQIGLVTVKDGVANCLTDLG---GSPESHIKA 158 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~q------np~sqlGvI~~~~g~A~~lsplT---~d~~~~i~~ 158 (425)
+|+++||.|.||.. +++..++..++.|++.+..+ +...++|||.|. +.+.+..|++ .+...+.++
T Consensus 4 dvv~vlD~S~Sm~~-----~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~~l~~~ 77 (186)
T cd01480 4 DITFVLDSSESVGL-----QNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYS-DQQEVEAGFLRDIRNYTSLKEA 77 (186)
T ss_pred eEEEEEeCCCccch-----hhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEec-CCceeeEecccccCCHHHHHHH
Confidence 89999999999975 46777888888888888543 456899999995 8899999998 567788888
Q ss_pred HhhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCC--CccCHHHHHHHHHhCCcEEEEEEecc-hHHHHH
Q 014385 159 LMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICK 235 (425)
Q Consensus 159 L~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~--d~~~i~~ti~~akk~~IrV~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 876533468899999999999999863223344455555544321 23456788999999999999999996 567899
Q ss_pred HHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 35666665554
No 27
>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=1.7e-15 Score=135.26 Aligned_cols=155 Identities=25% Similarity=0.290 Sum_probs=129.3
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCC--CCCHHHHHHHHhhhhC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lspl--T~d~~~~i~~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 48999999999996 679999999999999999998889999999996 677778888 6677778777776533
Q ss_pred -CCCcchHHHHHHHHHHHHhCCC---CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHH
Q 014385 165 -CSGDSSLQNALDLVQGLLSQIP---SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLC 238 (425)
Q Consensus 165 -~~G~tsL~nAL~~A~~~L~~~p---~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 1222567777776655554578899999999999999999998 689999999
Q ss_pred HhhCCeEEE
Q 014385 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 999999986
No 28
>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=99.70 E-value=1.6e-15 Score=140.24 Aligned_cols=166 Identities=15% Similarity=0.090 Sum_probs=121.7
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh--hCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK--LGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~--~~~ 165 (425)
+|+++||.|+||.... +.+ ++.++.+++.|. +|..|+|||.|. +.+..+.|++.+...+.++|..+ +.+
T Consensus 6 Dvv~llD~SgSm~~~~--~~~----~~~~~~l~~~~~--~~~~rvglv~Fs-~~~~~~~~l~~~~~~~~~~l~~l~~~~~ 76 (185)
T cd01474 6 DLYFVLDKSGSVAANW--IEI----YDFVEQLVDRFN--SPGLRFSFITFS-TRATKILPLTDDSSAIIKGLEVLKKVTP 76 (185)
T ss_pred eEEEEEeCcCchhhhH--HHH----HHHHHHHHHHcC--CCCcEEEEEEec-CCceEEEeccccHHHHHHHHHHHhccCC
Confidence 9999999999997532 223 355666665553 477999999995 88999999998876666665332 246
Q ss_pred CCcchHHHHHHHHHHHHhCC--CCCCCcEEEEEEcCCCC--CCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHh
Q 014385 166 SGDSSLQNALDLVQGLLSQI--PSYGHREVLILYSALST--CDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQD 240 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~--p~~~sreILiI~ss~~t--~d~~~i~~ti~~akk~~IrV~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 78999999999999988532 11111145555554433 223455677889999999999999963 46789999999
Q ss_pred hCCeEEEecChhHHHHHHHhcC
Q 014385 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 29
>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=99.69 E-value=4.2e-16 Score=144.65 Aligned_cols=151 Identities=15% Similarity=0.179 Sum_probs=110.3
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC---------CHHHHHH
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG---------SPESHIK 157 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 399999999999963 69999999999998764 56789999999 488888887643 2344555
Q ss_pred HHhhhhCCCCcchHHHHHHHHHHHHhC---C--C---CCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-C----CcEEEE
Q 014385 158 ALMGKLGCSGDSSLQNALDLVQGLLSQ---I--P---SYGHREVLILYSALSTCDPGDIMETIQKCKE-S----KIRCSV 224 (425)
Q Consensus 158 ~L~~~~~~~G~tsL~nAL~~A~~~L~~---~--p---~~~sreILiI~ss~~t~d~~~i~~ti~~akk-~----~IrV~v 224 (425)
.|.. +.+.|+|.+..||..|+..|.. . + +...+.||+|+++.. .++ .+.+..+.+ . +|+|++
T Consensus 85 ~l~~-l~~~G~T~~~~al~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~-~~~---~~~~~~~~~~~~~~~~v~i~t 159 (190)
T cd01463 85 ALDM-LEAKGIANYTKALEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVP-ENY---KEIFDKYNWDKNSEIPVRVFT 159 (190)
T ss_pred HHhh-CCCCCcchHHHHHHHHHHHHHHhhhcccccccCCceeEEEEEeCCCC-CcH---hHHHHHhcccccCCCcEEEEE
Confidence 5543 3567889999999999999985 1 1 122233444454443 232 333444322 2 599999
Q ss_pred EEecch---HHHHHHHHHhhCCeEEEecCh
Q 014385 225 IGLSAE---MFICKHLCQDTGGSYSVALDE 251 (425)
Q Consensus 225 Iglg~e---~~iLk~iA~~TGG~Y~~~~d~ 251 (425)
||+|.+ ...|++||+.+||.|+.+.|.
T Consensus 160 igiG~~~~d~~~L~~lA~~~~G~~~~i~~~ 189 (190)
T cd01463 160 YLIGREVTDRREIQWMACENKGYYSHIQSL 189 (190)
T ss_pred EecCCccccchHHHHHHhhcCCeEEEcccC
Confidence 999965 589999999999999987663
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=99.67 E-value=3e-15 Score=140.56 Aligned_cols=156 Identities=16% Similarity=0.210 Sum_probs=116.2
Q ss_pred ccccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhc--CC----CCcEEEEeecCCceEEeeCCCC--CHHH
Q 014385 83 KGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQ--NP----LSQIGLVTVKDGVANCLTDLGG--SPES 154 (425)
Q Consensus 83 rGiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 9999999999995 668899888888887766431 22 369999999 599999999984 3466
Q ss_pred HHHHHhhhh---CCCCcchHHHHHHHHHHHHhCC---CCCCCcEEEEEEc-CCCCCCccCHHHHHHHHHhCCcEEEEEEe
Q 014385 155 HIKALMGKL---GCSGDSSLQNALDLVQGLLSQI---PSYGHREVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGL 227 (425)
Q Consensus 155 ~i~~L~~~~---~~~G~tsL~nAL~~A~~~L~~~---p~~~sreILiI~s-s~~t~d~~~i~~ti~~akk~~IrV~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 777777532 2457899999999999999742 1122345666654 32221224567789999999999999999
Q ss_pred cch--HHHHHHHHHhhCCeEE
Q 014385 228 SAE--MFICKHLCQDTGGSYS 246 (425)
Q Consensus 228 g~e--~~iLk~iA~~TGG~Y~ 246 (425)
|.+ ...+++|+++..+.|.
T Consensus 170 G~~~d~~~~~~L~~ias~~~~ 190 (193)
T cd01477 170 TQDESSNLLDKLGKIASPGMN 190 (193)
T ss_pred CCCCCHHHHHHHHHhcCCCCC
Confidence 974 4678899998877665
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=2.4e-15 Score=138.47 Aligned_cols=162 Identities=15% Similarity=0.097 Sum_probs=125.6
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~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 7999999999995 678999999999999988876778999999995 88999999983 345566666654345
Q ss_pred CCcchHHHHHHHHHHHHhCC-C--CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch------HHHHHH
Q 014385 166 SGDSSLQNALDLVQGLLSQI-P--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKH 236 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~-p--~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 67799999999999987432 1 12345677776655554544446778999999999999999974 488999
Q ss_pred HHHhhCCeEE-EecChhHHH
Q 014385 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 566666554
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=2.7e-15 Score=132.48 Aligned_cols=152 Identities=17% Similarity=0.163 Sum_probs=124.0
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC--HHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d--~~~~i~~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 38899999999999998887789999999995 678888898876 67777777764333
Q ss_pred C-CcchHHHHHHHHHHHHhCCC--CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhh
Q 014385 166 S-GDSSLQNALDLVQGLLSQIP--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDT 241 (425)
Q Consensus 166 ~-G~tsL~nAL~~A~~~L~~~p--~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 1345567777765544444568899999999999999999997 789999999999
Q ss_pred CCeE
Q 014385 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=146.88 Aligned_cols=145 Identities=13% Similarity=0.119 Sum_probs=113.7
Q ss_pred hhhhhhccccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHH
Q 014385 77 TTARIQKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHI 156 (425)
Q Consensus 77 ~~~~~rrGiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 6777776665 6677999999995 899999999999876 3
Q ss_pred HHHh---hhhCCCCcchHHHHHHHHHHHHhCC--CCCCC--cEEEEEEcCCCC-CCccCHHHHHHHHHhCCcEEEEEEec
Q 014385 157 KALM---GKLGCSGDSSLQNALDLVQGLLSQI--PSYGH--REVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 157 ~~L~---~~~~~~G~tsL~nAL~~A~~~L~~~--p~~~s--reILiI~ss~~t-~d~~~i~~ti~~akk~~IrV~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 256666665542 34455556699999999999999998
Q ss_pred ch
Q 014385 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
>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=99.64 E-value=1.5e-14 Score=137.98 Aligned_cols=169 Identities=16% Similarity=0.115 Sum_probs=131.2
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~L~~~~~~ 165 (425)
+|+|+||.|.||. +++|+.++..++.|++.+.-.....|+|||.|. ..+.+..||+. +..++.++|..+.-.
T Consensus 4 DlvfllD~S~Sm~-----~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~l~~~i~~i~~~ 77 (224)
T cd01475 4 DLVFLIDSSRSVR-----PENFELVKQFLNQIIDSLDVGPDATRVGLVQYS-STVKQEFPLGRFKSKADLKRAVRRMEYL 77 (224)
T ss_pred cEEEEEeCCCCCC-----HHHHHHHHHHHHHHHHhcccCCCccEEEEEEec-CceeEEecccccCCHHHHHHHHHhCcCC
Confidence 8999999999995 568999999999999887655557899999994 88999999984 456677777764334
Q ss_pred CCcchHHHHHHHHHHHHhC-----CCCC-CCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHH
Q 014385 166 SGDSSLQNALDLVQGLLSQ-----IPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLC 238 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~-----~p~~-~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 5678999999999876532 1211 125677777655443 357788999999999999999996 468899999
Q ss_pred HhhCC-eEEEecChhHHHHHHHhcCCC
Q 014385 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 88765 567888888898888777643
No 35
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=99.63 E-value=1.8e-14 Score=124.92 Aligned_cols=152 Identities=20% Similarity=0.263 Sum_probs=122.3
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhC-
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG- 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~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 6789999999999999999887788999999995 67888888876 66777777765433
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCcc-CHHHHHHHHHhCCcEEEEEEecc--hHHHHHHHHHhh
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT 241 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~-~i~~ti~~akk~~IrV~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 668899999999999999875223344455555544433332 67789999999999999999995 679999999998
Q ss_pred -CCeE
Q 014385 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 36
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.62 E-value=1.7e-14 Score=132.61 Aligned_cols=170 Identities=18% Similarity=0.243 Sum_probs=143.9
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 4689999999999999999999999999999999999999999999999998889999999999999999988764 557
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCc-EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec--chHHHHHHHHHhhCC
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--AEMFICKHLCQDTGG 243 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sr-eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 8899999999999999998776654 6888888876656677778899999999999999999 356777777777776
Q ss_pred ---eEEE--ecChhHHHHH
Q 014385 244 ---SYSV--ALDESHFKEL 257 (425)
Q Consensus 244 ---~Y~~--~~d~~~L~~l 257 (425)
..+. +.++.-|.++
T Consensus 163 ~dsshl~~~~P~p~ll~~~ 181 (243)
T COG5148 163 SDSSHLEVKPPNPELLDRV 181 (243)
T ss_pred ccceeeEecCCCHHHHHhh
Confidence 4442 3454444443
No 37
>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=99.61 E-value=3.9e-14 Score=130.48 Aligned_cols=168 Identities=17% Similarity=0.150 Sum_probs=119.3
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC----HHH---HHHHHh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PES---HIKALM 160 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d----~~~---~i~~L~ 160 (425)
+|+++||.|.||... +|+..++..+..|++.+.-.++..++|||+|. +.+..+.|++.. ... .++.|.
T Consensus 2 Dv~~vlD~SgSm~~~----~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs-~~~~~~~~l~~~~~~~~~~~~~~i~~l~ 76 (186)
T cd01471 2 DLYLLVDGSGSIGYS----NWVTHVVPFLHTFVQNLNISPDEINLYLVTFS-TNAKELIRLSSPNSTNKDLALNAIRALL 76 (186)
T ss_pred cEEEEEeCCCCccch----hhHHHHHHHHHHHHHhcccCCCceEEEEEEec-CCceEEEECCCccccchHHHHHHHHHHH
Confidence 799999999999754 47999999999999887555566799999995 889988888753 344 334443
Q ss_pred hhhCCCCcchHHHHHHHHHHHHhCC--CCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHHHH
Q 014385 161 GKLGCSGDSSLQNALDLVQGLLSQI--PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKH 236 (425)
Q Consensus 161 ~~~~~~G~tsL~nAL~~A~~~L~~~--p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 3334678999999999999999762 11122334555444444344555577899999999999999986 5688999
Q ss_pred HHHhh-CC---eEEEecChhHHHHHHHh
Q 014385 237 LCQDT-GG---SYSVALDESHFKELIME 260 (425)
Q Consensus 237 iA~~T-GG---~Y~~~~d~~~L~~lL~~ 260 (425)
||..- +. .++...+-++++..+..
T Consensus 157 ia~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (186)
T cd01471 157 LVGCDPDDSPCPLYLQSSWSEVQNVIKP 184 (186)
T ss_pred hcCCCCCCCCCCeeecCCHHHHHHHhhc
Confidence 98764 11 23344555566655543
No 38
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=99.60 E-value=4.7e-14 Score=152.07 Aligned_cols=166 Identities=20% Similarity=0.227 Sum_probs=127.4
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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--VRRDQVALVAFRGRGAELLLPPTRSLVRAKRSLAGL-PGG 473 (584)
T ss_pred ccEEEEEECCCCCcH-----hHHHHHHHHHHHHHHhhc--CCCCEEEEEEECCCceeEEcCCCcCHHHHHHHHhcC-CCC
Confidence 499999999999952 599999999999997633 356899999997667999999999988887777653 567
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEE-EEcCCCCCCc----------cCHHHHHHHHHhCCcEEEEEEecchH-HHH
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLI-LYSALSTCDP----------GDIMETIQKCKESKIRCSVIGLSAEM-FIC 234 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILi-I~ss~~t~d~----------~~i~~ti~~akk~~IrV~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 89999999999999987653333334444 4554433211 12345688889999999999998653 579
Q ss_pred HHHHHhhCCeEEEe--cChhHHHHHHHh
Q 014385 235 KHLCQDTGGSYSVA--LDESHFKELIME 260 (425)
Q Consensus 235 k~iA~~TGG~Y~~~--~d~~~L~~lL~~ 260 (425)
++||+.|||.|+.. .+.+.+.++...
T Consensus 554 ~~LA~~~gg~y~~l~~~~a~~~~~~v~~ 581 (584)
T PRK13406 554 RALAEAMGARYLPLPRADAGRLSQAVRA 581 (584)
T ss_pred HHHHHhcCCeEEECCCCCHHHHHHHHHh
Confidence 99999999999964 455566655443
No 39
>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=99.59 E-value=5.8e-14 Score=127.18 Aligned_cols=151 Identities=17% Similarity=0.129 Sum_probs=116.6
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT--~d~~~~i~~L~~~~~~ 165 (425)
+++++||.|.||.. .++..++..++.+++.+--.++..++|||.|. +.+....|++ .+.+.+.+.|.++..+
T Consensus 2 Dv~~vlD~S~Sm~~-----~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs-~~~~~~~~l~~~~~~~~l~~~l~~~~~~ 75 (164)
T cd01482 2 DIVFLVDGSWSIGR-----SNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYS-DDPRTEFDLNAYTSKEDVLAAIKNLPYK 75 (164)
T ss_pred CEEEEEeCCCCcCh-----hhHHHHHHHHHHHHhheeeCCCceEEEEEEEC-CCeeEEEecCCCCCHHHHHHHHHhCcCC
Confidence 78999999999953 47888999999999887555678999999995 8899999997 4566777777765446
Q ss_pred CCcchHHHHHHHHHHHHhCC-C--CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhh
Q 014385 166 SGDSSLQNALDLVQGLLSQI-P--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDT 241 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~-p--~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 78899999999988765331 1 12234566666655442 356788999999999999999985 467899999887
Q ss_pred CCeEE
Q 014385 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 76444
No 40
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=99.56 E-value=1.3e-13 Score=146.26 Aligned_cols=175 Identities=15% Similarity=0.158 Sum_probs=130.2
Q ss_pred hhhccccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH----HHH
Q 014385 80 RIQKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP----ESH 155 (425)
Q Consensus 80 ~~rrGiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~----~~~ 155 (425)
..++.+ +|+|+||.|.||. .++++..++..+..||..+.-+.-..+||||+| ++.+..+.+++... +.+
T Consensus 38 vC~~~l--DIvFLLD~SgSMg----~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~F-Sd~~r~vfpL~s~~s~Dk~~a 110 (576)
T PTZ00441 38 VCNEEV--DLYLLVDGSGSIG----YHNWITHVIPMLMGLIQQLNLSDDAINLYMSLF-SNNTTELIRLGSGASKDKEQA 110 (576)
T ss_pred cccCCc--eEEEEEeCCCccC----CccHHHHHHHHHHHHHHHhccCCCceEEEEEEe-CCCceEEEecCCCccccHHHH
Confidence 345666 9999999999996 457888999999999998865544566777888 48888888886542 355
Q ss_pred HHHHhhhh---CCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--
Q 014385 156 IKALMGKL---GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-- 229 (425)
Q Consensus 156 i~~L~~~~---~~~G~tsL~nAL~~A~~~L~~~p-~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~-- 229 (425)
+.+|.++. .+.|+|.++.||..|...|.+.. .....++|||++++...+..+..++++.|++.||.|++||||.
T Consensus 111 L~~I~sL~~~~~pgGgTnig~AL~~Aae~L~sr~~R~nvpKVVILLTDG~sns~~dvleaAq~LR~~GVeI~vIGVG~g~ 190 (576)
T PTZ00441 111 LIIVKSLRKTYLPYGKTNMTDALLEVRKHLNDRVNRENAIQLVILMTDGIPNSKYRALEESRKLKDRNVKLAVIGIGQGI 190 (576)
T ss_pred HHHHHHHHhhccCCCCccHHHHHHHHHHHHhhcccccCCceEEEEEecCCCCCcccHHHHHHHHHHCCCEEEEEEeCCCc
Confidence 56665442 46789999999999999987531 1222356666665544344566778899999999999999996
Q ss_pred hHHHHHHHH----HhhCCeEEEecChhHHHHHHHhc
Q 014385 230 EMFICKHLC----QDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 230 e~~iLk~iA----~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
...+|+.|| ..++|.|+...+-+.|+.+...+
T Consensus 191 n~e~LrlIAgC~p~~g~c~~Y~vadf~eL~~ivk~L 226 (576)
T PTZ00441 191 NHQFNRLLAGCRPREGKCKFYSDADWEEAKNLIKPF 226 (576)
T ss_pred CHHHHHHHhccCCCCCCCceEEeCCHHHHHHHHHHH
Confidence 567889898 45677899888887776665443
No 41
>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=123.43 Aligned_cols=167 Identities=19% Similarity=0.216 Sum_probs=131.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC--HHHHHHHH-hhhhC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKAL-MGKLG 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d--~~~~i~~L-~~~~~ 164 (425)
+|+++||.|.||.. +++..+++.+..|++.+...++..++|||.|. ..+..+.+++.. ..++...+ .....
T Consensus 1 DivflvD~S~sm~~-----~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 74 (178)
T PF00092_consen 1 DIVFLVDTSGSMSG-----DNFEKAKQFVKSIISRLSISNNGTRVGIVTFS-DSARVLFSLTDYQSKNDLLNAINDSIPS 74 (178)
T ss_dssp EEEEEEE-STTSCH-----HHHHHHHHHHHHHHHHSTBSTTSEEEEEEEES-SSEEEEEETTSHSSHHHHHHHHHTTGGC
T ss_pred CEEEEEeCCCCCch-----HHHHHHHHHHHHHHHhhhccccccccceeeee-cccccccccccccccccccccccccccc
Confidence 68999999999976 56889999999999988778899999999994 888888888763 56777777 44445
Q ss_pred CCCcchHHHHHHHHHHHHhCC---CCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-CCcEEEEEEe-cchHHHHHHHHH
Q 014385 165 CSGDSSLQNALDLVQGLLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGL-SAEMFICKHLCQ 239 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~---p~~~sreILiI~ss~~t~d~~~i~~ti~~akk-~~IrV~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 678999999999999999764 22356678888776665555555555555555 5999999999 789999999997
Q ss_pred hh--CCeEEEecChhHHHHHHHh
Q 014385 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 75 3677788898888887654
No 42
>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=99.54 E-value=1.8e-13 Score=128.16 Aligned_cols=167 Identities=11% Similarity=0.150 Sum_probs=117.7
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC----HHHHHHHHhhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d----~~~~i~~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 DLTLILDESASIGYSNWRKDVIPF----TEKIINNLNISKDKVHVGILLFA-EKNRDVVPFSDEERYDKNELLKKINDLK 76 (192)
T ss_pred cEEEEEeCCCcccHHHHHHHHHHH----HHHHHHhCccCCCccEEEEEEec-CCceeEEecCcccccCHHHHHHHHHHHH
Confidence 799999999999988886665555 44445555545667899999995 899999999854 355666666542
Q ss_pred ---CCCCcchHHHHHHHHHHHHhCCCC--CCCcEEEEEEcCCCCCCc--cCHHHHHHHHHhCCcEEEEEEecch-HHHHH
Q 014385 164 ---GCSGDSSLQNALDLVQGLLSQIPS--YGHREVLILYSALSTCDP--GDIMETIQKCKESKIRCSVIGLSAE-MFICK 235 (425)
Q Consensus 164 ---~~~G~tsL~nAL~~A~~~L~~~p~--~~sreILiI~ss~~t~d~--~~i~~ti~~akk~~IrV~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 356899999999999999865321 122457777765555443 3567889999999999999999963 46688
Q ss_pred HHHHh--hCCe--EEEecChhHHHHHHH
Q 014385 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 88864 2322 333334555555543
No 43
>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=3.3e-13 Score=128.15 Aligned_cols=144 Identities=18% Similarity=0.193 Sum_probs=105.1
Q ss_pred eEEEEEeCCHhhhhC-CC-CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCc---------eEEeeCCCCCHHHHH
Q 014385 88 YLYIVIDLSRAAAEM-DF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV---------ANCLTDLGGSPESHI 156 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~-D~-~P~RL~~a~~~l~~Fv~~~~~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 4999999999999999876667999999999996332 235677744444444
Q ss_pred HHHhhhhC-----------CCCcchHHHHHHHHHHHHhCC-CCCCCcEEEEEEcCCCCCC-----ccCHHHHHHHHHhCC
Q 014385 157 KALMGKLG-----------CSGDSSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTCD-----PGDIMETIQKCKESK 219 (425)
Q Consensus 157 ~~L~~~~~-----------~~G~tsL~nAL~~A~~~L~~~-p~~~sreILiI~ss~~t~d-----~~~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 55554332 245789999999999999873 2345666777776544321 123345688888999
Q ss_pred cEEEEEEecchH
Q 014385 220 IRCSVIGLSAEM 231 (425)
Q Consensus 220 IrV~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 44
>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=6.1e-13 Score=144.17 Aligned_cols=161 Identities=16% Similarity=0.195 Sum_probs=115.9
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHH---HHHHHHhh
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPE---SHIKALMG 161 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 699999999999974 4688899988887775 467899999999 578888877643 222 23333443
Q ss_pred hhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--HHHHHHHHH
Q 014385 162 KLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQ 239 (425)
Q Consensus 162 ~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 -LQADGGTEMAGALSAALRDDGPESSGALRQVVFLTDGAV-GNEDALFQLIRT-KLGDSRLFTVGIGSAPNSYFMRKAAQ 419 (596)
T ss_pred -CCCCCCccHHHHHHHHHHhhcccCCCceeEEEEEeCCCC-CCHHHHHHHHHH-hcCCceEEEEEeCCCcCHHHHHHHHH
Confidence 356799999999999998754332233456777776543 233334444432 235699999999974 699999999
Q ss_pred hhCCeEEEecChhHHHHHHH
Q 014385 240 DTGGSYSVALDESHFKELIM 259 (425)
Q Consensus 240 ~TGG~Y~~~~d~~~L~~lL~ 259 (425)
.+||.|..+.+.+++.+.+.
T Consensus 420 ~g~G~~~~i~~~~~~~~~~~ 439 (596)
T TIGR03788 420 FGRGSFTFIGSTDEVQRKMS 439 (596)
T ss_pred cCCCEEEECCCHHHHHHHHH
Confidence 99999999888877654433
No 45
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=99.50 E-value=5.9e-13 Score=118.95 Aligned_cols=145 Identities=19% Similarity=0.306 Sum_probs=102.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CH---HHHHHHHhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SP---ESHIKALMGK 162 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 DVVILVDTSGSMSGEK------ELVKDALRAILRS---LPPGDRFNIIAFG-SSVRPLFPGLVPATEENRQEALQWIKS- 70 (155)
T ss_pred eEEEEEeCCCCCCCcH------HHHHHHHHHHHHh---CCCCCEEEEEEeC-CEeeEcchhHHHHhHHHHHHHHHHHHH-
Confidence 7899999999996332 7788888888877 4688999999995 67666665421 11 223344444
Q ss_pred hCC-CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--HHHHHHHHH
Q 014385 163 LGC-SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQ 239 (425)
Q Consensus 163 ~~~-~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e--~~iLk~iA~ 239 (425)
+.+ .|+|++..||+.|+..+.. ....+.|++|+++..+..+..+.+.++... .+|+|+++|+|.. ..+|++||+
T Consensus 71 ~~~~~G~t~l~~aL~~a~~~~~~--~~~~~~IilltDG~~~~~~~~i~~~v~~~~-~~~~i~~~~~g~~~~~~~L~~LA~ 147 (155)
T PF13768_consen 71 LEANSGGTDLLAALRAALALLQR--PGCVRAIILLTDGQPVSGEEEILDLVRRAR-GHIRIFTFGIGSDADADFLRELAR 147 (155)
T ss_pred hcccCCCccHHHHHHHHHHhccc--CCCccEEEEEEeccCCCCHHHHHHHHHhcC-CCceEEEEEECChhHHHHHHHHHH
Confidence 345 8999999999999988722 234555666665543322223334444322 5799999999974 589999999
Q ss_pred hhCCeEE
Q 014385 240 DTGGSYS 246 (425)
Q Consensus 240 ~TGG~Y~ 246 (425)
.|||.|.
T Consensus 148 ~~~G~~~ 154 (155)
T PF13768_consen 148 ATGGSFH 154 (155)
T ss_pred cCCCEEE
Confidence 9999995
No 46
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=99.50 E-value=1.7e-12 Score=116.69 Aligned_cols=146 Identities=14% Similarity=0.135 Sum_probs=106.6
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCC--ceEEeeCCCC--CHHHHHHHHhhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG--VANCLTDLGG--SPESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g--~A~~lsplT~--d~~~~i~~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 78999999999963 5777888899999888766668999999995 5 6887888864 5667777777643
Q ss_pred CCCCcchHHHHHHHHHHHHhCCC--CCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-CCcEEEEEEecch----HHHHHH
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIP--SYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAE----MFICKH 236 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p--~~~sreILiI~ss~~t~d~~~i~~ti~~akk-~~IrV~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 34577999999999999996321 11233566666655432 235566788888 9999999999976 355555
Q ss_pred HHHhhC
Q 014385 237 LCQDTG 242 (425)
Q Consensus 237 iA~~TG 242 (425)
||....
T Consensus 153 ia~~~~ 158 (163)
T cd01476 153 ITGNED 158 (163)
T ss_pred HhCCCc
Confidence 544433
No 47
>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=99.47 E-value=5e-13 Score=122.42 Aligned_cols=142 Identities=19% Similarity=0.243 Sum_probs=100.3
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcC---CCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQN---PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qn---p~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~ 164 (425)
+++++||.|.||... ++..+++.+..|++.+.... +..++|||+| ++.++.+.|++...... + ..+.
T Consensus 5 ~v~~llD~SgSM~~~-----~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F-~~~a~~~~~l~~~~~~~---~-~~l~ 74 (176)
T cd01464 5 PIYLLLDTSGSMAGE-----PIEALNQGLQMLQSELRQDPYALESVEISVITF-DSAARVIVPLTPLESFQ---P-PRLT 74 (176)
T ss_pred CEEEEEECCCCCCCh-----HHHHHHHHHHHHHHHHhcChhhccccEEEEEEe-cCCceEecCCccHHhcC---C-Cccc
Confidence 689999999999543 67888888888888765422 5678999999 47899999998642211 1 1235
Q ss_pred CCCcchHHHHHHHHHHHHhCCC--------CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc--hHHHH
Q 014385 165 CSGDSSLQNALDLVQGLLSQIP--------SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFIC 234 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p--------~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 6789999999999999996531 1112335555555443222223356777777889999999995 46788
Q ss_pred HHHHH
Q 014385 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 48
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=99.46 E-value=1.6e-12 Score=141.86 Aligned_cols=154 Identities=21% Similarity=0.244 Sum_probs=117.5
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 36999999999998875443 4589999999755799999999887777666655 35678
Q ss_pred cchHHHHHHHHHHHHhCC--CCCCCcEEEEEEcCCCCCCc-------cCHHHHHHHHHhCCcEEEEEEecch---HHHHH
Q 014385 168 DSSLQNALDLVQGLLSQI--PSYGHREVLILYSALSTCDP-------GDIMETIQKCKESKIRCSVIGLSAE---MFICK 235 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~--p~~~sreILiI~ss~~t~d~-------~~i~~ti~~akk~~IrV~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 12234445555554433221 1234557788889999999988653 57999
Q ss_pred HHHHhhCCeEEEe
Q 014385 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 9999999999853
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=99.45 E-value=2.8e-12 Score=138.93 Aligned_cols=156 Identities=21% Similarity=0.230 Sum_probs=118.6
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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--HRDQVSLIAFRGTAAEVLLPPSRSVEQAKRRLDVL-PGGG 480 (589)
T ss_pred eEEEEEECCCCCC-----hHHHHHHHHHHHHHHHhhcc--CCCEEEEEEECCCCceEECCCCCCHHHHHHHHhcC-CCCC
Confidence 6899999999994 36999999999999876543 45899999997666788899998887776666653 5678
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCc-EEEEEEcCCCCC--Cc-------------cCHHHHHHHHHhCCcEEEEEEecch-
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTC--DP-------------GDIMETIQKCKESKIRCSVIGLSAE- 230 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sr-eILiI~ss~~t~--d~-------------~~i~~ti~~akk~~IrV~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 899999999999999864222333 344444443331 11 1234557888999999999999854
Q ss_pred --HHHHHHHHHhhCCeEEEecCh
Q 014385 231 --MFICKHLCQDTGGSYSVALDE 251 (425)
Q Consensus 231 --~~iLk~iA~~TGG~Y~~~~d~ 251 (425)
..++++||+..||.|+...+.
T Consensus 561 ~~~~~~~~lA~~~~g~y~~l~~~ 583 (589)
T TIGR02031 561 VSTGFAQKLARKMGAHYIYLPNA 583 (589)
T ss_pred ccchHHHHHHHhcCCcEEeCCCC
Confidence 467999999999999976543
No 50
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=99.42 E-value=5.9e-12 Score=121.72 Aligned_cols=161 Identities=20% Similarity=0.255 Sum_probs=124.9
Q ss_pred hccccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhh
Q 014385 82 QKGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMG 161 (425)
Q Consensus 82 rrGiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~ 161 (425)
|-|. -+|+|+|.|.||... .|+.++|-.+..|+++=..+ -+||+||+|+..+|+++.|+|.+.+.+.+.|..
T Consensus 76 r~g~--lvvfvVDASgSM~~~----~Rm~aaKG~~~~lL~dAYq~--RdkvavI~F~G~~A~lll~pT~sv~~~~~~L~~ 147 (261)
T COG1240 76 RAGN--LIVFVVDASGSMAAR----RRMAAAKGAALSLLRDAYQR--RDKVAVIAFRGEKAELLLPPTSSVELAERALER 147 (261)
T ss_pred CcCC--cEEEEEeCcccchhH----HHHHHHHHHHHHHHHHHHHc--cceEEEEEecCCcceEEeCCcccHHHHHHHHHh
Confidence 3455 789999999999854 49999999999999876543 489999999989999999999999888888877
Q ss_pred hhCCCCcchHHHHHHHHHHHHhCCCCC--CCcEEEEEEcCCCCCCc--cC-H---HHHHHHHHhCCcEEEEEEecch---
Q 014385 162 KLGCSGDSSLQNALDLVQGLLSQIPSY--GHREVLILYSALSTCDP--GD-I---METIQKCKESKIRCSVIGLSAE--- 230 (425)
Q Consensus 162 ~~~~~G~tsL~nAL~~A~~~L~~~p~~--~sreILiI~ss~~t~d~--~~-i---~~ti~~akk~~IrV~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 6778899999999999999875321 23335555554433333 33 2 2456677788999999988764
Q ss_pred HHHHHHHHHhhCCeEEEecCh
Q 014385 231 MFICKHLCQDTGGSYSVALDE 251 (425)
Q Consensus 231 ~~iLk~iA~~TGG~Y~~~~d~ 251 (425)
..+.++||...||.|+...+.
T Consensus 227 ~g~~~~iA~~~Gg~~~~L~~l 247 (261)
T COG1240 227 LGLAEEIARASGGEYYHLDDL 247 (261)
T ss_pred ccHHHHHHHHhCCeEEecccc
Confidence 378999999999999976443
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=99.42 E-value=9.9e-12 Score=113.52 Aligned_cols=135 Identities=16% Similarity=0.141 Sum_probs=94.5
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCC---c--eEEeeCCCCCH---HHHHHHH
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---V--ANCLTDLGGSP---ESHIKAL 159 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 478999999999744 8999999999999877654 6789999999643 1 23344222221 2334444
Q ss_pred hhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCc----c---CHHHH---HHHHHhCCcEEEEEEecc
Q 014385 160 MGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP----G---DIMET---IQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 160 ~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~----~---~i~~t---i~~akk~~IrV~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 43 356778999999999999998753 23456666554433221 2 23344 788899999999999997
Q ss_pred hH
Q 014385 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=2.5e-11 Score=110.97 Aligned_cols=147 Identities=16% Similarity=0.128 Sum_probs=113.4
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~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 567889999999999887655667899999995 88888888864 45777788876532
Q ss_pred CCC-cchHHHHHHHHHHHHhCCCC-----CCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec-chHHHHHHH
Q 014385 165 CSG-DSSLQNALDLVQGLLSQIPS-----YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHL 237 (425)
Q Consensus 165 ~~G-~tsL~nAL~~A~~~L~~~p~-----~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 47899999999887654321 1223577776655543 46788999999999999999999 777888888
Q ss_pred HHhh
Q 014385 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 8655
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=107.00 Aligned_cols=133 Identities=13% Similarity=0.166 Sum_probs=92.4
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 4888899999888887664 3578999999654222223334455556666653 25678
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCC-CCCCccCHHHHHHHHHhCCcEEEEEEecch
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGLSAE 230 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~-~t~d~~~i~~ti~~akk~~IrV~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 223345555444 433344444446666777899999999964
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=99.34 E-value=2.9e-11 Score=113.22 Aligned_cols=149 Identities=16% Similarity=0.142 Sum_probs=103.5
Q ss_pred ceEEEEEeCCHhhhhCC--CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhC
Q 014385 87 RYLYIVIDLSRAAAEMD--FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D--~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~ 164 (425)
|+++++||.|.||...+ ..|+|+..++..+..++.-.. +...++++++.|. +.+....|++ ...+.+.+.+ +.
T Consensus 3 ~dvv~~ID~SgSM~~~~~~~~~~k~~~ak~~~~~l~~~~~-~~D~d~i~l~~f~-~~~~~~~~~~--~~~v~~~~~~-~~ 77 (199)
T cd01457 3 RDYTLLIDKSGSMAEADEAKERSRWEEAQESTRALARKCE-EYDSDGITVYLFS-GDFRRYDNVN--SSKVDQLFAE-NS 77 (199)
T ss_pred cCEEEEEECCCcCCCCCCCCCchHHHHHHHHHHHHHHHHH-hcCCCCeEEEEec-CCccccCCcC--HHHHHHHHhc-CC
Confidence 68999999999999877 678999999999999886543 3335679999984 7777777776 4445455543 35
Q ss_pred CCCcchHHHHHHHHHHHHhC-CCC---CCCcEEEEEEcCCCCCCccCHHHHH-HHHHh----CCcEEEEEEecch---HH
Q 014385 165 CSGDSSLQNALDLVQGLLSQ-IPS---YGHREVLILYSALSTCDPGDIMETI-QKCKE----SKIRCSVIGLSAE---MF 232 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~-~p~---~~sreILiI~ss~~t~d~~~i~~ti-~~akk----~~IrV~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 77999999999999855432 211 1113555555554444544444443 22222 4799999999975 46
Q ss_pred HHHHHHHh
Q 014385 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
>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=9.9e-07 Score=83.83 Aligned_cols=139 Identities=18% Similarity=0.239 Sum_probs=94.6
Q ss_pred EEEEEeCCHhhhhCCCC-CChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCc------------eEEeeCCCCCHHHH
Q 014385 89 LYIVIDLSRAAAEMDFR-PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV------------ANCLTDLGGSPESH 155 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~-P~RL~~a~~~l~~Fv~~~~~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 79999999999855432 228999999999999999999999999999996222 34566776655556
Q ss_pred HHHHhhhhC----------CCCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEcCCCCC-CccCHHHHHHH-----HH
Q 014385 156 IKALMGKLG----------CSGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTC-DPGDIMETIQK-----CK 216 (425)
Q Consensus 156 i~~L~~~~~----------~~G~tsL~nAL~~A~~~L~~---~p~~~sreILiI~ss~~t~-d~~~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 3344567788877644333 55666666666 88
Q ss_pred hCCcEEEEEEe
Q 014385 217 ESKIRCSVIGL 227 (425)
Q Consensus 217 k~~IrV~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 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=98.57 E-value=1.7e-06 Score=81.82 Aligned_cols=150 Identities=16% Similarity=0.214 Sum_probs=111.2
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC-HHHHHHHHhhhh---
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS-PESHIKALMGKL--- 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d-~~~~i~~L~~~~--- 163 (425)
.|+||||.|.||.. -++.-+.+.+.+.+.-+.-.| + +...|=|+.|. .....+-++|.+ ....++.+....
T Consensus 3 rV~LVLD~SGSM~~-~yk~G~vQ~~~Er~lalA~~~-D--dDG~i~v~~Fs-~~~~~~~~vt~~~~~~~v~~~~~~~~~~ 77 (200)
T PF10138_consen 3 RVYLVLDISGSMRP-LYKDGTVQRVVERILALAAQF-D--DDGEIDVWFFS-TEFDRLPDVTLDNYEGYVDELHAGLPDW 77 (200)
T ss_pred EEEEEEeCCCCCch-hhhCccHHHHHHHHHHHHhhc-C--CCCceEEEEeC-CCCCcCCCcCHHHHHHHHHHHhcccccc
Confidence 48999999999973 345567777777777776554 3 34679999994 888888898854 556666654322
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHHhhC
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTG 242 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 4558899999999999998854322334445554544445677788999999999999999999965 589999999633
No 57
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=98.55 E-value=1.3e-06 Score=81.12 Aligned_cols=160 Identities=16% Similarity=0.228 Sum_probs=100.2
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCC----CcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPL----SQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~----sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~ 163 (425)
-+|++||+|.||. -.++++...-++.+++++ .|+|. ..|+||+| +|.|.++.|+|.- .+.-...+
T Consensus 5 P~~lllDtSgSM~-----Ge~IealN~Glq~m~~~L-kqdp~Ale~v~lsIVTF-~~~a~~~~pf~~~----~nF~~p~L 73 (207)
T COG4245 5 PCYLLLDTSGSMI-----GEPIEALNAGLQMMIDTL-KQDPYALERVELSIVTF-GGPARVIQPFTDA----ANFNPPIL 73 (207)
T ss_pred CEEEEEecCcccc-----cccHHHHHHHHHHHHHHH-HhChhhhheeEEEEEEe-cCcceEEechhhH----hhcCCCce
Confidence 5899999999996 457888888888888775 46775 46899999 5899999999732 11111123
Q ss_pred CCCCcchHHHHHHHHHHHHhCC----CCCC---CcEEEEEEcCCCCCCccCHHHHH-HHHHh--CCcEEEEEEec---ch
Q 014385 164 GCSGDSSLQNALDLVQGLLSQI----PSYG---HREVLILYSALSTCDPGDIMETI-QKCKE--SKIRCSVIGLS---AE 230 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~----p~~~---sreILiI~ss~~t~d~~~i~~ti-~~akk--~~IrV~vIglg---~e 230 (425)
...|+|+++.||+.|+..+... ...+ -|-.++|+++++-.| +..+.+ ...++ ...+|-.+++| ++
T Consensus 74 ~a~GgT~lGaAl~~a~d~Ie~~~~~~~a~~kgdyrP~vfLiTDG~PtD--~w~~~~~~~~~~~~~~k~v~a~~~G~~~ad 151 (207)
T COG4245 74 TAQGGTPLGAALTLALDMIEERKRKYDANGKGDYRPWVFLITDGEPTD--DWQAGAALVFQGERRAKSVAAFSVGVQGAD 151 (207)
T ss_pred ecCCCCchHHHHHHHHHHHHHHHhhcccCCccccceEEEEecCCCcch--HHHhHHHHhhhcccccceEEEEEecccccc
Confidence 4579999999999999999753 1111 133566655443222 122221 11111 12345555555 45
Q ss_pred HHHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 231 MFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 231 ~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
...|+||++.-+- +...+...|.+++.=+.
T Consensus 152 ~~~L~qit~~V~~--~~t~d~~~f~~fFkW~S 181 (207)
T COG4245 152 NKTLNQITEKVRQ--FLTLDGLQFREFFKWLS 181 (207)
T ss_pred cHHHHHHHHhhcc--ccccchHHHHHHHHHHH
Confidence 6788888765432 23456667777764433
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=98.41 E-value=2.1e-05 Score=76.52 Aligned_cols=152 Identities=19% Similarity=0.242 Sum_probs=101.5
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC-----------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----------------- 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~----------------- 150 (425)
..+++||+|..-.+.. =++.+++.++..++.+.+..|..+||||+|. ...+ ++.+..
T Consensus 5 ~~~FvIDvs~~a~~~g----~~~~~~~si~~~L~~lp~~~~~~~VgiITfd-~~v~-~y~l~~~~~~~q~~vv~dl~d~f 78 (244)
T cd01479 5 VYVFLIDVSYNAIKSG----LLATACEALLSNLDNLPGDDPRTRVGFITFD-STLH-FFNLKSSLEQPQMMVVSDLDDPF 78 (244)
T ss_pred EEEEEEEccHHHHhhC----hHHHHHHHHHHHHHhcCCCCCCeEEEEEEEC-CeEE-EEECCCCCCCCeEEEeeCccccc
Confidence 5799999987654322 3678888888888876655477999999994 3332 222211
Q ss_pred -------------CHHHHHHHHhhh---h--CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccC-----
Q 014385 151 -------------SPESHIKALMGK---L--GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD----- 207 (425)
Q Consensus 151 -------------d~~~~i~~L~~~---~--~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~----- 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 011122222222 1 1234679999999999999954 245888877643322222
Q ss_pred -------------------HH-HHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEEEec
Q 014385 208 -------------------IM-ETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYSVAL 249 (425)
Q Consensus 208 -------------------i~-~ti~~akk~~IrV~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 56888999999999998875 46899999999999766443
No 59
>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=98.35 E-value=3.9e-05 Score=74.16 Aligned_cols=154 Identities=19% Similarity=0.289 Sum_probs=104.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC----------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS---------------- 151 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d---------------- 151 (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-STVH-FYNLSSDLAQPKMYVVSDLKDVF 77 (239)
T ss_pred EEEEEEEcchHh----ccccHHHHHHHHHHHHHHhCCC-CCCcEEEEEEeC-CeEE-EEECCCCCCCCeEEEeCCCccCc
Confidence 679999999754 3345688899999988887543 578899999993 4332 2222210
Q ss_pred ----------H----HHHHHHHhhh---hC----CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccC---
Q 014385 152 ----------P----ESHIKALMGK---LG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD--- 207 (425)
Q Consensus 152 ----------~----~~~i~~L~~~---~~----~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~--- 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 1122222222 11 123578999999999999975 13456888887654433332
Q ss_pred ---------------------HH-HHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEEEecC
Q 014385 208 ---------------------IM-ETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 208 ---------------------i~-~ti~~akk~~IrV~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 22 46788899999999998886 468899999999998775443
No 60
>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=98.33 E-value=7.6e-06 Score=78.46 Aligned_cols=125 Identities=18% Similarity=0.228 Sum_probs=84.3
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhh-h
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGK-L 163 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~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 389999999999973 2 2234457777766655 89999996 34444444433 555555555432 2
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCC-CCCCccCHHHHHHHHHhCCcEEEEEE
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIG 226 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~-~t~d~~~i~~ti~~akk~~IrV~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 34466666655 66666666678888888887765543
No 61
>PRK10997 yieM hypothetical protein; Provisional
Probab=98.28 E-value=1.9e-05 Score=83.86 Aligned_cols=139 Identities=14% Similarity=0.168 Sum_probs=90.3
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC--CHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~--d~~~~i~~L~~~~~~ 165 (425)
.++|+||.|+||. .. | ...|+..+..+..- .....+++++|.|.++.... ++++ ....++..|... .
T Consensus 325 piII~VDtSGSM~--G~-k--e~~AkalAaAL~~i--Al~q~dr~~li~Fs~~i~~~--~l~~~~gl~~ll~fL~~~--f 393 (487)
T PRK10997 325 PFIVCVDTSGSMG--GF-N--EQCAKAFCLALMRI--ALAENRRCYIMLFSTEVVTY--ELTGPDGLEQAIRFLSQS--F 393 (487)
T ss_pred cEEEEEECCCCCC--CC-H--HHHHHHHHHHHHHH--HHhcCCCEEEEEecCCceee--ccCCccCHHHHHHHHHHh--c
Confidence 7999999999996 12 2 34445444433332 23445789999996443322 4443 345566666532 4
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCC-CCccCHHHHHHHHHh-CCcEEEEEEecc-hHHHHHHHHH
Q 014385 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPGDIMETIQKCKE-SKIRCSVIGLSA-EMFICKHLCQ 239 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t-~d~~~i~~ti~~akk-~~IrV~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 23 3345666665533 224567788999988 899999999985 2223345543
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=98.26 E-value=3e-05 Score=74.94 Aligned_cols=154 Identities=18% Similarity=0.272 Sum_probs=98.4
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCC-----------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----------------- 150 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~----------------- 150 (425)
..+++||+|..--+ ...++.+++.++..++.+. .++..+||||+|. ...+ ++.+..
T Consensus 5 ~y~FvID~s~~av~----~g~~~~~~~sl~~~l~~l~-~~~~~~vgiitfd-~~V~-~y~l~~~~~~~~~~v~~dl~~~~ 77 (243)
T PF04811_consen 5 VYVFVIDVSYEAVQ----SGLLQSLIESLKSALDSLP-GDERTRVGIITFD-SSVH-FYNLSSSLSQPQMIVVSDLDDPF 77 (243)
T ss_dssp EEEEEEE-SHHHHH----HTHHHHHHHHHHHHGCTSS-TSTT-EEEEEEES-SSEE-EEETTTTSSSTEEEEEHHTTSHH
T ss_pred EEEEEEECchhhhh----ccHHHHHHHHHHHHHHhcc-CCCCcEEEEEEeC-CEEE-EEECCCCcCCCcccchHHHhhcc
Confidence 57999999976332 2478889999999987665 5688999999993 4333 232321
Q ss_pred -------------CHHHH---HHHHhhhhC----CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCcc----
Q 014385 151 -------------SPESH---IKALMGKLG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG---- 206 (425)
Q Consensus 151 -------------d~~~~---i~~L~~~~~----~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~---- 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 11222 233333211 224578999999999999943 1345699888765433331
Q ss_pred -----------------------CHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEecC
Q 014385 207 -----------------------DIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 207 -----------------------~i~~ti~~akk~~IrV~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 134678899999999999999864 78999999999997775433
No 63
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=98.15 E-value=5.8e-05 Score=82.25 Aligned_cols=142 Identities=14% Similarity=0.151 Sum_probs=104.1
Q ss_pred eEEEEEeCCHhhhhCCC---CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCC---------ceEEeeCCCCCHHHH
Q 014385 88 YLYIVIDLSRAAAEMDF---RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---------VANCLTDLGGSPESH 155 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~---~P~RL~~a~~~l~~Fv~~~~~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 46999999999985321 358999999999999999999999999999999532 244577777655566
Q ss_pred HHHHhhhhC-----------CCCc-chHHHHHHHHHHHHhCC-CCCCCcEEEEEEcCCCCC-CccCH----HHHHHHHHh
Q 014385 156 IKALMGKLG-----------CSGD-SSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTC-DPGDI----METIQKCKE 217 (425)
Q Consensus 156 i~~L~~~~~-----------~~G~-tsL~nAL~~A~~~L~~~-p~~~sreILiI~ss~~t~-d~~~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 666655421 1122 48999999999999863 446778898888643321 11222 124788899
Q ss_pred CCcEEEEEEecc
Q 014385 218 SKIRCSVIGLSA 229 (425)
Q Consensus 218 ~~IrV~vIglg~ 229 (425)
.||.|..+.|..
T Consensus 172 ~gi~ielf~l~~ 183 (584)
T TIGR00578 172 TGIFLDLMHLKK 183 (584)
T ss_pred cCeEEEEEecCC
Confidence 999999998875
No 64
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=98.12 E-value=2.4e-05 Score=81.78 Aligned_cols=155 Identities=12% Similarity=0.064 Sum_probs=111.8
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceE--EeeCCCCCHHHHHHHHhhhhCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVAN--CLTDLGGSPESHIKALMGKLGC 165 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~--~lsplT~d~~~~i~~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 PVILLLDKSGSMS-----GFKEQWAKAVALALMRIALAENR--DCYVILFDS-EVIEYELYEKKIDIEELIEFLSY--VF 343 (437)
T ss_pred CEEEEEeCCCCcC-----CcHHHHHHHHHHHHHHHHHHhcc--ceEEEEecc-cceeeeecCCccCHHHHHHHHhh--hc
Confidence 6899999999994 45677788777777777777765 699999964 222 334445566777777654 35
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHH-HHHHHHHhCCcEEEEEEecchH-HHHHHHHHhhCC
Q 014385 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGG 243 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~-~ti~~akk~~IrV~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 566999999999999999875454 56999998765433 3344 4556666899999999999876 7888888877
Q ss_pred eEEEecChhHHHHHH
Q 014385 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 65
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=98.04 E-value=0.00012 Score=75.61 Aligned_cols=156 Identities=15% Similarity=0.149 Sum_probs=104.4
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHH---HHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhh-
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQ---VEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL- 163 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~---l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 6899999999997655 55544443 3344544 5578999999996 4454321 23444332
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCC---C-------------CccCHHHH---HHHHHhCCcEEEE
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST---C-------------DPGDIMET---IQKCKESKIRCSV 224 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t---~-------------d~~~i~~t---i~~akk~~IrV~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 VYEQGTNLHHALALAGRHLRRHAGA-QPVVLVVTDGEPTAHLEDGDGTSVFFDYPPDPRTIAHTVRGFDDMARLGAQVTI 606 (652)
T ss_pred ccccccchHHHHHHHHHHHHhCccc-CceEEEEeCCCccccccCCCCceEecCCCCChhHHHHHHHHHHHHHhccceeeE
Confidence 1234699999999999999987543 4457777765322 1 22223333 5667889999999
Q ss_pred EEecch---HHHHHHHHHhhCCeEEEecChhHHHHHHHhc
Q 014385 225 IGLSAE---MFICKHLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 225 Iglg~e---~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
.-||.+ +.+++++|+.|+|+-+++.-..-=..++.++
T Consensus 607 FrLg~DpgL~~Fv~qva~rv~G~vv~pdldglGaaVvgdy 646 (652)
T COG4867 607 FRLGSDPGLARFIDQVARRVQGRVVVPDLDGLGAAVVGDY 646 (652)
T ss_pred EeecCCHhHHHHHHHHHHHhCCeEEecCcchhhHHHHHHH
Confidence 999987 5899999999999988763333223344443
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=98.02 E-value=0.00024 Score=73.98 Aligned_cols=166 Identities=18% Similarity=0.150 Sum_probs=112.7
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCce-------------------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA------------------------- 142 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A------------------------- 142 (425)
+||+++|+|.||. +-|+..+.....+.+++-+-.+.-|+|+=.|-|+..
T Consensus 101 DLYyLMDlS~SM~------ddl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~ 174 (423)
T smart00187 101 DLYYLMDLSYSMK------DDLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPP 174 (423)
T ss_pred ceEEEEeCCccHH------HHHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCC
Confidence 9999999999997 457778888888888888777888999988765521
Q ss_pred ---EEeeCCCCCHHHHHHHHhhhh------CCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEcCCCC----------
Q 014385 143 ---NCLTDLGGSPESHIKALMGKL------GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALST---------- 202 (425)
Q Consensus 143 ---~~lsplT~d~~~~i~~L~~~~------~~~G~tsL~nAL~~A~~~L~~~p-~~~sreILiI~ss~~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--DAIMQAAVCT-EQIGWREDARRLLVFSTDAGFHFAGDGKLAG 251 (423)
T ss_pred cceeeeccCCCCHHHHHHHHhhceeecCCcCCcccH--HHHHHHHhhc-cccccCCCceEEEEEEcCCCccccCCcceee
Confidence 234788999888888887542 245543 2222233222 2221 1346778888754222
Q ss_pred ----------------------CCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEe--cChhHHHHHH
Q 014385 203 ----------------------CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA--LDESHFKELI 258 (425)
Q Consensus 203 ----------------------~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~--~d~~~L~~lL 258 (425)
-|+.++-+..+.|++++|.+-.-.-.....+.+++++.-.|...-. .|...+-+|+
T Consensus 252 Iv~PNDg~CHL~~~g~Yt~s~~~DYPSi~ql~~kL~e~nI~~IFAVT~~~~~~Y~~Ls~lipgs~vg~Ls~DSsNIv~LI 331 (423)
T smart00187 252 IVQPNDGQCHLDNNGEYTMSTTQDYPSIGQLNQKLAENNINPIFAVTKKQVSLYKELSALIPGSSVGVLSEDSSNVVELI 331 (423)
T ss_pred EecCCCCcceeCCCCCcCccCcCCCCCHHHHHHHHHhcCceEEEEEcccchhHHHHHHHhcCcceeeecccCcchHHHHH
Confidence 2777888999999999996543333334678999999999988844 5555565655
Q ss_pred HhcC
Q 014385 259 MEHA 262 (425)
Q Consensus 259 ~~~~ 262 (425)
.+..
T Consensus 332 ~~aY 335 (423)
T smart00187 332 KDAY 335 (423)
T ss_pred HHHH
Confidence 4444
No 67
>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=97.90 E-value=0.00013 Score=69.28 Aligned_cols=169 Identities=18% Similarity=0.263 Sum_probs=107.8
Q ss_pred eEEEEEeCCHhhhhCCCCCCh--HHHHHHHHHHHHHHHhhcCCCCcEEEEeec-CC--ceEEeeCCCC--CHH---HHHH
Q 014385 88 YLYIVIDLSRAAAEMDFRPSR--MAVVAKQVEAFVREFFDQNPLSQIGLVTVK-DG--VANCLTDLGG--SPE---SHIK 157 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~R--L~~a~~~l~~Fv~~~~~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 589999999999877763222 2222221 23444444 3677777766652 23 5667777662 333 3444
Q ss_pred HHhhhh-CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCc-cCHHHHHHHHHhCCcEEEEEEecchHH---
Q 014385 158 ALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDP-GDIMETIQKCKESKIRCSVIGLSAEMF--- 232 (425)
Q Consensus 158 ~L~~~~-~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~-~~i~~ti~~akk~~IrV~vIglg~e~~--- 232 (425)
.|...- ...+.|+|+.||..|..+|.+.|..+.|+||=|.|++.+++- .....+-..+...||.|+-+.|+.+..
T Consensus 83 ~l~~~~r~~~~~Taig~Al~~a~~ll~~~~~~~~RrVIDvSGDG~~N~G~~p~~~ard~~~~~GitINgL~I~~~~~~~~ 162 (205)
T PF06707_consen 83 RLRAAPRRFGGRTAIGSALDFAAALLAQNPFECWRRVIDVSGDGPNNQGPRPVTSARDAAVAAGITINGLAILDDDPFGG 162 (205)
T ss_pred HHHhCCCCCCCCchHHHHHHHHHHHHHhCCCCCceEEEEECCCCCCCCCCCccHHHHHHHHHCCeEEeeeEecCCCCCcc
Confidence 454431 234569999999999999999987799999999987655433 333377888899999999999986432
Q ss_pred ----HHHHHHHhhC-CeEEE-ecChhHHHHHH
Q 014385 233 ----ICKHLCQDTG-GSYSV-ALDESHFKELI 258 (425)
Q Consensus 233 ----iLk~iA~~TG-G~Y~~-~~d~~~L~~lL 258 (425)
-.=+=.-++| |.|.+ +.+.++|.+.+
T Consensus 163 ~~L~~yy~~~VIgGpgAFV~~a~~~~df~~Ai 194 (205)
T PF06707_consen 163 ADLDAYYRRCVIGGPGAFVETARGFEDFAEAI 194 (205)
T ss_pred ccHHHHHhhhcccCCCceEEEcCCHHHHHHHH
Confidence 1112222333 55664 56666665543
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=97.86 E-value=0.00067 Score=67.12 Aligned_cols=92 Identities=17% Similarity=0.232 Sum_probs=63.8
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCH-----------------------------H-HHHHHHH
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCK 216 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~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 357899999999999985422234568888876544333222 1 2345567
Q ss_pred hCCcEEEEEEecc---hHHHHHHHHHhhCCeEEEe--cChhHHHHHH
Q 014385 217 ESKIRCSVIGLSA---EMFICKHLCQDTGGSYSVA--LDESHFKELI 258 (425)
Q Consensus 217 k~~IrV~vIglg~---e~~iLk~iA~~TGG~Y~~~--~d~~~L~~lL 258 (425)
+.+|-|++...+. ++..++.+++.|||.-+.. -+..-|++-+
T Consensus 219 ~~~vsvDlF~~s~d~vglaem~~l~~~TGG~v~~~~~f~~~~f~~s~ 265 (267)
T cd01478 219 ANGHAVDIFAGCLDQVGLLEMKVLVNSTGGHVVLSDSFTTSIFKQSF 265 (267)
T ss_pred hCCeEEEEEeccccccCHHHHHHHHHhcCcEEEEeCCcchHHHHHHh
Confidence 7999999999885 4789999999999976654 3444555543
No 69
>PLN00162 transport protein sec23; Provisional
Probab=97.54 E-value=0.0056 Score=68.92 Aligned_cols=97 Identities=20% Similarity=0.173 Sum_probs=69.9
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCH-----------------------------H-HHHHHHHh
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCKE 217 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~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 46899999999999986422334568888887544333321 1 24666788
Q ss_pred CCcEEEEEEecc---hHHHHHHHHHhhCCeEEEe--cChhHHHHHHHhcCCC
Q 014385 218 SKIRCSVIGLSA---EMFICKHLCQDTGGSYSVA--LDESHFKELIMEHAPP 264 (425)
Q Consensus 218 ~~IrV~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 999999998885 4789999999999977654 3445577766666653
No 70
>PTZ00395 Sec24-related protein; Provisional
Probab=97.22 E-value=0.0048 Score=71.58 Aligned_cols=150 Identities=17% Similarity=0.218 Sum_probs=97.5
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEe----------------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCL---------------------- 145 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~l---------------------- 145 (425)
+.+++||+|..--+..+ +..+.+.|+.-++.+. .|..+||||+| |..-++.
T Consensus 954 ~YvFLIDVS~~AVkSGL----l~tacesIK~sLDsL~--dpRTRVGIITF-DSsLHFYNLks~l~~~~~~~~~~~~l~qP 1026 (1560)
T PTZ00395 954 YFVFVVECSYNAIYNNI----TYTILEGIRYAVQNVK--CPQTKIAIITF-NSSIYFYHCKGGKGVSGEEGDGGGGSGNH 1026 (1560)
T ss_pred EEEEEEECCHHHHhhCh----HHHHHHHHHHHHhcCC--CCCcEEEEEEe-cCcEEEEecCcccccccccccccccCCCc
Confidence 89999999988765554 4556666666665542 46689999998 3433211
Q ss_pred ------------eCCC-C----CHH---HH----HHHHhhhh--CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcC
Q 014385 146 ------------TDLG-G----SPE---SH----IKALMGKL--GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSA 199 (425)
Q Consensus 146 ------------splT-~----d~~---~~----i~~L~~~~--~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss 199 (425)
.|+. . +.. +. ++.|.++. ....++.++.||+.|..+|+.. .+..+|+++.++
T Consensus 1027 QMLVVSDLDDPFLPlP~ddLLVnL~ESRevIe~LLDkLPemFt~t~~~esCLGSALqAA~~aLk~~--GGGGKIiVF~SS 1104 (1560)
T PTZ00395 1027 QVIVMSDVDDPFLPLPLEDLFFGCVEEIDKINTLIDTIKSVSTTMQSYGSCGNSALKIAMDMLKER--NGLGSICMFYTT 1104 (1560)
T ss_pred eEEeecCCccCcCCCCccCeeechHHHHHHHHHHHHHHHHHhhccCCCcccHHHHHHHHHHHHHhc--CCCceEEEEEcC
Confidence 1221 1 111 11 22222221 1234689999999999999986 223568888876
Q ss_pred CCCCCccC-------------------HH-HHHHHHHhCCcEEEEEEecch-----HHHHHHHHHhhCCeEE
Q 014385 200 LSTCDPGD-------------------IM-ETIQKCKESKIRCSVIGLSAE-----MFICKHLCQDTGGSYS 246 (425)
Q Consensus 200 ~~t~d~~~-------------------i~-~ti~~akk~~IrV~vIglg~e-----~~iLk~iA~~TGG~Y~ 246 (425)
+-+.-+|. +. +.+..+.+.+|-|++..+++. +..|..|++.|||.-+
T Consensus 1105 LPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLFLfSsqYvDVDVATLg~Lsr~TGGqly 1176 (1560)
T PTZ00395 1105 TPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIFIISSNNVRVCVPSLQYVAQNTGGKIL 1176 (1560)
T ss_pred CCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEEEccCcccccccccccchhcccceeEE
Confidence 54433333 22 457888899999999988753 4679999999999433
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=96.93 E-value=0.071 Score=51.61 Aligned_cols=163 Identities=11% Similarity=0.100 Sum_probs=99.7
Q ss_pred hhccccceEEEEEeCCHhhhh--CCCCCChHHHHHHHHHHHH---HHHhhcCCCCcEEEEeecCCceE-----EeeCCCC
Q 014385 81 IQKGLIRYLYIVIDLSRAAAE--MDFRPSRMAVVAKQVEAFV---REFFDQNPLSQIGLVTVKDGVAN-----CLTDLGG 150 (425)
Q Consensus 81 ~rrGiiR~lvlvLD~S~SM~a--~D~~P~RL~~a~~~l~~Fv---~~~~~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 345777899999999999853 2332222222222211100 01223456688999999744222 2356688
Q ss_pred CHHHHHHHHhhhhCCCCc----chHHHHHHHHHHHHhCCC-------C-CCCcEEEEEEcCCCC-----C--Cc--cCHH
Q 014385 151 SPESHIKALMGKLGCSGD----SSLQNALDLVQGLLSQIP-------S-YGHREVLILYSALST-----C--DP--GDIM 209 (425)
Q Consensus 151 d~~~~i~~L~~~~~~~G~----tsL~nAL~~A~~~L~~~p-------~-~~sreILiI~ss~~t-----~--d~--~~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 999999999876322222 359999999999988421 1 134667777654321 0 11 2445
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCe
Q 014385 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGS 244 (425)
Q Consensus 210 ~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~ 244 (425)
..+....+.||.+++|.- -....|++|-+..+|.
T Consensus 168 ~la~~~~~~~I~LSiisP-rklP~l~~Lfeka~~~ 201 (226)
T PF11265_consen 168 QLAVLISERNISLSIISP-RKLPSLRSLFEKAKGN 201 (226)
T ss_pred HHHHHHHhcCceEEEEcC-ccCHHHHHHHHhcCCC
Confidence 667778899999999987 3445666666666553
No 72
>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=96.89 E-value=0.031 Score=58.93 Aligned_cols=161 Identities=16% Similarity=0.134 Sum_probs=96.9
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCc--------------------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV-------------------------- 141 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~-------------------------- 141 (425)
+||+++|+|.||. +-|+..+....++++++-+.-..-|+|+=.|-++.
T Consensus 104 DLYyLmDlS~Sm~------ddl~~l~~lg~~l~~~~~~it~~~~~GfGsfvdK~~~P~~~~~p~~l~~pc~~~~~~c~~~ 177 (426)
T PF00362_consen 104 DLYYLMDLSYSMK------DDLENLKSLGQDLAEEMRNITSNFRLGFGSFVDKPVMPFVSTTPEKLKNPCPSKNPNCQPP 177 (426)
T ss_dssp EEEEEEE-SGGGH------HHHHHHCCCCHHHHHHHHTT-SSEEEEEEEESSSSSTTTST-SSHCHHSTSCCTTS--B--
T ss_pred eEEEEeechhhhh------hhHHHHHHHHHHHHHHHHhcCccceEechhhcccccCCcccCChhhhcCcccccCCCCCCC
Confidence 9999999999996 23444555555555555555666789988886542
Q ss_pred --eEEeeCCCCCHHHHHHHHhhhh------CCCCcchHHHHHHHHHHH--HhCCCCCCCcEEEEEEcCCC----------
Q 014385 142 --ANCLTDLGGSPESHIKALMGKL------GCSGDSSLQNALDLVQGL--LSQIPSYGHREVLILYSALS---------- 201 (425)
Q Consensus 142 --A~~lsplT~d~~~~i~~L~~~~------~~~G~tsL~nAL~~A~~~--L~~~p~~~sreILiI~ss~~---------- 201 (425)
-.-+.|||.|...+.+++++.. .|.|+ |..-|+.|++. +.=. ..+|++||+.++..
T Consensus 178 ~~f~~~l~Lt~~~~~F~~~v~~~~is~n~D~PEgg--~dal~Qa~vC~~~igWr--~~a~~llv~~TD~~fH~agDg~l~ 253 (426)
T PF00362_consen 178 FSFRHVLSLTDDITEFNEEVNKQKISGNLDAPEGG--LDALMQAAVCQEEIGWR--NEARRLLVFSTDAGFHFAGDGKLA 253 (426)
T ss_dssp -SEEEEEEEES-HHHHHHHHHTS--B--SSSSBSH--HHHHHHHHH-HHHHT----STSEEEEEEEESS-B--TTGGGGG
T ss_pred eeeEEeecccchHHHHHHhhhhccccCCCCCCccc--cchheeeeecccccCcc--cCceEEEEEEcCCccccccccccc
Confidence 2234566778888888887542 24554 44444555552 3212 44677888865311
Q ss_pred ----------------------CCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCh--hHHHHH
Q 014385 202 ----------------------TCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDE--SHFKEL 257 (425)
Q Consensus 202 ----------------------t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~--~~L~~l 257 (425)
.-|+..+-...+.+.+++|.+-.-.-..-..+.+++++.-+|.....+.. ..+-+|
T Consensus 254 gi~~pnd~~Chl~~~~~y~~~~~~DYPSv~ql~~~l~e~~i~~IFAVt~~~~~~Y~~L~~~i~~s~vg~L~~dSsNIv~L 333 (426)
T PF00362_consen 254 GIVKPNDGKCHLDDNGMYTASTEQDYPSVGQLVRKLSENNINPIFAVTKDVYSIYEELSNLIPGSSVGELSSDSSNIVQL 333 (426)
T ss_dssp T--S---SS--BSTTSBBGGGGCS----HHHHHHHHHHTTEEEEEEEEGGGHHHHHHHHHHSTTEEEEEESTTSHTHHHH
T ss_pred eeeecCCCceEECCCCcccccccccCCCHHHHHHHHHHcCCEEEEEEchhhhhHHHHHhhcCCCceecccccCchhHHHH
Confidence 12555667889999999986433223344678999999999998855443 344444
Q ss_pred H
Q 014385 258 I 258 (425)
Q Consensus 258 L 258 (425)
+
T Consensus 334 I 334 (426)
T PF00362_consen 334 I 334 (426)
T ss_dssp H
T ss_pred H
Confidence 3
No 73
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=96.88 E-value=0.0087 Score=69.25 Aligned_cols=153 Identities=14% Similarity=0.213 Sum_probs=106.4
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC---------HHHHHH
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS---------PESHIK 157 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 KDIVILLDVSGSMS-----GLRLDLAKQTVNEILDTLSD---NDFVNILTF-NSEVNPVSPCFNGTLVQATMRNKKVFKE 296 (1104)
T ss_pred cceEEEEecccccc-----chhhHHHHHHHHHHHHhccc---CCeEEEEee-ccccCcccccccCceeecchHHHHHHHH
Confidence 38999999999995 56999999998888877644 477889998 5888877765332 233444
Q ss_pred HHhhhhCCCCcchHHHHHHHHHHHHhCCC--------CCCCcEEEEEEcCCCCCCccCHHHHHHHHH--hCCcEEEEEEe
Q 014385 158 ALMGKLGCSGDSSLQNALDLVQGLLSQIP--------SYGHREVLILYSALSTCDPGDIMETIQKCK--ESKIRCSVIGL 227 (425)
Q Consensus 158 ~L~~~~~~~G~tsL~nAL~~A~~~L~~~p--------~~~sreILiI~ss~~t~d~~~i~~ti~~ak--k~~IrV~vIgl 227 (425)
++..+ .+.|-+.+..|++.|...|.... +.....|++|+++. +.+..++++.-. ...|||++..|
T Consensus 297 ~i~~l-~~k~~a~~~~~~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~----~~~~~~If~~yn~~~~~Vrvftfli 371 (1104)
T KOG2353|consen 297 AIETL-DAKGIANYTAALEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGV----DENAKEIFEKYNWPDKKVRVFTFLI 371 (1104)
T ss_pred HHhhh-ccccccchhhhHHHHHHHHHHhccccccccccccceeeEEeecCC----cccHHHHHHhhccCCCceEEEEEEe
Confidence 44443 58888999999999999998531 11234455555332 244455555443 47899999999
Q ss_pred cchH---HHHHHHHHhhCCeEEEecChhH
Q 014385 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 3466667677777776655543
No 74
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=96.86 E-value=0.019 Score=58.52 Aligned_cols=153 Identities=19% Similarity=0.236 Sum_probs=109.4
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC--CCHHHHHHHHhhhhC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLG 164 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT--~d~~~~i~~L~~~~~ 164 (425)
+++.+++|.|.||.... +.-++.....++.. .++.+.+.++++. +.+..+.|.+ .+...+..++.....
T Consensus 38 ~~~~~~~~~~~s~~~~~-----~~~~~~~~~~~v~~---~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~ 108 (399)
T COG2304 38 ANLTLAIDTSGSMTGAL-----LELAKSAAIELVNG---LNPGDLLSIVTFA-GSADVLIPPTGATNKESITAAIDQSLQ 108 (399)
T ss_pred cceEEEeccCCCccchh-----HHHHHHHHHHHhcc---cCCCCceEEEEec-CCcceecCcccccCHHHHHHHHhhhhc
Confidence 48999999999997554 34444555555554 4667889999996 4888888887 567777888877667
Q ss_pred CCCcchHHHHHHHHHHHHhCC-CCCCCcEEEEEEcCCCCC---CccCHHHHHHHHHhCCcEEEEEEecch--HHHHHHHH
Q 014385 165 CSGDSSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTC---DPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLC 238 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~-p~~~sreILiI~ss~~t~---d~~~i~~ti~~akk~~IrV~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 788899999999999988873 333334566666655443 333344445555556999999999976 35566778
Q ss_pred HhhCCeEEEe
Q 014385 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 8887776654
No 75
>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=96.51 E-value=0.073 Score=52.46 Aligned_cols=155 Identities=13% Similarity=0.167 Sum_probs=99.4
Q ss_pred hccccceEEEEEeCCHhhhhC----------CCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCce--EEeeCCC
Q 014385 82 QKGLIRYLYIVIDLSRAAAEM----------DFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA--NCLTDLG 149 (425)
Q Consensus 82 rrGiiR~lvlvLD~S~SM~a~----------D~~P~RL~~a~~~l~~Fv~~~~~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 445545999999999983211 114688899999998888887654 5689999864321 1123321
Q ss_pred -CCH--------HHHHHHHhhh---hCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh
Q 014385 150 -GSP--------ESHIKALMGK---LGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 150 -~d~--------~~~i~~L~~~---~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~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 121 3444443332 2456888888888888877665422223457777776654455555567777788
Q ss_pred CCcEEEEEEecch-HHHHHHHHH
Q 014385 218 SKIRCSVIGLSAE-MFICKHLCQ 239 (425)
Q Consensus 218 ~~IrV~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 8888888888853 466777654
No 76
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.48 E-value=0.068 Score=59.89 Aligned_cols=152 Identities=16% Similarity=0.204 Sum_probs=100.0
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC------------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG------------------ 149 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT------------------ 149 (425)
+.|+.||+|-.-..... ..++-+.|+.-+..+...-|.-+||||+| |...++.-.-+
T Consensus 419 afvFmIDVSy~Ai~~G~----~~a~ce~ik~~l~~lp~~~p~~~Vgivtf-d~tvhFfnl~s~L~qp~mliVsdv~dvfv 493 (1007)
T KOG1984|consen 419 AFVFMIDVSYNAISNGA----VKAACEAIKSVLEDLPREEPNIRVGIVTF-DKTVHFFNLSSNLAQPQMLIVSDVDDVFV 493 (1007)
T ss_pred eEEEEEEeehhhhhcch----HHHHHHHHHHHHhhcCccCCceEEEEEEe-cceeEeeccCccccCceEEEeeccccccc
Confidence 78999999866543322 23455666666666665678899999999 45444322111
Q ss_pred ---C-------CHHHHHHHHhhh----hC--CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCcc-------
Q 014385 150 ---G-------SPESHIKALMGK----LG--CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------- 206 (425)
Q Consensus 150 ---~-------d~~~~i~~L~~~----~~--~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~------- 206 (425)
. ..+.+++.|-.. .. -.-++.+++||+.|...|+... +. +++|+.+++.+.+.+
T Consensus 494 Pf~~g~~V~~~es~~~i~~lLd~Ip~mf~~sk~pes~~g~alqaa~lalk~~~--gG-Kl~vF~s~Lpt~g~g~kl~~r~ 570 (1007)
T KOG1984|consen 494 PFLDGLFVNPNESRKVIELLLDSIPTMFQDSKIPESVFGSALQAAKLALKAAD--GG-KLFVFHSVLPTAGAGGKLSNRD 570 (1007)
T ss_pred ccccCeeccchHHHHHHHHHHHHhhhhhccCCCCchhHHHHHHHHHHHHhccC--Cc-eEEEEecccccccCcccccccc
Confidence 0 012344443322 11 2346899999999999999862 33 477777766553333
Q ss_pred -------------------CHHHHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEEE
Q 014385 207 -------------------DIMETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 207 -------------------~i~~ti~~akk~~IrV~vIglg~---e~~iLk~iA~~TGG~Y~~ 247 (425)
.+.+.++.+.+.||.|++-...+ +++.+-.+++.|||+-++
T Consensus 571 D~~l~~t~kek~l~~pq~~~y~~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~vy~ 633 (1007)
T KOG1984|consen 571 DRRLIGTDKEKNLLQPQDKTYTTLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQVYK 633 (1007)
T ss_pred hhhhhcccchhhccCcchhHHHHHHHHHHHhCceEEEEEcccceeeeeeecccccccCceeEE
Confidence 12355788889999999988854 678899999999997554
No 77
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=96.31 E-value=0.11 Score=56.24 Aligned_cols=185 Identities=20% Similarity=0.293 Sum_probs=103.4
Q ss_pred EEEEEeCCHhhhhCCC-CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH-----------HHHH
Q 014385 89 LYIVIDLSRAAAEMDF-RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP-----------ESHI 156 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~-~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~-----------~~~i 156 (425)
+.++||.|.||..+-. .-+-|+.||.+++.|++..-. +| .. -|.-+.+..+..-+ ..++
T Consensus 4 ~lFllDTS~SM~qrah~~~tylD~AKgaVEtFiK~R~r------~~--~~-~gdryml~TfeepP~~vk~~~~~~~a~~~ 74 (888)
T KOG3768|consen 4 FLFLLDTSGSMSQRAHPQFTYLDLAKGAVETFIKQRTR------VG--RE-TGDRYMLTTFEEPPKNVKVACEKLGAVVI 74 (888)
T ss_pred EEEEEecccchhhhccCCchhhHHHHHHHHHHHHHHhc------cc--cc-cCceEEEEecccCchhhhhHHhhcccHHH
Confidence 6889999999987664 456788888888888875421 11 11 24445555443333 3466
Q ss_pred HHHhhhhCCCCcchHHHHHHHHHHHHhC------CCCCCCcE---------EEEEEcCCC-C-CC--ccCH---------
Q 014385 157 KALMGKLGCSGDSSLQNALDLVQGLLSQ------IPSYGHRE---------VLILYSALS-T-CD--PGDI--------- 208 (425)
Q Consensus 157 ~~L~~~~~~~G~tsL~nAL~~A~~~L~~------~p~~~sre---------ILiI~ss~~-t-~d--~~~i--------- 208 (425)
+.|+++.-+-|.+-+++++..|...|+- +.+++..| ||+|+++.. + .. +.++
T Consensus 75 ~eik~l~a~~~s~~~~~~~t~AFdlLnlnR~qtGID~yGqGR~pf~lEP~~iI~iTDG~r~s~~~GV~~e~~Lpl~~p~p 154 (888)
T KOG3768|consen 75 EEIKKLHAPYGSCQLHHAITEAFDLLNLNRVQTGIDGYGQGRLPFNLEPVTIILITDGGRYSGVAGVPIEFRLPLDPPFP 154 (888)
T ss_pred HHHHhhcCccchhhhhHHHHHHhhhhhhhhhhhcccccccccCccccCceEEEEEecCCccccccCCceeEEeccCCCCC
Confidence 7777665566667788888888888762 23344332 444554411 1 00 0000
Q ss_pred -HHHHHHHHhCCcEEEEEEec---c-------------hHHHHHHHHHhhCCeEEEecChhHHHHHHHhc----------
Q 014385 209 -METIQKCKESKIRCSVIGLS---A-------------EMFICKHLCQDTGGSYSVALDESHFKELIMEH---------- 261 (425)
Q Consensus 209 -~~ti~~akk~~IrV~vIglg---~-------------e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~---------- 261 (425)
.+--+..-+..=|.+++.|- + +......+|+.|||+-|.+-+.-.|++-+..+
T Consensus 155 Gse~TkepFRWDQrlftlVlRiPgt~~~~~~qlt~Vp~Dds~IermCevTGGRSysV~Spr~lnqciesLvqkvQ~gVvv 234 (888)
T KOG3768|consen 155 GSEMTKEPFRWDQRLFTLVLRIPGTPYPTISQLTAVPIDDSVIERMCEVTGGRSYSVVSPRQLNQCIESLVQKVQYGVVV 234 (888)
T ss_pred ccccccccchhhhhhheeeEecCCCCCccHhhhcCCCCCchhhHHhhhhcCCceeeeeCHHHHHHHHHHHHHhhccCeEE
Confidence 01111111222234444442 1 23689999999999988777777665544332
Q ss_pred ----CCCCccchhhhhhceeeecCC
Q 014385 262 ----APPPPAIAEFAIANLIKMGFP 282 (425)
Q Consensus 262 ----~~Pp~~~~~~~~~~Li~mGFP 282 (425)
+.|-|+...+.+..+|.|-|-
T Consensus 235 ~FE~~~p~papi~s~~~~~Is~~fg 259 (888)
T KOG3768|consen 235 RFECLPPIPAPITSDEVNLISMKFG 259 (888)
T ss_pred EeeecCCCCCCcccCcccccccccc
Confidence 223222212334578887773
No 78
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=95.96 E-value=0.031 Score=49.12 Aligned_cols=78 Identities=13% Similarity=0.256 Sum_probs=51.5
Q ss_pred EEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh-hCCCC
Q 014385 89 LYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK-LGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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 589999999997655 445555566555544 346888887 6777666666551 1112221 25678
Q ss_pred cchHHHHHHHHHHH
Q 014385 168 DSSLQNALDLVQGL 181 (425)
Q Consensus 168 ~tsL~nAL~~A~~~ 181 (425)
||+++-+++-+.+.
T Consensus 66 GTdf~pvf~~~~~~ 79 (126)
T PF09967_consen 66 GTDFRPVFEYLEEN 79 (126)
T ss_pred CCcchHHHHHHHhc
Confidence 99999999987753
No 79
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.91 E-value=0.12 Score=57.65 Aligned_cols=146 Identities=22% Similarity=0.327 Sum_probs=96.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH---------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--------------- 152 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 5789999998765443 46777888877777666 678999999998 34433221 11111
Q ss_pred ------------------HHHHHHHhhhhC--CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCC-----Cc--
Q 014385 153 ------------------ESHIKALMGKLG--CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTC-----DP-- 205 (425)
Q Consensus 153 ------------------~~~i~~L~~~~~--~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~-----d~-- 205 (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 112222322221 223578999999999999875 23588887653221 11
Q ss_pred -----------------cCHH-HHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCe
Q 014385 206 -----------------GDIM-ETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGS 244 (425)
Q Consensus 206 -----------------~~i~-~ti~~akk~~IrV~vIglg~---e~~iLk~iA~~TGG~ 244 (425)
.++. +-+-.+.+.+|.|+.-.+.. +++.|..|++-|||.
T Consensus 445 dp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI~VDlFl~s~qY~DlAsLs~LskySgG~ 504 (887)
T KOG1985|consen 445 DPNVRSSDEDSQLLSPATDFYKDLALECSKSQICVDLFLFSEQYTDLASLSCLSKYSGGQ 504 (887)
T ss_pred ccccccchhhhhccCCCchHHHHHHHHhccCceEEEEEeecccccchhhhhccccccCce
Confidence 1222 23556688999999999984 689999999999994
No 80
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=95.55 E-value=0.22 Score=55.39 Aligned_cols=150 Identities=19% Similarity=0.270 Sum_probs=95.8
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHH--------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPE-------------- 153 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~-------------- 153 (425)
+.|+.||+|..-.... -+.++.+.+.+=+..+.+..|..+||+|.| |..-+.+.+..+..+
T Consensus 278 ~yvFlIDVS~~a~~~g----~~~a~~r~Il~~l~~~~~~dpr~kIaii~f-D~sl~ffk~s~d~~~~~~~vsdld~pFlP 352 (861)
T COG5028 278 VYVFLIDVSFEAIKNG----LVKAAIRAILENLDQIPNFDPRTKIAIICF-DSSLHFFKLSPDLDEQMLIVSDLDEPFLP 352 (861)
T ss_pred EEEEEEEeehHhhhcc----hHHHHHHHHHhhccCCCCCCCcceEEEEEE-cceeeEEecCCCCccceeeeccccccccc
Confidence 8899999996543222 234566666666655556678999999999 455555544332210
Q ss_pred ----HH----------HHHHh----hhhCC--CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCC-----------
Q 014385 154 ----SH----------IKALM----GKLGC--SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST----------- 202 (425)
Q Consensus 154 ----~~----------i~~L~----~~~~~--~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t----------- 202 (425)
.+ ++.|- ..... .-...++.||..|...+... ..+|+++++++-+
T Consensus 353 f~s~~fv~pl~~~k~~~etLl~~~~~If~d~~~pk~~~G~aLk~a~~l~g~~----GGkii~~~stlPn~G~Gkl~~r~d 428 (861)
T COG5028 353 FPSGLFVLPLKSCKQIIETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGT----GGKIIVFLSTLPNMGIGKLQLRED 428 (861)
T ss_pred CCcchhcccHHHHHHHHHHHHHHhhhhhcccCCCccccCHHHHHHHHHhhcc----CceEEEEeecCCCccccccccccc
Confidence 01 11111 11111 23468999999999988764 3347777765222
Q ss_pred -------CCccCHHHHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEE
Q 014385 203 -------CDPGDIMETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYS 246 (425)
Q Consensus 203 -------~d~~~i~~ti~~akk~~IrV~vIglg~---e~~iLk~iA~~TGG~Y~ 246 (425)
|+.+=+.+-...+.|.+|.|++--..+ ++..|-.+++.|||+-+
T Consensus 429 ~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt~~~yidvaTls~l~~~T~G~~~ 482 (861)
T COG5028 429 KESSLLSCKDSFYKEFAIECSKVGISVDLFLTSEDYIDVATLSHLCRYTGGQTY 482 (861)
T ss_pred chhhhccccchHHHHHHHHHHHhcceEEEEeccccccchhhhcchhhccCcceE
Confidence 221212355778889999999988865 68999999999999544
No 81
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.08 E-value=1 Score=49.86 Aligned_cols=163 Identities=17% Similarity=0.208 Sum_probs=103.1
Q ss_pred EEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH---------------HH
Q 014385 90 YIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP---------------ES 154 (425)
Q Consensus 90 vlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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--C-----MDEEELQALKSSLKQSLSLL---PENALVGLITF--GTMVQVHELGFEECSKSYVFSGNKEYSAKQ 192 (745)
T ss_pred EEEEee--c-----cChHHHHHHHHHHHHHHhhC---CCcceEEEEEe--cceEEEEEcCCCcccceeEEeccccccHHH
Confidence 677775 2 23578999999999888654 34567999999 4444455552110 00
Q ss_pred HH----------------------------------HHHhhhh-----CCCCc---chHHHHHHHHHHHHhCCCCCCCcE
Q 014385 155 HI----------------------------------KALMGKL-----GCSGD---SSLQNALDLVQGLLSQIPSYGHRE 192 (425)
Q Consensus 155 ~i----------------------------------~~L~~~~-----~~~G~---tsL~nAL~~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 00 1111110 12332 368899999999998752334456
Q ss_pred EEEEEcCCCCCCccC---------------H---------------HHHHHHHHhCCcEEEEEEecch---HHHHHHHHH
Q 014385 193 VLILYSALSTCDPGD---------------I---------------METIQKCKESKIRCSVIGLSAE---MFICKHLCQ 239 (425)
Q Consensus 193 ILiI~ss~~t~d~~~---------------i---------------~~ti~~akk~~IrV~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 888888744333321 1 1346777788988888776654 678999999
Q ss_pred hhCCeEEEecCh--hHHHHHHHhcCCC
Q 014385 240 DTGGSYSVALDE--SHFKELIMEHAPP 264 (425)
Q Consensus 240 ~TGG~Y~~~~d~--~~L~~lL~~~~~P 264 (425)
.|||.-....+- +-|++-+..++.-
T Consensus 353 ~TGG~lvl~dsF~~s~Fk~sfqR~f~~ 379 (745)
T KOG1986|consen 353 STGGVLVLGDSFNTSIFKQSFQRIFTR 379 (745)
T ss_pred cCCcEEEEecccchHHHHHHHHHHhcc
Confidence 999987765443 4577777777753
No 82
>COG1721 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]
Probab=94.72 E-value=0.57 Score=49.13 Aligned_cols=62 Identities=15% Similarity=0.184 Sum_probs=50.0
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS 151 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d 151 (425)
+++|+||.|.+|.-.|...++++.+...+.-++-..+.+ .+++|+.++.++.-..+.|-.+.
T Consensus 226 ~v~l~lD~~~~m~~~~~~~~~~e~av~~a~~la~~~l~~--gd~vg~~~~~~~~~~~~~p~~G~ 287 (416)
T COG1721 226 TVVLVLDASRSMLFGSGVASKFEEAVRAAASLAYAALKN--GDRVGLLIFGGGGPKWIPPSRGR 287 (416)
T ss_pred eEEEEEeCCccccCCCCCccHHHHHHHHHHHHHHHHHhC--CCeeEEEEECCCcceeeCCCcch
Confidence 999999999999998888999999999998888777665 47999999954444555554443
No 83
>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=94.65 E-value=0.54 Score=42.53 Aligned_cols=121 Identities=12% Similarity=0.224 Sum_probs=72.7
Q ss_pred CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCce-----EEeeCCCCCH--------HHHHHHHhhh---hCCCCc
Q 014385 105 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-----NCLTDLGGSP--------ESHIKALMGK---LGCSGD 168 (425)
Q Consensus 105 ~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A-----~~lsplT~d~--------~~~i~~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 58999999999999999986544 577777754322 2236677653 3344443332 246787
Q ss_pred chHHHHHHHHHHHHhCC-CCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec
Q 014385 169 SSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~-p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 88888888777776631 1111224888877654434333334454555555556666664
No 84
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=94.50 E-value=0.17 Score=54.20 Aligned_cols=91 Identities=18% Similarity=0.152 Sum_probs=61.9
Q ss_pred CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCcc---------CHHHHHHHHHhCCcEEEEEEecchHHHH
Q 014385 164 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG---------DIMETIQKCKESKIRCSVIGLSAEMFIC 234 (425)
Q Consensus 164 ~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~---------~i~~ti~~akk~~IrV~vIglg~e~~iL 234 (425)
+|.-.|..+.||..|-..|.+.|. .++.||+++++.-+|-+ |..+++-.+.+.||.|.-|-|..+..
T Consensus 528 ePg~ytR~G~AIR~As~kL~~rpq--~qklLivlSDGkPnd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld~ea~-- 603 (637)
T COG4548 528 EPGYYTRDGAAIRHASAKLMERPQ--RQKLLIVLSDGKPNDFDHYEGRFGIEDTREAVIEARKSGIEVFNVTLDREAI-- 603 (637)
T ss_pred CccccccccHHHHHHHHHHhcCcc--cceEEEEecCCCcccccccccccchhhHHHHHHHHHhcCceEEEEEecchhh--
Confidence 566678999999999999998753 55688888765432222 23367888999999999999986532
Q ss_pred HHHHHhhC-CeEEEecChhHHHHHH
Q 014385 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 5677666666655443
No 85
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=94.44 E-value=0.95 Score=49.23 Aligned_cols=170 Identities=17% Similarity=0.144 Sum_probs=107.6
Q ss_pred EEEEEeCCHhhhhCCCC-CChHHHHHHHHHHHHHH-HhhcCCCCcEEEEeec---------CCceE----EeeCCCC-CH
Q 014385 89 LYIVIDLSRAAAEMDFR-PSRMAVVAKQVEAFVRE-FFDQNPLSQIGLVTVK---------DGVAN----CLTDLGG-SP 152 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~-P~RL~~a~~~l~~Fv~~-~~~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 46677999999988832 46899999999988854 5555366889999986 12222 3445433 33
Q ss_pred HHHHHHHhhhhCC-CCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec
Q 014385 153 ESHIKALMGKLGC-SGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 153 ~~~i~~L~~~~~~-~G~tsL~nAL~~A~~~L~~---~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 IGLIKRLKQYCQQNSHQSDFEGALSVSQDLLVQHEDIKKQFQKRKILKQIVLFTDFSDDLF-IVEDLTDEDIDLLTEGLD 165 (669)
T ss_pred HHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhccchhhceEEEEeecccccchhhHH-HHHHHhhcCcceeEeecc
Confidence 4455555544322 2234688899988886643 2333445566666555431112233 889999999999999997
Q ss_pred chH-----------------H-HHHHHHHhhCCeEEEecChhHHHHHHHhcCCCC
Q 014385 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 344444445566654 377888877663
No 86
>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=94.26 E-value=0.96 Score=49.44 Aligned_cols=78 Identities=18% Similarity=0.285 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCC-------ccC-----HHHHHHHHHhC-CcEEEEEEecchHHHHHHHH
Q 014385 172 QNALDLVQGLLSQIPSYGHREVLILYSALSTCD-------PGD-----IMETIQKCKES-KIRCSVIGLSAEMFICKHLC 238 (425)
Q Consensus 172 ~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d-------~~~-----i~~ti~~akk~-~IrV~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 678999999888864 4677999988654332 332 33678888775 8999999999884211
Q ss_pred HhhCCeEEEecChhHHHHHH
Q 014385 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 3344556666554443
No 87
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=94.14 E-value=0.057 Score=53.38 Aligned_cols=40 Identities=33% Similarity=0.722 Sum_probs=33.8
Q ss_pred eEEcCCCCccccCCC-----------------CCCCCCCceecCchhHHhhhc-ccCC
Q 014385 304 GYTCPRCKARVCELP-----------------TDCRICGLQLVSSPHLARSYH-HLFP 343 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-----------------~~C~~C~l~LvssphLarsyh-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 799999999888766 389999999999999998765 6544
No 88
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=93.55 E-value=3.3 Score=40.02 Aligned_cols=58 Identities=24% Similarity=0.370 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCC-------CccCH-----HHHHHHHHh-CCcEEEEEEecchH
Q 014385 172 QNALDLVQGLLSQIPSYGHREVLILYSALSTC-------DPGDI-----METIQKCKE-SKIRCSVIGLSAEM 231 (425)
Q Consensus 172 ~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~-------d~~~i-----~~ti~~akk-~~IrV~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 466799998864322 22333 256666654 47999999999874
No 89
>COG3552 CoxE Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.43 E-value=0.53 Score=48.57 Aligned_cols=116 Identities=11% Similarity=0.158 Sum_probs=63.9
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCC--CCCHHHHHHHHhhhh-C
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPESHIKALMGKL-G 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lspl--T~d~~~~i~~L~~~~-~ 164 (425)
.+|+++|+|+||. .+.. ....|++..-.+.+.++ +.+|. ..-..++++ -.|++..+..+.... .
T Consensus 220 ~lvvL~DVSGSm~-------~ys~---~~L~l~hAl~q~~~R~~--~F~F~-TRLt~vT~~l~~rD~~~Al~~~~a~v~d 286 (395)
T COG3552 220 PLVVLCDVSGSMS-------GYSR---IFLHLLHALRQQRSRVH--VFLFG-TRLTRVTHMLRERDLEDALRRLSAQVKD 286 (395)
T ss_pred CeEEEEecccchh-------hhHH---HHHHHHHHHHhccccee--EEEee-chHHHHHHHhccCCHHHHHHHHHhhccc
Confidence 8999999999996 3332 23345556656665555 66663 222223332 235555555555433 4
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEE-cCCCCCCccCHHHHHHHHHh
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILY-SALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~-ss~~t~d~~~i~~ti~~akk 217 (425)
-.|+|.+++++..=+...... .-+.+-+|+|+ ++.+..|.......+..+.+
T Consensus 287 w~ggTrig~tl~aF~~~~~~~-~L~~gA~VlilsDg~drd~~~~l~~~~~rl~r 339 (395)
T COG3552 287 WDGGTRIGNTLAAFLRRWHGN-VLSGGAVVLILSDGLDRDDIPELVTAMARLRR 339 (395)
T ss_pred ccCCcchhHHHHHHHcccccc-ccCCceEEEEEecccccCCchHHHHHHHHHHH
Confidence 578999999987644443321 12233455555 45554333334445555553
No 90
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=91.57 E-value=0.16 Score=50.36 Aligned_cols=76 Identities=25% Similarity=0.608 Sum_probs=47.1
Q ss_pred CeEEcCCCCccccC------------CCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccc
Q 014385 303 VGYTCPRCKARVCE------------LPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQ 370 (425)
Q Consensus 303 ~Gy~Cp~C~s~~C~------------lP~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~ 370 (425)
..+.|+.|...|=+ ||-+|.+||..|--+ -|-.. |+ . + -+-...-.|.-|.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRP-WLLQG--Hi-------R--T-----HTGEKPF~C~hC~ 222 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRP-WLLQG--HI-------R--T-----HTGEKPFSCPHCG 222 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccch-HHhhc--cc-------c--c-----ccCCCCccCCccc
Confidence 37899999988775 567999999875211 11000 11 0 0 0001233699999
Q ss_pred ccccCCCC--------CCCceeeCCCCCccccc
Q 014385 371 QSLLSSGN--------KPGLYVACPKCKKHFCL 395 (425)
Q Consensus 371 ~~~~~~~~--------~~~~~~~C~~C~~~fC~ 395 (425)
+.|.+..+ .....|+|++|++.|=.
T Consensus 223 kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 223 KAFADRSNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred chhcchHHHHHHHHhhcCCccccCcchhhHHHH
Confidence 99976521 12236999999998843
No 91
>PRK04023 DNA polymerase II large subunit; Validated
Probab=91.29 E-value=0.13 Score=58.69 Aligned_cols=69 Identities=29% Similarity=0.585 Sum_probs=44.5
Q ss_pred cccCCCCCCcccCccCCCCC-------CCCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhccCC
Q 014385 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 77999876643221110011 112457999998553 34789999975 99999766553 4
Q ss_pred CCCCCCCCCCC
Q 014385 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 49999875553
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=90.82 E-value=0.14 Score=39.90 Aligned_cols=37 Identities=19% Similarity=0.468 Sum_probs=20.8
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccccchh
Q 014385 360 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY 400 (425)
Q Consensus 360 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f 400 (425)
......|..|.++|.- ...++.|..|+..||.+|-.+
T Consensus 6 d~~~~~C~~C~~~F~~----~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 6 DSEASNCMICGKKFSL----FRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GGG-SB-TTT--B-BS----SS-EEE-TTT--EEECCCS-E
T ss_pred CCCCCcCcCcCCcCCC----ceeeEccCCCCCEECCchhCC
Confidence 3346689999999953 234799999999999999753
No 93
>KOG1226 consensus Integrin beta subunit (N-terminal portion of extracellular region) [Signal transduction mechanisms; Extracellular structures]
Probab=90.08 E-value=2.6 Score=47.23 Aligned_cols=166 Identities=18% Similarity=0.184 Sum_probs=92.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCce-------------------------
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA------------------------- 142 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A------------------------- 142 (425)
+||.++|+|-||.. | |...+++-.++.+++-..-..-|||+=.|-++..
T Consensus 134 DLYyLMDlS~SM~D-D-----l~~l~~LG~~L~~~m~~lT~nfrlGFGSFVDK~v~P~i~~~pekl~npc~~~~~C~ppf 207 (783)
T KOG1226|consen 134 DLYYLMDLSYSMKD-D-----LENLKSLGTDLAREMRKLTSNFRLGFGSFVDKTVSPYISTTPEKLRNPCPNYKNCAPPF 207 (783)
T ss_pred eEEEEeecchhhhh-h-----HHHHHHHHHHHHHHHHHHhccCCccccchhccccccccccCcHHhcCCCCCcccCCCCc
Confidence 99999999999963 2 3333333333333333222334566555432211
Q ss_pred --EEeeCCCCCHHHHHHHHhhh-----h-CCCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEcCC-------------
Q 014385 143 --NCLTDLGGSPESHIKALMGK-----L-GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSAL------------- 200 (425)
Q Consensus 143 --~~lsplT~d~~~~i~~L~~~-----~-~~~G~tsL~nAL~~A~~~L~~~p-~~~sreILiI~ss~------------- 200 (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 12345677877787777643 1 3667643 223333332 1110 12234566664321
Q ss_pred -------------------CCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE--ecChhHHHHHHH
Q 014385 201 -------------------STCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV--ALDESHFKELIM 259 (425)
Q Consensus 201 -------------------~t~d~~~i~~ti~~akk~~IrV~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 01234456677889999998766544555678889999988888884 344555666554
Q ss_pred hcC
Q 014385 260 EHA 262 (425)
Q Consensus 260 ~~~ 262 (425)
...
T Consensus 365 ~ay 367 (783)
T KOG1226|consen 365 EAY 367 (783)
T ss_pred HHH
Confidence 433
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=89.80 E-value=0.21 Score=45.67 Aligned_cols=26 Identities=31% Similarity=0.534 Sum_probs=22.2
Q ss_pred eEEcCCCCccccC-----CCCCCCCCCceec
Q 014385 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
>KOG1327 consensus Copine [Signal transduction mechanisms]
Probab=88.81 E-value=5.2 Score=43.38 Aligned_cols=153 Identities=14% Similarity=0.188 Sum_probs=90.8
Q ss_pred ceEEEEEeCCHhhh---------hCC-CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCC--c---eEEeeCCCCC
Q 014385 87 RYLYIVIDLSRAAA---------EMD-FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG--V---ANCLTDLGGS 151 (425)
Q Consensus 87 R~lvlvLD~S~SM~---------a~D-~~P~RL~~a~~~l~~Fv~~~~~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 38999999998832 223 56899999999999999887554 55676777543 1 1112233433
Q ss_pred H--------HHHHHHHhhhh---CCCCcchHHHHHHHHHHHHhCCCCC-CCcEEEEEEcCCCCCCccCHHHHHHHHHhCC
Q 014385 152 P--------ESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQIPSY-GHREVLILYSALSTCDPGDIMETIQKCKESK 219 (425)
Q Consensus 152 ~--------~~~i~~L~~~~---~~~G~tsL~nAL~~A~~~L~~~p~~-~sreILiI~ss~~t~d~~~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 4667777776666666655543111 1225888887654434333335555556666
Q ss_pred cEEEEEEecc-hHHHHHHHHHhhC
Q 014385 220 IRCSVIGLSA-EMFICKHLCQDTG 242 (425)
Q Consensus 220 IrV~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 6677777774 3455666554443
No 97
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=88.51 E-value=0.28 Score=45.83 Aligned_cols=27 Identities=30% Similarity=0.618 Sum_probs=22.9
Q ss_pred eEEcCCCCccccC-----CCCCCCCCCceecC
Q 014385 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=88.01 E-value=0.4 Score=32.71 Aligned_cols=24 Identities=33% Similarity=0.778 Sum_probs=19.8
Q ss_pred eEEcCCCCccccC--CCCCCCCCCce
Q 014385 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 58899999963
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=86.02 E-value=0.44 Score=35.44 Aligned_cols=34 Identities=26% Similarity=0.729 Sum_probs=27.8
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhh
Q 014385 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 4699999999642 345889999999999998764
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=84.48 E-value=0.47 Score=40.92 Aligned_cols=28 Identities=36% Similarity=0.859 Sum_probs=24.5
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceecCc
Q 014385 304 GYTCPRCKARVCEL---PTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lvss 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 47899999999876 68899999998776
No 101
>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=83.66 E-value=0.95 Score=30.52 Aligned_cols=22 Identities=36% Similarity=0.827 Sum_probs=18.5
Q ss_pred EEcCCCCccccCC--CCCCCCCCc
Q 014385 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 102
>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=83.22 E-value=0.36 Score=54.38 Aligned_cols=68 Identities=29% Similarity=0.681 Sum_probs=0.0
Q ss_pred hcccCCCCCCcccCccCCCCCC--------CCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhcc
Q 014385 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 014385 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 103
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=83.08 E-value=1.4 Score=33.99 Aligned_cols=47 Identities=21% Similarity=0.583 Sum_probs=36.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc---cccccchhhhccCCCCCCCCC
Q 014385 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 457999998886432 2467999999977 899998854 6788999975
No 104
>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=83.02 E-value=0.97 Score=28.65 Aligned_cols=24 Identities=21% Similarity=0.715 Sum_probs=16.7
Q ss_pred cccccccccCCCCCCCceeeCCCCCc
Q 014385 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 67787777532 2356899999984
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=82.76 E-value=0.89 Score=32.36 Aligned_cols=31 Identities=26% Similarity=0.526 Sum_probs=25.5
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 382 LYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
.-|+|++|++.|=.---+-= +....||.|..
T Consensus 4 Yey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 4 YEYRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEEEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 35899999999988876544 58899999987
No 106
>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=82.56 E-value=0.72 Score=40.80 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=26.4
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceecCchhHH
Q 014385 304 GYTCPRCKARVCEL---PTDCRICGLQLVSSPHLA 335 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l---P~~C~~C~l~LvssphLa 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 57999999999876 899999999976665443
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=82.39 E-value=0.73 Score=41.53 Aligned_cols=27 Identities=33% Similarity=0.760 Sum_probs=22.4
Q ss_pred eEEcCCCCccccC-----CC-----CCCCCCCceecC
Q 014385 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 33 689999999864
No 108
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=81.78 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 014385 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 109
>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=80.70 E-value=1.3 Score=38.13 Aligned_cols=35 Identities=26% Similarity=0.591 Sum_probs=26.1
Q ss_pred CCCCCCccccccccccCCCCCCCceeeCCCCCcccccc
Q 014385 359 RNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 396 (425)
Q Consensus 359 ~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~d 396 (425)
+.+.++.|..|.+.|..-... .-.||+|+..|=++
T Consensus 5 elGtKR~Cp~CG~kFYDLnk~---PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 5 ELGTKRTCPSCGAKFYDLNKD---PIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCcccCCCCcchhccCCCC---CccCCCCCCccCcc
Confidence 345688999999999876543 23599999987544
No 110
>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=80.31 E-value=1.2 Score=33.33 Aligned_cols=42 Identities=26% Similarity=0.639 Sum_probs=25.8
Q ss_pred Ccccc--ccccccCCCCCCCceeeCCCCCcccccccchhhhccC
Q 014385 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 48966 9887765432222236899999999999999888754
No 111
>PF11443 DUF2828: Domain of unknown function (DUF2828); InterPro: IPR024553 This uncharacterised domain is found in eukaryotic, bacterial and viral proteins.
Probab=79.90 E-value=29 Score=37.97 Aligned_cols=134 Identities=12% Similarity=0.171 Sum_probs=76.6
Q ss_pred ccccceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCC-HHHHHHHHhh
Q 014385 83 KGLIRYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS-PESHIKALMG 161 (425)
Q Consensus 83 rGiiR~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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-ENPQL-HKIKGDTLREKVRFIRR 406 (534)
T ss_pred cCCccceEEEEecCCccCcc-----HHHHHHHHHH-HHHHh-cccc-cCCeEEeec-CCceE-EEecCCCHHHHHHHHHh
Confidence 46678999999999999865 4555555444 44444 2333 334788884 44443 333444 3333344433
Q ss_pred hhCCCCcchHHHHHHHHHHHHhC--C-CCCCCcEEEEEEc---CCCCCC-----ccCHHHHHHHHHhCCcEEEEEEe
Q 014385 162 KLGCSGDSSLQNALDLVQGLLSQ--I-PSYGHREVLILYS---ALSTCD-----PGDIMETIQKCKESKIRCSVIGL 227 (425)
Q Consensus 162 ~~~~~G~tsL~nAL~~A~~~L~~--~-p~~~sreILiI~s---s~~t~d-----~~~i~~ti~~akk~~IrV~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 2446789999999887776433 2 1222355777764 111111 13444556777888866544444
No 112
>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=79.86 E-value=2 Score=36.15 Aligned_cols=31 Identities=19% Similarity=0.477 Sum_probs=18.6
Q ss_pred CCcccccccc--------ccCCCCCCCceeeCCCCCccc
Q 014385 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 112222345579999998653
No 113
>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=79.08 E-value=1.2 Score=32.78 Aligned_cols=30 Identities=33% Similarity=0.651 Sum_probs=21.8
Q ss_pred eEEcCCCCccccCC-------CCCCCCCCc----eecCchh
Q 014385 304 GYTCPRCKARVCEL-------PTDCRICGL----QLVSSPH 333 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l-------P~~C~~C~l----~Lvssph 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 114
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=78.64 E-value=21 Score=44.41 Aligned_cols=173 Identities=17% Similarity=0.162 Sum_probs=94.5
Q ss_pred hhhhccccceEEEEEeCCHhhhhCCCC---CChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH--H
Q 014385 79 ARIQKGLIRYLYIVIDLSRAAAEMDFR---PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--E 153 (425)
Q Consensus 79 ~~~rrGiiR~lvlvLD~S~SM~a~D~~---P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~--~ 153 (425)
.|.+|-- .++|.||=|.||.+..-. =.-|..+-+.+. +---.|++|+-|+ ...+.+-|+.... +
T Consensus 4387 kpskr~y--qvmisiddsksmses~~~~la~etl~lvtkals--------~le~g~iav~kfg-e~~~~lh~fdkqfs~e 4455 (4600)
T COG5271 4387 KPSKRTY--QVMISIDDSKSMSESGSTVLALETLALVTKALS--------LLEVGQIAVMKFG-EQPELLHPFDKQFSSE 4455 (4600)
T ss_pred CCcccee--EEEEEecccccccccCceeeehHHHHHHHHHHH--------HHhhccEEEEecC-CChhhhCchhhhhcch
Confidence 3444443 799999999999876532 233333333332 2225789999995 7778787774321 2
Q ss_pred HHHHHHhhhhCCCCcchHHHHHHHHHHHHhC---CCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec--
Q 014385 154 SHIKALMGKLGCSGDSSLQNALDLVQGLLSQ---IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-- 228 (425)
Q Consensus 154 ~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~~---~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg-- 228 (425)
.-.++.+-..-....|+...-...+++.+.. +.-|..+..=||++++--.|-..|.+.+..|++++|-+-.|-|.
T Consensus 4456 sg~~~f~~f~feqs~tnv~~l~~~s~k~f~~a~t~~h~d~~qleiiisdgicedhdsi~kllrra~e~kvmivfvild~v 4535 (4600)
T COG5271 4456 SGVQMFSHFTFEQSNTNVLALADASMKCFNYANTASHHDIRQLEIIISDGICEDHDSIRKLLRRAQEEKVMIVFVILDNV 4535 (4600)
T ss_pred HHHHHHHhhchhcccccHHHHHHHHHHHHHHhhhhcccchheeEEEeecCcccchHHHHHHHHHhhhcceEEEEEEecCC
Confidence 2233333211122234333222333333333 21233444444555443335567888899999999986555554
Q ss_pred -chHHH--HHHHHHhh---C---------------CeEEEecChhHHHHHHHhcC
Q 014385 229 -AEMFI--CKHLCQDT---G---------------GSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 229 -~e~~i--Lk~iA~~T---G---------------G~Y~~~~d~~~L~~lL~~~~ 262 (425)
+.-.| ++++-..| | --|.|+.|.+.|-++|..++
T Consensus 4536 ~t~~sildi~kv~y~~~e~g~~~lki~~yid~f~fd~ylvv~ni~elpqlls~~l 4590 (4600)
T COG5271 4536 NTQKSILDIKKVYYDTKEDGTMDLKIQPYIDEFAFDYYLVVRNIEELPQLLSSAL 4590 (4600)
T ss_pred ccchhhhhhHhhccccccCCCcceeeeechhcccceeEEEeccHHHHHHHHHHHH
Confidence 22222 23332222 2 34668889888888877654
No 115
>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=78.55 E-value=0.86 Score=30.30 Aligned_cols=14 Identities=64% Similarity=1.483 Sum_probs=10.1
Q ss_pred eEEcCCCCccccCC
Q 014385 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 116
>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=78.51 E-value=1.3 Score=28.59 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=19.6
Q ss_pred EcCCCCccccCCCCCCCCCCcee
Q 014385 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 117
>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=78.25 E-value=0.98 Score=31.92 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=29.4
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCC
Q 014385 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 488898888532 2356677 99999999965444445699988
No 118
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=77.84 E-value=1.5 Score=40.58 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=19.2
Q ss_pred eEEcCCCCcccc-CCCCCCCCCCce
Q 014385 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 599999997644 567799999964
No 119
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=77.78 E-value=2.1 Score=50.50 Aligned_cols=52 Identities=25% Similarity=0.632 Sum_probs=34.4
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCce
Q 014385 304 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLY 383 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~ 383 (425)
-+.||.|++.. +...|+.||..+ + ....|..|...++... +..
T Consensus 667 ~rkCPkCG~~t--~~~fCP~CGs~t--------------------e------------~vy~CPsCGaev~~de---s~a 709 (1337)
T PRK14714 667 RRRCPSCGTET--YENRCPDCGTHT--------------------E------------PVYVCPDCGAEVPPDE---SGR 709 (1337)
T ss_pred EEECCCCCCcc--ccccCcccCCcC--------------------C------------CceeCccCCCccCCCc---ccc
Confidence 47899999964 335999999874 0 0125889987765432 114
Q ss_pred eeCCCCCcc
Q 014385 384 VACPKCKKH 392 (425)
Q Consensus 384 ~~C~~C~~~ 392 (425)
..||.|+..
T Consensus 710 ~~CP~CGtp 718 (1337)
T PRK14714 710 VECPRCDVE 718 (1337)
T ss_pred ccCCCCCCc
Confidence 568888754
No 120
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.40 E-value=2 Score=45.06 Aligned_cols=47 Identities=19% Similarity=0.447 Sum_probs=33.4
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCC
Q 014385 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHS 417 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~ 417 (425)
...|..|...|..+ .-..|++.||..|-...=+.-..||.|......
T Consensus 26 ~l~C~IC~d~~~~P--------vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 26 SLRCHICKDFFDVP--------VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccCCCcCchhhhCc--------cCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 45899998776432 135899999999976444444579999874443
No 121
>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=77.30 E-value=6.9 Score=34.30 Aligned_cols=63 Identities=14% Similarity=0.201 Sum_probs=42.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec-chHHHHHHHHH
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQ 239 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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----RI-DTIVLVSGD-----SDFVPLVERLRELGKRVIVVGFEAKTSRELRKAAD 144 (149)
T ss_pred cCccHHHHHHHHHHhhhc----CC-CEEEEEECC-----ccHHHHHHHHHHcCCEEEEEccCccChHHHHHhCC
Confidence 345666666654444433 12 255555542 47888999999999999999998 44566777665
No 122
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=77.07 E-value=2.1 Score=33.00 Aligned_cols=48 Identities=21% Similarity=0.622 Sum_probs=36.2
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCc---ccccccchhhhccCCCCCCCCCC
Q 014385 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKK---HFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
...|.+|...+... .....|.||+|++ ..|.-|-. |-+...||.|.+.
T Consensus 9 ~~~CtSCg~~i~p~--e~~v~F~CPnCGe~~I~Rc~~CRk--~g~~Y~Cp~CGF~ 59 (61)
T COG2888 9 PPVCTSCGREIAPG--ETAVKFPCPNCGEVEIYRCAKCRK--LGNPYRCPKCGFE 59 (61)
T ss_pred CceeccCCCEeccC--CceeEeeCCCCCceeeehhhhHHH--cCCceECCCcCcc
Confidence 45899999988322 2345799999994 57888887 5677889999753
No 123
>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=77.03 E-value=1.5 Score=33.19 Aligned_cols=25 Identities=40% Similarity=0.954 Sum_probs=19.3
Q ss_pred eEEcCCCCccccCCC-------CCCCCCCceec
Q 014385 304 GYTCPRCKARVCELP-------TDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-------~~C~~C~l~Lv 329 (425)
-|.||.|++.+ ++| +.|+.||..|-
T Consensus 2 ~~~CP~CG~~i-ev~~~~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 2 QFECPDCGAEI-ELENPELGELVICDECGAELE 33 (54)
T ss_pred ccCCCCCCCEE-ecCCCccCCEEeCCCCCCEEE
Confidence 36899999866 555 48999998763
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=76.58 E-value=1.2 Score=32.13 Aligned_cols=24 Identities=33% Similarity=0.944 Sum_probs=17.3
Q ss_pred CeEEcCCCCc-cccCCCC----CCCCCCc
Q 014385 303 VGYTCPRCKA-RVCELPT----DCRICGL 326 (425)
Q Consensus 303 ~Gy~Cp~C~s-~~C~lP~----~C~~C~l 326 (425)
.|++||.|++ ++..+.. .|.-|+-
T Consensus 17 ~g~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 17 DGFVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 3899999999 5555555 6777753
No 125
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=75.62 E-value=2.3 Score=47.37 Aligned_cols=11 Identities=27% Similarity=0.767 Sum_probs=4.4
Q ss_pred hccCCCCCCCC
Q 014385 402 HESLHNCPGCE 412 (425)
Q Consensus 402 He~lh~CPgC~ 412 (425)
...-.+||.|.
T Consensus 38 ~~~~~fC~~CG 48 (645)
T PRK14559 38 PVDEAHCPNCG 48 (645)
T ss_pred CcccccccccC
Confidence 33333444443
No 126
>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=75.58 E-value=4.9 Score=34.31 Aligned_cols=55 Identities=13% Similarity=0.144 Sum_probs=36.8
Q ss_pred EEEEEEc-CCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChh
Q 014385 192 EVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES 252 (425)
Q Consensus 192 eILiI~s-s~~t~d~~~i~~ti~~akk~~IrV~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--SGGK-LLEMAREHGVPVIIIPKGL 100 (119)
T ss_pred CEEEEEECCCCC---HHHHHHHHHHHHCCCEEEEEe--CCch-HHHHHHHcCCcEEECCCCC
Confidence 3666665 4443 567789999999998665444 3333 8889998877777544433
No 127
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=75.31 E-value=1.5 Score=27.31 Aligned_cols=22 Identities=36% Similarity=0.844 Sum_probs=15.4
Q ss_pred cCCCCccccCCCCCCCCCCcee
Q 014385 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 7777777666666777777654
No 128
>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=75.31 E-value=1.9 Score=30.91 Aligned_cols=28 Identities=32% Similarity=0.942 Sum_probs=21.8
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccc
Q 014385 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 129
>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=75.29 E-value=4.1 Score=35.26 Aligned_cols=61 Identities=16% Similarity=0.190 Sum_probs=33.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEe-cchHHHHHHHHH
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGL-SAEMFICKHLCQ 239 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--D-TIVLVSGD-----SDFAPLVRKLRERGKRVIVVGAEDSASEALRSAAD 140 (146)
T ss_dssp -HHHHHHHHHHHG--GG-----S-EEEEE--------GGGHHHHHHHHHH--EEEEEE-GGGS-HHHHHHSS
T ss_pred cHHHHHHHHHHHhhccC--C--C-EEEEEECc-----HHHHHHHHHHHHcCCEEEEEEeCCCCCHHHHHhcC
Confidence 34444444444444332 2 3 44444432 5678899999999999999996 344577777765
No 130
>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=75.14 E-value=17 Score=37.90 Aligned_cols=110 Identities=13% Similarity=0.179 Sum_probs=60.0
Q ss_pred EEEEEeCCHhhhhCCCCCChHHH-HHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 89 LYIVIDLSRAAAEMDFRPSRMAV-VAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~-a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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---NVEICFIS-HHTEAKEVTE-----EEF---FH--KGESG 267 (371)
T ss_pred EEEEEeCCCCCCHH---HHHHHHHHHHHHHHHHHhccC---ceEEEEEe-ecCeeEEcCH-----HHh---cc--cCCCC
Confidence 56789999999521 112221 12245566765543 23345555 3456665443 111 11 14679
Q ss_pred cchHHHHHHHHHHHHhC-CCCCCCcEEEEEE-cCCCCCCccCHHHHHHHHHh
Q 014385 168 DSSLQNALDLVQGLLSQ-IPSYGHREVLILY-SALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~-~p~~~sreILiI~-ss~~t~d~~~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 222355554 3444322 333345555553
No 131
>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=75.05 E-value=1.3 Score=30.56 Aligned_cols=29 Identities=34% Similarity=0.675 Sum_probs=22.4
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCC
Q 014385 383 YVACPKCKKHFCLECDIYIHESLHNCPGC 411 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh~CPgC 411 (425)
...-..|++.||.+|=.-..+.-..||.|
T Consensus 11 ~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 11 PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 34678999999999977666667788877
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=74.88 E-value=1.8 Score=50.92 Aligned_cols=45 Identities=24% Similarity=0.668 Sum_probs=31.5
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccc-----ccccchhhhcc---CCCCCCCCCCCC
Q 014385 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 58999975432 23699999774 99998876533 236999986444
No 133
>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=74.40 E-value=13 Score=33.99 Aligned_cols=66 Identities=14% Similarity=0.053 Sum_probs=47.4
Q ss_pred CCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc------hHHHHHHHHHhhCCeEEEecChhHH
Q 014385 187 SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA------EMFICKHLCQDTGGSYSVALDESHF 254 (425)
Q Consensus 187 ~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~------e~~iLk~iA~~TGG~Y~~~~d~~~L 254 (425)
.+..++|+||.|+..+ -+|=..+++.|.+.|++|.++.++. +...-.++++.+|+.+....+...+
T Consensus 22 ~~~~~~v~il~G~GnN--GgDgl~~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 93 (169)
T PF03853_consen 22 SPKGPRVLILCGPGNN--GGDGLVAARHLANRGYNVTVYLVGPPEKLSEDAKQQLEILKKMGIKIIELDSDEDL 93 (169)
T ss_dssp CCTT-EEEEEE-SSHH--HHHHHHHHHHHHHTTCEEEEEEEESSSSTSHHHHHHHHHHHHTT-EEESSCCGSGG
T ss_pred ccCCCeEEEEECCCCC--hHHHHHHHHHHHHCCCeEEEEEEeccccCCHHHHHHHHHHHhcCCcEeeccccchh
Confidence 3456779999987643 5677889999999999999977764 3466778888999888865555444
No 134
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=74.29 E-value=1.8 Score=29.99 Aligned_cols=29 Identities=38% Similarity=0.776 Sum_probs=21.2
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 014385 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 58899888865432 234467999999987
No 135
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=74.12 E-value=1.2 Score=31.73 Aligned_cols=24 Identities=33% Similarity=0.785 Sum_probs=14.3
Q ss_pred EEcCCCCcccc--C---CCCCCCCCCcee
Q 014385 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 136
>COG3864 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.79 E-value=13 Score=37.87 Aligned_cols=79 Identities=10% Similarity=0.252 Sum_probs=45.1
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~G 167 (425)
.+++++|.|+||.+.. +.++...+.+. + .||.-++-+|-. |..+.....+..- ..+...+...|
T Consensus 263 ~i~vaVDtSGS~~d~e-----i~a~~~Ei~~I----l-~~~~~eltli~~-D~~v~~~~~~r~g-----~~~~~~~~ggG 326 (396)
T COG3864 263 KIVVAVDTSGSMTDAE-----IDAAMTEIFDI----L-KNKNYELTLIEC-DNIVRRMYRVRKG-----RDMKKKLDGGG 326 (396)
T ss_pred heEEEEecCCCccHHH-----HHHHHHHHHHH----H-hCCCcEEEEEEe-cchhhhhhccCCc-----ccCCcccCCCC
Confidence 3789999999996432 22333333322 2 477777888775 5555543333211 01111234567
Q ss_pred cchHHHHHHHHHHHH
Q 014385 168 DSSLQNALDLVQGLL 182 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L 182 (425)
+|+++-+++..-+.+
T Consensus 327 ~Tdf~Pvfeylek~~ 341 (396)
T COG3864 327 GTDFSPVFEYLEKNR 341 (396)
T ss_pred CccccHHHHHHHhhc
Confidence 799998888655443
No 137
>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=73.40 E-value=3.2 Score=28.75 Aligned_cols=26 Identities=31% Similarity=0.646 Sum_probs=20.3
Q ss_pred EEcCCCCccccC------CCCCCCCCCceecC
Q 014385 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 138
>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=73.08 E-value=2.7 Score=28.98 Aligned_cols=31 Identities=26% Similarity=0.575 Sum_probs=22.4
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 382 LYVACPKCKKHFCLECDIYIHESLHNCPGCES 413 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~ 413 (425)
..|+|+.|++.|=..-.+-. +.+..||.|..
T Consensus 4 Y~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 4 YEYRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEEEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 35899999998855443322 66788999987
No 139
>PLN03086 PRLI-interacting factor K; Provisional
Probab=71.79 E-value=5.2 Score=43.86 Aligned_cols=17 Identities=18% Similarity=0.112 Sum_probs=9.8
Q ss_pred EeecCCceEEeeCCCCC
Q 014385 135 VTVKDGVANCLTDLGGS 151 (425)
Q Consensus 135 I~~~~g~A~~lsplT~d 151 (425)
+..-.|+.-.+.|++.+
T Consensus 179 ~~Lpkgt~vklqP~~~~ 195 (567)
T PLN03086 179 IWLPKGTYAKLQPDGVG 195 (567)
T ss_pred eecCCCCEEEEeeccCC
Confidence 34445666667776653
No 140
>PRK05325 hypothetical protein; Provisional
Probab=71.70 E-value=18 Score=38.10 Aligned_cols=109 Identities=13% Similarity=0.217 Sum_probs=59.8
Q ss_pred EEEEEeCCHhhhhCCCCCChHHHH-HHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCC
Q 014385 89 LYIVIDLSRAAAEMDFRPSRMAVV-AKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSG 167 (425)
Q Consensus 89 lvlvLD~S~SM~a~D~~P~RL~~a-~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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---EKDLAKRFFFLLYLFLRRKYE---NVEVVFIR-HHTEAKEVDE-----EEF---FY--SRESG 287 (401)
T ss_pred EEEEEeCCCCCchH---HHHHHHHHHHHHHHHHHhccC---ceEEEEEe-ecCceeEcCH-----HHc---cc--cCCCC
Confidence 56789999999632 1122222 2235566665443 13344444 3456665543 111 10 14679
Q ss_pred cchHHHHHHHHHHHHhC-CCCCCCcEEEEEEc-CCCCCCccCHHHHHHHHH
Q 014385 168 DSSLQNALDLVQGLLSQ-IPSYGHREVLILYS-ALSTCDPGDIMETIQKCK 216 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~-~p~~~sreILiI~s-s~~t~d~~~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 2223555543 444322 33344555554
No 141
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=71.08 E-value=2.2 Score=43.12 Aligned_cols=40 Identities=33% Similarity=0.708 Sum_probs=31.3
Q ss_pred CccccccccccCCCCCCCcee-eCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 48999987764 34 555799999999976 355889999964
No 142
>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=70.82 E-value=20 Score=38.11 Aligned_cols=108 Identities=15% Similarity=0.238 Sum_probs=60.4
Q ss_pred EEEEEeCCHhhhhC--CCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 89 LYIVIDLSRAAAEM--DFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 89 lvlvLD~S~SM~a~--D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~ 166 (425)
++.++|+|+||... |+. ......+..|+...++ .-.+-.|+. +-.|.-+.. +++ .. ...+
T Consensus 249 v~~lmDvSGSM~~~~K~la----k~ff~~l~~fL~~~Y~---~Ve~vfI~H-~t~A~EVdE-----e~F---F~--~~es 310 (421)
T PF04285_consen 249 VFCLMDVSGSMGEFKKDLA----KRFFFWLYLFLRRKYE---NVEIVFIRH-HTEAKEVDE-----EEF---FH--SRES 310 (421)
T ss_pred EEEEEeCCCCCchHHHHHH----HHHHHHHHHHHHhccC---ceEEEEEee-cCceEEecH-----HHh---cc--cCCC
Confidence 56789999999632 321 1222345667765544 244555554 466655442 111 11 2467
Q ss_pred CcchHHHHHHHHHHHHhC-CCCCCCcEEEEE-EcCCCCCCccCHHHHHHHHH
Q 014385 167 GDSSLQNALDLVQGLLSQ-IPSYGHREVLIL-YSALSTCDPGDIMETIQKCK 216 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~-~p~~~sreILiI-~ss~~t~d~~~i~~ti~~ak 216 (425)
|||-+..|+++|+..+.. .|+. .=.|=++ +|++++-+ .|-..+++.|+
T Consensus 311 GGT~vSSA~~l~~~ii~erypp~-~wNiY~~~~SDGDN~~-~D~~~~~~ll~ 360 (421)
T PF04285_consen 311 GGTRVSSAYELALEIIEERYPPS-DWNIYVFHASDGDNWS-SDNERCVELLE 360 (421)
T ss_pred CCeEehHHHHHHHHHHHhhCChh-hceeeeEEcccCcccc-CCCHHHHHHHH
Confidence 999999999999999986 4432 2235555 34444422 23234444444
No 143
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=70.78 E-value=1.9 Score=43.63 Aligned_cols=28 Identities=36% Similarity=0.648 Sum_probs=21.4
Q ss_pred ceeeecCCccccCeEEcCCCCccccCCC
Q 014385 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 144
>PRK12496 hypothetical protein; Provisional
Probab=70.31 E-value=3 Score=38.40 Aligned_cols=28 Identities=29% Similarity=0.535 Sum_probs=22.4
Q ss_pred eEEcCCCCccccCCC--CCCCCCCceecCc
Q 014385 304 GYTCPRCKARVCELP--TDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP--~~C~~C~l~Lvss 331 (425)
.|.|+-|+..|=+-+ ..||+||..|.-=
T Consensus 127 ~~~C~gC~~~~~~~~~~~~C~~CG~~~~r~ 156 (164)
T PRK12496 127 RKVCKGCKKKYPEDYPDDVCEICGSPVKRK 156 (164)
T ss_pred eEECCCCCccccCCCCCCcCCCCCChhhhc
Confidence 799999999987544 4699999887543
No 145
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=70.00 E-value=4.7 Score=30.13 Aligned_cols=43 Identities=26% Similarity=0.671 Sum_probs=30.7
Q ss_pred CCccc--cccccccCCCCCCCceeeCCCCCcccccccchhhhccC
Q 014385 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 34688 99766654321223457899999999999988888644
No 146
>COG0528 PyrH Uridylate kinase [Nucleotide transport and metabolism]
Probab=69.90 E-value=28 Score=34.18 Aligned_cols=45 Identities=20% Similarity=0.374 Sum_probs=35.7
Q ss_pred cceEEEEEeCCHhhhhCC----CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEe
Q 014385 86 IRYLYIVIDLSRAAAEMD----FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVT 136 (425)
Q Consensus 86 iR~lvlvLD~S~SM~a~D----~~P~RL~~a~~~l~~Fv~~~~~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 356678999999987775 6788999988888877764 34799998
No 147
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=69.37 E-value=55 Score=36.12 Aligned_cols=89 Identities=15% Similarity=0.155 Sum_probs=59.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 GTMGFGMPAAMGVKVALP---DEEVICIAGDASF--LMNI-QELGTLAQYGINVKTVIINNGWQGMVRQWQESFYGERYS 507 (616)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcchHh--hhhH-HHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCCce
Confidence 345555555554322222 4668888886532 1222 4578899999999988886431 1
Q ss_pred ---------HHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 1347899999999999999999998877653
No 148
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.67 E-value=3.7 Score=38.49 Aligned_cols=30 Identities=27% Similarity=0.655 Sum_probs=26.5
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCCCC
Q 014385 386 CPKCKKHFCLECDIYIHESLHNCPGCESLR 415 (425)
Q Consensus 386 C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~ 415 (425)
=.+|+++||..|=.=.-..-|.||-|-..+
T Consensus 148 sTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 148 STKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred ccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 469999999999999999999999998543
No 149
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=68.62 E-value=2.9 Score=39.16 Aligned_cols=28 Identities=36% Similarity=0.785 Sum_probs=23.2
Q ss_pred eEEcCCCCcccc-----CCCCCCCCCCceecCc
Q 014385 304 GYTCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C-----~lP~~C~~C~l~Lvss 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 999999999884 5667899999888643
No 150
>KOG4465 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.55 E-value=29 Score=36.09 Aligned_cols=126 Identities=16% Similarity=0.192 Sum_probs=67.4
Q ss_pred eEEEEEeCCHhhhhCCCCCChHHH-HHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCH--HHHHHHHhhhhC
Q 014385 88 YLYIVIDLSRAAAEMDFRPSRMAV-VAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP--ESHIKALMGKLG 164 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~RL~~-a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~--~~~i~~L~~~~~ 164 (425)
...++||+|.||...-+. +-|.+ ......-+|+ .+.....-+|+|.+.-. -.|+|.|. ..++.++.++
T Consensus 429 r~~laldvs~sm~~rv~~-s~ln~reaaa~m~lin----lhnead~~~vaf~d~lt--e~pftkd~kigqv~~~~nni-- 499 (598)
T KOG4465|consen 429 RFCLALDVSASMNQRVLG-SILNAREAAAAMCLIN----LHNEADSRCVAFCDELT--ECPFTKDMKIGQVLDAMNNI-- 499 (598)
T ss_pred eEEEEEecchhhhhhhhc-cccchHHHHhhhheee----eccccceeEEEeccccc--cCCCcccccHHHHHHHHhcC--
Confidence 678999999999755432 22221 1111222232 33345577888864433 36888873 3444555442
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHH--HHHHHHHh-CCc---EEEEEEecc
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKE-SKI---RCSVIGLSA 229 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~--~ti~~akk-~~I---rV~vIglg~ 229 (425)
+.|+|+-+.-+--|.. + ...-.|.||+.+.++- .|.|+ ++|+..++ .+| ++-|+++.+
T Consensus 500 ~~g~tdcglpm~wa~e--n----nlk~dvfii~tdndt~-ageihp~~aik~yrea~~i~dakliv~amqa 563 (598)
T KOG4465|consen 500 DAGGTDCGLPMIWAQE--N----NLKADVFIIFTDNDTF-AGEIHPAEAIKEYREAMDIHDAKLIVCAMQA 563 (598)
T ss_pred CCCCCccCCceeehhh--c----CCCccEEEEEecCccc-ccccCHHHHHHHHHHhcCCCcceEEEEEeec
Confidence 5566643322222211 1 1223488888777663 46665 56766654 455 477777754
No 151
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=68.41 E-value=2.7 Score=28.79 Aligned_cols=25 Identities=32% Similarity=0.709 Sum_probs=17.9
Q ss_pred EEcCCCCccccC----CC-----CCCCCCCceec
Q 014385 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 679999996652 21 57999998763
No 152
>PRK04023 DNA polymerase II large subunit; Validated
Probab=68.02 E-value=3.8 Score=47.36 Aligned_cols=23 Identities=26% Similarity=0.743 Sum_probs=19.0
Q ss_pred CeEEcCCCCccccCCCCCCCCCCce
Q 014385 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 55789999986
No 153
>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=67.69 E-value=5.1 Score=36.01 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=8.4
Q ss_pred eeeCCCCCccc
Q 014385 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 47888888776
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=66.92 E-value=4.3 Score=35.98 Aligned_cols=34 Identities=12% Similarity=0.186 Sum_probs=25.1
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccc
Q 014385 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 45678999999999876432 34699999887443
No 155
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=65.45 E-value=4.6 Score=27.83 Aligned_cols=29 Identities=34% Similarity=0.651 Sum_probs=20.5
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 014385 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 58899888864431 233457999999887
No 156
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=65.18 E-value=2 Score=45.90 Aligned_cols=33 Identities=24% Similarity=0.633 Sum_probs=26.1
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccc
Q 014385 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 235689999999999995
No 157
>PHA02929 N1R/p28-like protein; Provisional
Probab=64.73 E-value=6.3 Score=38.65 Aligned_cols=51 Identities=22% Similarity=0.543 Sum_probs=35.5
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 457999997765321100001134689999999998777788889999965
No 158
>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=64.51 E-value=47 Score=29.97 Aligned_cols=88 Identities=9% Similarity=0.023 Sum_probs=60.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 456666666655433222 46788888876431 22 25577899999998888775321
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 1256788999999998889899988888765
No 159
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=64.43 E-value=3.6 Score=34.98 Aligned_cols=25 Identities=32% Similarity=0.704 Sum_probs=19.4
Q ss_pred eEEcCCCCccccC-------CCCCCCCCCcee
Q 014385 304 GYTCPRCKARVCE-------LPTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~-------lP~~C~~C~l~L 328 (425)
-|.||+|++..-. .-..|+.||...
T Consensus 21 ~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y~ 52 (99)
T PRK14892 21 IFECPRCGKVSISVKIKKNIAIITCGNCGLYT 52 (99)
T ss_pred EeECCCCCCeEeeeecCCCcceEECCCCCCcc
Confidence 7999999976443 257999999873
No 160
>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=64.23 E-value=4.5 Score=30.13 Aligned_cols=22 Identities=36% Similarity=0.851 Sum_probs=16.3
Q ss_pred EEcCCCCccccC-----------------CCC--CCCCCCc
Q 014385 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 665 7888875
No 161
>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=62.20 E-value=5.1 Score=29.34 Aligned_cols=30 Identities=27% Similarity=0.770 Sum_probs=22.6
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccch
Q 014385 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 358999999 6677888854
No 162
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=61.93 E-value=8.2 Score=38.72 Aligned_cols=51 Identities=18% Similarity=0.458 Sum_probs=39.0
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCcc
Q 014385 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 420 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~ 420 (425)
....|.-|+..-.. -.|.-|++.||..|=.=--..---||=|-..-.++.|
T Consensus 238 a~~kC~LCLe~~~~--------pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN--------PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCCC--------CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 45689999844322 2388999999999988888888889999876555544
No 163
>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=61.63 E-value=28 Score=32.12 Aligned_cols=76 Identities=21% Similarity=0.291 Sum_probs=49.3
Q ss_pred HHHHHHhhh-h---CCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 154 SHIKALMGK-L---GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 154 ~~i~~L~~~-~---~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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---NIDAVALVTRD-----ADFLPVINKAKENGKETIVIGAEP 139 (160)
T ss_pred HHHHHHHHCCceEEEecCcccHHHHHHH-HHHhcc-C---CCCEEEEEecc-----HhHHHHHHHHHHCCCEEEEEeCCC
Confidence 345555543 1 24677787777764 444421 1 11366666653 578889999999999999999753
Q ss_pred -hHHHHHHHHH
Q 014385 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 3457888876
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=61.55 E-value=5.7 Score=26.73 Aligned_cols=41 Identities=27% Similarity=0.510 Sum_probs=27.8
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhcc-CCCCCCCCC
Q 014385 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
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=61.47 E-value=3.9 Score=31.55 Aligned_cols=27 Identities=26% Similarity=0.721 Sum_probs=22.2
Q ss_pred EcCCCCccc-----cCCCCCCCCCCceecCch
Q 014385 306 TCPRCKARV-----CELPTDCRICGLQLVSSP 332 (425)
Q Consensus 306 ~Cp~C~s~~-----C~lP~~C~~C~l~Lvssp 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 567789999999986543
No 166
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=61.45 E-value=2.3 Score=43.25 Aligned_cols=56 Identities=30% Similarity=0.695 Sum_probs=36.6
Q ss_pred CCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccc
Q 014385 319 TDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECD 398 (425)
Q Consensus 319 ~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD 398 (425)
..|..|+=.||.|+-+---+|= +|-+|....-. .+.+|.-||
T Consensus 16 itC~LC~GYliDATTI~eCLHT------------------------FCkSCivk~l~--------------~~~~CP~C~ 57 (331)
T KOG2660|consen 16 ITCRLCGGYLIDATTITECLHT------------------------FCKSCIVKYLE--------------ESKYCPTCD 57 (331)
T ss_pred eehhhccceeecchhHHHHHHH------------------------HHHHHHHHHHH--------------HhccCCccc
Confidence 3566677777777666554442 47777533211 156788888
Q ss_pred hhhhcc--CCCCCCCC
Q 014385 399 IYIHES--LHNCPGCE 412 (425)
Q Consensus 399 ~fiHe~--lh~CPgC~ 412 (425)
++||.+ |++++.+-
T Consensus 58 i~ih~t~pl~ni~~Dr 73 (331)
T KOG2660|consen 58 IVIHKTHPLLNIRSDR 73 (331)
T ss_pred eeccCccccccCCcch
Confidence 999998 88887764
No 167
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=60.72 E-value=88 Score=34.51 Aligned_cols=79 Identities=15% Similarity=0.057 Sum_probs=50.4
Q ss_pred CCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--H----HHHHHHHHhhCCeEE-EecChhHHHHHH
Q 014385 186 PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--M----FICKHLCQDTGGSYS-VALDESHFKELI 258 (425)
Q Consensus 186 p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e--~----~iLk~iA~~TGG~Y~-~~~d~~~L~~lL 258 (425)
+++....|.||++|.+ |-.-..+++..|++.||...+--.++. . .+.++.....--.+. .+.-..||-.++
T Consensus 406 ~~~~~~~v~i~~gs~s--d~~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~~~ 483 (577)
T PLN02948 406 LPKGTPLVGIIMGSDS--DLPTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPGMV 483 (577)
T ss_pred CCCCCCeEEEEECchh--hHHHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchHHH
Confidence 3455667999998754 433344889999999999775555543 1 223333322223444 357778999999
Q ss_pred HhcCCCCc
Q 014385 259 MEHAPPPP 266 (425)
Q Consensus 259 ~~~~~Pp~ 266 (425)
..+++-|.
T Consensus 484 a~~t~~pv 491 (577)
T PLN02948 484 ASMTPLPV 491 (577)
T ss_pred hhccCCCE
Confidence 88886664
No 168
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=60.16 E-value=2.7 Score=44.27 Aligned_cols=27 Identities=41% Similarity=1.005 Sum_probs=22.6
Q ss_pred eEEcCCCCccccCCC-----------CCCCCCCceecC
Q 014385 304 GYTCPRCKARVCELP-----------TDCRICGLQLVS 330 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-----------~~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 999999999987643 379999998873
No 169
>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=59.94 E-value=5.6 Score=28.63 Aligned_cols=29 Identities=24% Similarity=0.768 Sum_probs=21.8
Q ss_pred ccccccccccCCCCCCCceeeCCCCC-cccccccch
Q 014385 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 170
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=59.83 E-value=8.7 Score=27.86 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=16.8
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 014385 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 171
>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=59.79 E-value=6.6 Score=28.68 Aligned_cols=30 Identities=23% Similarity=0.616 Sum_probs=21.0
Q ss_pred ceeeCCCCCcccccccchhhhc-cCCCCCCCCC
Q 014385 382 LYVACPKCKKHFCLECDIYIHE-SLHNCPGCES 413 (425)
Q Consensus 382 ~~~~C~~C~~~fC~dCD~fiHe-~lh~CPgC~~ 413 (425)
..|+|++|+..|=..- -+++ .+-.||.|.+
T Consensus 4 Yey~C~~Cg~~fe~~~--~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 4 YEYRCTACGHRFEVLQ--KMSDDPLATCPECGG 34 (52)
T ss_pred EEEEeCCCCCEeEEEE--ecCCCCCCCCCCCCC
Confidence 3589999999775442 2233 5668999987
No 172
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=58.56 E-value=9.8 Score=42.48 Aligned_cols=35 Identities=26% Similarity=0.630 Sum_probs=24.3
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcc------cccccchhhhcc
Q 014385 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKH------FCLECDIYIHES 404 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~------fC~dCD~fiHe~ 404 (425)
+..+|..|..++.. -.||.|+.. ||..|-..+...
T Consensus 14 ~akFC~~CG~~l~~--------~~Cp~CG~~~~~~~~fC~~CG~~~~~~ 54 (645)
T PRK14559 14 NNRFCQKCGTSLTH--------KPCPQCGTEVPVDEAHCPNCGAETGTI 54 (645)
T ss_pred CCccccccCCCCCC--------CcCCCCCCCCCcccccccccCCcccch
Confidence 45688888877642 248888876 888887765543
No 173
>PF14369 zf-RING_3: zinc-finger
Probab=58.11 E-value=7 Score=26.84 Aligned_cols=28 Identities=29% Similarity=0.673 Sum_probs=13.2
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 014385 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 57777655532211111 11477776655
No 174
>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=57.93 E-value=92 Score=28.51 Aligned_cols=92 Identities=12% Similarity=0.023 Sum_probs=61.9
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH--------------
Q 014385 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-------------- 231 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--MMNS-QELETAVRLKIPLVVLIWNDNGYGLIKWKQEKEYGR 118 (177)
T ss_pred CCChhhhhHHHHHHHHHHhCC---CCcEEEEEcchHH--HhHH-HHHHHHHHHCCCeEEEEEECCcchHHHHHHHHhcCC
Confidence 344566666666665432222 4568888886431 0111 4577788999998888775321
Q ss_pred --------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 12457999999999999999999999887764
No 175
>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=57.53 E-value=22 Score=28.28 Aligned_cols=41 Identities=17% Similarity=0.180 Sum_probs=34.9
Q ss_pred ceEEEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcC
Q 014385 87 RYLYIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQN 127 (425)
Q Consensus 87 R~lvlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~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 38999999999998877778899999999998888876653
No 176
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.42 E-value=12 Score=37.46 Aligned_cols=35 Identities=29% Similarity=0.844 Sum_probs=25.5
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 177
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=57.16 E-value=7.3 Score=29.75 Aligned_cols=25 Identities=28% Similarity=0.739 Sum_probs=20.1
Q ss_pred EEcCCCCccccCCCCCCCCCCceecCc
Q 014385 305 YTCPRCKARVCELPTDCRICGLQLVSS 331 (425)
Q Consensus 305 y~Cp~C~s~~C~lP~~C~~C~l~Lvss 331 (425)
-.||.|+.. .|-..||.||..+.++
T Consensus 6 r~C~~CgvY--TLk~~CP~CG~~t~~~ 30 (56)
T PRK13130 6 RKCPKCGVY--TLKEICPVCGGKTKNP 30 (56)
T ss_pred eECCCCCCE--EccccCcCCCCCCCCC
Confidence 579999988 4578999999886554
No 178
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=56.84 E-value=7.3 Score=27.36 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=17.3
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCC
Q 014385 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 12224566653
No 179
>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=55.99 E-value=3.4 Score=35.85 Aligned_cols=47 Identities=26% Similarity=0.598 Sum_probs=31.9
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhh-hccCCCCCCC
Q 014385 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 23679999999999999993 3444445444
No 180
>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=55.58 E-value=40 Score=30.82 Aligned_cols=71 Identities=15% Similarity=0.124 Sum_probs=49.7
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----------------------HHHHHHHHhhCCeEEE
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------------FICKHLCQDTGGSYSV 247 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 45699998865421 11135677788999998888875321 2378899999999999
Q ss_pred ecChhHHH---HHHHhcC
Q 014385 248 ALDESHFK---ELIMEHA 262 (425)
Q Consensus 248 ~~d~~~L~---~lL~~~~ 262 (425)
+.+.++|+ +.|.+..
T Consensus 147 v~~~~~l~~~~~al~~a~ 164 (178)
T cd02008 147 VVDPYDLKAIREELKEAL 164 (178)
T ss_pred ecCccCHHHHHHHHHHHH
Confidence 88888887 4445543
No 181
>COG3958 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]
Probab=55.56 E-value=54 Score=33.28 Aligned_cols=67 Identities=22% Similarity=0.403 Sum_probs=48.9
Q ss_pred CHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecCh-------hHHHHHHHhcCCCCccchhhhhhc
Q 014385 207 DIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDE-------SHFKELIMEHAPPPPAIAEFAIAN 275 (425)
Q Consensus 207 ~i~~ti~~akk~~IrV~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 44588999999999999999986 678899999999 544444332 236677777775 33
Q ss_pred eeeecCCCC
Q 014385 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 347888854
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=54.93 E-value=38 Score=29.89 Aligned_cols=88 Identities=15% Similarity=0.060 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~----------------- 231 (425)
.+++.|+..|+..=...| .|+|++|.|+..- .-....+.++.+.+++|-+|-+..+.
T Consensus 28 g~mG~~~~~aiGa~~a~p---~~~vv~i~GDG~f---~~~~~el~ta~~~~~~v~~vv~nN~~~~~~~~~~~~~~~~~~~ 101 (153)
T PF02775_consen 28 GSMGYALPAAIGAALARP---DRPVVAITGDGSF---LMSLQELATAVRYGLPVVIVVLNNGGYGMTGGQQTPFGGGRFS 101 (153)
T ss_dssp T-TTTHHHHHHHHHHHST---TSEEEEEEEHHHH---HHHGGGHHHHHHTTSSEEEEEEESSBSHHHHHHHHHTTSTCHH
T ss_pred cccCCHHHhhhHHHhhcC---cceeEEecCCcce---eeccchhHHHhhccceEEEEEEeCCcceEeccccccCcCcccc
Confidence 344444444443332233 5779999886431 11125688899999999999886420
Q ss_pred ---------HHHHHHHHhhCCeEEEecCh--hHHHHHHHhcC
Q 014385 232 ---------FICKHLCQDTGGSYSVALDE--SHFKELIMEHA 262 (425)
Q Consensus 232 ---------~iLk~iA~~TGG~Y~~~~d~--~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+. ++|++.|.+..
T Consensus 102 ~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~~~el~~al~~a~ 143 (153)
T PF02775_consen 102 GVDGKTFPNPDFAALAEAFGIKGARVTTPDPEELEEALREAL 143 (153)
T ss_dssp STBTTTSTTCGHHHHHHHTTSEEEEESCHSHHHHHHHHHHHH
T ss_pred cccccccccCCHHHHHHHcCCcEEEEccCCHHHHHHHHHHHH
Confidence 13789999999998888777 99999988776
No 183
>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=54.78 E-value=5.9 Score=27.48 Aligned_cols=34 Identities=24% Similarity=0.610 Sum_probs=25.7
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc
Q 014385 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 184
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=54.55 E-value=3.3 Score=46.30 Aligned_cols=43 Identities=28% Similarity=0.622 Sum_probs=31.4
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc-CCCCCCCCCC
Q 014385 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 4799999665432 24589999999997654444 4589999863
No 185
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=53.87 E-value=88 Score=32.95 Aligned_cols=79 Identities=13% Similarity=0.032 Sum_probs=45.3
Q ss_pred HHHHHHHHHh-CCcEEEEEEecch--HHHHHHHHHhhCCeEEE-ecChhHHHHHHHhcCCCCccch-hhhhhceeeecCC
Q 014385 208 IMETIQKCKE-SKIRCSVIGLSAE--MFICKHLCQDTGGSYSV-ALDESHFKELIMEHAPPPPAIA-EFAIANLIKMGFP 282 (425)
Q Consensus 208 i~~ti~~akk-~~IrV~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 EIPLARFLSRECGMELVEVGTPYLNRRFLAAELALLPDGVRIVEGQDVERQLDRIRAL-RPDLVVCGLGLANPLEAEGIT 380 (427)
T ss_pred HHHHHHHHHHhCCCEEEEeCCCCCCHHHHHHHHHhccCCCEEEECCCHHHHHHHHHHc-CCCEEEccCccCCchhhcCCc
Confidence 3456777887 9999977777543 22223344444455432 24555666666553 2333221 1233589999999
Q ss_pred CCCCC
Q 014385 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 87543
No 186
>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=53.40 E-value=1.7e+02 Score=27.46 Aligned_cols=91 Identities=13% Similarity=0.032 Sum_probs=60.5
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H------------
Q 014385 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------ 232 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 344567777777766543332 4568888876532 1 12 24577789999999888886431 1
Q ss_pred -----------------------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 187
>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=53.22 E-value=8.2 Score=28.45 Aligned_cols=28 Identities=25% Similarity=0.762 Sum_probs=21.4
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCC---cccccccc
Q 014385 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 3589999998 67888883
No 188
>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=52.68 E-value=8.9 Score=27.84 Aligned_cols=29 Identities=24% Similarity=0.834 Sum_probs=21.7
Q ss_pred ccccccc-cccCCCCCCCceeeCCCC-Ccccccccch
Q 014385 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 442 358999999 5778988854
No 189
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=52.51 E-value=2e+02 Score=30.57 Aligned_cols=92 Identities=11% Similarity=0.066 Sum_probs=60.5
Q ss_pred CcchHHHHHHHHHHHHhCC-C-----CCCCcEEEEEEcCCCCCCccCH---HHHHHHHHhCCcEEEEEEecch----HHH
Q 014385 167 GDSSLQNALDLVQGLLSQI-P-----SYGHREVLILYSALSTCDPGDI---METIQKCKESKIRCSVIGLSAE----MFI 233 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~-p-----~~~sreILiI~ss~~t~d~~~i---~~ti~~akk~~IrV~vIglg~e----~~i 233 (425)
+..++.......+..|... | ....++|++|+|... + |.- ...+..+.+.+.+|-+|...+- +..
T Consensus 176 ~~~~~~~v~~~~~~~L~~~l~~~~~~~~~~~~ii~lvGptG-v--GKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQ 252 (407)
T PRK12726 176 ETAHLDDITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTG-V--GKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQ 252 (407)
T ss_pred ccccHHHHHHHHHHHhcCcEeeCCCceecCCeEEEEECCCC-C--CHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHH
Confidence 3345677777777777652 1 123457888887432 1 322 2334455677888888888653 578
Q ss_pred HHHHHHhhCCeEEEecChhHHHHHHHhc
Q 014385 234 CKHLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 234 Lk~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
|+..|+..|=-++++.++.++.+.+..+
T Consensus 253 Lk~yae~lgvpv~~~~dp~dL~~al~~l 280 (407)
T PRK12726 253 FQGYADKLDVELIVATSPAELEEAVQYM 280 (407)
T ss_pred HHHHhhcCCCCEEecCCHHHHHHHHHHH
Confidence 9999999886667788888888776544
No 190
>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=52.45 E-value=1.3e+02 Score=27.98 Aligned_cols=89 Identities=10% Similarity=0.067 Sum_probs=58.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--GMSM-MEIMTAVRHKLPVTAVVFRNRQWGAEKKNQVDFYNNRFV 126 (196)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcchHH--hccH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHHcCCCcc
Confidence 445555555555422222 4668888886532 1222 4567788899998888875321
Q ss_pred ------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 11457888899999999999999988887763
No 191
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=52.43 E-value=42 Score=31.24 Aligned_cols=65 Identities=17% Similarity=0.272 Sum_probs=46.0
Q ss_pred CCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-HHHHHHHHH
Q 014385 165 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQ 239 (425)
Q Consensus 165 ~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 457788888888776666432 22 55666543 5677789999999999999999873 245666653
No 192
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=52.27 E-value=3.5 Score=40.80 Aligned_cols=32 Identities=34% Similarity=0.789 Sum_probs=21.4
Q ss_pred CCCCCCCceecC-chhHHhhh---cccCCCCCCc-cc
Q 014385 319 TDCRICGLQLVS-SPHLARSY---HHLFPIAPFD-EV 350 (425)
Q Consensus 319 ~~C~~C~l~Lvs-sphLarsy---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 345667766543 23456665 8999999998 54
No 193
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=52.08 E-value=6.2 Score=23.62 Aligned_cols=13 Identities=38% Similarity=0.899 Sum_probs=9.7
Q ss_pred eeCCCCCcccccc
Q 014385 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 7899998887433
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=51.54 E-value=10 Score=27.05 Aligned_cols=30 Identities=23% Similarity=0.710 Sum_probs=20.5
Q ss_pred CCccccccccccCCCCCCCceeeCCCC-Ccccccccc
Q 014385 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 SYSCDTCGKPIV------GVRYHCLVCPDYDLCQSCF 34 (44)
T ss_pred CcCCCCCCCCCc------CCEEECCCCCCccchHHHH
Confidence 347999997654 248999998 344566663
No 195
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=51.43 E-value=6.3 Score=29.64 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=16.5
Q ss_pred CCCCCCCCCCceecCchhHHhhhc
Q 014385 316 ELPTDCRICGLQLVSSPHLARSYH 339 (425)
Q Consensus 316 ~lP~~C~~C~l~LvssphLarsyh 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 467899999999999999999753
No 196
>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=50.99 E-value=1.4e+02 Score=26.27 Aligned_cols=90 Identities=12% Similarity=0.052 Sum_probs=59.7
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 34466666666666443332 45688888865431 12 36778888889998888886431
Q ss_pred --------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0255677888888888888888888777654
No 197
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.49 E-value=24 Score=30.74 Aligned_cols=23 Identities=35% Similarity=0.687 Sum_probs=17.3
Q ss_pred CeEEcCCCCcccc--------CCCCCCCCCC
Q 014385 303 VGYTCPRCKARVC--------ELPTDCRICG 325 (425)
Q Consensus 303 ~Gy~Cp~C~s~~C--------~lP~~C~~C~ 325 (425)
+.|.|++|+..|| +.=-.||.|.
T Consensus 80 ~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 80 HRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred cceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 4899999999999 2223577765
No 198
>PTZ00260 dolichyl-phosphate beta-glucosyltransferase; Provisional
Probab=50.48 E-value=1.5e+02 Score=30.07 Aligned_cols=96 Identities=13% Similarity=0.128 Sum_probs=59.5
Q ss_pred hHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh----------hCCCCcchHHHHHHH
Q 014385 108 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----------LGCSGDSSLQNALDL 177 (425)
Q Consensus 108 RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~----------~~~~G~tsL~nAL~~ 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 6777777777777777777776667788776664 23344454444321 111222345566666
Q ss_pred HHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh
Q 014385 178 VQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 217 (425)
Q Consensus 178 A~~~L~~~p~~~sreILiI~ss~~t~d~~~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 5542 13468888888777788887777777654
No 199
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=49.87 E-value=74 Score=32.15 Aligned_cols=108 Identities=19% Similarity=0.279 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCH-------H-HHHHHHHhCCcEEEEEEecc----hHHHHHHHH
Q 014385 171 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-------M-ETIQKCKESKIRCSVIGLSA----EMFICKHLC 238 (425)
Q Consensus 171 L~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i-------~-~ti~~akk~~IrV~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 2344556666543 44222 1 56888899999999888777 889999999
Q ss_pred Hh--hCCeEEEecChhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014385 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 99 5556666666666888888777777655 222334555566554
No 200
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=49.75 E-value=10 Score=28.09 Aligned_cols=44 Identities=30% Similarity=0.650 Sum_probs=21.6
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhc-cCCCCCCCCC
Q 014385 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 5789999964
No 201
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.69 E-value=7.8 Score=38.40 Aligned_cols=51 Identities=24% Similarity=0.615 Sum_probs=36.7
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchh--hhccCCCCCCCCCCCCCCcc
Q 014385 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 3668999984432 356999999999999654 24555679999876665544
No 202
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=49.58 E-value=6.3 Score=27.94 Aligned_cols=12 Identities=33% Similarity=0.874 Sum_probs=7.1
Q ss_pred CCCcccccccch
Q 014385 388 KCKKHFCLECDI 399 (425)
Q Consensus 388 ~C~~~fC~dCD~ 399 (425)
.|++.||..|=.
T Consensus 15 ~CGH~FC~~Cl~ 26 (42)
T PF15227_consen 15 PCGHSFCRSCLE 26 (42)
T ss_dssp SSSSEEEHHHHH
T ss_pred CCcCHHHHHHHH
Confidence 466666666633
No 203
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=49.29 E-value=60 Score=31.12 Aligned_cols=56 Identities=21% Similarity=0.276 Sum_probs=42.9
Q ss_pred HHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH
Q 014385 174 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 174 AL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 45566666666654336779999987653 578889999999999999999999654
No 204
>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=49.29 E-value=1.8e+02 Score=27.06 Aligned_cols=88 Identities=11% Similarity=0.062 Sum_probs=57.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 345555555554321222 4678888886532 1222 4567799999999999886431 1
Q ss_pred -----------------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 134578888888888999999988888765
No 205
>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=47.69 E-value=88 Score=32.74 Aligned_cols=79 Identities=14% Similarity=0.015 Sum_probs=43.1
Q ss_pred HHHHHHHHHhCCcEEEEEEecchH-HH-HHHHHHhhCCeEE-EecChhHHHHHHHhcCCCCccch-hhhhhceeeecCCC
Q 014385 208 IMETIQKCKESKIRCSVIGLSAEM-FI-CKHLCQDTGGSYS-VALDESHFKELIMEHAPPPPAIA-EFAIANLIKMGFPQ 283 (425)
Q Consensus 208 i~~ti~~akk~~IrV~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 456688889999988777765431 12 2222223233222 224545555555443 2333221 12346899999998
Q ss_pred CCCC
Q 014385 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 206
>PRK08611 pyruvate oxidase; Provisional
Probab=47.28 E-value=91 Score=34.10 Aligned_cols=89 Identities=9% Similarity=0.051 Sum_probs=61.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--SMVM-QDFVTAVKYKLPIVVVVLNNQQLAFIKYEQQAAGELEYA 481 (576)
T ss_pred hhhhhhHHHHHHHHHhC---CCCcEEEEEcccHH--hhhH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCccc
Confidence 45555666555533222 24679999886532 1222 4567899999999888886321
Q ss_pred -----HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 12577899999999999999999999887763
No 207
>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=47.15 E-value=18 Score=27.61 Aligned_cols=47 Identities=21% Similarity=0.488 Sum_probs=29.2
Q ss_pred CccccccccccCCC-CCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCC
Q 014385 364 STCFGCQQSLLSSG-NKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHS 417 (425)
Q Consensus 364 ~~C~~C~~~~~~~~-~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~ 417 (425)
..|--|.+.|+... ....-.|+| .||.+|-.-+- -+.||.|......
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfEC-----TFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFEC-----TFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeC-----cccHHHHHHHh--cCcCcCCCCcccc
Confidence 36999999997542 112223555 58888854221 3789999875443
No 208
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=46.88 E-value=10 Score=24.12 Aligned_cols=19 Identities=32% Similarity=0.861 Sum_probs=8.6
Q ss_pred ccccchhhhccCCCCCCCC
Q 014385 394 CLECDIYIHESLHNCPGCE 412 (425)
Q Consensus 394 C~dCD~fiHe~lh~CPgC~ 412 (425)
|..|-..+.+.-.+||.|.
T Consensus 5 Cp~Cg~~~~~~~~fC~~CG 23 (26)
T PF13248_consen 5 CPNCGAEIDPDAKFCPNCG 23 (26)
T ss_pred CcccCCcCCcccccChhhC
Confidence 3333344444445555554
No 209
>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=46.81 E-value=6.6 Score=28.43 Aligned_cols=44 Identities=25% Similarity=0.517 Sum_probs=32.5
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc-cccccchhhhccCCCCCCCCCCC
Q 014385 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 468888855432 223368999 99999999999999999997654
No 210
>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=46.17 E-value=9.2 Score=24.96 Aligned_cols=28 Identities=25% Similarity=0.755 Sum_probs=9.6
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccccccc
Q 014385 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 58889866642 24688777665555444
No 211
>PRK00420 hypothetical protein; Validated
Probab=46.10 E-value=11 Score=32.67 Aligned_cols=26 Identities=27% Similarity=0.604 Sum_probs=19.1
Q ss_pred eEEcCCCCccccCC---CCCCCCCCceec
Q 014385 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 56799998866643 368999998654
No 212
>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=46.09 E-value=1.7e+02 Score=26.29 Aligned_cols=88 Identities=15% Similarity=0.075 Sum_probs=56.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-HH--------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI-------------- 233 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~-~i-------------- 233 (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 556656655555433222 4568888886543 1 222 5677788889998888776431 11
Q ss_pred ---------------HHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 234 ---------------CKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 234 ---------------Lk~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 34577777788887778888877776665
No 213
>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=45.93 E-value=15 Score=26.98 Aligned_cols=10 Identities=40% Similarity=0.999 Sum_probs=5.9
Q ss_pred EEcCCCCccc
Q 014385 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 5666666544
No 214
>PRK06260 threonine synthase; Validated
Probab=45.75 E-value=14 Score=38.60 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=30.2
Q ss_pred eEEcCCCCccccC--CCCCCCCCCceecCchhHH-----------hhhcccCCCC
Q 014385 304 GYTCPRCKARVCE--LPTDCRICGLQLVSSPHLA-----------RSYHHLFPIA 345 (425)
Q Consensus 304 Gy~Cp~C~s~~C~--lP~~C~~C~l~LvssphLa-----------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 5899999998743 4467999987766554433 2378888884
No 215
>PRK05978 hypothetical protein; Provisional
Probab=45.55 E-value=12 Score=34.09 Aligned_cols=23 Identities=26% Similarity=0.761 Sum_probs=19.3
Q ss_pred EcCCCCc-----cccCCCCCCCCCCcee
Q 014385 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 4558889999999986
No 216
>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=45.53 E-value=1.7e+02 Score=26.54 Aligned_cols=90 Identities=10% Similarity=-0.028 Sum_probs=57.9
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--AMLM-GDLITAVKYNLPVIVVVFNNSDLGFIKWEQEVMGQPE 122 (178)
T ss_pred CCchhhhHHHHHHHHHHhC---CCCcEEEEEcchHH--HhhH-HHHHHHHHhCCCcEEEEEECCchhHHHHHHHHhcCCc
Confidence 3346666666665532222 24678888886543 1222 3466788888888777775321
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 1246788888888888888888888777655
No 217
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=45.52 E-value=9 Score=42.41 Aligned_cols=46 Identities=22% Similarity=0.639 Sum_probs=34.7
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchh--------hhccCCCCCCCC
Q 014385 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--------IHESLHNCPGCE 412 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~f--------iHe~lh~CPgC~ 412 (425)
+..|+.|.+.|..... -+-|-.|+.+||..|-.+ |-+-...|-.|-
T Consensus 165 ~~~C~rCr~~F~~~~r----kHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~ 218 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTNR----KHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCY 218 (634)
T ss_pred ccccceeeeeeeeccc----cccccccchhhccCccccccCcccccccccceehhhhH
Confidence 4579999999975432 367999999999999754 434457788883
No 218
>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=45.26 E-value=2.1e+02 Score=25.81 Aligned_cols=70 Identities=11% Similarity=0.165 Sum_probs=39.4
Q ss_pred cEEEEEEcCCCCCCccCHHHHHH-HHHhCCcEEEEEEec-----chHHHHHHHHHhhCCeEEEecChhH------HHHHH
Q 014385 191 REVLILYSALSTCDPGDIMETIQ-KCKESKIRCSVIGLS-----AEMFICKHLCQDTGGSYSVALDESH------FKELI 258 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~-~akk~~IrV~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---DGTVQILEFAAAKPNFQLKILNNSRVSISGKKNALTTAIKAAKGDWIVTTDADCVVPSNWLLTFV 104 (229)
T ss_pred eEEEEEcCC-CC---cChHHHHHHHHhCCCcceEEeeccCcccchhHHHHHHHHHHhcCCEEEEECCCcccCHHHHHHHH
Confidence 467766543 22 22344444 445556666666443 1234566677778899998776653 55555
Q ss_pred HhcCCC
Q 014385 259 MEHAPP 264 (425)
Q Consensus 259 ~~~~~P 264 (425)
..+..+
T Consensus 105 ~~~~~~ 110 (229)
T cd04192 105 AFIQKE 110 (229)
T ss_pred HHhhcC
Confidence 544433
No 219
>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=45.26 E-value=8.6 Score=26.89 Aligned_cols=14 Identities=36% Similarity=0.994 Sum_probs=6.0
Q ss_pred cccccccchhh-hcc
Q 014385 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 220
>smart00355 ZnF_C2H2 zinc finger.
Probab=45.21 E-value=5.9 Score=23.49 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=18.1
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 014385 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 221
>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=44.76 E-value=1.9e+02 Score=26.41 Aligned_cols=88 Identities=10% Similarity=0.026 Sum_probs=56.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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---PDKTVICIDGDGSFQ--MNI-QELATAAQYNLPVKIVILNNGSLGMVRQWQELFYEGRYS 123 (186)
T ss_pred cchhchHHHHHHHHHhC---CCCeEEEEEcccHHh--ccH-HHHHHHHHhCCCeEEEEEECCccHHHHHHHHHHcCCcee
Confidence 35555555555542222 245688888765321 222 4477788999998888876431
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0145678888888888888888888876654
No 222
>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=44.67 E-value=1.4e+02 Score=30.49 Aligned_cols=69 Identities=9% Similarity=0.094 Sum_probs=40.2
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhC--CcEEEEEEec------chHHHHHHHHHhhCCeEEEecChhH------HH
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKES--KIRCSVIGLS------AEMFICKHLCQDTGGSYSVALDESH------FK 255 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~--~IrV~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 GFQMLFGVQDP--DDP--ALAVVRRLRADFPDADIDLVIDARRHGPNRKVSNLINMLPHARHDILVIADSDISVGPDYLR 145 (373)
T ss_pred CeEEEEEeCCC--CCc--HHHHHHHHHHhCCCCceEEEECCCCCCCChHHHHHHHHHHhccCCEEEEECCCCCcChhHHH
Confidence 45787754432 222 23455555543 4566666322 2345677778888999998877663 55
Q ss_pred HHHHhcC
Q 014385 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 223
>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=43.50 E-value=1.4e+02 Score=27.52 Aligned_cols=91 Identities=14% Similarity=0.092 Sum_probs=61.3
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch----------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---------------- 230 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 33466666666665432222 3568888886543 234444 6678888888887776421
Q ss_pred ---HHHHHHHHHhhC----CeEEEecChhHHHHHHHhcCC
Q 014385 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 023678999998 588889999999999888764
No 224
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=43.19 E-value=38 Score=38.47 Aligned_cols=130 Identities=16% Similarity=0.315 Sum_probs=71.2
Q ss_pred HHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCCCCccchhhhhhceeeec--CCCCC---
Q 014385 211 TIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMG--FPQRA--- 285 (425)
Q Consensus 211 ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~Pp~~~~~~~~~~Li~mG--FP~~~--- 285 (425)
++..+++.+++| .||+...-|...+..-.|.|-... |..=.. ...+|...--.++.....-| |+...
T Consensus 341 A~~Ra~~~~~pv---vLgSATPSLES~~~~~~g~y~~~~----L~~R~~-~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~ 412 (730)
T COG1198 341 AVLRAKKENAPV---VLGSATPSLESYANAESGKYKLLR----LTNRAG-RARLPRVEIIDMRKEPLETGRSLSPALLEA 412 (730)
T ss_pred HHHHHHHhCCCE---EEecCCCCHHHHHhhhcCceEEEE----cccccc-ccCCCcceEEeccccccccCccCCHHHHHH
Confidence 577888888864 577777777777777888777421 111112 12233222112222222222 33221
Q ss_pred -----CCCCcceeeecCCccccCeEE----cCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCC
Q 014385 286 -----GEGSISICSCHKEVKVGVGYT----CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLN 356 (425)
Q Consensus 286 -----~~~~~a~C~CH~~~~~~~Gy~----Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~ 356 (425)
..+-+++=|=.+ . ||. |..|+.+ .+||-|...|+ ||--
T Consensus 413 i~~~l~~geQ~llflnR----R-Gys~~l~C~~Cg~v-----~~Cp~Cd~~lt--------~H~~--------------- 459 (730)
T COG1198 413 IRKTLERGEQVLLFLNR----R-GYAPLLLCRDCGYI-----AECPNCDSPLT--------LHKA--------------- 459 (730)
T ss_pred HHHHHhcCCeEEEEEcc----C-CccceeecccCCCc-----ccCCCCCcceE--------EecC---------------
Confidence 123344434332 2 664 9988877 56999998863 3311
Q ss_pred CCCCCCCCccccccccccCCCCCCCceeeCCCCCcc
Q 014385 357 DPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH 392 (425)
Q Consensus 357 ~~~~~~~~~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 225
>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=43.09 E-value=12 Score=25.56 Aligned_cols=26 Identities=31% Similarity=0.662 Sum_probs=19.5
Q ss_pred CCCCCcccccccchhhhc--cCCCCCCC
Q 014385 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 226
>PHA02768 hypothetical protein; Provisional
Probab=42.55 E-value=18 Score=27.52 Aligned_cols=19 Identities=21% Similarity=0.606 Sum_probs=15.2
Q ss_pred CCCCCCceecCchhHHhhh
Q 014385 320 DCRICGLQLVSSPHLARSY 338 (425)
Q Consensus 320 ~C~~C~l~LvssphLarsy 338 (425)
+|+.||..+..+.||.+..
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~ 25 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHL 25 (55)
T ss_pred CcchhCCeeccHHHHHHHH
Confidence 5667899999999997653
No 227
>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=42.43 E-value=2.5e+02 Score=27.16 Aligned_cols=72 Identities=11% Similarity=0.009 Sum_probs=49.8
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------------HHHHHHHHHhhCCeEEEec--ChhHH
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------------MFICKHLCQDTGGSYSVAL--DESHF 254 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 567888888664 3566678889999998886433333321 2346788888888888776 77777
Q ss_pred HHHHHhcC
Q 014385 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 77776543
No 228
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=42.11 E-value=16 Score=34.79 Aligned_cols=52 Identities=21% Similarity=0.417 Sum_probs=34.3
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhh-hc---------------cCCCCCCCCCCCCCCccc
Q 014385 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI-HE---------------SLHNCPGCESLRHSNPIV 421 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fi-He---------------~lh~CPgC~~~~~~~~~~ 421 (425)
+...|.-|...+.++ .-..|++.||..|=.-. +- .-..||-|........++
T Consensus 17 ~~~~CpICld~~~dP--------VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 17 GDFDCNICLDQVRDP--------VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CccCCccCCCcCCCc--------EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 456799998666432 23679999999997522 21 134899998766544443
No 229
>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=41.96 E-value=98 Score=27.86 Aligned_cols=70 Identities=10% Similarity=-0.059 Sum_probs=48.2
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEEEEEEecch-------------HHHHHHHHHhhCCeEEEecChhHHHH
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSAE-------------MFICKHLCQDTGGSYSVALDESHFKE 256 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~-~IrV~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 RKVIVVDGDGSL--LMNP-GVLLTAGEFTPLNLILVVLDNRAYGSTGGQPTPSSNVNLEAWAAACGYLVLSAPLLGGLGS 136 (157)
T ss_pred CcEEEEECchHH--Hhcc-cHHHHHHHhcCCCEEEEEEeCccccccCCcCCCCCCCCHHHHHHHCCCceEEcCCHHHHHH
Confidence 668888886532 0111 234555565 577776666432 12478899999999999999999999
Q ss_pred HHHhcCC
Q 014385 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 9888764
No 230
>KOG2327 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku70 autoantigen) [Replication, recombination and repair]
Probab=41.96 E-value=4e+02 Score=29.68 Aligned_cols=139 Identities=17% Similarity=0.333 Sum_probs=76.0
Q ss_pred eEEEEEeCCHhhhhCC---CCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCc------eEEeeCCCCCHHHHHHH
Q 014385 88 YLYIVIDLSRAAAEMD---FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV------ANCLTDLGGSPESHIKA 158 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D---~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~------A~~lsplT~d~~~~i~~ 158 (425)
.+.+++|+|+||...+ +.++-|..++..+....-...-.||..-+|++-+.... -..+.|+-.-++..+..
T Consensus 20 ~ilfvi~~~~s~~~~~~~e~~lspl~~~L~~~~~l~~~~vitn~~~~~~v~~y~~~~~~~~~~~~~l~~l~d~~~~~~~k 99 (602)
T KOG2327|consen 20 AILFVIDVNPSMKAEEPDEFKLSPLKMILDCIDRLCIQLVITNPIDSVGVLFYGTEETEGLENNTLLFPLGDLGQEEVKK 99 (602)
T ss_pred ceEEEEecCHHhhccCcccchhhhHHHHHHHHHHHHhheeecCCCCccceEeecccccccCccceEEeeccccChHHHHH
Confidence 4689999999997644 35777777777777666666667999989988774222 12445554333333333
Q ss_pred Hhhhh------------C-CCCcchHHHHHHHHHHHHhCCC-CCCCcEEEEEEcCCCCCCccCHH--HHHHHHHhCCcEE
Q 014385 159 LMGKL------------G-CSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRC 222 (425)
Q Consensus 159 L~~~~------------~-~~G~tsL~nAL~~A~~~L~~~p-~~~sreILiI~ss~~t~d~~~i~--~ti~~akk~~IrV 222 (425)
+.++. . ....++|.+-|......+.... ....++|.+++.-..-.--+++. ..++.++...-+
T Consensus 100 ~~~~~e~~~q~~~~~~~~~~~~~s~ls~vl~~c~~~~~~~~~~~~~krv~l~Td~d~P~~~~~~~~~a~l~r~k~~~~~- 178 (602)
T KOG2327|consen 100 ILELFEEENQLSAVNFYGGMHQKSDLSNVLNYCKRMVFASQKKLSNKRVFLFTDNDNPHERDDFLESAHLQRAKDLVTK- 178 (602)
T ss_pred HHHHhhhhhhhhhhhccCcccccccHHHHHHHHHHHHHHHhhhcccceEEEEecCCCcccccchHHHhhhhhhhhcccc-
Confidence 32211 1 1112357777776665444321 22345566666533222113333 345555554433
Q ss_pred EEEEec
Q 014385 223 SVIGLS 228 (425)
Q Consensus 223 ~vIglg 228 (425)
.||++
T Consensus 179 -~i~~~ 183 (602)
T KOG2327|consen 179 -DIGFH 183 (602)
T ss_pred -eeeee
Confidence 44444
No 231
>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=41.55 E-value=77 Score=26.54 Aligned_cols=74 Identities=19% Similarity=0.259 Sum_probs=47.6
Q ss_pred CCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhCCeEEEecChh------HHHHHHH
Q 014385 189 GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDES------HFKELIM 259 (425)
Q Consensus 189 ~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e---~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL~ 259 (425)
..-||||+-++. + .+..+.++.+.+.+.+|.+|-.... ...+....+...|.|+...|++ .+..++.
T Consensus 26 ~~~eiivvdd~s-~---d~~~~~~~~~~~~~~~i~~i~~~~n~g~~~~~n~~~~~a~~~~i~~ld~D~~~~~~~l~~l~~ 101 (169)
T PF00535_consen 26 PDFEIIVVDDGS-T---DETEEILEEYAESDPNIRYIRNPENLGFSAARNRGIKHAKGEYILFLDDDDIISPDWLEELVE 101 (169)
T ss_dssp CEEEEEEEECS--S---SSHHHHHHHHHCCSTTEEEEEHCCCSHHHHHHHHHHHH--SSEEEEEETTEEE-TTHHHHHHH
T ss_pred CCEEEEEecccc-c---cccccccccccccccccccccccccccccccccccccccceeEEEEeCCCceEcHHHHHHHHH
Confidence 345677765543 2 3456778888777778888887754 4667777788888899776665 3677766
Q ss_pred hcCCCCc
Q 014385 260 EHAPPPP 266 (425)
Q Consensus 260 ~~~~Pp~ 266 (425)
.+..+|+
T Consensus 102 ~~~~~~~ 108 (169)
T PF00535_consen 102 ALEKNPP 108 (169)
T ss_dssp HHHHCTT
T ss_pred HHHhCCC
Confidence 6665443
No 232
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=41.29 E-value=1.3e+02 Score=32.97 Aligned_cols=91 Identities=8% Similarity=0.011 Sum_probs=62.6
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--GISM-NEVMTAVRHNWPVTAVVFRNYQWGAEKKNQVDFYNNR 506 (588)
T ss_pred cccccccHHHHHHHHHHhCC---CCcEEEEEcCchH--hccH-HHHHHHHHhCCCeEEEEEeCchhHHHHHHHHHHhCCC
Confidence 33456666666666443332 4668888886532 1222 4567899999999888876421
Q ss_pred ---------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 12466999999999999999999988877664
No 233
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=41.14 E-value=11 Score=33.56 Aligned_cols=24 Identities=25% Similarity=0.800 Sum_probs=18.2
Q ss_pred eEEcCCCCccccCC--CCCCCCCCce
Q 014385 304 GYTCPRCKARVCEL--PTDCRICGLQ 327 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l--P~~C~~C~l~ 327 (425)
++.||.|++..=+- -+.||+||.+
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~~ 53 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGYR 53 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCce
Confidence 89999999865542 2589999953
No 234
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=41.01 E-value=21 Score=25.78 Aligned_cols=25 Identities=28% Similarity=0.602 Sum_probs=19.1
Q ss_pred eEEcCCCCccccC---CCCCCCCCCcee
Q 014385 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 4999999986653 357899998654
No 235
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=40.96 E-value=2.7e+02 Score=26.77 Aligned_cols=117 Identities=15% Similarity=0.198 Sum_probs=69.5
Q ss_pred EEEEeCCHhhhhCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCCcc
Q 014385 90 YIVIDLSRAAAEMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDS 169 (425)
Q Consensus 90 vlvLD~S~SM~a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~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---GEN-----SVSRKLADEFIETYKEKHPNDEVIERDLA---AEPIPHLD---EELLAAWFKPQAGEGTA 69 (202)
T ss_pred EEEEecCCC---ccc-----cHHHHHHHHHHHHHHHhCCCCeEEEeecc---cCCCcccC---HHHHhcccCCccCCCCH
Confidence 677887765 222 34556788999999999999998766553 12222222 22333332222223346
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCC-CCccCHHHHHHHHHhCCcEEE
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALST-CDPGDIMETIQKCKESKIRCS 223 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t-~d~~~i~~ti~~akk~~IrV~ 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 78888998888887651 122 4555544444 223344455888888887766
No 236
>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=40.88 E-value=22 Score=24.05 Aligned_cols=24 Identities=38% Similarity=0.825 Sum_probs=16.9
Q ss_pred EEcCCCCccccC---CCCCCCCCCcee
Q 014385 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 346899998643
No 237
>PHA00733 hypothetical protein
Probab=40.40 E-value=22 Score=31.42 Aligned_cols=33 Identities=24% Similarity=0.612 Sum_probs=26.6
Q ss_pred eEEcCCCCcccc------------CCCCCCCCCCceecCchhHHh
Q 014385 304 GYTCPRCKARVC------------ELPTDCRICGLQLVSSPHLAR 336 (425)
Q Consensus 304 Gy~Cp~C~s~~C------------~lP~~C~~C~l~LvssphLar 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 799999987655 235699999999999988865
No 238
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.36 E-value=15 Score=36.67 Aligned_cols=31 Identities=23% Similarity=0.477 Sum_probs=15.5
Q ss_pred eeCCCCCcccccccchhhhc--cCCCCCCCCCC
Q 014385 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 44445666666666443222 22456666543
No 239
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=40.20 E-value=15 Score=36.30 Aligned_cols=90 Identities=29% Similarity=0.622 Sum_probs=60.0
Q ss_pred cceee-ecCCcc--ccCeEEcCCCCccccCCC------------CCCCCCCceecCchhHHhhhc-ccCCCCCCcccCcc
Q 014385 290 ISICS-CHKEVK--VGVGYTCPRCKARVCELP------------TDCRICGLQLVSSPHLARSYH-HLFPIAPFDEVTPL 353 (425)
Q Consensus 290 ~a~C~-CH~~~~--~~~Gy~Cp~C~s~~C~lP------------~~C~~C~l~LvssphLarsyh-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 55654 665432 234799999999877644 3799999999886 45544 57777766654
Q ss_pred CCCCCCCCCCCccccccccccCCC----CC--CCceeeCCCCCccc
Q 014385 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 3457999988875321 00 01148899998876
No 240
>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=40.19 E-value=10 Score=30.29 Aligned_cols=33 Identities=27% Similarity=0.634 Sum_probs=19.2
Q ss_pred ecCCccccC-eEEcCCCCccccCCCCCCCCCCcee
Q 014385 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 CQQELEWQGGHYHCEACQKDYKK-EAFCPDCGQPL 40 (70)
T ss_dssp S-SBEEEETTEEEETTT--EEEE-EEE-TTT-SB-
T ss_pred CCCccEEeCCEEECcccccccee-cccCCCcccHH
Confidence 677665443 8999999997643 35799998764
No 241
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=40.10 E-value=8.6 Score=36.95 Aligned_cols=24 Identities=25% Similarity=0.380 Sum_probs=13.2
Q ss_pred eeeCCCCCcccccccchhhhccCC
Q 014385 383 YVACPKCKKHFCLECDIYIHESLH 406 (425)
Q Consensus 383 ~~~C~~C~~~fC~dCD~fiHe~lh 406 (425)
.|+|+.|+..-|.-=+.|.|-.+|
T Consensus 212 l~vcedcg~t~~~~e~~~~h~~~~ 235 (267)
T KOG3576|consen 212 LYVCEDCGYTSERPEVYYLHLKLH 235 (267)
T ss_pred eeeecccCCCCCChhHHHHHHHhc
Confidence 466666666555544555554443
No 242
>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=40.00 E-value=9.7 Score=31.76 Aligned_cols=38 Identities=29% Similarity=0.608 Sum_probs=27.1
Q ss_pred CCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccccccc
Q 014385 317 LPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLL 374 (425)
Q Consensus 317 lP~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~ 374 (425)
-++.|+.|+.+| ++.+|.|+-.|.-. .+.|.-|..+++
T Consensus 32 ~rS~C~~C~~~L--------~~~~lIPi~S~l~l------------rGrCr~C~~~I~ 69 (92)
T PF06750_consen 32 PRSHCPHCGHPL--------SWWDLIPILSYLLL------------RGRCRYCGAPIP 69 (92)
T ss_pred CCCcCcCCCCcC--------cccccchHHHHHHh------------CCCCcccCCCCC
Confidence 357888898886 45667777666542 568999987775
No 243
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=39.88 E-value=15 Score=31.80 Aligned_cols=9 Identities=33% Similarity=0.996 Sum_probs=4.1
Q ss_pred ccccccccc
Q 014385 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 444454444
No 244
>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=39.33 E-value=23 Score=35.46 Aligned_cols=36 Identities=28% Similarity=0.614 Sum_probs=27.2
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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 245
>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=39.13 E-value=14 Score=37.47 Aligned_cols=26 Identities=23% Similarity=0.735 Sum_probs=15.0
Q ss_pred CCCcccccccchhhhc-cCCCCCCCCC
Q 014385 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 5777777777443321 2236777764
No 246
>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=39.08 E-value=16 Score=25.88 Aligned_cols=26 Identities=38% Similarity=0.768 Sum_probs=15.9
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCC
Q 014385 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 3589999999999864 3456677764
No 247
>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=38.95 E-value=1.2e+02 Score=27.55 Aligned_cols=70 Identities=13% Similarity=0.198 Sum_probs=48.0
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-------------------------HHHHHHHHhhCCe
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-------------------------FICKHLCQDTGGS 244 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~-------------------------~iLk~iA~~TGG~ 244 (425)
.|+|+.|+|++.- -.+ .+.+.++.+.+++|-+|-+.... .-..++|+.-|+.
T Consensus 68 ~~~Vv~i~GDGsf--~m~-~~eL~ta~~~~l~v~ivVlNN~~~g~~~~~~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~ 144 (175)
T cd02009 68 DKPTVLLTGDLSF--LHD-LNGLLLGKQEPLNLTIVVINNNGGGIFSLLPQASFEDEFERLFGTPQGLDFEHLAKAYGLE 144 (175)
T ss_pred CCCEEEEEehHHH--HHh-HHHHHhccccCCCeEEEEEECCCCchheeccCCcccchhhhhhcCCCCCCHHHHHHHcCCC
Confidence 3558888775431 011 14566677888888777775320 0246789999999
Q ss_pred EEEecChhHHHHHHHhcC
Q 014385 245 YSVALDESHFKELIMEHA 262 (425)
Q Consensus 245 Y~~~~d~~~L~~lL~~~~ 262 (425)
+..+.+.++|++.|.+..
T Consensus 145 ~~~v~~~~el~~al~~a~ 162 (175)
T cd02009 145 YRRVSSLDELEQALESAL 162 (175)
T ss_pred eeeCCCHHHHHHHHHHHH
Confidence 999999999999888775
No 248
>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=38.78 E-value=4.6e+02 Score=29.89 Aligned_cols=114 Identities=21% Similarity=0.151 Sum_probs=72.4
Q ss_pred eEEEEEeCCHhhhhC-------CC-----------CCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCC
Q 014385 88 YLYIVIDLSRAAAEM-------DF-----------RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG 149 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~-------D~-----------~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT 149 (425)
-.|||||=|+-|... |+ ..+=-+++.+++.+|-+=.+|-=|..++--++..|..|..+..-+
T Consensus 7 KTVfVLDh~p~f~~ss~~~i~~d~~~~~~~~~~~i~KSLWTc~vEa~~EYcRIV~DlFP~~k~IrfivsD~~a~~lntW~ 86 (695)
T PF10221_consen 7 KTVFVLDHSPYFAESSNQPIDFDIVKKSRQQKAPISKSLWTCAVEASIEYCRIVWDLFPDGKLIRFIVSDTAAHILNTWS 86 (695)
T ss_pred cEEEEEcCCchhhhhccCcEEEeeecCCCCCcCcccchHHHHHHHHHHHHHHHHhhccCCCceEEEEEEccccccccCcC
Confidence 469999999998532 22 235567788888877776666666666533344478888888754
Q ss_pred CC---HHHHHHHHhhhhCC------CCcchHHHHHHHHHHHHhCC------------CC-----CCCcEEEEEEcCCC
Q 014385 150 GS---PESHIKALMGKLGC------SGDSSLQNALDLVQGLLSQI------------PS-----YGHREVLILYSALS 201 (425)
Q Consensus 150 ~d---~~~~i~~L~~~~~~------~G~tsL~nAL~~A~~~L~~~------------p~-----~~sreILiI~ss~~ 201 (425)
.+ ...+++.|.....| .++.++-.||.+|+..|... +. ....+||+|++.-+
T Consensus 87 ~~~Qsl~~L~~~la~vG~P~~~~~~~~d~svi~GL~~AIEaL~e~td~Q~e~~~~~~~~~~~~~~N~GrIIciT~~k~ 164 (695)
T PF10221_consen 87 TSQQSLSHLMNALATVGPPPRSDPENSDYSVIHGLRMAIEALAEPTDSQKEQRASRVNEELKKVENRGRIICITSAKS 164 (695)
T ss_pred hhhccHHHHHHHHHhcCCCCCCCcccccchhHHHHHHHHHHHhcCCHHHHHHhhcccchhhhhccCCccEEEEEeecC
Confidence 42 23344555443223 12347889999999988532 10 24567999987543
No 249
>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=38.77 E-value=16 Score=31.68 Aligned_cols=24 Identities=25% Similarity=0.621 Sum_probs=11.4
Q ss_pred CccccccccccCCCCCCCceeeCCCCCc
Q 014385 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 1244555554
No 250
>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=38.73 E-value=21 Score=26.55 Aligned_cols=46 Identities=7% Similarity=-0.142 Sum_probs=31.4
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCC
Q 014385 365 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSN 418 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~ 418 (425)
.|.-|...+.++ ....|++.||..|=.-.-+.-..||-|.......
T Consensus 3 ~Cpi~~~~~~~P--------v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 3 LCPISLEVMKDP--------VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred CCcCCCCcCCCC--------EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 477787666543 1346889999999765545567899998655433
No 251
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=38.59 E-value=13 Score=29.35 Aligned_cols=27 Identities=30% Similarity=0.754 Sum_probs=21.0
Q ss_pred EcCCCCccccCC-----CCCCCCCCceecCch
Q 014385 306 TCPRCKARVCEL-----PTDCRICGLQLVSSP 332 (425)
Q Consensus 306 ~Cp~C~s~~C~l-----P~~C~~C~l~Lvssp 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 499999877743 468999999997653
No 252
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=38.06 E-value=1.9e+02 Score=31.36 Aligned_cols=90 Identities=12% Similarity=0.041 Sum_probs=61.7
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--TMT-MMELITAKKYDLPVKIIIYNNSKLGMIKFEQEVMGYPEWG 470 (549)
T ss_pred chhhhhHHHHHHHHhcCC--CCCeEEEEEcccHH--hhh-HHHHHHHHHHCCCeEEEEEECCccchHHHHHHHhcCCccc
Confidence 456556665555432222 14679999986532 112 24578899999998888885321
Q ss_pred -----HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 02578999999999999999999998887763
No 253
>COG2718 Uncharacterized conserved protein [Function unknown]
Probab=38.05 E-value=82 Score=33.17 Aligned_cols=91 Identities=15% Similarity=0.270 Sum_probs=49.7
Q ss_pred EEEEEeCCHhhh--hCCCCCChHHHHHHHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCC
Q 014385 89 LYIVIDLSRAAA--EMDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCS 166 (425)
Q Consensus 89 lvlvLD~S~SM~--a~D~~P~RL~~a~~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~ 166 (425)
++-++|+|+||. .+|+. .+..-.+-.|+..-.+. --+..|.- .-.|..+..- ++ . ....+
T Consensus 249 mfclMDvSGSM~~~~KdlA----krFF~lL~~FL~~kYen---veivfIrH-ht~A~EVdE~-----dF---F--~~~es 310 (423)
T COG2718 249 MFCLMDVSGSMDQSEKDLA----KRFFFLLYLFLRRKYEN---VEIVFIRH-HTEAKEVDET-----DF---F--YSQES 310 (423)
T ss_pred EEEEEecCCCcchHHHHHH----HHHHHHHHHHHhcccce---eEEEEEee-cCcceecchh-----hc---e--eecCC
Confidence 456789999995 34432 12222345555544331 22444443 3444433321 11 0 01457
Q ss_pred CcchHHHHHHHHHHHHhC-CCCCCCcEEEEEEc
Q 014385 167 GDSSLQNALDLVQGLLSQ-IPSYGHREVLILYS 198 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~-~p~~~sreILiI~s 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 999999999999999997 432 2223555543
No 254
>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=37.92 E-value=1.7e+02 Score=32.09 Aligned_cols=88 Identities=10% Similarity=0.056 Sum_probs=60.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QFM-IEELAVGAQHNIPYIHVLVNNAYLGLIRQAQRAFDMDYCV 491 (588)
T ss_pred ccccchHhHHHhhhhhCC---CCcEEEEEcchHh--hcc-HHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcccccc
Confidence 456666666655433322 4679989886532 011 25688999999999999886421 0
Q ss_pred -----------------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 145688888999999999999999888876
No 255
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=37.87 E-value=22 Score=25.12 Aligned_cols=42 Identities=21% Similarity=0.478 Sum_probs=29.3
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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 66677666211 1244568999999999776666777899885
No 256
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=37.42 E-value=23 Score=26.98 Aligned_cols=23 Identities=30% Similarity=0.813 Sum_probs=16.9
Q ss_pred EcCCCCccccC-CCCCCCCCCcee
Q 014385 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 38888887764 445888888864
No 257
>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=37.29 E-value=2e+02 Score=31.51 Aligned_cols=88 Identities=8% Similarity=-0.042 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H---------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~-~--------------- 232 (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 ATMGVGVPGAIAAKLNY---PDRQVFNLAGDGAF--SMT-MQDLLTQVQYHLPVINIVFSNCTYGFIKDEQEDTNQPLIG 481 (575)
T ss_pred chhhchHHHHHHHHHhC---CCCcEEEEEcccHH--Hhh-HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhCCCccc
Confidence 45666666655532222 24678888886532 112 24578999999999988775321 0
Q ss_pred ------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 233 ------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 ------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 156788888889888888999988887776
No 258
>PF11181 YflT: Heat induced stress protein YflT
Probab=37.25 E-value=59 Score=27.26 Aligned_cols=75 Identities=16% Similarity=0.161 Sum_probs=47.8
Q ss_pred cCHHHHHHHHHhCCcEEEEEEecc-hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 014385 206 GDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 206 ~~i~~ti~~akk~~IrV~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 EEALSAIEELKAQGYSEDDIYVVAKDKDRTERLADQT-DTNTVGASEESFWDKIKNFFTS---GGDELRSKLESLGLSED 85 (103)
T ss_pred HHHHHHHHHHHHcCCCcccEEEEEcCchHHHHHHHhc-CCceeccccccHHHHHHHhccC---CcHHHHHHHHHcCCCHH
Confidence 456778999999998733333322 556678888888 3333444446666666666652 11345578899999865
No 259
>PRK06450 threonine synthase; Validated
Probab=36.78 E-value=22 Score=36.32 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=28.6
Q ss_pred eEEcCCCCccccCC-CCCCCCCCceecCchhHHh---hhcccCCCC
Q 014385 304 GYTCPRCKARVCEL-PTDCRICGLQLVSSPHLAR---SYHHLFPIA 345 (425)
Q Consensus 304 Gy~Cp~C~s~~C~l-P~~C~~C~l~LvssphLar---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 113566664
No 260
>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=36.64 E-value=23 Score=38.29 Aligned_cols=49 Identities=24% Similarity=0.586 Sum_probs=32.4
Q ss_pred EEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcee
Q 014385 305 YTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYV 384 (425)
Q Consensus 305 y~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~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 78999998774 4411 023468899755432 25
Q ss_pred eCCCCCcc
Q 014385 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 69999874
No 261
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=36.52 E-value=18 Score=31.57 Aligned_cols=26 Identities=31% Similarity=0.638 Sum_probs=16.7
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc
Q 014385 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 262
>PRK05580 primosome assembly protein PriA; Validated
Probab=36.50 E-value=32 Score=38.65 Aligned_cols=63 Identities=21% Similarity=0.423 Sum_probs=40.3
Q ss_pred cceeeecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccc
Q 014385 290 ISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGC 369 (425)
Q Consensus 290 ~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~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 5666666543333 4579888765 6899999887 34421 0 23369999
Q ss_pred cccccCCCCCCCceeeCCCCCcc
Q 014385 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 263
>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=36.47 E-value=24 Score=38.24 Aligned_cols=40 Identities=33% Similarity=0.820 Sum_probs=29.9
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhccCCCCCCCCC
Q 014385 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 34599998 45688888 55666789999986
No 264
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=36.47 E-value=17 Score=41.46 Aligned_cols=44 Identities=27% Similarity=0.619 Sum_probs=30.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhh------hccCCCCCCCC
Q 014385 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~~tlf------n~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~ 278 (889)
T KOG1356|consen 229 REMCDRCETTLF------NIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSW 278 (889)
T ss_pred chhhhhhccccc------ceeEEccccCCeeeecchhhccccchHhHhhhhhhHHH
Confidence 457999986553 147999999999999996433 23444555543
No 265
>PF12257 DUF3608: Protein of unknown function (DUF3608); InterPro: IPR022046 This domain family is found in eukaryotes, and is approximately 280 amino acids in length. The family is found in association with PF00610 from PFAM.
Probab=36.32 E-value=4.7e+02 Score=26.41 Aligned_cols=137 Identities=18% Similarity=0.201 Sum_probs=78.2
Q ss_pred eEEEEEeCCHhhhhCCCCCC-hHHHHHHHHHHHHHHHh----hcCCCCcEEEEeecCCceEEe----eCC----------
Q 014385 88 YLYIVIDLSRAAAEMDFRPS-RMAVVAKQVEAFVREFF----DQNPLSQIGLVTVKDGVANCL----TDL---------- 148 (425)
Q Consensus 88 ~lvlvLD~S~SM~a~D~~P~-RL~~a~~~l~~Fv~~~~----~qnp~sqlGvI~~~~g~A~~l----spl---------- 148 (425)
.+++.|-+|.-|..-|..-+ -++++ +..|+.++| +.+-.-.|.||.|. . .+.- .++
T Consensus 72 r~~~~IQmS~EMW~fd~~Ge~~fek~---vn~Fl~~lf~kWk~~~~~H~vTIVlfs-R-v~~~~~~~~~l~~~~~~~~y~ 146 (281)
T PF12257_consen 72 RVYIFIQMSSEMWDFDEDGEIYFEKA---VNGFLPELFKKWKEIGTHHLVTIVLFS-R-VDYDDISFRDLPPGERGKNYK 146 (281)
T ss_pred eeeehHhhhHHHhCcCccHHHHHHHH---HHHHHHHHHHHHhhcCCCceEEEEEEE-E-EccccchhhcCCccccCCCCC
Confidence 78999999999997665433 23333 334555555 44444557777764 1 1100 001
Q ss_pred -----------CCCHHHHHHHHhhh--------h-C----------------CCCcchHHHHHHHHHHHHhCC--C---C
Q 014385 149 -----------GGSPESHIKALMGK--------L-G----------------CSGDSSLQNALDLVQGLLSQI--P---S 187 (425)
Q Consensus 149 -----------T~d~~~~i~~L~~~--------~-~----------------~~G~tsL~nAL~~A~~~L~~~--p---~ 187 (425)
..+...++..|+.. + . +.-..++-.||.+|++.+.+- . .
T Consensus 147 DfYrVVv~~~~~~~W~~il~~Lk~eF~~f~rdi~~~~~~~~~~~~~i~g~~s~A~~gNiLEaINlaln~~~~~~idRdl~ 226 (281)
T PF12257_consen 147 DFYRVVVDEENSQDWTSILVTLKKEFNQFQRDILLYHQSDEDGTTRIKGRFSPAIKGNILEAINLALNQFDKHYIDRDLR 226 (281)
T ss_pred cceEEEEeccccccHHHHHHHHHHHHHHHHHHhhcccccccCCCccccceEeecccccHHHHHHHHhhhcccccccCccc
Confidence 11223344444421 0 0 122356888999999988652 0 1
Q ss_pred CCCcEEEEEEcCCC--CCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 188 YGHREVLILYSALS--TCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 188 ~~sreILiI~ss~~--t~d~~~i~~ti~~akk~~IrV~vIglg~ 229 (425)
++...|+||+.|.. ..|+.-..-|=+.+-..||.+++|.|+.
T Consensus 227 rTG~~iivITpG~Gvf~Vd~~ll~~T~~rl~~~gi~~DlIcL~~ 270 (281)
T PF12257_consen 227 RTGQSIIVITPGTGVFEVDYDLLRLTTQRLLDNGIGIDLICLSK 270 (281)
T ss_pred ccCceEEEEcCCCceEEECHHHHHHHHHHHHhcCccEEEEEcCC
Confidence 22334677765432 2443333466788899999999999985
No 266
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=36.22 E-value=28 Score=39.57 Aligned_cols=37 Identities=19% Similarity=0.507 Sum_probs=26.2
Q ss_pred CCccccccccccCCCCC-CCceeeCCCCCcccccccch
Q 014385 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 267
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=36.13 E-value=18 Score=25.38 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=15.4
Q ss_pred cccccccccCCCCCCCceeeCCCCCccc
Q 014385 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 6667655543222223457788887654
No 268
>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=35.91 E-value=9.9 Score=32.75 Aligned_cols=10 Identities=20% Similarity=0.644 Sum_probs=4.8
Q ss_pred cccccccccc
Q 014385 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 4555555553
No 269
>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=35.77 E-value=2.8e+02 Score=24.17 Aligned_cols=75 Identities=9% Similarity=0.049 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------HHHHHHHHHhhCC
Q 014385 171 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQDTGG 243 (425)
Q Consensus 171 L~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e-------~~iLk~iA~~TGG 243 (425)
...|+.....++.. .....-|+|.+|+.+..-..++.+.++.++ .+.+|..++.-.. -..++++|+...+
T Consensus 34 ~~~~~~~l~~~~~~--~~~~d~vvi~lGtNd~~~~~nl~~ii~~~~-~~~~ivlv~~~~~~~~~~~~n~~~~~~a~~~~~ 110 (150)
T cd01840 34 MSEAPDLIRQLKDS--GKLRKTVVIGLGTNGPFTKDQLDELLDALG-PDRQVYLVNPHVPRPWEPDVNAYLLDAAKKYKN 110 (150)
T ss_pred HHHHHHHHHHHHHc--CCCCCeEEEEecCCCCCCHHHHHHHHHHcC-CCCEEEEEECCCCcchHHHHHHHHHHHHHHCCC
Confidence 35666665555442 122233444456655444466777777775 4688888877632 2678888888876
Q ss_pred eEEEe
Q 014385 244 SYSVA 248 (425)
Q Consensus 244 ~Y~~~ 248 (425)
..++.
T Consensus 111 v~~id 115 (150)
T cd01840 111 VTIID 115 (150)
T ss_pred cEEec
Confidence 66654
No 270
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=35.39 E-value=1.9e+02 Score=31.39 Aligned_cols=88 Identities=14% Similarity=0.121 Sum_probs=59.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMNI-QELSTAKQYDIPVVIVSLNNRFLGMVKQWQDLIYSGRHS 494 (574)
T ss_pred ccccchhHHHHHHHhhcC---CCcEEEEEcchhh--hccH-HHHHHHHHhCCCeEEEEEECchhHHHHHHHHHhcCCccc
Confidence 345555555555422222 4568888886542 1222 5678889999999888886431
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0146789999999999999999999888775
No 271
>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=35.25 E-value=17 Score=22.57 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=19.3
Q ss_pred eeCCCCCcccccccchhhhccCC
Q 014385 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 78999999998888888887655
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=35.22 E-value=23 Score=30.60 Aligned_cols=24 Identities=29% Similarity=0.775 Sum_probs=17.2
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCCC
Q 014385 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 8888887754 36667788888763
No 273
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=35.15 E-value=13 Score=38.33 Aligned_cols=16 Identities=56% Similarity=1.259 Sum_probs=14.4
Q ss_pred CeEEcCCCCccccCCC
Q 014385 303 VGYTCPRCKARVCELP 318 (425)
Q Consensus 303 ~Gy~Cp~C~s~~C~lP 318 (425)
.+|.||||++.+|+|-
T Consensus 28 ~KYkCPRCl~rtCsLe 43 (390)
T KOG2858|consen 28 PKYKCPRCLARTCSLE 43 (390)
T ss_pred ccccCcchhhhheecc
Confidence 3899999999999984
No 274
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=35.14 E-value=33 Score=33.24 Aligned_cols=40 Identities=25% Similarity=0.646 Sum_probs=27.7
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCccccCC
Q 014385 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 3567788776543 345555677799999888888775544
No 275
>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=34.92 E-value=11 Score=25.24 Aligned_cols=8 Identities=38% Similarity=1.356 Sum_probs=3.8
Q ss_pred eeeCCCCC
Q 014385 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 34455444
No 276
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.76 E-value=16 Score=36.93 Aligned_cols=51 Identities=25% Similarity=0.498 Sum_probs=41.2
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCcccc
Q 014385 364 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVA 422 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~~~ 422 (425)
-.|+-|..+|-.+. =.+|+++||--|-+-=+-.---|+-|..+++++--+|
T Consensus 242 f~c~icr~~f~~pV--------vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~a 292 (313)
T KOG1813|consen 242 FKCFICRKYFYRPV--------VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVA 292 (313)
T ss_pred ccccccccccccch--------hhcCCceeehhhhccccccCCcceecccccccccchH
Confidence 35999999887653 3489999999999888877789999998888765444
No 277
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=34.59 E-value=19 Score=26.82 Aligned_cols=27 Identities=22% Similarity=0.575 Sum_probs=16.5
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 3333344556777765
No 278
>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=34.54 E-value=2.5e+02 Score=28.78 Aligned_cols=54 Identities=9% Similarity=0.043 Sum_probs=31.8
Q ss_pred cchHHHHHHHHHHHHhCCCCC-CCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEE
Q 014385 168 DSSLQNALDLVQGLLSQIPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRC 222 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~-~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV 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 356778999999998876433 234555554432 255655555555555555433
No 279
>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=34.42 E-value=1.8e+02 Score=26.26 Aligned_cols=60 Identities=10% Similarity=0.037 Sum_probs=31.6
Q ss_pred CCcEEEEEEcCCCCCCccCHHHHHHHHHhC--CcEEEEEEec------chHHHHHHHHHhhCCeEEEecChh
Q 014385 189 GHREVLILYSALSTCDPGDIMETIQKCKES--KIRCSVIGLS------AEMFICKHLCQDTGGSYSVALDES 252 (425)
Q Consensus 189 ~sreILiI~ss~~t~d~~~i~~ti~~akk~--~IrV~vIglg------~e~~iLk~iA~~TGG~Y~~~~d~~ 252 (425)
..-||||+.++.+ | +..+.++.+.+. ++++.++-.. ....-+....+...|.|++..|.+
T Consensus 29 ~~~eiivVdd~s~--d--~t~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~g~~~a~~d~i~~~D~D 96 (196)
T cd02520 29 PKYEILFCVQDED--D--PAIPVVRKLIAKYPNVDARLLIGGEKVGINPKVNNLIKGYEEARYDILVISDSD 96 (196)
T ss_pred CCeEEEEEeCCCc--c--hHHHHHHHHHHHCCCCcEEEEecCCcCCCCHhHHHHHHHHHhCCCCEEEEECCC
Confidence 3457777765432 2 223444444332 2444444222 223445666777789999877765
No 280
>PLN02470 acetolactate synthase
Probab=34.42 E-value=1.7e+02 Score=31.96 Aligned_cols=88 Identities=10% Similarity=0.046 Sum_probs=59.3
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--IMN-IQELATIHVENLPVKIMVLNNQHLGMVVQWEDRFYKANRAH 500 (585)
T ss_pred cccchHHHHHHHHHhCC---CCcEEEEEccchh--hcc-HHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHHhCCceee
Confidence 44455555544322222 4568888886531 011 25688999999998888875321
Q ss_pred -------------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 232 -------------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -------------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+..|+.+..+.+.++|.+.|.....
T Consensus 501 ~~~~~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~el~~al~~a~~ 545 (585)
T PLN02470 501 TYLGDPDAEAEIFPDFLKFAEGCKIPAARVTRKSDLREAIQKMLD 545 (585)
T ss_pred eecCccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 12567899999999999999999988877753
No 281
>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=34.27 E-value=2.7e+02 Score=27.04 Aligned_cols=60 Identities=8% Similarity=0.040 Sum_probs=36.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~-~IrV~vIglg~ 229 (425)
..+.+|+++|...++...+-..+.|.++..+. ..||....+.++.+... +|..-+.+.+.
T Consensus 18 ~~~~~~~~~a~~~iN~~ggi~G~~v~l~~~D~-~~d~~~~~~~~~~l~~~~~v~avig~~~s 78 (336)
T cd06326 18 RAYRAGAQAYFDAVNAAGGVNGRKIELVTLDD-GYEPERTVANTRKLIEDDKVFALFGYVGT 78 (336)
T ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEEeCC-CCChHHHHHHHHHHHhhcCcEEEEeCCCc
Confidence 45778888999988865443344566665442 23555555667777764 66544443443
No 282
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=34.24 E-value=17 Score=31.70 Aligned_cols=22 Identities=27% Similarity=0.839 Sum_probs=9.3
Q ss_pred cCCCCccccCCCCCCCCCCcee
Q 014385 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 4444443322223455555443
No 283
>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=34.06 E-value=20 Score=20.83 Aligned_cols=20 Identities=30% Similarity=0.668 Sum_probs=11.5
Q ss_pred eeCCCCCcccccccchhhhc
Q 014385 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 67888888875555544443
No 284
>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=33.94 E-value=2.6e+02 Score=27.00 Aligned_cols=89 Identities=9% Similarity=0.013 Sum_probs=59.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 378888888877644332 466888887653111 22 25577889999999998875321
Q ss_pred -----------------HHHHHHHHhhCCeEE---EecChhHHHHHHHhcC
Q 014385 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 125578888887775 3677888888877765
No 285
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=33.74 E-value=22 Score=30.90 Aligned_cols=9 Identities=22% Similarity=0.818 Sum_probs=4.4
Q ss_pred ccccccccc
Q 014385 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 286
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=33.71 E-value=22 Score=36.25 Aligned_cols=25 Identities=24% Similarity=0.579 Sum_probs=20.3
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccccc
Q 014385 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 347889987763 5999999999994
No 287
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=33.65 E-value=49 Score=33.98 Aligned_cols=69 Identities=26% Similarity=0.668 Sum_probs=43.4
Q ss_pred eeeecCCccccCeEEcCCCCcccc-----CCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcc
Q 014385 292 ICSCHKEVKVGVGYTCPRCKARVC-----ELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTC 366 (425)
Q Consensus 292 ~C~CH~~~~~~~Gy~Cp~C~s~~C-----~lP~~C~~C~l~LvssphLarsyhhlfp~~~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---VPP-------------------------PKIGTHDLC 237 (406)
T ss_pred hhhhhcccCCC-ceeccCcCCCCccccccCcceecccccC---CCC-------------------------CCCCccchh
Confidence 35788877777 999999976432 23678887732 011 112356789
Q ss_pred ccccccccCCCCCCCceeeCCCCC---cccccccc
Q 014385 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 245688775 45666665
No 288
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=33.61 E-value=21 Score=30.82 Aligned_cols=9 Identities=22% Similarity=0.715 Sum_probs=4.5
Q ss_pred eeeCCCCCc
Q 014385 383 YVACPKCKK 391 (425)
Q Consensus 383 ~~~C~~C~~ 391 (425)
+..|+.|+.
T Consensus 70 ~~~C~~Cg~ 78 (114)
T PRK03681 70 ECWCETCQQ 78 (114)
T ss_pred EEEcccCCC
Confidence 345555553
No 289
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=33.37 E-value=2e+02 Score=31.10 Aligned_cols=88 Identities=9% Similarity=0.006 Sum_probs=61.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--MMN-VQELGTIKRKQLPVKIVLLDNQRLGMVRQWQQLFFDERYS 474 (548)
T ss_pred hhhhchHHHHHHHHHhC---CCCcEEEEEccchh--hcc-HHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCcce
Confidence 45666666665543222 24679999886532 112 25678889999999888885320
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0157788999999999999999999887775
No 290
>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=33.27 E-value=3.2e+02 Score=24.91 Aligned_cols=91 Identities=14% Similarity=0.188 Sum_probs=48.9
Q ss_pred HHHHHHHHhhcCCC-CcEEEEeecCCceEEeeCCCCCHHHHHHHHhhh-----hCCCCcchHHHHHHHHHHHHhCCCCCC
Q 014385 116 VEAFVREFFDQNPL-SQIGLVTVKDGVANCLTDLGGSPESHIKALMGK-----LGCSGDSSLQNALDLVQGLLSQIPSYG 189 (425)
Q Consensus 116 l~~Fv~~~~~qnp~-sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~-----~~~~G~tsL~nAL~~A~~~L~~~p~~~ 189 (425)
+.+.++++..|..- ...-||+.-++. +.+..+.++.+... +....+.....|+..|+...
T Consensus 15 l~~~l~sl~~q~~~~~~~evivvd~~s-------~d~~~~~~~~~~~~~~~v~~i~~~~~~~~~a~N~g~~~a------- 80 (249)
T cd02525 15 IEELLESLLNQSYPKDLIEIIVVDGGS-------TDGTREIVQEYAAKDPRIRLIDNPKRIQSAGLNIGIRNS------- 80 (249)
T ss_pred HHHHHHHHHhccCCCCccEEEEEeCCC-------CccHHHHHHHHHhcCCeEEEEeCCCCCchHHHHHHHHHh-------
Confidence 34444555555432 445566654443 22345555555431 11111223556666666543
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCc
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKI 220 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~I 220 (425)
+.++|++++++...+|+-+...+..+.+.++
T Consensus 81 ~~d~v~~lD~D~~~~~~~l~~~~~~~~~~~~ 111 (249)
T cd02525 81 RGDIIIRVDAHAVYPKDYILELVEALKRTGA 111 (249)
T ss_pred CCCEEEEECCCccCCHHHHHHHHHHHhcCCC
Confidence 2358888887776777767777766666554
No 291
>PRK11869 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional
Probab=33.23 E-value=1.8e+02 Score=29.25 Aligned_cols=88 Identities=11% Similarity=0.027 Sum_probs=53.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCH-HHHHHHHHhCCcEEEEEEecchHH---------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEMF--------------- 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i-~~ti~~akk~~IrV~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 345666666555532233 3568888887643 223 467788888999999998865421
Q ss_pred --------------HHHHHHHhhCCeEEE---ecChhHHHHHHHhcC
Q 014385 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 133456666666665 456666666665555
No 292
>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=33.23 E-value=96 Score=29.45 Aligned_cols=34 Identities=21% Similarity=0.403 Sum_probs=22.8
Q ss_pred ceeeecCCccccCeEEcCCCCcccc----------CCCCCCCCCCce
Q 014385 291 SICSCHKEVKVGVGYTCPRCKARVC----------ELPTDCRICGLQ 327 (425)
Q Consensus 291 a~C~CH~~~~~~~Gy~Cp~C~s~~C----------~lP~~C~~C~l~ 327 (425)
...-+|..+.. ..|+.|...+- ...+.|+.||-.
T Consensus 99 ~v~elHG~~~~---~~C~~C~~~~~~~~~~~~~~~~~~p~C~~Cg~~ 142 (218)
T cd01407 99 KVIELHGSLFR---VRCTKCGKEYPRDELQADIDREEVPRCPKCGGL 142 (218)
T ss_pred CEEECcCCcCc---ceeCCCcCCCcHHHHhHhhccCCCCcCCCCCCc
Confidence 35667876533 46888877653 235689999865
No 293
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=32.87 E-value=1.7e+02 Score=30.19 Aligned_cols=69 Identities=13% Similarity=0.115 Sum_probs=48.7
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~----e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.+++||..+.. .....++++.|+++||++.+|.+.. +...++++.+.++-...+-.|...|...+...+
T Consensus 247 ad~~iva~Gs~---~~~a~eA~~~L~~~Gi~v~vi~~~~l~Pfp~~~i~~~l~~~k~VivvE~n~g~l~~ei~~~~ 319 (352)
T PRK07119 247 AELVLVAYGTS---ARIAKSAVDMAREEGIKVGLFRPITLWPFPEKALEELADKGKGFLSVEMSMGQMVEDVRLAV 319 (352)
T ss_pred CCEEEEEcCcc---HHHHHHHHHHHHHcCCeEEEEeeceecCCCHHHHHHHHhCCCEEEEEeCCccHHHHHHHHHh
Confidence 45666654432 2566789999999999999999975 456677888877776666666665666555443
No 294
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=32.86 E-value=20 Score=43.66 Aligned_cols=24 Identities=46% Similarity=1.043 Sum_probs=18.8
Q ss_pred eEEcCCCCccccCCC-------------CCCCCCCceec
Q 014385 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 66654 36999999853
No 295
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=32.82 E-value=2.9e+02 Score=30.05 Aligned_cols=88 Identities=18% Similarity=0.142 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch----HH------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE----MF------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e----~~------------ 232 (425)
-+++.||-.|+..=...| .|++++|.|++.- -.+++ .+.++.+.|+++-+|-+... ..
T Consensus 414 g~mG~~l~~aiGa~la~p---~~~vv~i~GDG~f--~m~~~-eL~Ta~~~~lpvi~vV~NN~~~~~i~~~~~~~~~~~~~ 487 (563)
T PRK08527 414 GTMGYGLPAALGAKLAVP---DKVVINFTGDGSI--LMNIQ-ELMTAVEYKIPVINIILNNNFLGMVRQWQTFFYEERYS 487 (563)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEecCchh--cccHH-HHHHHHHhCCCeEEEEEECCcchhHHHHHHhhcCCcee
Confidence 455555555555432222 4568888886543 13333 36788889999888877532 00
Q ss_pred --------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 233 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 --------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 146799999999999999999999887765
No 296
>PRK08617 acetolactate synthase; Reviewed
Probab=32.71 E-value=2.1e+02 Score=30.91 Aligned_cols=70 Identities=7% Similarity=-0.036 Sum_probs=52.3
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----------------------HHHHHHHHhhCCeEEE
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------------FICKHLCQDTGGSYSV 247 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--LFSA-MELETAVRLKLNIVHIIWNDGHYNMVEFQEEMKYGRSSGVDFGPVDFVKYAESFGAKGLR 508 (552)
T ss_pred CCcEEEEEechHH--hhhH-HHHHHHHHhCCCeEEEEEECCccchHHHHHHhhcCCcccCCCCCCCHHHHHHHCCCeEEE
Confidence 4678888886532 1222 4577899999999888775320 0156799999999999
Q ss_pred ecChhHHHHHHHhcC
Q 014385 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 297
>PRK11595 DNA utilization protein GntX; Provisional
Probab=32.70 E-value=22 Score=34.10 Aligned_cols=45 Identities=29% Similarity=0.662 Sum_probs=0.0
Q ss_pred CCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCccc---
Q 014385 317 LPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHF--- 393 (425)
Q Consensus 317 lP~~C~~C~l~LvssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f--- 393 (425)
+|..|..|+-.+..+... .|-.|...++..... |+.|+...
T Consensus 4 ~P~~C~~C~~~~~~~~~~------------------------------lC~~C~~~l~~~~~~------C~~Cg~~~~~~ 47 (227)
T PRK11595 4 VPGLCWLCRMPLALSHWG------------------------------ICSVCSRALRTLKTC------CPQCGLPATHP 47 (227)
T ss_pred CCCcCccCCCccCCCCCc------------------------------ccHHHHhhCCcccCc------CccCCCcCCCC
Q ss_pred ---cccc
Q 014385 394 ---CLEC 397 (425)
Q Consensus 394 ---C~dC 397 (425)
|.+|
T Consensus 48 ~~~C~~C 54 (227)
T PRK11595 48 HLPCGRC 54 (227)
T ss_pred CCCcHHH
No 298
>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=32.52 E-value=30 Score=35.18 Aligned_cols=44 Identities=23% Similarity=0.576 Sum_probs=0.0
Q ss_pred CCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCC--ccccccccccCCCCCCCceeeCCCCCc
Q 014385 321 CRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRS--TCFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 321 C~~C~l~LvssphLarsyhhlfp~~~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---------------PVASMVRQ------GGKETGLRYLSCSLCATEWHYV------RVKCSHCEE 232 (305)
T ss_pred CCCCCCh---------------hhhhhhcc------cCCCCCceEEEcCCCCCccccc------CccCCCCCC
No 299
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=32.32 E-value=20 Score=24.52 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=14.8
Q ss_pred ccccccccccCC--CCCCCceeeCCCCCcc
Q 014385 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 688886665321 2234568999999865
No 300
>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=32.21 E-value=3.6e+02 Score=23.89 Aligned_cols=86 Identities=17% Similarity=0.193 Sum_probs=45.4
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCC-cEEEEEEecch---HHHHHHHHHhhCCeEEEecC
Q 014385 175 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESK-IRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 250 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~-IrV~vIglg~e---~~iLk~iA~~TGG~Y~~~~d 250 (425)
|..++..+.+. .+..-||||+-++- + | +..++++.+.+.. ..+..+..... ..-+.......+|.|+...|
T Consensus 13 l~~~l~sl~~q-~~~~~eiiVvddgS-~-d--~t~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~n~g~~~~~g~~v~~ld 87 (214)
T cd04196 13 LREQLDSILAQ-TYKNDELIISDDGS-T-D--GTVEIIKEYIDKDPFIIILIRNGKNLGVARNFESLLQAADGDYVFFCD 87 (214)
T ss_pred HHHHHHHHHhC-cCCCeEEEEEeCCC-C-C--CcHHHHHHHHhcCCceEEEEeCCCCccHHHHHHHHHHhCCCCEEEEEC
Confidence 44444444443 12244677775432 2 2 2345566555543 44444443322 34455567788899998777
Q ss_pred hh------HHHHHHHhcCCCC
Q 014385 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 3666666534333
No 301
>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=31.99 E-value=25 Score=22.16 Aligned_cols=11 Identities=45% Similarity=0.993 Sum_probs=9.4
Q ss_pred eeeCCCCCccc
Q 014385 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 302
>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=31.80 E-value=25 Score=25.27 Aligned_cols=31 Identities=29% Similarity=0.749 Sum_probs=20.1
Q ss_pred CCccccccc-cccCCCCCCCceeeCCCCC-cccccccch
Q 014385 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 457777743
No 303
>PHA00616 hypothetical protein
Probab=31.71 E-value=14 Score=26.91 Aligned_cols=16 Identities=19% Similarity=0.513 Sum_probs=12.3
Q ss_pred eeCCCCCcccccccch
Q 014385 384 VACPKCKKHFCLECDI 399 (425)
Q Consensus 384 ~~C~~C~~~fC~dCD~ 399 (425)
|+|+.|+..|..-=++
T Consensus 2 YqC~~CG~~F~~~s~l 17 (44)
T PHA00616 2 YQCLRCGGIFRKKKEV 17 (44)
T ss_pred CccchhhHHHhhHHHH
Confidence 8999999999754333
No 304
>PRK03815 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=31.69 E-value=4.3e+02 Score=27.58 Aligned_cols=42 Identities=10% Similarity=0.123 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHH
Q 014385 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHL 237 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~i 237 (425)
+|++|+|+... ..+.++.++.+++..+. ++-+|.....+++.
T Consensus 300 ~ii~IlGG~~k--~~~~~~l~~~~~~~~~~--v~~~G~~~~~~~~~ 341 (401)
T PRK03815 300 KIHLILGGDDK--GVDLTPLFEFMKNLNIE--LYAIGSNTEKIQAL 341 (401)
T ss_pred CEEEEECCCCC--CCCHHHHHHHHHhhCcE--EEEECCCHHHHHHH
Confidence 46666665331 23445556666666553 44455444333443
No 305
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=31.66 E-value=21 Score=42.29 Aligned_cols=39 Identities=38% Similarity=0.773 Sum_probs=26.8
Q ss_pred eEEcCCCCcccc----------CCC-CCCCCCCceecCchhHHhhhcccCCCCCCcc
Q 014385 304 GYTCPRCKARVC----------ELP-TDCRICGLQLVSSPHLARSYHHLFPIAPFDE 349 (425)
Q Consensus 304 Gy~Cp~C~s~~C----------~lP-~~C~~C~l~LvssphLarsyhhlfp~~~f~~ 349 (425)
.|+||.|+---+ .|| -.||.||..|. ---|-.|-..|--
T Consensus 914 HY~Cp~Cky~Ef~~d~svgsGfDLpdK~CPkCg~pl~-------kDG~dIPFETFlG 963 (1444)
T COG2176 914 HYLCPECKYSEFIDDGSVGSGFDLPDKDCPKCGTPLK-------KDGHDIPFETFLG 963 (1444)
T ss_pred cccCCCCceeeeecCCCcCCCCCCCCCCCCcCCCccc-------cCCCCCChhhhcC
Confidence 899999963222 244 38999999863 3457778777754
No 306
>PRK06112 acetolactate synthase catalytic subunit; Validated
Probab=31.60 E-value=1.7e+02 Score=31.88 Aligned_cols=90 Identities=9% Similarity=0.069 Sum_probs=62.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~--------------- 231 (425)
|..+|+.+|-.|+..=... ..|++++|+|++.- . .. .+.+.++++.|+++-+|-+....
T Consensus 435 g~gsmG~~l~~aiGa~la~---~~~~vv~i~GDGsf-~-~~-~~el~ta~~~~l~~~~vv~NN~~~g~~~~~~~~~~~~~ 508 (578)
T PRK06112 435 GLAGLGWGVPMAIGAKVAR---PGAPVICLVGDGGF-A-HV-WAELETARRMGVPVTIVVLNNGILGFQKHAETVKFGTH 508 (578)
T ss_pred CccccccHHHHHHHHHhhC---CCCcEEEEEcchHH-H-hH-HHHHHHHHHhCCCeEEEEEeCCccCCEEeccccccCCc
Confidence 3345666666666542222 24678888887542 1 11 25677889999998888775320
Q ss_pred --------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 232 --------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 --------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-+.++|+.-|+.+..+.+.++|+..|....
T Consensus 509 ~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 547 (578)
T PRK06112 509 TDACHFAAVDHAAIARACGCDGVRVEDPAELAQALAAAM 547 (578)
T ss_pred cccCcCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 1257899999999999999999999888765
No 307
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=31.40 E-value=29 Score=25.75 Aligned_cols=25 Identities=28% Similarity=0.604 Sum_probs=14.6
Q ss_pred eEEcCCCCccccC---CCCCCCCCCcee
Q 014385 304 GYTCPRCKARVCE---LPTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~C~---lP~~C~~C~l~L 328 (425)
.=.||+|++-+-. -.-.|..||.+.
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred cCcCcCCCcchheccCCcEECCCcCCEE
Confidence 3478888872111 123688888764
No 308
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=31.33 E-value=2.2e+02 Score=31.31 Aligned_cols=89 Identities=12% Similarity=0.029 Sum_probs=61.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 35666666666443222 24668888876531 0 11 25688899999999888885320
Q ss_pred -----------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 01577999999999999999999998877763
No 309
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=31.29 E-value=35 Score=34.79 Aligned_cols=41 Identities=20% Similarity=0.535 Sum_probs=24.2
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchh-h-----hccCCCCCCCCC
Q 014385 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 68888755532 25578888875211 112 1 224578888875
No 310
>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=31.17 E-value=26 Score=25.66 Aligned_cols=29 Identities=28% Similarity=0.756 Sum_probs=20.7
Q ss_pred cccccc-ccccCCCCCCCceeeCCCCCc-ccccccch
Q 014385 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 311
>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=31.13 E-value=3.4e+02 Score=28.74 Aligned_cols=75 Identities=13% Similarity=0.040 Sum_probs=48.6
Q ss_pred CHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCCCCccc--------hhhhhhceee
Q 014385 207 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAI--------AEFAIANLIK 278 (425)
Q Consensus 207 ~i~~ti~~akk~~IrV~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-VVIGDLEDLEDLACAA-GADLLITNSHGRALAQRLALPLVR 396 (432)
T ss_pred HHHHHHHHHHHCCCEEEEEEeCCCCHHHHhC---CcCc-EEeCCHHHHHHHHhhc-CCCEEEECcchHHHHHHcCCCEEE
Confidence 3466788899999999999998776655443 3333 3446767777766554 233221 1234457999
Q ss_pred ecCCCCCC
Q 014385 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 99998644
No 312
>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=31.01 E-value=22 Score=42.56 Aligned_cols=24 Identities=46% Similarity=1.020 Sum_probs=18.4
Q ss_pred eEEcCCCCccccCCC-------------CCCCCCCceec
Q 014385 304 GYTCPRCKARVCELP-------------TDCRICGLQLV 329 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP-------------~~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 65543 36999998864
No 313
>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=30.95 E-value=1e+02 Score=23.28 Aligned_cols=44 Identities=11% Similarity=0.233 Sum_probs=31.0
Q ss_pred EEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch-------HHHHHHHHHh
Q 014385 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQD 240 (425)
Q Consensus 194 LiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e-------~~iLk~iA~~ 240 (425)
++|+++.+ ...+.+.++.+++.||++-.=++-++ ..+++++.+.
T Consensus 3 ~ll~~g~~---~~el~~~l~~~r~~~~~~~~kAvlT~tN~~Wt~~~L~~El~~E 53 (58)
T PF12646_consen 3 FLLFSGFS---GEELDKFLDALRKAGIPIPLKAVLTPTNINWTLKDLLEELKEE 53 (58)
T ss_pred EEEECCCC---HHHHHHHHHHHHHcCCCcceEEEECCCcccCcHHHHHHHHHHH
Confidence 34555553 25678899999999998877777766 3566666653
No 314
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=30.89 E-value=22 Score=30.34 Aligned_cols=25 Identities=40% Similarity=1.087 Sum_probs=17.9
Q ss_pred eEEcCCCCccc---cCC-------CCCCCCCCcee
Q 014385 304 GYTCPRCKARV---CEL-------PTDCRICGLQL 328 (425)
Q Consensus 304 Gy~Cp~C~s~~---C~l-------P~~C~~C~l~L 328 (425)
-|.||+|++-- |.+ -..|.+||+.+
T Consensus 22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~ 56 (104)
T COG4888 22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSF 56 (104)
T ss_pred eEecCccCCeeeeEEEEEecCceeEEEcccCcceE
Confidence 69999998743 332 24799999863
No 315
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=30.86 E-value=29 Score=32.52 Aligned_cols=23 Identities=26% Similarity=0.707 Sum_probs=14.7
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc
Q 014385 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 237777764
No 316
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.84 E-value=33 Score=38.99 Aligned_cols=39 Identities=28% Similarity=0.717 Sum_probs=27.0
Q ss_pred CccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhccCCCCCCCCCC
Q 014385 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 34588885 5678888763 3567789999875
No 317
>PRK07524 hypothetical protein; Provisional
Probab=30.67 E-value=2.4e+02 Score=30.32 Aligned_cols=89 Identities=12% Similarity=0.032 Sum_probs=59.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~----~------------ 232 (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--QFTLP-ELASAVEADLPLIVLLWNNDGYGEIRRYMVARDIEPVG 480 (535)
T ss_pred ccccchHHHHHHHHHhC---CCCcEEEEEcchHH--hhhHH-HHHHHHHhCCCeEEEEEECCchHHHHHHHHHhcCCccc
Confidence 34555555554433222 24668888886543 13333 477889999999888776421 0
Q ss_pred ------HHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 233 ------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 233 ------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 1467888888888888899999998887764
No 318
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=30.61 E-value=36 Score=33.65 Aligned_cols=54 Identities=24% Similarity=0.385 Sum_probs=33.9
Q ss_pred CccccccccccCCCC-C--CCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCcc
Q 014385 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 379999988754431 1 2235999999999953322 2445567777665444444
No 319
>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=30.52 E-value=1.4e+02 Score=21.42 Aligned_cols=41 Identities=12% Similarity=0.013 Sum_probs=28.7
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecch------------HHHHHHHHHhhCCe
Q 014385 204 DPGDIMETIQKCKESKIRCSVIGLSAE------------MFICKHLCQDTGGS 244 (425)
Q Consensus 204 d~~~i~~ti~~akk~~IrV~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 445555566677788888866666553 37999999999995
No 320
>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=30.25 E-value=3.3e+02 Score=24.15 Aligned_cols=61 Identities=10% Similarity=0.087 Sum_probs=32.9
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHH-hCCcEEEEEEec-chHHHHHHHHHhhCCeEEEecChhH
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCK-ESKIRCSVIGLS-AEMFICKHLCQDTGGSYSVALDESH 253 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~ak-k~~IrV~vIglg-~e~~iLk~iA~~TGG~Y~~~~d~~~ 253 (425)
..||||+.++..+ .+..+.++.+. +.+|++....-. +-...+....+..+|.|+...|.++
T Consensus 29 ~~eiiivdd~ss~---d~t~~~~~~~~~~~~i~~i~~~~n~G~~~a~N~g~~~a~gd~i~~lD~Dd 91 (201)
T cd04195 29 PDEVVLVKDGPVT---QSLNEVLEEFKRKLPLKVVPLEKNRGLGKALNEGLKHCTYDWVARMDTDD 91 (201)
T ss_pred CcEEEEEECCCCc---hhHHHHHHHHHhcCCeEEEEcCccccHHHHHHHHHHhcCCCEEEEeCCcc
Confidence 4577776654322 23445555443 345555443211 1134455666677899998777664
No 321
>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=30.13 E-value=3.9e+02 Score=23.68 Aligned_cols=62 Identities=15% Similarity=0.245 Sum_probs=44.0
Q ss_pred EEEEcCCCCCCccCHH-HHHHHHHhCC--cEEEEEEecchHHHHHHHHHhhCCeEEEecChhHHHHHHHh
Q 014385 194 LILYSALSTCDPGDIM-ETIQKCKESK--IRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIME 260 (425)
Q Consensus 194 LiI~ss~~t~d~~~i~-~ti~~akk~~--IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~ 260 (425)
|.|+|+- |+|= +|++-+++.. ++|..++-+.....|.+.+++-+=.|....|++.+..+-..
T Consensus 1 i~ILGsT-----GSIG~qtLdVi~~~~d~f~v~~Lsa~~n~~~L~~q~~~f~p~~v~i~~~~~~~~l~~~ 65 (129)
T PF02670_consen 1 IAILGST-----GSIGTQTLDVIRKHPDKFEVVALSAGSNIEKLAEQAREFKPKYVVIADEEAYEELKKA 65 (129)
T ss_dssp EEEESTT-----SHHHHHHHHHHHHCTTTEEEEEEEESSTHHHHHHHHHHHT-SEEEESSHHHHHHHHHH
T ss_pred CEEEcCC-----cHHHHHHHHHHHhCCCceEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHHHHH
Confidence 4566652 4553 6777777777 66666666678899999999999999999888766555433
No 322
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=30.07 E-value=2.2e+02 Score=31.23 Aligned_cols=89 Identities=15% Similarity=0.135 Sum_probs=62.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMCI-QELSTCLQYDTPVKIISLNNRYLGMVRQWQEIEYSKRYS 510 (587)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchhh--hcCH-HHHHHHHHcCCCeEEEEEECCcchHHHHHHHHhcCCCcc
Confidence 466666666666443332 4678888886532 1122 4688889999999998886320
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 232 -------FICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
.=+.++|+..|+.++.+.+.++|.+.|.+.+.
T Consensus 511 ~~~~~~~~d~~~iA~a~G~~~~~v~~~~eL~~al~~a~~ 549 (587)
T PRK06965 511 HSYMDALPDFVKLAEAYGHVGMRIEKTSDVEPALREALR 549 (587)
T ss_pred ccCCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 01457999999999999999999998887753
No 323
>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=30.00 E-value=4.3e+02 Score=25.28 Aligned_cols=52 Identities=6% Similarity=-0.082 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEE
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVI 225 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 4555555555544321 235899998777666666666677766654444444
No 324
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=29.84 E-value=29 Score=34.78 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=21.3
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014385 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 325
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=29.79 E-value=3.5e+02 Score=29.76 Aligned_cols=88 Identities=13% Similarity=0.087 Sum_probs=61.2
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMCI-QEMSTAVQYNLPVKIFILNNQYMGMVRQWQQLLHGNRLS 503 (595)
T ss_pred hhhhhhHHHHHHHHHhCC---CCeEEEEEcCchh--hccH-HHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCccc
Confidence 466666666666433333 4678888886532 1121 4588999999999999886421
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0145788899888888899999988887776
No 326
>PRK08322 acetolactate synthase; Reviewed
Probab=29.77 E-value=1.9e+02 Score=31.12 Aligned_cols=91 Identities=10% Similarity=0.004 Sum_probs=62.3
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--MMNS-QELETAVRLGLPLVVLILNDNAYGMIRWKQENMGFED 477 (547)
T ss_pred CcccccchhHHHHHHHHhCC---CCcEEEEEcchhH--hccH-HHHHHHHHhCCCeEEEEEeCCCcchHHHHHHhhcCCc
Confidence 33466666666665432222 4568888886532 1222 4577789999999988875321
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 01567899999999999999999999988764
No 327
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=29.45 E-value=2.1e+02 Score=31.23 Aligned_cols=88 Identities=11% Similarity=0.122 Sum_probs=61.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMN-IQELSTALQYDIPVKIINLNNRFLGMVKQWQDMIYQGRHS 494 (572)
T ss_pred ccccchhhHHHhhhhhCC---CCeEEEEEcchHh--hcc-HHHHHHHHHcCCCeEEEEEeCCccHHHHHHHHHHhCCccc
Confidence 466666666665433322 4679988886431 011 25688999999999888886420
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0145788999999999999999999888765
No 328
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=29.28 E-value=1.4e+02 Score=30.05 Aligned_cols=43 Identities=12% Similarity=0.097 Sum_probs=37.4
Q ss_pred ccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014385 205 PGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 205 ~~~i~~ti~~akk~~IrV~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 4678899999999999988888777889999999999988654
No 329
>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=29.14 E-value=3.8e+02 Score=24.80 Aligned_cols=71 Identities=7% Similarity=-0.041 Sum_probs=46.5
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCc-EEEEEEecchH-------------HHHHHHHHhhCCeEE-EecChhHH
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKI-RCSVIGLSAEM-------------FICKHLCQDTGGSYS-VALDESHF 254 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~I-rV~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 46666654321 236789999998874 67889999
Q ss_pred HHHHHhcCC
Q 014385 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 998887753
No 330
>PLN00209 ribosomal protein S27; Provisional
Probab=29.07 E-value=26 Score=29.11 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=20.5
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014385 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvss 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 3558999999998654
No 331
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=28.76 E-value=57 Score=24.91 Aligned_cols=21 Identities=38% Similarity=0.950 Sum_probs=12.9
Q ss_pred eEEcCCCCccccCCC-CCCCCCCc
Q 014385 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 4568877776 233 45667764
No 332
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=28.75 E-value=23 Score=26.40 Aligned_cols=30 Identities=33% Similarity=0.678 Sum_probs=19.6
Q ss_pred CCccccccccccCCC----CCCCceeeCCCCCcc
Q 014385 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 468999998887542 112234668888753
No 333
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=28.71 E-value=2.4e+02 Score=30.69 Aligned_cols=88 Identities=13% Similarity=0.075 Sum_probs=59.3
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 SMANAMPQALGAQAAHP---GRQVVALSGDGGF--SMLM-GDFLSLVQLKLPVKIVVFNNSVLGFVAMEMKAGGYLTDGT 482 (574)
T ss_pred cccchHHHHHHHHHhCC---CCeEEEEecCcHH--hccH-HHHHHHHHhCCCeEEEEEeCCccccHHHHHHhcCCccccC
Confidence 44555555555432222 4679999886532 1222 4577889999999888875320
Q ss_pred ----HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 02567889999999999999999998887653
No 334
>PF14353 CpXC: CpXC protein
Probab=28.69 E-value=35 Score=29.58 Aligned_cols=21 Identities=33% Similarity=0.819 Sum_probs=14.6
Q ss_pred eeeCCCCCcccccccchhhhc
Q 014385 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 689999998875554444444
No 335
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=28.66 E-value=56 Score=25.77 Aligned_cols=47 Identities=26% Similarity=0.543 Sum_probs=18.3
Q ss_pred ccccccccccCCCCCCCceeeC-CCCCcccccccchhhhccCCCCCCCCCCCCCCccc
Q 014385 365 TCFGCQQSLLSSGNKPGLYVAC-PKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIV 421 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C-~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~~~ 421 (425)
.|.-|..-|..+ .| ..|.+.||..|--=--. -.||-|.....-.-+.
T Consensus 9 rCs~C~~~l~~p--------v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 9 RCSICFDILKEP--------VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp S-SSS-S--SS---------B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS--
T ss_pred CCcHHHHHhcCC--------ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH
Confidence 588887666433 24 57999999999532111 2499997655433333
No 336
>PF12773 DZR: Double zinc ribbon
Probab=28.56 E-value=48 Score=23.78 Aligned_cols=39 Identities=23% Similarity=0.514 Sum_probs=24.8
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCC
Q 014385 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 112345666665 467777777777
No 337
>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=28.39 E-value=66 Score=27.40 Aligned_cols=84 Identities=19% Similarity=0.219 Sum_probs=48.9
Q ss_pred EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecC------hhHHHHHHHhc
Q 014385 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALD------ESHFKELIMEH 261 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~----e~~iLk~iA~~TGG~Y~~~~d------~~~L~~lL~~~ 261 (425)
+|+||.-+.. -....++++.|+++||++.+|.+-. +...+.++++.++-...+-.+ ...+.+.+.+.
T Consensus 11 di~iia~G~~---~~~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~~vvvvee~~~~gg~g~~i~~~l~~~ 87 (124)
T PF02780_consen 11 DITIIAYGSM---VEEALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTGRVVVVEEHYKIGGLGSAIAEYLAEN 87 (124)
T ss_dssp SEEEEEETTH---HHHHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHHHHHHSETCESEEEEHSSHHHHHHHH
T ss_pred CEEEEeehHH---HHHHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhccccccccccccccHHHHHHHHHHHh
Confidence 4666654432 2456789999999999999999974 456777766666533322222 22355555553
Q ss_pred CCCCccchhhhhhceeeecCCCC
Q 014385 262 APPPPAIAEFAIANLIKMGFPQR 284 (425)
Q Consensus 262 ~~Pp~~~~~~~~~~Li~mGFP~~ 284 (425)
...+. ...+.++|.|..
T Consensus 88 ~~~~~------~~~~~~~g~~d~ 104 (124)
T PF02780_consen 88 GFNDL------DAPVKRLGVPDE 104 (124)
T ss_dssp TTTGE------EEEEEEEEE-SS
T ss_pred CCccC------CCCeEEEEECCC
Confidence 32211 134566777654
No 338
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=28.33 E-value=3.2e+02 Score=27.68 Aligned_cols=52 Identities=10% Similarity=0.023 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEE
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRC 222 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV 222 (425)
...++.++|++.++..-+-..++|=+++-+.. .+|....+.++.|.+.+|.+
T Consensus 44 ~~~~g~~~av~~iNa~GGi~G~~ielv~~D~~-~~p~~a~~~~~~Li~~~V~~ 95 (369)
T PRK15404 44 MEFTGARQAIEDINAKGGIKGDKLEGVEYDDA-CDPKQAVAVANKVVNDGIKY 95 (369)
T ss_pred hHHHHHHHHHHHHHhcCCCCCeEEEEEeecCC-CCHHHHHHHHHHHHhCCceE
Confidence 44555566666555432222233433332211 23433344455555554433
No 339
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.20 E-value=31 Score=30.28 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=4.7
Q ss_pred Cccccccccc
Q 014385 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 340
>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=28.14 E-value=1.5e+02 Score=21.78 Aligned_cols=37 Identities=16% Similarity=0.100 Sum_probs=26.4
Q ss_pred EEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 193 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 193 ILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~ 229 (425)
+|-+.|..-..+++-..+.++.+.+.||+|+.|.-++
T Consensus 3 ~isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~~ 39 (66)
T cd04919 3 ILSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQGA 39 (66)
T ss_pred EEEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEecC
Confidence 3445564444456666688999999999999997654
No 341
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=28.11 E-value=2e+02 Score=29.90 Aligned_cols=69 Identities=9% Similarity=0.111 Sum_probs=48.3
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 35766654432 3667899999999999999999985 455677777766556666666666665555554
No 342
>PRK05858 hypothetical protein; Provisional
Probab=28.07 E-value=2.5e+02 Score=30.35 Aligned_cols=89 Identities=7% Similarity=-0.009 Sum_probs=60.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH--------H--------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------F-------- 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~--------~-------- 232 (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--GFSL-MDVDTLVRHNLPVVSVIGNNGIWGLEKHPMEALYGYDVA 480 (542)
T ss_pred cccccchhHHHHHHHhC---CCCcEEEEEcCchh--cCcH-HHHHHHHHcCCCEEEEEEeCCchhhHHHHHHHhcCCccc
Confidence 45555555555432222 24678989886532 1222 4577778899999999886421 0
Q ss_pred -------HHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 233 -------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 233 -------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 1347999999999999999999999887663
No 343
>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=28.00 E-value=27 Score=26.59 Aligned_cols=26 Identities=27% Similarity=0.700 Sum_probs=16.6
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014385 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvss 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 5888987654 4567999999998654
No 344
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=28.00 E-value=2.5e+02 Score=27.58 Aligned_cols=37 Identities=11% Similarity=0.113 Sum_probs=20.8
Q ss_pred EEEEEEcCCCCCCccCHH---HHHHHHHhCCcEEEEEEec
Q 014385 192 EVLILYSALSTCDPGDIM---ETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~---~ti~~akk~~IrV~vIglg 228 (425)
+|.||+|+.++-...++. .+++.+++.|.++..|...
T Consensus 2 ~v~v~~gg~s~e~~~sl~s~~~i~~al~~~g~~~~~i~~~ 41 (299)
T PRK14571 2 RVALLMGGVSREREISLRSGERVKKALEKLGYEVTVFDVD 41 (299)
T ss_pred eEEEEeCCCCCCccchHHHHHHHHHHHHHcCCeEEEEccC
Confidence 366666665543333332 4466666667766666544
No 345
>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=27.95 E-value=17 Score=31.10 Aligned_cols=27 Identities=30% Similarity=0.834 Sum_probs=11.8
Q ss_pred eeeecCCcc-ccCeEEcCCCCccccCCCCCCCCCCc
Q 014385 292 ICSCHKEVK-VGVGYTCPRCKARVCELPTDCRICGL 326 (425)
Q Consensus 292 ~C~CH~~~~-~~~Gy~Cp~C~s~~C~lP~~C~~C~l 326 (425)
+=+|.+... .+ |++|..|--+ ||+|..
T Consensus 8 LvmC~KqpG~~i-G~lC~kCdGk-------CpiCDS 35 (106)
T PF03660_consen 8 LVMCRKQPGTAI-GRLCEKCDGK-------CPICDS 35 (106)
T ss_dssp --B----EEEEE--EE-GGGTT---------TTT--
T ss_pred HhhhccCCcchh-hhhhhhcCCc-------ccccCC
Confidence 345666553 45 9999999876 999994
No 346
>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=27.89 E-value=3.3e+02 Score=27.84 Aligned_cols=74 Identities=11% Similarity=0.065 Sum_probs=40.5
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHH-hCCcEEEEEEecchH-HHHHHHHHhhC
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCK-ESKIRCSVIGLSAEM-FICKHLCQDTG 242 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~ak-k~~IrV~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 3567889999999998654433456666664432 34544444455444 467766433444432 23333444433
No 347
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.76 E-value=13 Score=37.59 Aligned_cols=44 Identities=30% Similarity=0.811 Sum_probs=37.2
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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 348
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=27.73 E-value=5.5e+02 Score=27.66 Aligned_cols=90 Identities=14% Similarity=0.075 Sum_probs=50.5
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch--------HHHHHHHHHhhC--CeEEE-ecChhHHHHHHH
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--------MFICKHLCQDTG--GSYSV-ALDESHFKELIM 259 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e--------~~iLk~iA~~TG--G~Y~~-~~d~~~L~~lL~ 259 (425)
|++. ++++ |.-....++.+.+.|+.+-.+|.... ...++++++..| |...+ -.|..++.+.+.
T Consensus 315 Krva-i~Gd-----p~~~i~LarfL~elGmevV~vgt~~~~~~~~~~d~~~l~~~~~~~~~~~~vive~~D~~el~~~i~ 388 (457)
T CHL00073 315 KSVF-FMGD-----NLLEISLARFLIRCGMIVYEIGIPYMDKRYQAAELALLEDTCRKMNVPMPRIVEKPDNYNQIQRIR 388 (457)
T ss_pred CEEE-EECC-----CcHHHHHHHHHHHCCCEEEEEEeCCCChhhhHHHHHHHHHHhhhcCCCCcEEEeCCCHHHHHHHHh
Confidence 3465 6664 33345678999999999888877632 223333333322 44433 345555555543
Q ss_pred hcCCCCccch-hhhhhceeeecCCCCCCC
Q 014385 260 EHAPPPPAIA-EFAIANLIKMGFPQRAGE 287 (425)
Q Consensus 260 ~~~~Pp~~~~-~~~~~~Li~mGFP~~~~~ 287 (425)
+. .|.-.-. -...-.|++.|||.+...
T Consensus 389 ~~-~pDLlIgG~~~~~Pl~~~G~p~~d~~ 416 (457)
T CHL00073 389 EL-QPDLAITGMAHANPLEARGINTKWSV 416 (457)
T ss_pred hC-CCCEEEccccccCchhhcCCcceEec
Confidence 32 2332221 123457999999998654
No 349
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=27.59 E-value=1.4e+02 Score=32.07 Aligned_cols=53 Identities=15% Similarity=0.110 Sum_probs=36.4
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 175 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 344444444443222356888888664 35787889999999999999998864
No 350
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=27.52 E-value=1.6e+02 Score=26.86 Aligned_cols=45 Identities=9% Similarity=0.175 Sum_probs=30.4
Q ss_pred HHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 174 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 174 AL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~ 229 (425)
.++.|...++. .....+++||+.+.. .+..+.+.|+.+..|-+|.
T Consensus 62 sv~~a~~~l~~--~~~~~~v~il~k~~~---------d~~~l~~~g~~i~~iNvG~ 106 (157)
T PRK11425 62 TLQKVIDNIHR--AADRQKILLVCKTPA---------DFLTLVKGGVPVNRINVGN 106 (157)
T ss_pred EHHHHHHHHhc--cCCCceEEEEECCHH---------HHHHHHHcCCCCCEEEECC
Confidence 34556666765 245567999997642 4556677888888888874
No 351
>PRK14873 primosome assembly protein PriA; Provisional
Probab=27.42 E-value=42 Score=37.75 Aligned_cols=39 Identities=26% Similarity=0.606 Sum_probs=29.2
Q ss_pred CCccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhccCCCCCCCCCC
Q 014385 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 352
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=27.39 E-value=34 Score=21.23 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=17.5
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014385 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 467888877666666788888764
No 353
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=27.35 E-value=53 Score=37.22 Aligned_cols=59 Identities=27% Similarity=0.792 Sum_probs=0.0
Q ss_pred cCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeC
Q 014385 307 CPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVAC 386 (425)
Q Consensus 307 Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~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 014385 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 354
>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=27.29 E-value=31 Score=29.67 Aligned_cols=27 Identities=26% Similarity=0.545 Sum_probs=18.2
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCCC
Q 014385 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 46889999999877655443 9999874
No 355
>PF14949 ARF7EP_C: ARF7 effector protein C-terminus
Probab=27.08 E-value=34 Score=29.36 Aligned_cols=19 Identities=42% Similarity=1.114 Sum_probs=15.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccccc
Q 014385 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 356
>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=27.04 E-value=3.1e+02 Score=27.24 Aligned_cols=51 Identities=12% Similarity=0.117 Sum_probs=31.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-Cc
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KI 220 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~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 457788888888887653333455655554332 3565555666666655 66
No 357
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=26.98 E-value=43 Score=30.03 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=22.0
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014385 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 778999999999988999999976
No 358
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=26.96 E-value=3.5e+02 Score=29.46 Aligned_cols=88 Identities=17% Similarity=0.080 Sum_probs=59.4
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMTL-QELSVIKELSLPVKVVILNNEALGMVRQWQEEFYNQRYSH 498 (571)
T ss_pred cccchHHHHHHHHHhCC---CCcEEEEEcchHH--hhhH-HHHHHHHHhCCCeEEEEEECchHHHHHHHHHHHhCCccee
Confidence 44555555544333222 4568888886542 1233 3488899999999888886421
Q ss_pred ------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 01567899999999999999999888877653
No 359
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=26.95 E-value=30 Score=28.65 Aligned_cols=26 Identities=27% Similarity=0.570 Sum_probs=20.4
Q ss_pred EcCCCCcccc-----CCCCCCCCCCceecCc
Q 014385 306 TCPRCKARVC-----ELPTDCRICGLQLVSS 331 (425)
Q Consensus 306 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvss 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 5999988765 3457999999998654
No 360
>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=26.88 E-value=1.7e+02 Score=28.68 Aligned_cols=44 Identities=23% Similarity=0.348 Sum_probs=37.2
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014385 204 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 204 d~~~i~~ti~~akk~~IrV~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 35677899999999999988887777889999999999987653
No 361
>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=26.84 E-value=45 Score=30.26 Aligned_cols=29 Identities=28% Similarity=0.595 Sum_probs=21.7
Q ss_pred ceeeCCCCCcccccccchhhhccCCCCCCCCCC
Q 014385 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 468888888888875 1 3678889988753
No 362
>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=26.83 E-value=48 Score=31.52 Aligned_cols=40 Identities=28% Similarity=0.593 Sum_probs=26.7
Q ss_pred eeCCCCCcccccccc---hhhhccCCCCCCCCCCCCCCccccCC
Q 014385 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 363
>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=26.82 E-value=2.7e+02 Score=27.36 Aligned_cols=30 Identities=20% Similarity=0.350 Sum_probs=15.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEc
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYS 198 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~s 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 455566666666666533333344554443
No 364
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=26.81 E-value=3.2e+02 Score=29.92 Aligned_cols=88 Identities=11% Similarity=0.072 Sum_probs=60.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMN-LQELGTIAQYNLPIKIIIINNKWQGMVRQWQQAFYGERYS 503 (585)
T ss_pred cchhhhHHHHHHHHHhCC---CCeEEEEEcchhh--hhh-HHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCCcc
Confidence 456666666665433332 4678888886532 011 24678889999998888775320
Q ss_pred --------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0156788889999999999999999888775
No 365
>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=26.80 E-value=3.5e+02 Score=28.38 Aligned_cols=70 Identities=13% Similarity=0.212 Sum_probs=38.2
Q ss_pred EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEec---chHHHHHHHHHhhCCeEEEecChhH------HHHHHHhcC
Q 014385 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS---AEMFICKHLCQDTGGSYSVALDESH------FKELIMEHA 262 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg---~e~~iLk~iA~~TGG~Y~~~~d~~~------L~~lL~~~~ 262 (425)
+|+|+- +.++ .+..+.++.+++..-++.++-+. +....|....+.+.|.|++..|.|+ +++++..+.
T Consensus 82 eIiVVD-d~St---D~T~~il~~~~~~~~~v~v~~~~~~~Gka~AlN~gl~~s~g~~v~~~DaD~~~~~d~L~~l~~~f~ 157 (439)
T TIGR03111 82 DIILAN-NQST---DDSFQVFCRAQNEFPGLSLRYMNSDQGKAKALNAAIYNSIGKYIIHIDSDGKLHKDAIKNMVTRFE 157 (439)
T ss_pred EEEEEE-CCCC---hhHHHHHHHHHHhCCCeEEEEeCCCCCHHHHHHHHHHHccCCEEEEECCCCCcChHHHHHHHHHHH
Confidence 555553 3332 22344555555543234443332 2346677777788899998766663 566665554
Q ss_pred CCC
Q 014385 263 PPP 265 (425)
Q Consensus 263 ~Pp 265 (425)
..|
T Consensus 158 ~~~ 160 (439)
T TIGR03111 158 NNP 160 (439)
T ss_pred hCC
Confidence 333
No 366
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=26.72 E-value=29 Score=32.15 Aligned_cols=30 Identities=30% Similarity=0.645 Sum_probs=20.7
Q ss_pred CccccccccccCCCCC-------------CCceeeCCCCCccc
Q 014385 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 3699999888654321 12258899999876
No 367
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=26.60 E-value=5.3e+02 Score=27.16 Aligned_cols=104 Identities=12% Similarity=0.071 Sum_probs=71.4
Q ss_pred HHHHHHHHhhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH
Q 014385 152 PESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 152 ~~~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 45565665432222335678888888888777652222446888877764 34567788888888889999888878
Q ss_pred HHHHHHHHhhCCeEEEe-------cChhHHHHHHH
Q 014385 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 44555666655
No 368
>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=26.55 E-value=2.2e+02 Score=26.84 Aligned_cols=38 Identities=13% Similarity=0.132 Sum_probs=29.2
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~ 229 (425)
.++|+|+.|.+. +-||=..+++.|.+.++.|++++...
T Consensus 45 ~~~v~vl~G~GN--NGGDGlv~AR~L~~~~v~V~~~~~~~ 82 (205)
T TIGR00197 45 AGHVIIFCGPGN--NGGDGFVVARHLKGFGVEVFLLKKEK 82 (205)
T ss_pred CCeEEEEECCCC--CccHHHHHHHHHHhCCCEEEEEccCC
Confidence 356888888654 35777888899988999999987654
No 369
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=26.53 E-value=37 Score=24.64 Aligned_cols=28 Identities=21% Similarity=0.435 Sum_probs=19.3
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCcc-cccccc
Q 014385 365 TCFGCQQ-SLLSSGNKPGLYVACPKCKKH-FCLECD 398 (425)
Q Consensus 365 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~~-fC~dCD 398 (425)
.|-||.. ++. ..||.|..|... +|..|-
T Consensus 2 ~CDgCg~~PI~------G~RykC~~C~dyDLC~~C~ 31 (43)
T cd02342 2 QCDGCGVLPIT------GPRYKSKVKEDYDLCTICF 31 (43)
T ss_pred CCCCCCCCccc------ccceEeCCCCCCccHHHHh
Confidence 4888974 442 258999998765 777663
No 370
>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=26.44 E-value=1.6e+02 Score=21.38 Aligned_cols=36 Identities=14% Similarity=0.142 Sum_probs=25.2
Q ss_pred EEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 444554333345656688999999999999997653
No 371
>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=26.44 E-value=2.4e+02 Score=30.76 Aligned_cols=89 Identities=11% Similarity=0.075 Sum_probs=61.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--GMS-MNEIMTAVRHDIPVTAVVFRNRQWGAEKKNQVDFYNNRFV 503 (579)
T ss_pred ccccchHHHHHhhhhhCC---CCcEEEEEcchHH--hcc-HHHHHHHHHhCCCeEEEEEECcchHHHHHHHHHhhCCcce
Confidence 456666666555433222 4568888886532 011 26788999999999888885320
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 02577899999999999999999999888763
No 372
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=26.42 E-value=2.2e+02 Score=29.68 Aligned_cols=70 Identities=16% Similarity=0.141 Sum_probs=52.1
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 34666654322 3677899999999999999999985 3456788888777777777787888777776653
No 373
>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=26.37 E-value=58 Score=29.86 Aligned_cols=33 Identities=30% Similarity=0.385 Sum_probs=22.7
Q ss_pred EEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch
Q 014385 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 230 (425)
Q Consensus 194 LiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 5555543 47788999999999999999999854
No 374
>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=26.29 E-value=47 Score=24.18 Aligned_cols=29 Identities=38% Similarity=0.890 Sum_probs=20.5
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCc-ccccccch
Q 014385 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 375
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=26.28 E-value=33 Score=30.82 Aligned_cols=29 Identities=38% Similarity=0.884 Sum_probs=24.5
Q ss_pred eE-EcCCCCc---cccCCCCCCCCCCceecCch
Q 014385 304 GY-TCPRCKA---RVCELPTDCRICGLQLVSSP 332 (425)
Q Consensus 304 Gy-~Cp~C~s---~~C~lP~~C~~C~l~Lvssp 332 (425)
|| +|--|-+ ++|.+-+.||+|.+.+-||-
T Consensus 103 gY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 103 GYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred chHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 67 6777766 89999999999999988774
No 376
>PRK06163 hypothetical protein; Provisional
Probab=26.28 E-value=3.2e+02 Score=25.80 Aligned_cols=70 Identities=17% Similarity=0.188 Sum_probs=46.0
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHh-CCcEEEEEEecchH--------------HHHHHHHHhhCCe-EEEecChhH
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAEM--------------FICKHLCQDTGGS-YSVALDESH 253 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk-~~IrV~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 4668888886531 0122 34555544 46777777775321 1257899999987 567889999
Q ss_pred HHHHHHhcC
Q 014385 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 998888776
No 377
>KOG4169 consensus 15-hydroxyprostaglandin dehydrogenase and related dehydrogenases [Lipid transport and metabolism; General function prediction only]
Probab=26.09 E-value=5.8e+02 Score=25.37 Aligned_cols=92 Identities=13% Similarity=0.219 Sum_probs=60.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHH-----------------HHHHHhCCcEEEEEEec-ch
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMET-----------------IQKCKESKIRCSVIGLS-AE 230 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~t-----------------i~~akk~~IrV~vIglg-~e 230 (425)
+.+-|+-.+|+.++.+.. -+..-|||=+||...-+|....-+ ....++.||+++++-=| +.
T Consensus 108 tgvin~T~~alpyMdk~~-gG~GGiIvNmsSv~GL~P~p~~pVY~AsKaGVvgFTRSla~~ayy~~sGV~~~avCPG~t~ 186 (261)
T KOG4169|consen 108 TGVINGTQLALPYMDKKQ-GGKGGIIVNMSSVAGLDPMPVFPVYAASKAGVVGFTRSLADLAYYQRSGVRFNAVCPGFTR 186 (261)
T ss_pred hhhhhhhhhhhhhhhhhc-CCCCcEEEEeccccccCccccchhhhhcccceeeeehhhhhhhhHhhcCEEEEEECCCcch
Confidence 456677778888887652 234458888888776677644311 34457788988888777 45
Q ss_pred HHHHHHHHHhhCCeEEEecChhHHHHHHHhcCCCC
Q 014385 231 MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPP 265 (425)
Q Consensus 231 ~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~Pp 265 (425)
..+...+-+. |.|... .+++++.|..+-.-+
T Consensus 187 t~l~~~~~~~--~~~~e~--~~~~~~~l~~~~~q~ 217 (261)
T KOG4169|consen 187 TDLAENIDAS--GGYLEY--SDSIKEALERAPKQS 217 (261)
T ss_pred HHHHHHHHhc--CCcccc--cHHHHHHHHHcccCC
Confidence 6777888666 667653 346777776665433
No 378
>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=26.01 E-value=4.1e+02 Score=26.44 Aligned_cols=75 Identities=12% Similarity=0.042 Sum_probs=42.4
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-CCcEEEEEEecchH-HHHHHHHHhhCC
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAEM-FICKHLCQDTGG 243 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk-~~IrV~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 4678899999999998753333456666654322 355544555666654 56654433344432 334445555443
No 379
>PHA02926 zinc finger-like protein; Provisional
Probab=25.94 E-value=46 Score=32.52 Aligned_cols=53 Identities=25% Similarity=0.540 Sum_probs=32.2
Q ss_pred CCCccccccccccCCCCCCCcee-eCCCCCcccccccchhhhcc------CCCCCCCCCC
Q 014385 362 SRSTCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHES------LHNCPGCESL 414 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~fC~dCD~fiHe~------lh~CPgC~~~ 414 (425)
.+..|.-|.-....+......+| .=+.|++.||+.|=.--.++ ...||-|-..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~ 228 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTR 228 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcce
Confidence 35679999854422110000111 23589999999997655543 4679999753
No 380
>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=25.86 E-value=4.1e+02 Score=26.00 Aligned_cols=61 Identities=16% Similarity=0.157 Sum_probs=35.7
Q ss_pred cchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014385 168 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 168 ~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~-~IrV~vIglg~ 229 (425)
+..+.+++++|...++..-+-+.++|-+++-+. ..||....+.++.+.+. +|..-+...++
T Consensus 16 g~~~~~g~~~a~~~~N~~Ggi~G~~i~lv~~D~-~~~~~~~~~~~~~li~~~~V~~iig~~~s 77 (341)
T cd06341 16 FPGARAGADAAAGYANAAGGIAGRPIEYVWCDD-QGDPASAAACARDLVEDDKVVAVVGGSSG 77 (341)
T ss_pred cHHHHHHHHHHHHHHHhcCCcCCceEEEEEecC-CCChhHHHHHHHHHHHhcCceEEEecccc
Confidence 357888888888888754333334444444332 23555556666666665 77665555443
No 381
>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=25.85 E-value=3.6e+02 Score=27.42 Aligned_cols=78 Identities=12% Similarity=0.085 Sum_probs=47.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHH-HHHHHHHhhCCeE
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-ICKHLCQDTGGSY 245 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 356888999999999986433323455555443 2356666677777777886555445555432 2445565544434
Q ss_pred E
Q 014385 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 4
No 382
>PRK08266 hypothetical protein; Provisional
Probab=25.80 E-value=3.3e+02 Score=29.30 Aligned_cols=88 Identities=9% Similarity=0.035 Sum_probs=60.3
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 GTLGYGFPTALGAKVANP---DRPVVSITGDGGF-M-FGV-QELATAVQHNIGVVTVVFNNNAYGNVRRDQKRRFGGRVV 475 (542)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcchhh-h-ccH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCCcc
Confidence 456666666665433322 4568888886542 1 233 5577789999998888775321
Q ss_pred ------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0256788888999999999999999887765
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=25.59 E-value=64 Score=24.73 Aligned_cols=31 Identities=23% Similarity=0.552 Sum_probs=21.5
Q ss_pred CCCCccccccccccCCCCCCCceeeCCCCCccc
Q 014385 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 223468999998764
No 384
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=25.58 E-value=1.9e+02 Score=26.41 Aligned_cols=70 Identities=16% Similarity=0.135 Sum_probs=49.3
Q ss_pred CcEEEEEEcCCCCCCccCHH-HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 190 HREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~-~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~~ 263 (425)
..+|+|+-+ ....|| +. .+++.++=.||++++.++..-...|++ ...+.-.+.+..+..++.+++..-..
T Consensus 28 ~~~IvVvdD-~~A~D~--~~k~~l~ma~P~gvk~~i~sv~~a~~~l~~-~~~~~~v~il~k~~~d~~~l~~~g~~ 98 (157)
T PRK11425 28 ANLVLVAND-EVAEDP--VQQNLMEMVLAEGIAVRFWTLQKVIDNIHR-AADRQKILLVCKTPADFLTLVKGGVP 98 (157)
T ss_pred CCEEEEEcc-hhcCCH--HHHHHHHhhCCCCCeEEEEEHHHHHHHHhc-cCCCceEEEEECCHHHHHHHHHcCCC
Confidence 344555544 333344 55 557777779999999999888888887 33333456678999999999886664
No 385
>PRK11269 glyoxylate carboligase; Provisional
Probab=25.27 E-value=3.2e+02 Score=29.90 Aligned_cols=88 Identities=10% Similarity=0.047 Sum_probs=60.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~----~------------ 232 (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--QFLI-EELAVGAQFNLPYIHVLVNNAYLGLIRQAQRAFDMDYCV 492 (591)
T ss_pred ccccchhhhHHhhhhhCC---CCcEEEEEccchh--hcCH-HHHHHHHHhCCCeEEEEEeCCchhHHHHHHHHhccCccc
Confidence 355555555555432222 4679999886532 1222 4577889999999888885321 0
Q ss_pred -----------------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 233 -----------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 -----------------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 146788999999999999999999887765
No 386
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=25.23 E-value=66 Score=21.56 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=12.3
Q ss_pred ceeeCCCCCcccccc
Q 014385 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 387
>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=25.21 E-value=2.5e+02 Score=22.98 Aligned_cols=41 Identities=17% Similarity=0.275 Sum_probs=27.9
Q ss_pred cEEEEEEcCCCCCCccC---HHHHHHHHHhCCcEEEEEEecchH
Q 014385 191 REVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSAEM 231 (425)
Q Consensus 191 reILiI~ss~~t~d~~~---i~~ti~~akk~~IrV~vIglg~e~ 231 (425)
+.+|+=+++....|... +.+.++.+++.|+++.++|+..++
T Consensus 42 ~~vvlDls~v~~iDssg~~~l~~~~~~~~~~g~~l~l~g~~~~v 85 (109)
T cd07041 42 RGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTGIRPEV 85 (109)
T ss_pred CEEEEECCCCchhcHHHHHHHHHHHHHHHHcCCeEEEEeCCHHH
Confidence 33444456555444433 346788889999999999998765
No 388
>PRK11823 DNA repair protein RadA; Provisional
Probab=25.16 E-value=41 Score=35.78 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=22.3
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014385 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 389
>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=25.07 E-value=1.9e+02 Score=21.02 Aligned_cols=37 Identities=14% Similarity=0.116 Sum_probs=25.8
Q ss_pred EEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 193 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 193 ILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~ 229 (425)
+|=+.|..-..+++-..+.++.+.+.||+|+.|+-+.
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~~ 39 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQGS 39 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 3445554433445555678899999999999998653
No 390
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=25.03 E-value=3.3e+02 Score=29.54 Aligned_cols=88 Identities=14% Similarity=0.052 Sum_probs=58.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H---------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~-~--------------- 232 (425)
.+++.||-.|+..=...| .++|++|+|++.- -.+. +.+.++.+.+++|-+|-+.... .
T Consensus 415 g~mG~glpaaiGa~la~p---~~~vv~i~GDGsf--~~~~-~el~ta~~~~l~i~~vv~nN~~~~~~~~~~~~~~~~~~~ 488 (557)
T PRK08199 415 GSMGYGLPAAIAAKLLFP---ERTVVAFAGDGCF--LMNG-QELATAVQYGLPIIVIVVNNGMYGTIRMHQEREYPGRVS 488 (557)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchHh--hccH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCccc
Confidence 456666655554322222 4568888886542 1222 4577789999998888876431 0
Q ss_pred -------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 233 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 233 -------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 146788888999999999999988887765
No 391
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=25.00 E-value=27 Score=34.74 Aligned_cols=28 Identities=32% Similarity=0.823 Sum_probs=22.9
Q ss_pred eCCCCC----cccccccchhhhccCCCCCCCCC
Q 014385 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 58999999999999 88999975
No 392
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=24.99 E-value=55 Score=24.94 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=17.7
Q ss_pred EEcCCCCccc----------cCCCCCCCCCCce
Q 014385 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 3589999999753
No 393
>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=24.96 E-value=3.4e+02 Score=29.36 Aligned_cols=89 Identities=11% Similarity=0.042 Sum_probs=59.5
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 34555555555432222 23568888876542 1 222 4677889999998888885321
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 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 12567888889999999999999998887763
No 394
>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=24.96 E-value=91 Score=24.97 Aligned_cols=23 Identities=13% Similarity=0.423 Sum_probs=11.1
Q ss_pred HHHHHHHHhCCCCCCCcEEEEEEcC
Q 014385 175 LDLVQGLLSQIPSYGHREVLILYSA 199 (425)
Q Consensus 175 L~~A~~~L~~~p~~~sreILiI~ss 199 (425)
+..++..|+.. +..+++++|++.
T Consensus 27 ~~a~l~~l~~~--~~~~~~i~V~G~ 49 (91)
T PF02875_consen 27 IRALLEALKEL--YPKGRIIAVFGA 49 (91)
T ss_dssp HHHHHHHHHHH--CTTSEEEEEEEE
T ss_pred HHHHHHHHHHh--ccCCcEEEEEcc
Confidence 33344444443 224556666664
No 395
>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=24.93 E-value=5.3e+02 Score=26.74 Aligned_cols=76 Identities=12% Similarity=-0.050 Sum_probs=41.0
Q ss_pred HHHHHHHHHhCCcEEEEEEecc-h----HHHHHHHHHhhCCeEEE-ecChhHHHHHHHhcCCCCccch-hhhhhceeeec
Q 014385 208 IMETIQKCKESKIRCSVIGLSA-E----MFICKHLCQDTGGSYSV-ALDESHFKELIMEHAPPPPAIA-EFAIANLIKMG 280 (425)
Q Consensus 208 i~~ti~~akk~~IrV~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---PMVRIVEKPDNYRQLDRIREL-RPDLVVTGLGLANPLEARG 363 (396)
T ss_pred HHHHHHHHHHCCCEEEeeCCCcCChHHHHHHHHhcC---CCCeEEECCCHHHHHHHHHhc-CCCEEEecccccCcHHhCC
Confidence 4567888889999887765432 1 12333332 343222 23444455554432 2333321 12334799999
Q ss_pred CCCCCCC
Q 014385 281 FPQRAGE 287 (425)
Q Consensus 281 FP~~~~~ 287 (425)
||.+...
T Consensus 364 ~P~~dr~ 370 (396)
T cd01979 364 ITTKWSI 370 (396)
T ss_pred Ccceeec
Confidence 9998654
No 396
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=24.91 E-value=28 Score=34.25 Aligned_cols=55 Identities=25% Similarity=0.385 Sum_probs=32.2
Q ss_pred CchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCC----CCCCceeeCCCCCcc
Q 014385 330 SSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 392 (425)
Q Consensus 330 ssphLarsyhhlfp~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 392 (425)
..|+|.-=|+++- ..++-+.. .......|.||.+.+|... ......-.||.|+..
T Consensus 172 l~~ell~~yeri~--~~~kg~gv------vpl~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRI 230 (239)
T COG1579 172 LDPELLSEYERIR--KNKKGVGV------VPLEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRI 230 (239)
T ss_pred cCHHHHHHHHHHH--hcCCCceE------EeecCCcccCCeeeecHHHHHHHhcCCCCccCCccchH
Confidence 4789999999873 33322110 0113568999999998653 112223448887754
No 397
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.80 E-value=30 Score=36.22 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=26.3
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhcc
Q 014385 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 398
>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=24.64 E-value=55 Score=25.11 Aligned_cols=46 Identities=28% Similarity=0.625 Sum_probs=31.5
Q ss_pred cceeeecCCccccC--eEEcCCCCccccCC--C-CCCCCCCceecCchhHH
Q 014385 290 ISICSCHKEVKVGV--GYTCPRCKARVCEL--P-TDCRICGLQLVSSPHLA 335 (425)
Q Consensus 290 ~a~C~CH~~~~~~~--Gy~Cp~C~s~~C~l--P-~~C~~C~l~LvssphLa 335 (425)
+..|+|..+.=... -=.|..|+-|+|+. | ..|+-||..|+++....
T Consensus 2 r~~C~C~a~~H~L~~~~~NCl~CGkIiC~~Eg~~~pC~fCg~~l~~~~~~~ 52 (57)
T PF06221_consen 2 RRKCNCQARRHPLFPYAPNCLNCGKIICEQEGPLGPCPFCGTPLLSSEERQ 52 (57)
T ss_pred CcccccccccCCCccccccccccChhhcccccCcCcCCCCCCcccCHHHHH
Confidence 34678876432111 23699999999974 3 68999998888765543
No 399
>PRK10220 hypothetical protein; Provisional
Probab=24.61 E-value=46 Score=28.85 Aligned_cols=23 Identities=35% Similarity=1.070 Sum_probs=15.4
Q ss_pred CCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 44556777777765
No 400
>PRK08329 threonine synthase; Validated
Probab=24.51 E-value=39 Score=34.52 Aligned_cols=41 Identities=22% Similarity=0.565 Sum_probs=26.3
Q ss_pred EEcCCCCcccc-CCCCCCCCCCceecCchhHH-----------hhhcccCCCCC
Q 014385 305 YTCPRCKARVC-ELPTDCRICGLQLVSSPHLA-----------RSYHHLFPIAP 346 (425)
Q Consensus 305 y~Cp~C~s~~C-~lP~~C~~C~l~LvssphLa-----------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 5876665553322 34888888754
No 401
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=24.45 E-value=72 Score=25.04 Aligned_cols=28 Identities=32% Similarity=0.406 Sum_probs=20.5
Q ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCCc
Q 014385 104 FRPSRMAVVAKQVEAFVREFFDQNPLSQ 131 (425)
Q Consensus 104 ~~P~RL~~a~~~l~~Fv~~~~~qnp~sq 131 (425)
-.|.........-..||+.||..+|+.|
T Consensus 3 ~~~~~~~k~~kK~i~~v~~FF~~DPlGq 30 (64)
T PF05596_consen 3 DKPEDDKKSVKKWIEEVRNFFYEDPLGQ 30 (64)
T ss_pred cchhhhHHhHHHHHHHHHHHhccCchHH
Confidence 3466666666667789999999988654
No 402
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.33 E-value=30 Score=32.52 Aligned_cols=43 Identities=26% Similarity=0.539 Sum_probs=34.7
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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 403
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=24.24 E-value=39 Score=35.02 Aligned_cols=40 Identities=33% Similarity=0.700 Sum_probs=32.5
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccc-cccchhhhccCCCCCCC
Q 014385 363 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFC-LECDIYIHESLHNCPGC 411 (425)
Q Consensus 363 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC-~dCD~fiHe~lh~CPgC 411 (425)
...|-.|++.= .-|+||+|..-|| ++|.. .|..+.+|-|=
T Consensus 17 ~vlCgVClknE--------~KYkCPRCl~rtCsLeCsk-kHK~~dnCsG~ 57 (390)
T KOG2858|consen 17 SVLCGVCLKNE--------PKYKCPRCLARTCSLECSK-KHKIGDNCSGS 57 (390)
T ss_pred hhhhhhcccCc--------ccccCcchhhhheeccccc-cccccCCCcCC
Confidence 45899998432 3599999999997 68875 79999999885
No 404
>PRK07586 hypothetical protein; Validated
Probab=24.19 E-value=4.1e+02 Score=28.40 Aligned_cols=88 Identities=14% Similarity=0.153 Sum_probs=57.0
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-H---------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 232 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 456666666665433322 4678989886532 0 11 25688889999998888876431 1
Q ss_pred --------------HHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 134567777777777778888887777665
No 405
>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=24.15 E-value=49 Score=34.69 Aligned_cols=22 Identities=18% Similarity=0.483 Sum_probs=15.7
Q ss_pred eEEcCCCCcccc-CCCCCCCCCC
Q 014385 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 406
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=24.08 E-value=49 Score=31.06 Aligned_cols=27 Identities=33% Similarity=0.563 Sum_probs=22.3
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecC
Q 014385 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 789999999998555789999987653
No 407
>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=23.98 E-value=44 Score=26.75 Aligned_cols=24 Identities=33% Similarity=0.729 Sum_probs=17.7
Q ss_pred ccccccchhhhccCC--------------CCCCCCCCC
Q 014385 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 468888888877655 699997643
No 408
>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=23.97 E-value=4e+02 Score=28.67 Aligned_cols=88 Identities=10% Similarity=-0.008 Sum_probs=59.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 QTLGVALPWAIGAALVRP---NTKVVSVSGDGGF--LFSS-MELETAVRLKLNIVHIIWNDNGYNMVEFQEEMKYQRSSG 481 (539)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcchhh--hchH-HHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCccc
Confidence 355555555555322222 4568888886532 1222 4577899999999888876321
Q ss_pred -----HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0167899999999999999999999887765
No 409
>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=23.96 E-value=2e+02 Score=28.44 Aligned_cols=44 Identities=16% Similarity=0.173 Sum_probs=36.6
Q ss_pred CCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEE
Q 014385 203 CDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 246 (425)
Q Consensus 203 ~d~~~i~~ti~~akk~~IrV~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 34567789999999999998877777788999999999987543
No 410
>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=23.83 E-value=44 Score=35.50 Aligned_cols=43 Identities=19% Similarity=0.393 Sum_probs=23.8
Q ss_pred cceeeecCCccc--c-C-eEEcCCCCccccC--CCCCCCCCCceecCch
Q 014385 290 ISICSCHKEVKV--G-V-GYTCPRCKARVCE--LPTDCRICGLQLVSSP 332 (425)
Q Consensus 290 ~a~C~CH~~~~~--~-~-Gy~Cp~C~s~~C~--lP~~C~~C~l~Lvssp 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 456667665543 2 1 3459999999994 3479999999877554
No 411
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.80 E-value=1e+02 Score=31.07 Aligned_cols=10 Identities=30% Similarity=0.952 Sum_probs=7.3
Q ss_pred eeeCCCCCcc
Q 014385 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 3789998863
No 412
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=23.78 E-value=3.3e+02 Score=29.59 Aligned_cols=88 Identities=14% Similarity=0.066 Sum_probs=60.7
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 GTMGYGFPAAIGAKVGKP---DKTVIDIAGDGSF--QMNS-QELATAVQNDIPVIVAILNNGYLGMVRQWQELFYDKRYS 487 (561)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEeCchh--hccH-HHHHHHHHcCCCeEEEEEECCccHHHHHHHHHHcCCccc
Confidence 456666666655432222 4668888886532 1222 4578889999999888886320
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0146788999999999999999999888776
No 413
>TIGR03254 oxalate_oxc oxalyl-CoA decarboxylase. In a number of bacteria, including Oxalobacter formigenes from the human gut, a two-gene operon of oxc (oxalyl-CoA decarboxylase) and frc (formyl-CoA transferase) encodes a system for degrading and therefore detoxifying oxalate. Members of this family are the thiamine pyrophosphate (TPP)-containing enzyme oxalyl-CoA decarboxylase.
Probab=23.77 E-value=4.4e+02 Score=28.51 Aligned_cols=70 Identities=10% Similarity=0.011 Sum_probs=51.5
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------H-----HHHHHHHhhCCeEEE
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-----------------F-----ICKHLCQDTGGSYSV 247 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~-----------------~-----iLk~iA~~TGG~Y~~ 247 (425)
.|+|+.|.|++.- -..+ ..+.++.+.|++|-+|-+.... . =+.++|+..|+.++.
T Consensus 434 ~~~vv~i~GDGsf--~m~~-~EL~Ta~r~~l~v~~vV~NN~~~~~~~~~~~~~~~~~~~~~~~~~df~~la~a~G~~~~~ 510 (554)
T TIGR03254 434 GKPVVALEGDSAF--GFSG-MEVETICRYNLPVCVVIFNNGGIYRGDDVNVVGADPAPTVLVHGARYDKMMKAFGGVGYN 510 (554)
T ss_pred CCcEEEEEcCchh--cccH-HHHHHHHHcCCCEEEEEEeChhhhhhhhhhhcCCCCCccccCCCCCHHHHHHHCCCeEEE
Confidence 3668888886542 1233 3478889999999888875321 0 146889999999999
Q ss_pred ecChhHHHHHHHhcC
Q 014385 248 ALDESHFKELIMEHA 262 (425)
Q Consensus 248 ~~d~~~L~~lL~~~~ 262 (425)
+.+.++|...|.+..
T Consensus 511 v~~~~el~~al~~a~ 525 (554)
T TIGR03254 511 VTTPDELKAALNEAL 525 (554)
T ss_pred eCCHHHHHHHHHHHH
Confidence 999999999887765
No 414
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=23.70 E-value=21 Score=26.48 Aligned_cols=25 Identities=32% Similarity=0.733 Sum_probs=20.9
Q ss_pred eEEcCCCCccccCCCCCCCCCCcee
Q 014385 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 415
>PRK07591 threonine synthase; Validated
Probab=23.62 E-value=67 Score=33.85 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=20.3
Q ss_pred eEEcCCCCcccc-CCCCCCCCCCceecCc
Q 014385 304 GYTCPRCKARVC-ELPTDCRICGLQLVSS 331 (425)
Q Consensus 304 Gy~Cp~C~s~~C-~lP~~C~~C~l~Lvss 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 3336799997665444
No 416
>PHA00626 hypothetical protein
Probab=23.42 E-value=44 Score=25.67 Aligned_cols=15 Identities=13% Similarity=0.102 Sum_probs=11.9
Q ss_pred CceeeCCCCCccccc
Q 014385 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 457999999988744
No 417
>PRK12496 hypothetical protein; Provisional
Probab=23.37 E-value=43 Score=30.82 Aligned_cols=25 Identities=20% Similarity=0.458 Sum_probs=16.7
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc
Q 014385 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 12359999874
No 418
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=23.37 E-value=3.7e+02 Score=29.30 Aligned_cols=88 Identities=16% Similarity=0.158 Sum_probs=60.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--QMNI-QELSTCLQYGLPVKIINLNNGALGMVRQWQDMQYEGRHS 496 (574)
T ss_pred chhhchHHHHHHHHHhCC---CCeEEEEEcchhh--hccH-HHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhcCCcee
Confidence 466666666666443332 4679989886531 1222 5677899999999888886421
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0135688888999999999999999887765
No 419
>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=23.35 E-value=3.4e+02 Score=27.18 Aligned_cols=55 Identities=11% Similarity=0.189 Sum_probs=31.1
Q ss_pred CcchHHHHHHHHHHHHhCCCC-CCCcEEEEEEcCCCCCCccCHH-HHHHHHHhCCcEE
Q 014385 167 GDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRC 222 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~-~~sreILiI~ss~~t~d~~~i~-~ti~~akk~~IrV 222 (425)
.+..+.+|+.+|.+.++...+ -..++|-+++-+.. ++|.... .+.+.+.+.+|.+
T Consensus 15 ~g~~~~~a~~lAve~iN~~g~~i~g~~l~~~~~D~~-~~~~~a~~~a~~l~~~~~v~a 71 (389)
T cd06352 15 SLARVGPAIQLAVERVNADPNLLPGYDFTFVYLDTE-CSESVALLAAVDLYWEHNVDA 71 (389)
T ss_pred hhhcchHHHHHHHHHHhcCCCCCCCceEEEEEecCC-CchhhhHHHHHHHHhhcCCcE
Confidence 346778888899998887531 22345555544332 3443333 4445556667654
No 420
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.35 E-value=42 Score=29.19 Aligned_cols=25 Identities=16% Similarity=0.203 Sum_probs=21.3
Q ss_pred eEEcCCCCccccCC---CCCCCCCCcee
Q 014385 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 35899999999976 78999999874
No 421
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.34 E-value=54 Score=29.21 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=7.7
Q ss_pred eEEcCCCCccc
Q 014385 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 57777787655
No 422
>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=23.08 E-value=68 Score=20.73 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=18.1
Q ss_pred eEEcCCCCccccCCCCCCCCCCce
Q 014385 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 678999999888888899999863
No 423
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=23.07 E-value=22 Score=37.78 Aligned_cols=43 Identities=21% Similarity=0.418 Sum_probs=33.0
Q ss_pred CCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchhhh
Q 014385 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 454444566999999998532 1256799999999999999985
No 424
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=22.98 E-value=3.8e+02 Score=29.12 Aligned_cols=88 Identities=10% Similarity=-0.027 Sum_probs=59.8
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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--LMTG-TNLATAVDEHIPVISVIFDNRTLGLVRQVQDLFFGKRIV 494 (572)
T ss_pred ccccchhHHHHHHHHhCC---CCeEEEEEccchH--hcch-HHHHHHHHhCCCeEEEEEECCchHHHHHHHHHhhCCCcc
Confidence 456566666655433322 4568888886532 1222 4578889999999888885320
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 1267888888888888999999998887765
No 425
>PRK05778 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated
Probab=22.82 E-value=2.9e+02 Score=28.00 Aligned_cols=71 Identities=17% Similarity=0.126 Sum_probs=46.7
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHH-----------------------------HHHHHHHh
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-----------------------------ICKHLCQD 240 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~-----------------------------iLk~iA~~ 240 (425)
.+.||+|.|+++.-. .. .+.+..+.+.|+.|-+|-+..... -+-++|+.
T Consensus 88 d~~VV~i~GDG~~~~-mg-~~eL~tA~r~nl~i~vIV~NN~~YG~t~gQ~s~t~~~g~~~~~~~~g~~~~~~d~~~lA~a 165 (301)
T PRK05778 88 DLEVIVVGGDGDLAS-IG-GGHFIHAGRRNIDITVIVENNGIYGLTKGQASPTTPEGSKTKTAPYGNIEPPIDPCALALA 165 (301)
T ss_pred CCcEEEEeCccHHHh-cc-HHHHHHHHHHCCCcEEEEEeCchhhcccCcccCCcCCCcccccccCCCcCCCCCHHHHHHH
Confidence 456888888654211 11 245667788999999998864321 23467777
Q ss_pred hCCeEE---EecChhHHHHHHHhcC
Q 014385 241 TGGSYS---VALDESHFKELIMEHA 262 (425)
Q Consensus 241 TGG~Y~---~~~d~~~L~~lL~~~~ 262 (425)
-|..|. .+.+.++|.+++.+..
T Consensus 166 ~G~~~va~~~v~~~~eL~~ai~~A~ 190 (301)
T PRK05778 166 AGATFVARSFAGDVKQLVELIKKAI 190 (301)
T ss_pred CCCCEEEEeccCCHHHHHHHHHHHH
Confidence 777776 5677778877776655
No 426
>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=22.80 E-value=33 Score=21.88 Aligned_cols=26 Identities=27% Similarity=0.644 Sum_probs=16.6
Q ss_pred CCCCCcccccccchhhhc-cCCCCCCC
Q 014385 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 346999999998543322 34458876
No 427
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=22.79 E-value=36 Score=30.88 Aligned_cols=14 Identities=50% Similarity=1.490 Sum_probs=0.0
Q ss_pred EEcCCCCccccCCC
Q 014385 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 428
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=22.70 E-value=79 Score=21.19 Aligned_cols=25 Identities=28% Similarity=0.663 Sum_probs=17.7
Q ss_pred ccccccccccCCCCCCCceeeCCCCCc
Q 014385 365 TCFGCQQSLLSSGNKPGLYVACPKCKK 391 (425)
Q Consensus 365 ~C~~C~~~~~~~~~~~~~~~~C~~C~~ 391 (425)
.|.+|...|.-+.+. ..++|..|+.
T Consensus 3 ~C~~C~t~L~yP~gA--~~vrCs~C~~ 27 (31)
T TIGR01053 3 VCGGCRTLLMYPRGA--SSVRCALCQT 27 (31)
T ss_pred CcCCCCcEeecCCCC--CeEECCCCCe
Confidence 699998877654322 3588999864
No 429
>cd03372 TPP_ComE Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six alpha (D) subunits and six (E) beta subunits, which catalyzes the decarboxylation of sulfopyruvic acid to sulfoacetaldehyde in the coenzyme M pathway. ComDE requires TPP and divalent metal cation cofactors.
Probab=22.63 E-value=5.9e+02 Score=23.22 Aligned_cols=69 Identities=12% Similarity=0.127 Sum_probs=45.3
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCc-EEEEEEecch--------------HHHHHHHHHhhCCeEEEec-ChhHH
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKI-RCSVIGLSAE--------------MFICKHLCQDTGGSYSVAL-DESHF 254 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~I-rV~vIglg~e--------------~~iLk~iA~~TGG~Y~~~~-d~~~L 254 (425)
++++.|+|++.- -.+. ..+..+.+.++ ++-+|-+... ..-..++|+.-|..|..+. +.++|
T Consensus 60 ~~vv~i~GDG~f--~m~~-~el~ta~~~~~~~l~vvV~NN~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~~el 136 (179)
T cd03372 60 RKVIVIDGDGSL--LMNL-GALATIAAEKPKNLIIVVLDNGAYGSTGNQPTHAGKKTDLEAVAKACGLDNVATVASEEAF 136 (179)
T ss_pred CcEEEEECCcHH--HhCH-HHHHHHHHcCCCCEEEEEEcCccccccCCCCCCCCCCCCHHHHHHHcCCCeEEecCCHHHH
Confidence 568888886542 0122 34555666664 4555544321 1136778999999999887 89999
Q ss_pred HHHHHhcC
Q 014385 255 KELIMEHA 262 (425)
Q Consensus 255 ~~lL~~~~ 262 (425)
.+.|.+..
T Consensus 137 ~~al~~a~ 144 (179)
T cd03372 137 EKAVEQAL 144 (179)
T ss_pred HHHHHHhc
Confidence 99988876
No 430
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=22.58 E-value=2.2e+02 Score=26.85 Aligned_cols=54 Identities=22% Similarity=0.433 Sum_probs=37.3
Q ss_pred CCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEEEEEEecc
Q 014385 166 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLSA 229 (425)
Q Consensus 166 ~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~-~IrV~vIglg~ 229 (425)
.|+-.|..|. ....+.|. -.|||+-+|+- -|.|.++.+.+++. +|+|-.+.+-.
T Consensus 124 VGEE~laEAV----kAV~rLpR---v~iLVLAGslM---GGkIteaVk~lr~~hgI~VISL~M~G 178 (218)
T COG1707 124 VGEEELAEAV----KAVARLPR---VGILVLAGSLM---GGKITEAVKELREEHGIPVISLNMFG 178 (218)
T ss_pred cChHHHHHHH----HHHhcccc---ceeEEEecccc---cchHHHHHHHHHHhcCCeEEEeccCC
Confidence 4666655544 44444432 24899998875 38899999999887 89987766643
No 431
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=22.52 E-value=2.7e+02 Score=27.15 Aligned_cols=58 Identities=17% Similarity=0.257 Sum_probs=43.3
Q ss_pred EEEEEEc-CCCCCCccCHHHHHHHHHhCCcEEEEEEec------chHHHHHHHHHhhCCeEEEecChhHHHH
Q 014385 192 EVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLS------AEMFICKHLCQDTGGSYSVALDESHFKE 256 (425)
Q Consensus 192 eILiI~s-s~~t~d~~~i~~ti~~akk~~IrV~vIglg------~e~~iLk~iA~~TGG~Y~~~~d~~~L~~ 256 (425)
+.||++| +.++ ...+..|++.+-.|+.|++. .|...-|++|+.-|-.+. +.|-+.+.+
T Consensus 4 kavvl~SGG~DS------tt~l~~a~~~~~ev~alsfdYGQrh~~Ele~A~~iak~lgv~~~-iid~~~~~~ 68 (222)
T COG0603 4 KAVVLLSGGLDS------TTCLAWAKKEGYEVHALTFDYGQRHRKELEAAKELAKKLGVPHH-IIDVDLLGE 68 (222)
T ss_pred eEEEEccCChhH------HHHHHHHHhcCCEEEEEEeeCCCCcHHHHHHHHHHHHHcCCCeE-EechhHHhh
Confidence 4555555 4432 44688899999999999997 367889999999999998 446555655
No 432
>cd03375 TPP_OGFOR Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA. In the reductive tricarboxylic acid cycle found in the anaerobic autotroph Hydrogenobacter thermophilus, OGFOR catalyzes the reductive carboxylation of succinyl-CoA to produce 2-oxoglutarate. Thauera aromatica OGFOR has been shown to provide reduced ferredoxin to benzoyl-CoA reductase, a key enzyme in the anaerobic metabolism of aromatic compounds. OGFOR is dependent on TPP and a divalent metal cation for activity.
Probab=22.49 E-value=5e+02 Score=24.01 Aligned_cols=89 Identities=17% Similarity=0.178 Sum_probs=56.4
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH------------------
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 231 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~------------------ 231 (425)
+++.++-.|+..=...| .|+|+.|.|+..--+ .. ...+.++.+.+++|-+|-+....
T Consensus 52 ~mG~glpaAiGa~la~p---~r~Vv~i~GDGs~f~-m~-~~eL~ta~~~~lpv~iiVlnN~~yg~~~~~~~~~~~~~~~~ 126 (193)
T cd03375 52 LHGRALAVATGVKLANP---DLTVIVVSGDGDLAA-IG-GNHFIHAARRNIDITVIVHNNQIYGLTKGQASPTTPEGFKT 126 (193)
T ss_pred hhccHHHHHHHHHHhCC---CCeEEEEeccchHhh-cc-HHHHHHHHHhCCCeEEEEEcCcccccCCCccCCCCCCCCcc
Confidence 44444444444322222 467888888654111 11 25677888899999988885321
Q ss_pred -----------HHHHHHHHhhCCeEE---EecChhHHHHHHHhcCC
Q 014385 232 -----------FICKHLCQDTGGSYS---VALDESHFKELIMEHAP 263 (425)
Q Consensus 232 -----------~iLk~iA~~TGG~Y~---~~~d~~~L~~lL~~~~~ 263 (425)
.-+.++|+.-|..|. .+.+.++|.+.|.+...
T Consensus 127 ~~~~~~~~~~~~d~~~iA~a~G~~~~~~~~v~~~~el~~al~~al~ 172 (193)
T cd03375 127 KTTPYGNIEEPFNPLALALAAGATFVARGFSGDIKQLKEIIKKAIQ 172 (193)
T ss_pred cCCCCCCCCCCCCHHHHHHHCCCCEEEEEecCCHHHHHHHHHHHHh
Confidence 014578888888884 57888888888877763
No 433
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=22.46 E-value=27 Score=39.71 Aligned_cols=47 Identities=19% Similarity=0.301 Sum_probs=36.2
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCC
Q 014385 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 45689999877764311 112369999999999999999999999974
No 434
>COG1957 URH1 Inosine-uridine nucleoside N-ribohydrolase [Nucleotide transport and metabolism]
Probab=22.40 E-value=2.8e+02 Score=28.35 Aligned_cols=93 Identities=17% Similarity=0.211 Sum_probs=53.3
Q ss_pred HHHHHHHHHHhhcCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHhhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEE
Q 014385 114 KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREV 193 (425)
Q Consensus 114 ~~l~~Fv~~~~~qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreI 193 (425)
+.+.+|+-+....|| ..+-|++.+ || |+|..||...=..-++. |+
T Consensus 102 ~~A~~~ii~~l~~~~-g~vtlva~G--------PL--------------------TNiAlAl~~~P~i~~~i-----k~- 146 (311)
T COG1957 102 KHAVDAIIDTLMANP-GEVTLVATG--------PL--------------------TNIALALRKDPEIAKRI-----KE- 146 (311)
T ss_pred CcHHHHHHHHHHhCC-CcEEEEecC--------Ch--------------------HHHHHHHHhCcchhhhh-----cE-
Confidence 556666667777787 678888763 44 34444443333322222 33
Q ss_pred EEEEcC-CCC---CCc---cCHH---HHHHHHHhCCcEEEEEEecch------HHHHHHHHHhh
Q 014385 194 LILYSA-LST---CDP---GDIM---ETIQKCKESKIRCSVIGLSAE------MFICKHLCQDT 241 (425)
Q Consensus 194 LiI~ss-~~t---~d~---~~i~---~ti~~akk~~IrV~vIglg~e------~~iLk~iA~~T 241 (425)
|+|+|+ ... ..| -||. ++++..-+.+++|.+|++.-- ...++.+++..
T Consensus 147 iviMGGa~~~~GNvtp~AEfNi~~DPeAA~iVf~sg~~i~mv~LdvT~q~~~t~~~~~~~~~~~ 210 (311)
T COG1957 147 IVIMGGAFFVPGNVTPAAEFNIWVDPEAAKIVFTSGWPITMVPLDVTHQVLLTPDVLARLRAAG 210 (311)
T ss_pred EEEecCccCCCCCcCcchhhhhccCHHHHHHHHhCCCceEEechhhhhhhcCCHHHHHHHHHhC
Confidence 555553 221 111 1332 688888999999999999732 24555555544
No 435
>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=22.35 E-value=3.1e+02 Score=26.64 Aligned_cols=91 Identities=14% Similarity=0.194 Sum_probs=51.4
Q ss_pred eeCCCCCHHHHHHHHhhhhCCCCcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHh-CCcEEE
Q 014385 145 LTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCS 223 (425)
Q Consensus 145 lsplT~d~~~~i~~L~~~~~~~G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk-~~IrV~ 223 (425)
+.|+|+..... +..+.+++++|...++..-+-..++|-++.-+ +..|+....+.++.+.. ++|.+-
T Consensus 7 ~~~~sG~~a~~------------g~~~~~g~~~a~~~~N~~ggi~G~~i~l~~~D-~~~~~~~a~~~~~~l~~~~~v~~v 73 (343)
T PF13458_consen 7 LVPLSGPFAPY------------GQDFLRGAELAVDEINAAGGINGRKIELVVYD-DGGDPAQAVQAARKLIDDDGVDAV 73 (343)
T ss_dssp EE-SSSTTHHH------------HHHHHHHHHHHHHHHHHTTEETTEEEEEEEEE--TT-HHHHHHHHHHHHHTSTESEE
T ss_pred EECCCChhhhh------------hHHHHHHHHHHHHHHHHhCCcCCccceeeecc-CCCChHHHHHHHHHhhhhcCcEEE
Confidence 55677774322 24677888899998876422223445444432 12355556677777766 776655
Q ss_pred EEEecch-HHHHHHHHHhhCCeEEEe
Q 014385 224 VIGLSAE-MFICKHLCQDTGGSYSVA 248 (425)
Q Consensus 224 vIglg~e-~~iLk~iA~~TGG~Y~~~ 248 (425)
+=+++++ ...+..+++..|--++.+
T Consensus 74 vg~~~s~~~~~~~~~~~~~~ip~i~~ 99 (343)
T PF13458_consen 74 VGPLSSAQAEAVAPIAEEAGIPYISP 99 (343)
T ss_dssp EESSSHHHHHHHHHHHHHHT-EEEES
T ss_pred EecCCcHHHHHHHHHHHhcCcEEEEe
Confidence 4445543 455666777766555553
No 436
>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=22.32 E-value=28 Score=25.90 Aligned_cols=15 Identities=33% Similarity=0.893 Sum_probs=10.2
Q ss_pred CCCCCCceecCchhHHhhhcccC
Q 014385 320 DCRICGLQLVSSPHLARSYHHLF 342 (425)
Q Consensus 320 ~C~~C~l~LvssphLarsyhhlf 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 7766653
No 437
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=22.30 E-value=3.1e+02 Score=30.05 Aligned_cols=88 Identities=15% Similarity=0.083 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 456666666665433332 4668999886532 1 222 4567899999998888875321
Q ss_pred -----HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 1235788888888888889899888887765
No 438
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=22.25 E-value=1.1e+02 Score=32.21 Aligned_cols=51 Identities=20% Similarity=0.426 Sum_probs=38.2
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhccCCCCCCCCCCCCCCc
Q 014385 362 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNP 419 (425)
Q Consensus 362 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCD~fiHe~lh~CPgC~~~~~~~~ 419 (425)
....|.+|...+.++.. =..|++.||.-|=...=..-+.||.|......+.
T Consensus 20 ~~l~C~~C~~vl~~p~~-------~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQ-------TTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred ccccCccccccccCCCC-------CCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 35689999988876531 1589999999998876666689999976544433
No 439
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=22.21 E-value=2.3e+02 Score=28.64 Aligned_cols=16 Identities=0% Similarity=0.270 Sum_probs=7.2
Q ss_pred HHHHHHHhCCcEEEEE
Q 014385 210 ETIQKCKESKIRCSVI 225 (425)
Q Consensus 210 ~ti~~akk~~IrV~vI 225 (425)
+..+++.+.+|+||++
T Consensus 165 DLleAa~kR~VpVYiL 180 (284)
T PF07894_consen 165 DLLEAANKRGVPVYIL 180 (284)
T ss_pred HHHHHHHhcCCcEEEE
Confidence 3344444444444444
No 440
>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=22.19 E-value=40 Score=21.96 Aligned_cols=14 Identities=36% Similarity=0.873 Sum_probs=6.6
Q ss_pred CCCCCCceecCchh
Q 014385 320 DCRICGLQLVSSPH 333 (425)
Q Consensus 320 ~C~~C~l~Lvssph 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 48888888765443
No 441
>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=22.19 E-value=27 Score=36.54 Aligned_cols=10 Identities=40% Similarity=0.869 Sum_probs=8.2
Q ss_pred HhhhcccCCC
Q 014385 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 442
>PRK09628 oorB 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed
Probab=22.19 E-value=4.2e+02 Score=26.46 Aligned_cols=71 Identities=11% Similarity=0.156 Sum_probs=43.8
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHH-----------------------------HHHHHHHh
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF-----------------------------ICKHLCQD 240 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~-----------------------------iLk~iA~~ 240 (425)
.+.||.|.|+++--. .. ...+..+.+.|++|-+|-+..... -..++|+.
T Consensus 86 dr~VV~i~GDG~f~~-~g-~~el~ta~r~nlpi~iIV~NN~~yGmt~~Q~~~~t~~g~~~~~~~~g~~~~~~D~~~lA~a 163 (277)
T PRK09628 86 DKHVIVVSGDGDGLA-IG-GNHTIHGCRRNIDLNFILINNFIYGLTNSQTSPTTPKGMWTVTAQYGNIDPTFDACKLATA 163 (277)
T ss_pred CCeEEEEECchHHHH-hh-HHHHHHHHHhCcCeEEEEEEChHHhcceecccCCCCCCceeeeccCCCcCCCCCHHHHHHH
Confidence 466888887653100 01 123445788899988887753210 12667777
Q ss_pred hCCeEE---EecChhHHHHHHHhcC
Q 014385 241 TGGSYS---VALDESHFKELIMEHA 262 (425)
Q Consensus 241 TGG~Y~---~~~d~~~L~~lL~~~~ 262 (425)
.|..|. .+.+.++|+..+.+.+
T Consensus 164 ~G~~~va~~~v~~~~el~~al~~Al 188 (277)
T PRK09628 164 AGASFVARESVIDPQKLEKLLVKGF 188 (277)
T ss_pred CCCceEEEEccCCHHHHHHHHHHHH
Confidence 777763 5677777777776665
No 443
>PLN03050 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=22.12 E-value=2.8e+02 Score=27.16 Aligned_cols=53 Identities=15% Similarity=0.132 Sum_probs=36.2
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc---hH-HHHHHHHHhhCCeE
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA---EM-FICKHLCQDTGGSY 245 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~---e~-~iLk~iA~~TGG~Y 245 (425)
++|+|+.|.+. +-||=.-+++.|...|++|.++-... +. ....+.++..|+.+
T Consensus 61 ~~V~VlcG~GN--NGGDGlv~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~g~~~ 117 (246)
T PLN03050 61 PRVLLVCGPGN--NGGDGLVAARHLAHFGYEVTVCYPKQSSKPHYENLVTQCEDLGIPF 117 (246)
T ss_pred CeEEEEECCCC--CchhHHHHHHHHHHCCCeEEEEEcCCCChHHHHHHHHHHHHcCCCE
Confidence 56888888664 35777889999999999999887431 22 23334456666664
No 444
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.11 E-value=41 Score=29.04 Aligned_cols=26 Identities=27% Similarity=0.493 Sum_probs=15.8
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCc
Q 014385 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 457888887776421 11256777763
No 445
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.05 E-value=58 Score=34.12 Aligned_cols=90 Identities=19% Similarity=0.476 Sum_probs=48.7
Q ss_pred eEEcCCCCccccCCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCcc-CCCC----CCCCCCCccccccccccCCCC
Q 014385 304 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPL-CLND----PRNRSRSTCFGCQQSLLSSGN 378 (425)
Q Consensus 304 Gy~Cp~C~s~~C~lP~~C~~C~l~LvssphLarsyhhlfp~~~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 4556665 5543333334333211 0000 0012235788887554321
Q ss_pred CCCceeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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 113357899 999999999854444444455444
No 446
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=22.01 E-value=55 Score=26.67 Aligned_cols=21 Identities=33% Similarity=0.709 Sum_probs=13.7
Q ss_pred EEcCCCCccccCCCC-----CCCCCC
Q 014385 305 YTCPRCKARVCELPT-----DCRICG 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 678888877543222 688886
No 447
>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=22.00 E-value=54 Score=24.02 Aligned_cols=29 Identities=28% Similarity=0.934 Sum_probs=21.3
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCcc-cccccch
Q 014385 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 448
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=21.95 E-value=17 Score=34.99 Aligned_cols=50 Identities=22% Similarity=0.451 Sum_probs=37.5
Q ss_pred CccccccccccCCCC--------CCCceeeCCCCCcccccccchhhh-----------------ccCCCCCCCCC
Q 014385 364 STCFGCQQSLLSSGN--------KPGLYVACPKCKKHFCLECDIYIH-----------------ESLHNCPGCES 413 (425)
Q Consensus 364 ~~C~~C~~~~~~~~~--------~~~~~~~C~~C~~~fC~dCD~fiH-----------------e~lh~CPgC~~ 413 (425)
..|..|.+.|.+..+ ...-.|.|..|.+.|=.-|.+-.| +.|+.|--|..
T Consensus 146 ~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftqrcsleshl~kvhgv~~~yaykerr~kl~vcedcg~ 220 (267)
T KOG3576|consen 146 HLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQRCSLESHLKKVHGVQHQYAYKERRAKLYVCEDCGY 220 (267)
T ss_pred HHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHhhccHHHHHHHHcCchHHHHHHHhhhheeeecccCC
Confidence 369999999876521 123359999999999999987655 45788888865
No 449
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=21.83 E-value=62 Score=22.71 Aligned_cols=15 Identities=20% Similarity=0.707 Sum_probs=11.1
Q ss_pred CCCceeeCCCCCccc
Q 014385 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 450
>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=21.78 E-value=3.5e+02 Score=29.28 Aligned_cols=89 Identities=10% Similarity=0.042 Sum_probs=60.6
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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-Q-MT-GWELGNCRRLGIDPIVILFNNASWEMLRVFQPESAFND 473 (535)
T ss_pred ccchhhhHHHHHHHHHhCC----CCCeEEEEeChHH-H-hH-HHHHHHHHHcCCCcEEEEEECCccceeehhccCCCccc
Confidence 3346666666666643222 2446677775421 0 11 25688999999999998886421
Q ss_pred ---HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 1257789999999999999999999988765
No 451
>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=21.78 E-value=3.1e+02 Score=26.73 Aligned_cols=44 Identities=16% Similarity=0.266 Sum_probs=36.7
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEE
Q 014385 204 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 247 (425)
Q Consensus 204 d~~~i~~ti~~akk~~IrV~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 34578899999999999987777777889999999999976554
No 452
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=21.74 E-value=1.5e+02 Score=24.72 Aligned_cols=41 Identities=17% Similarity=0.292 Sum_probs=29.5
Q ss_pred HHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecCh
Q 014385 210 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDE 251 (425)
Q Consensus 210 ~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~ 251 (425)
+-...+++.||++-+||.|+... +++-++.|+=.|-+-.|+
T Consensus 4 ~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly~D~ 44 (115)
T PF13911_consen 4 RRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLYVDP 44 (115)
T ss_pred HhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEEEeC
Confidence 34677889999999999998866 777777777433333333
No 453
>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=21.64 E-value=5.4e+02 Score=25.26 Aligned_cols=53 Identities=13% Similarity=0.241 Sum_probs=24.9
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEE
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRC 222 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~-~IrV 222 (425)
....+|+++|.+.++...+-..++|-++.-+. .+||....+.++.+.+. +|.+
T Consensus 17 ~~~~~g~~~A~~~iN~~ggi~g~~v~l~~~D~-~~~~~~a~~~~~~li~~~~v~a 70 (344)
T cd06345 17 EAMWNGAELAAEEINAAGGILGRKVELVFEDT-EGSPEDAVRAFERLVSQDKVDA 70 (344)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCceEEEEEecC-CCCHHHHHHHHHHHhccCCceE
Confidence 45667777777777654222233343333221 22444334444444433 5544
No 454
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=21.55 E-value=8.2e+02 Score=24.41 Aligned_cols=55 Identities=11% Similarity=0.077 Sum_probs=40.6
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEe
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA 248 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~ 248 (425)
..+|.|+.|+..+ ++.+.++..+...+.+.++.+-++-.-++.+|+.-|=-|+..
T Consensus 84 ~~ki~vl~Sg~g~----nl~~l~~~~~~g~l~~~i~~visn~~~~~~~A~~~gIp~~~~ 138 (280)
T TIGR00655 84 LKRVAILVSKEDH----CLGDLLWRWYSGELDAEIALVISNHEDLRSLVERFGIPFHYI 138 (280)
T ss_pred CcEEEEEEcCCCh----hHHHHHHHHHcCCCCcEEEEEEEcChhHHHHHHHhCCCEEEc
Confidence 3568888776543 566778887777788888888877777777888887666653
No 455
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=21.28 E-value=4.3e+02 Score=28.15 Aligned_cols=16 Identities=6% Similarity=0.138 Sum_probs=8.8
Q ss_pred cChhHHHHHHHhcCCC
Q 014385 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 4555555555555544
No 456
>PLN02235 ATP citrate (pro-S)-lyase
Probab=21.26 E-value=4.1e+02 Score=28.39 Aligned_cols=127 Identities=14% Similarity=0.152 Sum_probs=67.4
Q ss_pred cCCCCcEEEEeecCCceEEeeCCCCCHHHHHHHHh------hhhCCCCcch---HHHHHHHHHHHHhCCCCCCCcEEEEE
Q 014385 126 QNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALM------GKLGCSGDSS---LQNALDLVQGLLSQIPSYGHREVLIL 196 (425)
Q Consensus 126 qnp~sqlGvI~~~~g~A~~lsplT~d~~~~i~~L~------~~~~~~G~ts---L~nAL~~A~~~L~~~p~~~sreILiI 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 4677889999976654432 112222221 2233445443 4444444443333443 333334666
Q ss_pred EcCCCCCCccCH--HHHHHHHHh-------CCcEEEEEEec-ch----HHHHHHHHHhhCCeEEEecChhHHHHHHHhc
Q 014385 197 YSALSTCDPGDI--METIQKCKE-------SKIRCSVIGLS-AE----MFICKHLCQDTGGSYSVALDESHFKELIMEH 261 (425)
Q Consensus 197 ~ss~~t~d~~~i--~~ti~~akk-------~~IrV~vIglg-~e----~~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~ 261 (425)
+|+...||.... .-.++.+++ .+|+|.| -++ ++ ..+|+++.+..|=...+...+.++.+.-...
T Consensus 338 fGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivV-Rl~GtN~eeG~~il~e~~~~~gl~i~~~~~~~~m~~a~~~a 415 (423)
T PLN02235 338 GGGIANFTDVAATFNGIIRALREKESKLKAARMHIFV-RRGGPNYQKGLAKMRALGEEIGVPIEVYGPEATMTGICKQA 415 (423)
T ss_pred ecccccchhhhhhhhHHHHHHHHhhhccccCCccEEE-ECCCCCHHHHHHHHHHhHHhcCCcEEEeCCCCCHHHHHHHH
Confidence 778777775431 234555555 3678744 554 43 3688888778774444555444555554433
No 457
>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=21.13 E-value=3e+02 Score=20.97 Aligned_cols=25 Identities=12% Similarity=0.149 Sum_probs=20.5
Q ss_pred CccCHHHHHHHHHhCCcEEEEEEec
Q 014385 204 DPGDIMETIQKCKESKIRCSVIGLS 228 (425)
Q Consensus 204 d~~~i~~ti~~akk~~IrV~vIglg 228 (425)
+++-+...+..+.+.||.|++|...
T Consensus 12 ~~~~~a~if~~La~~~InvDmI~~~ 36 (67)
T cd04914 12 ENDLQQRVFKALANAGISVDLINVS 36 (67)
T ss_pred CccHHHHHHHHHHHcCCcEEEEEec
Confidence 3566667889999999999999654
No 458
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=20.97 E-value=4.7e+02 Score=23.85 Aligned_cols=73 Identities=19% Similarity=0.094 Sum_probs=43.7
Q ss_pred EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecch---HHHHHHHHHhhC-C--eEE-EecChhHHHHHHHhcCCC
Q 014385 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTG-G--SYS-VALDESHFKELIMEHAPP 264 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e---~~iLk~iA~~TG-G--~Y~-~~~d~~~L~~lL~~~~~P 264 (425)
+|.||++|.+ |-.-..++...|++.||..++=-.++. ..+++-+.+... | .|. ++.-+.||-.++..+++-
T Consensus 2 ~V~Ii~gs~S--D~~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgvva~~t~~ 79 (150)
T PF00731_consen 2 KVAIIMGSTS--DLPIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPGVVASLTTL 79 (150)
T ss_dssp EEEEEESSGG--GHHHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHHHHHHHSSS
T ss_pred eEEEEeCCHH--HHHHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchhhheeccCC
Confidence 5889998753 333334789999999999886555543 233333333222 3 555 467788999999998866
Q ss_pred Cc
Q 014385 265 PP 266 (425)
Q Consensus 265 p~ 266 (425)
|.
T Consensus 80 PV 81 (150)
T PF00731_consen 80 PV 81 (150)
T ss_dssp -E
T ss_pred CE
Confidence 64
No 459
>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=20.93 E-value=2.3e+02 Score=20.53 Aligned_cols=36 Identities=8% Similarity=0.061 Sum_probs=25.3
Q ss_pred EEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 194 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 194 LiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 344554433355556678889999999999998754
No 460
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=20.93 E-value=2.2e+02 Score=24.08 Aligned_cols=48 Identities=13% Similarity=0.250 Sum_probs=37.2
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEe
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA 248 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~ 248 (425)
+-|++++.++ .++..+.+..-.+-++++..+..+.++++ ..-|.|-+.
T Consensus 18 k~Ivv~T~sG---------~ta~~isk~RP~~pIiavt~~~~~~r~l~-l~~GV~p~~ 65 (117)
T PF02887_consen 18 KAIVVFTESG---------RTARLISKYRPKVPIIAVTPNESVARQLS-LYWGVYPVL 65 (117)
T ss_dssp SEEEEE-SSS---------HHHHHHHHT-TSSEEEEEESSHHHHHHGG-GSTTEEEEE
T ss_pred CEEEEECCCc---------hHHHHHHhhCCCCeEEEEcCcHHHHhhhh-cccceEEEE
Confidence 4466666554 37788888888899999999999999999 888988853
No 461
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=20.86 E-value=1.5e+02 Score=30.57 Aligned_cols=39 Identities=13% Similarity=0.114 Sum_probs=31.7
Q ss_pred HHHHHHHHHhCCcEEEEEEecc----hHHHHHHHHHhhCCeEE
Q 014385 208 IMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYS 246 (425)
Q Consensus 208 i~~ti~~akk~~IrV~vIglg~----e~~iLk~iA~~TGG~Y~ 246 (425)
..++++.|+++||.+.||.+-. +...|.++++.||-...
T Consensus 243 Al~Aa~~L~~~GI~v~VId~~~ikPlD~~~l~~~~~~t~~vvt 285 (356)
T PLN02683 243 ALKAAEILAKEGISAEVINLRSIRPLDRDTINASVRKTNRLVT 285 (356)
T ss_pred HHHHHHHHHhcCCCEEEEECCCCCccCHHHHHHHHhhcCeEEE
Confidence 3467888899999999999985 56789999999975533
No 462
>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=20.82 E-value=33 Score=39.40 Aligned_cols=42 Identities=26% Similarity=0.593 Sum_probs=0.0
Q ss_pred CCccee-eecCCccccCeEEcCCCCccccCCCCCCCCCCceecCchh
Q 014385 288 GSISIC-SCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPH 333 (425)
Q Consensus 288 ~~~a~C-~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvssph 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 445556 455432 22 477777777643 3489999988665543
No 463
>cd02511 Beta4Glucosyltransferase UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide. UDP-glucose: lipooligosaccharide (LOS) beta-1-4-glucosyltransferase catalyzes the addition of the first residue, glucose, of the lacto-N-neotetrase structure to HepI of the LOS inner core. LOS is the major constituent of the outer leaflet of the outer membrane of gram-positive bacteria. It consists of a short oligosaccharide chain of variable composition (alpha chain) attached to a branched inner core which is lined in turn to lipid A. Beta 1,4 glucosyltransferase is required to attach the alpha chain to the inner core.
Probab=20.78 E-value=5.8e+02 Score=23.65 Aligned_cols=67 Identities=18% Similarity=0.125 Sum_probs=37.6
Q ss_pred EEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChh------HHHHHHHhcCCCC
Q 014385 192 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES------HFKELIMEHAPPP 265 (425)
Q Consensus 192 eILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL~~~~~Pp 265 (425)
||||+-++ ++ | .|.+.+++.+++|....-..-........+...|.|....|++ .+.++...+..+|
T Consensus 28 eiivvD~g-St-D-----~t~~i~~~~~~~v~~~~~~g~~~~~n~~~~~a~~d~vl~lDaD~~~~~~~~~~l~~~~~~~~ 100 (229)
T cd02511 28 EIIVVDSG-ST-D-----RTVEIAKEYGAKVYQRWWDGFGAQRNFALELATNDWVLSLDADERLTPELADEILALLATDD 100 (229)
T ss_pred EEEEEeCC-CC-c-----cHHHHHHHcCCEEEECCCCChHHHHHHHHHhCCCCEEEEEeCCcCcCHHHHHHHHHHHhCCC
Confidence 67766443 22 2 2455666778887655222223445556666778898776655 3445555444444
No 464
>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=20.71 E-value=73 Score=32.49 Aligned_cols=26 Identities=23% Similarity=0.585 Sum_probs=17.5
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcc
Q 014385 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 GHTLCESCVDLLFVR-----GSGSCPECDTP 52 (309)
T ss_pred CCcccHHHHHHHhcC-----CCCCCCCCCCc
Confidence 567899998775322 12469999764
No 465
>PRK00420 hypothetical protein; Validated
Probab=20.56 E-value=72 Score=27.78 Aligned_cols=27 Identities=26% Similarity=0.365 Sum_probs=17.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc
Q 014385 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 45788888777541 1234668888774
No 466
>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=20.55 E-value=3.6e+02 Score=26.49 Aligned_cols=8 Identities=25% Similarity=0.331 Sum_probs=4.6
Q ss_pred eeCCCCCH
Q 014385 145 LTDLGGSP 152 (425)
Q Consensus 145 lsplT~d~ 152 (425)
+.||||..
T Consensus 5 ~~plsG~~ 12 (344)
T cd06348 5 ALALTGNA 12 (344)
T ss_pred EEeccCch
Confidence 45666653
No 467
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=20.54 E-value=45 Score=33.48 Aligned_cols=117 Identities=22% Similarity=0.365 Sum_probs=61.7
Q ss_pred eeecCCCCCCCCCcceeeecCCccccCeEEcCCCCcccc--------CCCCCCCCCCcee-----cCchhHHhhhcccCC
Q 014385 277 IKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVC--------ELPTDCRICGLQL-----VSSPHLARSYHHLFP 343 (425)
Q Consensus 277 i~mGFP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C--------~lP~~C~~C~l~L-----vssphLarsyhhlfp 343 (425)
..+|+|+.... |.=+....+. -|.|=.|..... ..+..|..|.+.+ -+..|..=+.|+.-.
T Consensus 31 ~~~~c~hy~r~-----~~~~a~ccd~-~~~C~hCH~~s~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~c~~~~g~~~c~~ 104 (276)
T KOG1940|consen 31 FPYGCPHYRRN-----CKSRAPCCDR-EITCRHCHNESEDHDLDRKTVYELLCMKCRKIQPVGQICSNCHVELGEYYCLI 104 (276)
T ss_pred cccCCchhhhc-----cccccccccc-eeeeEEecChhhhcccchhhhhhhhhhhHHhhhhhhhccccchhhhhhhcCcc
Confidence 35677876532 1112222233 577777777776 6677888888776 345555566666666
Q ss_pred CCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCc---------ccccccchhhhccCCCCCCCCCC
Q 014385 344 IAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKK---------HFCLECDIYIHESLHNCPGCESL 414 (425)
Q Consensus 344 ~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---------~fC~dCD~fiHe~lh~CPgC~~~ 414 (425)
-..|.--+ . ..-.|-+|..-= .+... ..|.|-.|+. ++|.++-. -+|||.|.--
T Consensus 105 C~l~dd~~--------~-~~~hC~~C~icr--~g~~~-~~fhc~~c~~c~~~~~~~~H~c~e~~~-----~~ncPic~e~ 167 (276)
T KOG1940|consen 105 CKLFDDDP--------S-KQYHCDLCGICR--EGLGL-DFFHCKKCKACLSAYLSNWHKCVERSS-----EFNCPICKEY 167 (276)
T ss_pred cccccccc--------c-ceeccccccccc--ccccc-chhHHhhhHhHHhhhcccccchhhhcc-----cCCCchhHHH
Confidence 66665321 1 233455553111 11111 2455555532 66666543 3568888753
Q ss_pred CC
Q 014385 415 RH 416 (425)
Q Consensus 415 ~~ 416 (425)
..
T Consensus 168 l~ 169 (276)
T KOG1940|consen 168 LF 169 (276)
T ss_pred hc
Confidence 33
No 468
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=20.51 E-value=2.8e+02 Score=30.09 Aligned_cols=89 Identities=15% Similarity=0.160 Sum_probs=61.0
Q ss_pred CcchHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH---------------
Q 014385 167 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 231 (425)
Q Consensus 167 G~tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~--------------- 231 (425)
|..+++.+|-.|+..=-. | .|++++|.|++.- . .++ +.+.++++.++++-+|-+....
T Consensus 423 g~~~~G~~lpaaiGaala-~---~~~vv~i~GDGsf-~-~~~-~eL~Ta~r~~l~i~ivVlNN~g~~~~~~~~~~~~~~~ 495 (568)
T PRK07449 423 GASGIDGLLSTAAGVARA-S---AKPTVALIGDLSF-L-HDL-NGLLLLKQVPAPLTIVVVNNNGGGIFSLLPQPEEEPV 495 (568)
T ss_pred CccchhhHHHHHHHHHhc-C---CCCEEEEechHHh-h-cCc-HHHHhhcccCCCeEEEEEECCCCccccCCCCCCCcch
Confidence 334566677666664322 3 4568988886532 1 111 4566788999998888774220
Q ss_pred ----------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 232 ----------FICKHLCQDTGGSYSVALDESHFKELIMEHA 262 (425)
Q Consensus 232 ----------~iLk~iA~~TGG~Y~~~~d~~~L~~lL~~~~ 262 (425)
.-..++|+.-|+.|+.+.+.++|+..|.+..
T Consensus 496 ~~~~~~~~~~~df~~lA~a~G~~~~~V~~~~eL~~al~~a~ 536 (568)
T PRK07449 496 FERFFGTPHGVDFAHAAAMYGLEYHRPETWAELEEALADAL 536 (568)
T ss_pred hhHhhcCCCCCCHHHHHHHcCCCccCCCCHHHHHHHHHHHh
Confidence 0157799999999999999999999988876
No 469
>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=20.47 E-value=1e+03 Score=25.26 Aligned_cols=77 Identities=13% Similarity=0.113 Sum_probs=50.0
Q ss_pred HHHHHHHHhCCcEEEEEEecch------HHHHHHHHHhhC--CeEEEecChhHHHHHHHhc-CCCCccch--------hh
Q 014385 209 METIQKCKESKIRCSVIGLSAE------MFICKHLCQDTG--GSYSVALDESHFKELIMEH-APPPPAIA--------EF 271 (425)
Q Consensus 209 ~~ti~~akk~~IrV~vIglg~e------~~iLk~iA~~TG--G~Y~~~~d~~~L~~lL~~~-~~Pp~~~~--------~~ 271 (425)
....+.+.+.|+.+-++.++++ ...++++.+..+ ..-+...|..++.+.+... ..|+-.-. ..
T Consensus 318 ~~l~~fl~elGm~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vi~~~d~~e~~~~i~~~~~~~dliig~s~~~~~A~~ 397 (454)
T cd01973 318 IGLAEFCLEVEMKPVLLLLGDDNSKYKKDPRIKALKEKADYDMEIVTNADLWELEKRIKNKGLELDLILGHSKGRYIAID 397 (454)
T ss_pred HHHHHHHHHCCCeEEEEEECCCCcccchhHHHHHHHhhcCCCceEEECCCHHHHHHHHHhcCCCCCEEEECCccHHHHHH
Confidence 4456666789999888888863 456777755443 3444556777888887765 33443321 22
Q ss_pred hhhceeeecCCCCC
Q 014385 272 AIANLIKMGFPQRA 285 (425)
Q Consensus 272 ~~~~Li~mGFP~~~ 285 (425)
....++++|||...
T Consensus 398 ~gip~~~~g~Pv~d 411 (454)
T cd01973 398 NNIPMVRVGFPTFD 411 (454)
T ss_pred cCCCEEEecCCeee
Confidence 34479999999864
No 470
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=20.45 E-value=3.3e+02 Score=29.74 Aligned_cols=88 Identities=11% Similarity=0.044 Sum_probs=59.2
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 355555555554322222 3568888886532 1 22 25688889999998888885321
Q ss_pred -------HHHHHHHHhhCCeEEEecChhHHHHHHHhcC
Q 014385 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 0156789999999999999999999887765
No 471
>cd06427 CESA_like_2 CESA_like_2 is a member of the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, Glucan Biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis prot
Probab=20.44 E-value=6.9e+02 Score=23.15 Aligned_cols=46 Identities=13% Similarity=0.250 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEE
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRC 222 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV 222 (425)
....|+..++.. .+.++|++++++...+|..+.+.+..+.+.+..|
T Consensus 71 G~~~a~n~g~~~-------a~gd~i~~~DaD~~~~~~~l~~~~~~~~~~~~~v 116 (241)
T cd06427 71 TKPKACNYALAF-------ARGEYVVIYDAEDAPDPDQLKKAVAAFARLDDKL 116 (241)
T ss_pred chHHHHHHHHHh-------cCCCEEEEEcCCCCCChHHHHHHHHHHHhcCCCE
Confidence 455666666553 1336899998887778888888888887654443
No 472
>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=20.32 E-value=2.3e+02 Score=21.25 Aligned_cols=36 Identities=8% Similarity=0.078 Sum_probs=26.6
Q ss_pred EEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc
Q 014385 193 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 229 (425)
Q Consensus 193 ILiI~ss~~t~d~~~i~~ti~~akk~~IrV~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 56677763 3346644578889999999998888765
No 473
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=20.31 E-value=34 Score=36.52 Aligned_cols=26 Identities=15% Similarity=0.152 Sum_probs=15.5
Q ss_pred HhhCCeEEEe---cChhHHHHHHHhcCCC
Q 014385 239 QDTGGSYSVA---LDESHFKELIMEHAPP 264 (425)
Q Consensus 239 ~~TGG~Y~~~---~d~~~L~~lL~~~~~P 264 (425)
+-++.+|.+. .+..+....++++.--
T Consensus 110 d~~pnrymvLIkFr~q~da~~Fy~efNGk 138 (493)
T KOG0804|consen 110 DGMPNRYMVLIKFRDQADADTFYEEFNGK 138 (493)
T ss_pred cCCCceEEEEEEeccchhHHHHHHHcCCC
Confidence 5666778764 4445555666666543
No 474
>cd06433 GT_2_WfgS_like WfgS and WfeV are involved in O-antigen biosynthesis. Escherichia coli WfgS and Shigella dysenteriae WfeV are glycosyltransferase 2 family enzymes involved in O-antigen biosynthesis. GT-2 enzymes have 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=20.29 E-value=5.7e+02 Score=22.08 Aligned_cols=59 Identities=12% Similarity=-0.000 Sum_probs=30.7
Q ss_pred cEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchHHHHHHHHHhhCCeEEEecChhH
Q 014385 191 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESH 253 (425)
Q Consensus 191 reILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~~iLk~iA~~TGG~Y~~~~d~~~ 253 (425)
-||||+-++ ++ .+..+.++.+.+..+.+..-.=++-..-+....+...|.|.+..|.++
T Consensus 28 ~evivvDd~-s~---d~~~~~~~~~~~~~~~~~~~~~~g~~~a~n~~~~~a~~~~v~~ld~D~ 86 (202)
T cd06433 28 IEYIVIDGG-ST---DGTVDIIKKYEDKITYWISEPDKGIYDAMNKGIALATGDIIGFLNSDD 86 (202)
T ss_pred ceEEEEeCC-CC---ccHHHHHHHhHhhcEEEEecCCcCHHHHHHHHHHHcCCCEEEEeCCCc
Confidence 467666432 22 223455555555433322211112234556666677899998777653
No 475
>PRK07064 hypothetical protein; Provisional
Probab=20.29 E-value=3.2e+02 Score=29.41 Aligned_cols=88 Identities=9% Similarity=0.022 Sum_probs=59.7
Q ss_pred hHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH----H-------------
Q 014385 170 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------- 232 (425)
Q Consensus 170 sL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~----~------------- 232 (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--MLN-LGELATAVQENANMVIVLMNDGGYGVIRNIQDAQYGGRRYY 479 (544)
T ss_pred ccccccchhhhhhhhC---cCCcEEEEEcchHh--hhh-HHHHHHHHHhCCCeEEEEEeCChhHHHHHHHHHhcCCcccc
Confidence 4555555555432222 24568888886532 122 25677889999999888885321 0
Q ss_pred ------HHHHHHHhhCCeEEEecChhHHHHHHHhcCC
Q 014385 233 ------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 263 (425)
Q Consensus 233 ------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 1467899999999999999999999988764
No 476
>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=20.19 E-value=8.1e+02 Score=23.86 Aligned_cols=53 Identities=17% Similarity=0.162 Sum_probs=28.6
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhC-CcEE
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKES-KIRC 222 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~-~IrV 222 (425)
..+.+++++|.+.++..-+-..++|=+++-+... ||..-.++++.|.++ +|.+
T Consensus 17 ~~~~~g~~~a~~~iN~~gGi~G~~i~l~~~D~~~-~p~~a~~~a~~Li~~~~V~a 70 (333)
T cd06331 17 PSLRNAALLAIEEINAAGGILGRPLELVVEDPAS-DPAFAAKAARRLIRDDKVDA 70 (333)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCC-CHHHHHHHHHHHHhccCCcE
Confidence 4566778888888776433233445555443222 444444555656554 5543
No 477
>PRK11204 N-glycosyltransferase; Provisional
Probab=20.13 E-value=6.3e+02 Score=25.83 Aligned_cols=68 Identities=15% Similarity=0.157 Sum_probs=41.9
Q ss_pred CcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecc---hHHHHHHHHHhhCCeEEEecChh------HHHHHHHh
Q 014385 190 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSYSVALDES------HFKELIME 260 (425)
Q Consensus 190 sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~---e~~iLk~iA~~TGG~Y~~~~d~~------~L~~lL~~ 260 (425)
.-||+|+-++. + .+..+.++.+.+...++.++-... ...-+....+...|.|+...|+| -+.+++..
T Consensus 83 ~~eiiVvdD~s-~---d~t~~~l~~~~~~~~~v~~i~~~~n~Gka~aln~g~~~a~~d~i~~lDaD~~~~~d~L~~l~~~ 158 (420)
T PRK11204 83 NYEVIAINDGS-S---DNTGEILDRLAAQIPRLRVIHLAENQGKANALNTGAAAARSEYLVCIDGDALLDPDAAAYMVEH 158 (420)
T ss_pred CeEEEEEECCC-C---ccHHHHHHHHHHhCCcEEEEEcCCCCCHHHHHHHHHHHcCCCEEEEECCCCCCChhHHHHHHHH
Confidence 45777765532 2 233456666666655666666432 34566777777889999887766 35566555
Q ss_pred c
Q 014385 261 H 261 (425)
Q Consensus 261 ~ 261 (425)
+
T Consensus 159 ~ 159 (420)
T PRK11204 159 F 159 (420)
T ss_pred H
Confidence 5
No 478
>TIGR03393 indolpyr_decarb indolepyruvate decarboxylase, Erwinia 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. Within the larger family, this model represents a clade of bacterial indolepyruvate decarboxylases, part of a pathway for biosynthesis of the plant hormone indole-3-acetic acid. Typically, these species interact with plants, as pathogens or as beneficial, root-associated bacteria.
Probab=20.05 E-value=4.2e+02 Score=28.60 Aligned_cols=89 Identities=16% Similarity=0.136 Sum_probs=61.1
Q ss_pred chHHHHHHHHHHHHhCCCCCCCcEEEEEEcCCCCCCccCHHHHHHHHHhCCcEEEEEEecchH-----------------
Q 014385 169 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----------------- 231 (425)
Q Consensus 169 tsL~nAL~~A~~~L~~~p~~~sreILiI~ss~~t~d~~~i~~ti~~akk~~IrV~vIglg~e~----------------- 231 (425)
.+++.||-.|+..=-.. ..|+||.|.|++.- -.. ...+.++.+.|++|-+|-+....
T Consensus 404 g~mG~glpaaiGa~la~---p~~~vv~i~GDG~f--~m~-~~EL~Ta~~~~lpi~~vV~NN~~y~~i~~~~~~~~~~~~~ 477 (539)
T TIGR03393 404 GSIGYTLPAAFGAQTAC---PNRRVILLIGDGSA--QLT-IQELGSMLRDKQHPIILVLNNEGYTVERAIHGAEQRYNDI 477 (539)
T ss_pred hhhhhHHHHHHHHHhcC---CCCCeEEEEcCcHH--HhH-HHHHHHHHHcCCCCEEEEEeCCceEEEEeecCCCCCcCcC
Confidence 46666666666643332 24668988886431 011 25688999999999988875321
Q ss_pred --HHHHHHHHhhCCe----EEEecChhHHHHHHHhcCC
Q 014385 232 --FICKHLCQDTGGS----YSVALDESHFKELIMEHAP 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~~ 515 (539)
T TIGR03393 478 ALWNWTHLPQALSLDPQSECWRVSEAEQLADVLEKVAA 515 (539)
T ss_pred CCCCHHHHHHHcCCCCccceEEeccHHHHHHHHHHHhc
Confidence 1246788888874 7788999999999888764
No 479
>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=20.05 E-value=38 Score=31.66 Aligned_cols=30 Identities=20% Similarity=0.425 Sum_probs=24.1
Q ss_pred eeeCCCCCcccccccchhhhccCCCCCCCC
Q 014385 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
Done!