Query 020564
Match_columns 324
No_of_seqs 214 out of 576
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 03:23:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020564.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020564hhsearch_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 2E-107 5E-112 760.0 26.1 302 1-314 76-377 (378)
2 COG5151 SSL1 RNA polymerase II 100.0 2.6E-94 5.6E-99 668.8 21.3 308 1-314 103-420 (421)
3 PF04056 Ssl1: Ssl1-like; Int 100.0 1.4E-59 3E-64 420.7 21.2 181 1-181 11-193 (193)
4 TIGR00622 ssl1 transcription f 100.0 2.6E-50 5.7E-55 329.0 7.9 105 203-312 1-111 (112)
5 TIGR00627 tfb4 transcription f 100.0 9.1E-42 2E-46 321.3 20.8 215 5-227 25-279 (279)
6 PF03850 Tfb4: Transcription f 100.0 2.5E-35 5.3E-40 278.1 19.1 211 6-224 22-276 (276)
7 cd01453 vWA_transcription_fact 100.0 8.8E-34 1.9E-38 252.6 21.2 165 1-165 19-183 (183)
8 KOG2487 RNA polymerase II tran 100.0 1.8E-33 4E-38 258.5 13.0 212 8-228 49-298 (314)
9 cd01452 VWA_26S_proteasome_sub 100.0 4.8E-31 1E-35 236.1 18.7 149 1-150 19-174 (187)
10 COG5242 TFB4 RNA polymerase II 99.9 5.9E-27 1.3E-31 210.9 16.7 212 8-228 43-285 (296)
11 PF07975 C1_4: TFIIH C1-like d 99.9 5E-23 1.1E-27 146.3 1.2 49 264-312 1-51 (51)
12 KOG2884 26S proteasome regulat 99.8 7.4E-20 1.6E-24 164.5 15.9 142 1-143 19-164 (259)
13 PRK13685 hypothetical protein; 99.8 2.2E-17 4.8E-22 159.4 19.3 156 1-161 104-287 (326)
14 COG5148 RPN10 26S proteasome r 99.7 3.4E-17 7.4E-22 144.6 15.1 141 1-142 19-162 (243)
15 cd01455 vWA_F11C1-5a_type Von 99.7 4E-16 8.7E-21 139.9 15.6 148 5-162 24-187 (191)
16 PF13519 VWA_2: von Willebrand 99.6 1.4E-14 3.1E-19 123.4 15.8 150 2-160 16-172 (172)
17 cd01467 vWA_BatA_type VWA BatA 99.6 3.8E-14 8.2E-19 123.8 17.3 142 4-152 22-179 (180)
18 TIGR03436 acidobact_VWFA VWFA- 99.6 9.5E-14 2.1E-18 131.6 16.5 153 6-162 68-252 (296)
19 cd01451 vWA_Magnesium_chelatas 99.5 9.9E-13 2.1E-17 115.9 16.9 144 6-152 17-169 (178)
20 cd01465 vWA_subgroup VWA subgr 99.5 2.5E-12 5.4E-17 110.8 17.3 148 5-157 15-170 (170)
21 cd01466 vWA_C3HC4_type VWA C3H 99.5 1.1E-12 2.4E-17 113.2 14.4 136 3-147 13-154 (155)
22 cd01472 vWA_collagen von Wille 99.4 7E-12 1.5E-16 108.5 17.2 142 3-147 13-160 (164)
23 cd01456 vWA_ywmD_type VWA ywmD 99.4 3.2E-12 6.9E-17 115.1 15.3 139 4-150 40-203 (206)
24 cd01461 vWA_interalpha_trypsin 99.4 8.8E-12 1.9E-16 107.3 16.5 148 3-157 15-169 (171)
25 smart00327 VWA von Willebrand 99.4 1.9E-11 4.1E-16 104.6 18.3 150 3-155 14-171 (177)
26 cd01480 vWA_collagen_alpha_1-V 99.4 6.2E-12 1.4E-16 111.7 15.4 156 3-163 15-182 (186)
27 TIGR00868 hCaCC calcium-activa 99.4 6.8E-12 1.5E-16 133.8 17.8 147 5-157 320-470 (863)
28 cd01469 vWA_integrins_alpha_su 99.4 1.4E-11 3.1E-16 108.6 16.8 152 3-155 13-176 (177)
29 cd01470 vWA_complement_factors 99.4 1.9E-11 4E-16 109.3 17.3 154 3-157 13-197 (198)
30 cd01450 vWFA_subfamily_ECM Von 99.4 3E-11 6.4E-16 102.1 16.1 141 3-144 13-159 (161)
31 cd01474 vWA_ATR ATR (Anthrax T 99.4 3.2E-11 7E-16 106.8 16.6 147 12-161 25-178 (185)
32 cd01463 vWA_VGCC_like VWA Volt 99.3 4.8E-11 1E-15 106.1 14.9 140 3-150 26-189 (190)
33 cd01475 vWA_Matrilin VWA_Matri 99.3 1.6E-10 3.4E-15 105.6 18.6 157 3-162 15-181 (224)
34 cd01477 vWA_F09G8-8_type VWA F 99.3 2.9E-10 6.2E-15 102.5 17.1 142 3-145 32-190 (193)
35 PRK13406 bchD magnesium chelat 99.2 2.3E-10 5.1E-15 118.6 17.1 150 4-156 415-578 (584)
36 cd00198 vWFA Von Willebrand fa 99.2 5.9E-10 1.3E-14 92.4 16.0 140 4-144 14-160 (161)
37 cd01482 vWA_collagen_alphaI-XI 99.2 7.2E-10 1.6E-14 96.2 16.9 139 3-144 13-157 (164)
38 cd01471 vWA_micronemal_protein 99.1 4.7E-09 1E-13 92.6 17.5 152 6-158 17-183 (186)
39 PF00092 VWA: von Willebrand f 99.1 3.5E-09 7.6E-14 91.0 16.0 156 3-159 12-177 (178)
40 PTZ00441 sporozoite surface pr 99.1 6.2E-09 1.4E-13 106.7 17.9 156 4-160 57-226 (576)
41 TIGR02442 Cob-chelat-sub cobal 99.0 1.3E-08 2.8E-13 106.8 17.3 140 5-147 481-632 (633)
42 cd01473 vWA_CTRP CTRP for CS 99.0 3E-08 6.5E-13 89.1 17.1 128 11-139 22-161 (192)
43 TIGR02031 BchD-ChlD magnesium 99.0 2E-08 4.3E-13 104.6 17.2 144 3-149 420-582 (589)
44 cd01476 VWA_integrin_invertebr 98.9 5.5E-08 1.2E-12 83.6 16.5 133 7-141 16-155 (163)
45 PF13768 VWA_3: von Willebrand 98.9 3.6E-08 7.8E-13 84.3 14.7 132 4-145 14-154 (155)
46 cd01458 vWA_ku Ku70/Ku80 N-ter 98.9 1.2E-08 2.7E-13 92.8 12.5 127 4-130 22-174 (218)
47 TIGR03788 marine_srt_targ mari 98.9 3.7E-08 8E-13 102.6 17.2 148 3-157 284-438 (596)
48 COG1240 ChlD Mg-chelatase subu 98.8 1.3E-07 2.7E-12 88.3 15.4 142 6-150 95-247 (261)
49 cd01481 vWA_collagen_alpha3-VI 98.8 6.3E-07 1.4E-11 78.6 17.0 135 3-140 13-156 (165)
50 cd01454 vWA_norD_type norD typ 98.7 5.5E-07 1.2E-11 78.7 15.8 120 6-130 17-154 (174)
51 cd01460 vWA_midasin VWA_Midasi 98.7 2.5E-07 5.5E-12 87.4 14.4 121 2-129 77-205 (266)
52 cd01464 vWA_subfamily VWA subf 98.7 1.9E-07 4.1E-12 81.9 11.3 131 3-138 16-159 (176)
53 cd01462 VWA_YIEM_type VWA YIEM 98.6 1.7E-06 3.8E-11 73.6 15.8 121 4-129 14-135 (152)
54 cd01457 vWA_ORF176_type VWA OR 98.2 2.8E-05 6E-10 69.7 13.6 136 4-144 23-173 (199)
55 cd01479 Sec24-like Sec24-like: 98.0 0.00028 6E-09 65.8 15.5 131 8-145 22-216 (244)
56 PF04811 Sec23_trunk: Sec23/Se 98.0 0.00028 6.1E-09 65.3 14.8 139 6-149 20-225 (243)
57 cd01468 trunk_domain trunk dom 97.9 0.00083 1.8E-08 62.2 16.2 139 5-148 19-222 (239)
58 cd01478 Sec23-like Sec23-like: 97.6 0.0028 6.1E-08 60.1 16.1 92 66-157 139-265 (267)
59 PLN00162 transport protein sec 97.4 0.0056 1.2E-07 66.0 17.2 96 67-162 261-391 (761)
60 PF03731 Ku_N: Ku70/Ku80 N-ter 97.4 0.0032 6.9E-08 57.2 12.9 120 7-126 22-172 (224)
61 COG4245 TerY Uncharacterized p 97.0 0.0098 2.1E-07 53.6 11.0 144 4-159 17-179 (207)
62 PF10138 vWA-TerF-like: vWA fo 96.9 0.031 6.7E-07 50.9 13.7 131 7-141 22-157 (200)
63 TIGR00578 ku70 ATP-dependent D 96.4 0.063 1.4E-06 56.4 13.8 124 5-128 33-183 (584)
64 KOG1984 Vesicle coat complex C 96.2 0.07 1.5E-06 57.5 12.7 130 10-144 438-631 (1007)
65 PTZ00395 Sec24-related protein 96.1 0.063 1.4E-06 60.4 12.2 98 65-164 1073-1202(1560)
66 PRK10997 yieM hypothetical pro 96.1 0.13 2.8E-06 52.8 13.8 99 24-128 355-457 (487)
67 PF11265 Med25_VWA: Mediator c 95.9 0.36 7.8E-06 44.8 14.6 121 25-146 58-204 (226)
68 KOG1986 Vesicle coat complex C 95.9 0.28 6E-06 51.9 15.3 153 5-162 134-378 (745)
69 PF05762 VWA_CoxE: VWA domain 94.8 0.54 1.2E-05 43.1 12.1 108 14-126 76-187 (222)
70 COG2304 Uncharacterized protei 93.9 0.75 1.6E-05 44.7 11.7 136 8-147 55-198 (399)
71 PF07002 Copine: Copine; Inte 93.7 1.3 2.9E-05 38.3 11.6 120 4-126 9-145 (146)
72 COG2425 Uncharacterized protei 93.7 0.57 1.2E-05 47.5 10.6 134 6-147 288-424 (437)
73 COG4867 Uncharacterized protei 93.7 1.5 3.2E-05 44.4 13.2 125 25-160 499-646 (652)
74 KOG2462 C2H2-type Zn-finger pr 93.3 0.11 2.3E-06 49.4 4.3 40 203-242 130-187 (279)
75 COG5028 Vesicle coat complex C 92.8 1.3 2.8E-05 47.6 11.8 75 65-143 385-480 (861)
76 PF01363 FYVE: FYVE zinc finge 92.8 0.063 1.4E-06 40.0 1.6 37 259-299 6-42 (69)
77 smart00187 INB Integrin beta s 92.1 6.3 0.00014 39.9 15.2 151 7-161 115-335 (423)
78 smart00064 FYVE Protein presen 91.8 0.13 2.9E-06 38.1 2.3 40 256-299 4-43 (68)
79 PF06707 DUF1194: Protein of u 91.5 5.4 0.00012 36.6 12.9 104 25-129 43-157 (205)
80 cd01459 vWA_copine_like VWA Co 91.2 5.1 0.00011 37.8 12.9 132 4-138 60-206 (254)
81 TIGR00288 conserved hypothetic 91.1 2.2 4.7E-05 37.7 9.6 113 14-138 8-150 (160)
82 KOG2462 C2H2-type Zn-finger pr 89.8 0.26 5.7E-06 46.8 2.9 75 203-294 161-255 (279)
83 KOG1985 Vesicle coat complex C 89.5 5.3 0.00011 43.4 12.5 75 65-143 402-504 (887)
84 TIGR00373 conserved hypothetic 88.6 0.3 6.5E-06 42.8 2.2 26 203-228 109-139 (158)
85 cd00729 rubredoxin_SM Rubredox 88.1 0.4 8.6E-06 31.3 2.0 24 203-226 2-27 (34)
86 cd00065 FYVE FYVE domain; Zinc 87.8 0.3 6.6E-06 34.7 1.5 34 263-300 3-36 (57)
87 PRK06266 transcription initiat 87.1 0.39 8.6E-06 42.9 2.1 27 203-229 117-148 (178)
88 PRK04023 DNA polymerase II lar 86.3 0.45 9.8E-06 52.4 2.4 68 238-315 595-674 (1121)
89 cd00350 rubredoxin_like Rubred 84.4 0.85 1.8E-05 29.4 2.1 22 204-225 2-25 (33)
90 PRK12496 hypothetical protein; 83.8 5.2 0.00011 35.3 7.6 94 106-229 59-155 (164)
91 PF01485 IBR: IBR domain; Int 82.3 0.96 2.1E-05 32.4 2.0 42 263-304 19-62 (64)
92 cd06167 LabA_like LabA_like pr 81.9 4.2 9.1E-05 34.1 6.1 43 91-138 101-144 (149)
93 PF09723 Zn-ribbon_8: Zinc rib 81.9 0.93 2E-05 30.8 1.6 30 282-312 5-34 (42)
94 cd02340 ZZ_NBR1_like Zinc fing 81.4 1 2.2E-05 30.9 1.7 28 264-297 2-30 (43)
95 PF09538 FYDLN_acid: Protein o 81.3 0.73 1.6E-05 38.0 1.1 28 203-230 9-39 (108)
96 PF13639 zf-RING_2: Ring finge 80.8 0.9 2E-05 30.7 1.3 42 264-310 2-43 (44)
97 PRK00398 rpoP DNA-directed RNA 80.6 1.3 2.7E-05 30.6 2.0 26 203-228 3-32 (46)
98 PF04438 zf-HIT: HIT zinc fing 79.7 0.75 1.6E-05 29.3 0.5 14 203-216 13-26 (30)
99 smart00531 TFIIE Transcription 79.7 1 2.3E-05 38.7 1.6 27 203-229 99-135 (147)
100 COG1592 Rubrerythrin [Energy p 79.7 1.3 2.7E-05 39.4 2.1 24 203-226 134-158 (166)
101 PRK14890 putative Zn-ribbon RN 79.5 2.3 4.9E-05 31.4 3.0 47 262-312 7-56 (59)
102 PF03853 YjeF_N: YjeF-related 79.4 6.6 0.00014 34.4 6.6 78 73-152 9-92 (169)
103 PF10571 UPF0547: Uncharacteri 79.2 1.1 2.5E-05 27.5 1.2 23 205-227 2-24 (26)
104 KOG3768 DEAD box RNA helicase 79.2 30 0.00065 36.7 12.0 52 130-181 194-259 (888)
105 PF11775 CobT_C: Cobalamin bio 79.2 13 0.00028 34.5 8.6 58 71-130 119-189 (219)
106 PF07754 DUF1610: Domain of un 79.0 1.7 3.7E-05 26.4 1.9 24 265-290 1-24 (24)
107 TIGR02300 FYDLN_acid conserved 79.0 1.1 2.4E-05 37.9 1.5 32 203-234 9-43 (129)
108 TIGR02605 CxxC_CxxC_SSSS putat 78.9 1.2 2.6E-05 31.2 1.4 30 203-232 5-45 (52)
109 PF01936 NYN: NYN domain; Int 78.6 3.3 7.1E-05 34.2 4.3 43 91-138 97-140 (146)
110 TIGR01384 TFS_arch transcripti 78.5 2.4 5.2E-05 34.1 3.3 31 262-292 62-100 (104)
111 TIGR01206 lysW lysine biosynth 76.9 1.4 2.9E-05 32.0 1.2 24 203-227 2-32 (54)
112 PF13240 zinc_ribbon_2: zinc-r 76.5 1.4 3E-05 26.3 1.0 22 206-227 2-23 (23)
113 PF13923 zf-C3HC4_2: Zinc fing 76.4 1.7 3.7E-05 28.6 1.5 29 282-310 11-39 (39)
114 PTZ00062 glutaredoxin; Provisi 76.4 62 0.0013 29.6 12.6 98 33-141 66-165 (204)
115 PF13719 zinc_ribbon_5: zinc-r 76.3 1.5 3.3E-05 29.0 1.3 29 264-292 4-35 (37)
116 PF12760 Zn_Tnp_IS1595: Transp 76.1 1.3 2.9E-05 30.5 1.0 23 203-225 18-45 (46)
117 KOG2353 L-type voltage-depende 75.4 19 0.00041 40.8 10.1 143 3-151 238-399 (1104)
118 TIGR00599 rad18 DNA repair pro 75.2 2.8 6E-05 42.2 3.4 46 262-315 26-71 (397)
119 PF08271 TF_Zn_Ribbon: TFIIB z 75.1 1.1 2.4E-05 30.5 0.3 24 204-227 1-29 (43)
120 smart00647 IBR In Between Ring 73.6 3.3 7.2E-05 29.6 2.6 43 262-304 18-62 (64)
121 PF03833 PolC_DP2: DNA polymer 72.3 1.2 2.6E-05 48.4 0.0 68 237-314 622-702 (900)
122 PF13248 zf-ribbon_3: zinc-rib 72.2 1.8 3.9E-05 26.4 0.8 24 204-227 3-26 (26)
123 smart00834 CxxC_CXXC_SSSS Puta 71.4 2.9 6.3E-05 27.5 1.8 30 282-312 5-34 (41)
124 COG2888 Predicted Zn-ribbon RN 71.4 3.6 7.7E-05 30.4 2.3 47 262-312 9-58 (61)
125 PRK12726 flagellar biosynthesi 70.6 79 0.0017 32.0 12.3 94 66-160 176-280 (407)
126 cd02010 TPP_ALS Thiamine pyrop 70.5 43 0.00093 29.3 9.5 90 65-162 45-158 (177)
127 PRK14714 DNA polymerase II lar 69.9 4.4 9.5E-05 46.0 3.6 52 203-291 667-718 (1337)
128 PRK07418 acetolactate synthase 68.7 50 0.0011 34.8 11.2 86 68-161 434-546 (616)
129 COG1533 SplB DNA repair photol 68.6 21 0.00045 34.5 7.6 108 70-183 65-186 (297)
130 PF05191 ADK_lid: Adenylate ki 68.1 5.1 0.00011 26.5 2.3 26 204-229 2-33 (36)
131 KOG4317 Predicted Zn-finger pr 67.2 2.5 5.5E-05 41.1 1.0 27 191-217 7-33 (383)
132 cd02335 ZZ_ADA2 Zinc finger, Z 67.2 3.8 8.2E-05 28.7 1.7 30 264-298 2-32 (49)
133 PF02775 TPP_enzyme_C: Thiamin 66.5 20 0.00042 30.3 6.3 88 66-161 26-143 (153)
134 cd02249 ZZ Zinc finger, ZZ typ 66.2 3.8 8.3E-05 28.2 1.5 29 264-298 2-31 (46)
135 PF09538 FYDLN_acid: Protein o 66.1 4.9 0.00011 33.1 2.4 34 259-295 6-39 (108)
136 KOG1819 FYVE finger-containing 65.7 2 4.3E-05 44.2 -0.0 34 260-297 899-932 (990)
137 PF01927 Mut7-C: Mut7-C RNAse 65.7 6.1 0.00013 33.9 3.0 11 282-292 124-134 (147)
138 PF13717 zinc_ribbon_4: zinc-r 64.8 5 0.00011 26.4 1.8 29 264-292 4-35 (36)
139 cd00162 RING RING-finger (Real 64.6 5.1 0.00011 25.7 1.9 41 265-312 2-43 (45)
140 COG0062 Uncharacterized conser 64.4 24 0.00053 32.3 6.8 56 73-130 33-88 (203)
141 cd00730 rubredoxin Rubredoxin; 63.9 4.6 0.0001 28.7 1.6 22 204-225 2-42 (50)
142 cd02003 TPP_IolD Thiamine pyro 63.7 82 0.0018 28.2 10.1 89 65-161 45-171 (205)
143 PHA02929 N1R/p28-like protein; 63.7 7.6 0.00016 36.4 3.4 51 262-312 174-224 (238)
144 COG1675 TFA1 Transcription ini 63.5 4.1 8.8E-05 36.5 1.5 27 203-229 113-144 (176)
145 cd02004 TPP_BZL_OCoD_HPCL Thia 63.4 46 0.001 28.7 8.2 90 66-161 46-159 (172)
146 cd05017 SIS_PGI_PMI_1 The memb 63.2 14 0.00031 30.0 4.7 51 91-147 45-96 (119)
147 smart00154 ZnF_AN1 AN1-like Zi 62.3 5.4 0.00012 26.8 1.6 25 282-309 12-36 (39)
148 PLN02948 phosphoribosylaminoim 62.0 89 0.0019 33.0 11.4 116 24-165 368-491 (577)
149 PRK08611 pyruvate oxidase; Pro 61.2 54 0.0012 34.2 9.6 86 68-161 408-517 (576)
150 cd02341 ZZ_ZZZ3 Zinc finger, Z 60.9 5.2 0.00011 28.2 1.4 28 264-297 2-33 (48)
151 smart00291 ZnF_ZZ Zinc-binding 60.6 6.2 0.00013 26.9 1.7 29 262-296 4-33 (44)
152 TIGR01651 CobT cobaltochelatas 60.6 63 0.0014 34.3 9.7 79 71-158 499-590 (600)
153 PLN03086 PRLI-interacting fact 60.5 13 0.00027 39.2 4.7 23 205-227 435-463 (567)
154 cd02013 TPP_Xsc_like Thiamine 60.4 85 0.0018 27.9 9.6 88 66-161 51-163 (196)
155 KOG2932 E3 ubiquitin ligase in 60.4 4.7 0.0001 39.2 1.5 40 263-312 91-131 (389)
156 KOG2326 DNA-binding subunit of 60.3 1.3E+02 0.0028 32.0 11.8 151 7-164 27-214 (669)
157 cd03376 TPP_PFOR_porB_like Thi 60.3 88 0.0019 28.9 9.9 88 68-161 62-187 (235)
158 PF14369 zf-RING_3: zinc-finge 59.9 6.5 0.00014 25.8 1.6 28 264-292 4-31 (35)
159 KOG0320 Predicted E3 ubiquitin 59.7 6.9 0.00015 35.2 2.3 28 285-312 148-175 (187)
160 cd02008 TPP_IOR_alpha Thiamine 59.6 28 0.0006 30.4 6.2 83 69-156 52-156 (178)
161 PRK02842 light-independent pro 59.4 1.1E+02 0.0024 30.8 11.2 79 107-186 302-385 (427)
162 cd02339 ZZ_Mind_bomb Zinc fing 59.4 6.1 0.00013 27.4 1.5 29 264-298 2-32 (45)
163 cd02001 TPP_ComE_PpyrDC Thiami 59.2 68 0.0015 27.6 8.4 85 69-162 43-143 (157)
164 PTZ00260 dolichyl-phosphate be 58.8 1.4E+02 0.0031 28.8 11.5 97 6-116 83-189 (333)
165 PF12773 DZR: Double zinc ribb 58.7 11 0.00024 25.9 2.8 23 206-228 1-23 (50)
166 PRK14892 putative transcriptio 58.7 5.3 0.00011 32.5 1.3 25 203-227 21-52 (99)
167 PF00643 zf-B_box: B-box zinc 58.6 4.8 0.00011 26.7 0.9 34 262-303 3-36 (42)
168 PRK00415 rps27e 30S ribosomal 58.4 4.7 0.0001 29.8 0.8 26 205-230 13-43 (59)
169 PRK14559 putative protein seri 58.1 8.1 0.00018 41.3 2.9 7 264-270 17-23 (645)
170 cd01840 SGNH_hydrolase_yrhL_li 58.0 92 0.002 26.0 9.0 75 71-148 35-116 (150)
171 smart00661 RPOL9 RNA polymeras 57.8 10 0.00022 26.2 2.5 29 264-292 2-30 (52)
172 cd02014 TPP_POX Thiamine pyrop 57.6 1.2E+02 0.0026 26.4 9.8 90 66-161 49-160 (178)
173 TIGR00627 tfb4 transcription f 57.5 14 0.0003 35.4 4.1 35 263-312 243-277 (279)
174 cd02006 TPP_Gcl Thiamine pyrop 57.4 1E+02 0.0022 27.4 9.6 86 68-161 57-177 (202)
175 PRK14714 DNA polymerase II lar 57.0 6.3 0.00014 44.8 1.9 44 263-314 668-719 (1337)
176 cd00568 TPP_enzymes Thiamine p 56.8 1.1E+02 0.0024 25.6 9.4 91 65-161 43-156 (168)
177 cd02002 TPP_BFDC Thiamine pyro 56.3 1.1E+02 0.0025 26.2 9.5 91 64-161 46-166 (178)
178 KOG0317 Predicted E3 ubiquitin 56.1 11 0.00024 36.2 3.2 51 261-319 238-288 (293)
179 PRK13130 H/ACA RNA-protein com 55.8 8.1 0.00018 28.2 1.7 25 204-230 6-30 (56)
180 cd02015 TPP_AHAS Thiamine pyro 55.5 92 0.002 27.2 8.8 88 68-161 50-161 (186)
181 PF14570 zf-RING_4: RING/Ubox 55.3 7.6 0.00016 27.5 1.4 44 265-312 1-45 (48)
182 PRK06457 pyruvate dehydrogenas 54.8 75 0.0016 32.9 9.3 87 68-161 396-506 (549)
183 PRK07525 sulfoacetaldehyde ace 54.6 66 0.0014 33.6 9.0 89 66-162 433-547 (588)
184 PF02318 FYVE_2: FYVE-type zin 54.5 8.7 0.00019 31.8 2.0 47 261-310 53-100 (118)
185 PF02670 DXP_reductoisom: 1-de 54.5 1.1E+02 0.0025 25.9 8.8 63 93-160 1-66 (129)
186 TIGR02720 pyruv_oxi_spxB pyruv 54.1 66 0.0014 33.6 8.8 87 67-161 407-517 (575)
187 PF00096 zf-C2H2: Zinc finger, 53.9 5.6 0.00012 22.7 0.5 13 283-295 1-13 (23)
188 PF09237 GAGA: GAGA factor; I 53.8 5.8 0.00013 28.6 0.7 24 215-238 22-45 (54)
189 PRK08978 acetolactate synthase 53.2 58 0.0013 33.6 8.2 86 68-161 401-512 (548)
190 cd04919 ACT_AK-Hom3_2 ACT doma 52.5 36 0.00077 24.1 4.8 36 92-127 3-38 (66)
191 PF15227 zf-C3HC4_4: zinc fing 51.9 5.7 0.00012 26.9 0.4 11 287-297 15-25 (42)
192 cd07041 STAS_RsbR_RsbS_like Su 51.7 65 0.0014 25.3 6.6 42 90-131 42-86 (109)
193 PF07649 C1_3: C1-like domain; 51.4 6.8 0.00015 24.4 0.7 28 264-296 2-29 (30)
194 PF13920 zf-C3HC4_3: Zinc fing 50.5 6.1 0.00013 27.3 0.4 44 263-314 3-47 (50)
195 PF02780 Transketolase_C: Tran 50.4 36 0.00079 27.7 5.1 47 91-141 11-62 (124)
196 PF06220 zf-U1: U1 zinc finger 50.3 6.1 0.00013 26.4 0.3 14 290-303 3-17 (38)
197 cd04922 ACT_AKi-HSDH-ThrA_2 AC 49.9 40 0.00087 23.7 4.7 36 92-127 3-38 (66)
198 KOG2660 Locus-specific chromos 49.2 4.4 9.6E-05 39.5 -0.7 22 290-311 50-73 (331)
199 cd02009 TPP_SHCHC_synthase Thi 49.0 77 0.0017 27.6 7.2 88 65-161 48-162 (175)
200 COG4548 NorD Nitric oxide redu 48.5 91 0.002 32.9 8.4 88 63-154 528-625 (637)
201 cd04868 ACT_AK-like ACT domain 48.5 77 0.0017 20.9 7.1 34 95-128 5-38 (60)
202 KOG1327 Copine [Signal transdu 48.5 2.3E+02 0.0051 29.7 11.5 136 3-141 313-466 (529)
203 cd04924 ACT_AK-Arch_2 ACT doma 48.5 45 0.00097 23.3 4.7 36 92-127 3-38 (66)
204 TIGR01504 glyox_carbo_lig glyo 48.3 89 0.0019 32.8 8.7 86 68-161 418-538 (588)
205 smart00355 ZnF_C2H2 zinc finge 48.2 6 0.00013 22.3 0.0 23 283-305 1-23 (26)
206 TIGR01279 DPOR_bchN light-inde 48.0 1.1E+02 0.0024 30.6 9.0 80 106-186 285-368 (407)
207 PRK08617 acetolactate synthase 47.3 65 0.0014 33.3 7.5 85 69-161 415-523 (552)
208 KOG2593 Transcription initiati 47.2 5.8 0.00013 40.1 -0.2 26 203-228 128-164 (436)
209 PLN02470 acetolactate synthase 47.1 72 0.0016 33.3 7.8 86 68-161 426-544 (585)
210 TIGR02300 FYDLN_acid conserved 47.0 14 0.00031 31.4 2.1 32 260-294 7-38 (129)
211 PRK09545 znuA high-affinity zi 46.3 87 0.0019 30.2 7.7 43 104-146 238-280 (311)
212 PF00097 zf-C3HC4: Zinc finger 46.2 15 0.00033 23.9 1.8 26 285-310 14-41 (41)
213 PRK06882 acetolactate synthase 46.2 1.2E+02 0.0025 31.6 9.2 86 68-161 421-532 (574)
214 PF00301 Rubredoxin: Rubredoxi 45.6 15 0.00033 25.7 1.7 11 204-214 2-12 (47)
215 PF11181 YflT: Heat induced st 45.6 29 0.00062 27.8 3.6 76 104-183 9-85 (103)
216 KOG2906 RNA polymerase III sub 45.3 9.6 0.00021 31.0 0.8 31 261-291 64-102 (105)
217 TIGR00622 ssl1 transcription f 45.3 35 0.00076 28.4 4.1 22 203-224 81-110 (112)
218 PF01428 zf-AN1: AN1-like Zinc 44.8 12 0.00026 25.4 1.1 25 282-309 13-37 (43)
219 cd04916 ACT_AKiii-YclM-BS_2 AC 44.2 56 0.0012 22.9 4.7 36 92-127 3-38 (66)
220 cd02525 Succinoglycan_BP_ExoA 43.9 2.2E+02 0.0048 24.8 9.9 93 14-120 14-112 (249)
221 PTZ00303 phosphatidylinositol 43.9 16 0.00036 39.8 2.4 37 262-298 460-497 (1374)
222 COG1432 Uncharacterized conser 43.7 59 0.0013 28.9 5.7 65 64-138 90-155 (181)
223 PRK07789 acetolactate synthase 43.6 1E+02 0.0023 32.4 8.4 86 68-161 447-562 (612)
224 PRK13981 NAD synthetase; Provi 43.6 2.3E+02 0.005 29.4 10.8 40 91-130 308-347 (540)
225 TIGR01285 nifN nitrogenase mol 43.4 2.1E+02 0.0046 28.9 10.3 77 104-185 320-404 (432)
226 PRK09107 acetolactate synthase 43.4 1.7E+02 0.0037 30.8 9.9 86 68-161 430-541 (595)
227 PRK00420 hypothetical protein; 42.7 14 0.00031 30.7 1.4 26 203-228 23-51 (112)
228 PRK08445 hypothetical protein; 42.7 23 0.00049 34.8 3.1 46 103-148 180-235 (348)
229 PF00462 Glutaredoxin: Glutare 42.5 1.1E+02 0.0025 21.2 6.5 46 93-141 1-46 (60)
230 COG0743 Dxr 1-deoxy-D-xylulose 42.2 1.1E+02 0.0024 30.7 7.7 59 93-156 4-65 (385)
231 cd02012 TPP_TK Thiamine pyroph 41.8 2.8E+02 0.006 25.7 10.1 72 89-161 127-213 (255)
232 TIGR02886 spore_II_AA anti-sig 41.7 1.2E+02 0.0026 23.6 6.7 43 89-131 39-84 (106)
233 PRK06048 acetolactate synthase 41.5 1.9E+02 0.0041 30.0 9.9 86 68-161 414-525 (561)
234 COG3958 Transketolase, C-termi 41.4 1.5E+02 0.0031 29.0 8.2 66 107-183 207-283 (312)
235 PF09186 DUF1949: Domain of un 41.3 61 0.0013 22.2 4.4 41 103-143 4-56 (56)
236 PRK11468 dihydroxyacetone kina 41.3 58 0.0013 32.4 5.6 39 90-129 97-135 (356)
237 PF00569 ZZ: Zinc finger, ZZ t 41.1 15 0.00033 25.3 1.2 31 262-298 4-36 (46)
238 PRK06965 acetolactate synthase 41.1 1.6E+02 0.0036 30.7 9.4 86 68-161 437-548 (587)
239 TIGR02098 MJ0042_CXXC MJ0042 f 40.8 19 0.0004 23.4 1.5 11 282-292 25-35 (38)
240 PF03604 DNA_RNApol_7kD: DNA d 40.7 23 0.00051 22.8 1.9 24 204-227 1-27 (32)
241 PF03358 FMN_red: NADPH-depend 40.6 59 0.0013 27.0 5.0 38 91-128 2-41 (152)
242 KOG1818 Membrane trafficking a 40.4 14 0.0003 39.3 1.2 45 262-310 165-217 (634)
243 PLN03049 pyridoxine (pyridoxam 40.1 71 0.0015 32.8 6.3 54 73-128 43-96 (462)
244 cd03372 TPP_ComE Thiamine pyro 39.9 2.5E+02 0.0054 24.5 9.1 87 68-161 42-144 (179)
245 PRK06112 acetolactate synthase 39.8 1.3E+02 0.0028 31.3 8.4 90 66-161 435-547 (578)
246 PRK08322 acetolactate synthase 39.5 1.2E+02 0.0026 31.2 8.0 89 66-162 404-516 (547)
247 PRK14483 DhaKLM operon coactiv 39.2 57 0.0012 32.1 5.2 41 90-131 96-136 (329)
248 TIGR00197 yjeF_nterm yjeF N-te 39.2 1.1E+02 0.0023 27.7 6.8 50 75-128 33-82 (205)
249 cd04918 ACT_AK1-AT_2 ACT domai 39.2 70 0.0015 23.1 4.6 37 91-128 2-38 (65)
250 PRK08266 hypothetical protein; 39.1 1.5E+02 0.0031 30.6 8.5 88 68-161 402-512 (542)
251 PHA02768 hypothetical protein; 39.1 24 0.00052 25.7 2.0 19 219-237 7-25 (55)
252 TIGR00228 ruvC crossover junct 39.1 1.9E+02 0.0041 25.4 7.9 83 4-86 38-153 (156)
253 PLN03208 E3 ubiquitin-protein 39.0 25 0.00054 32.0 2.5 51 261-319 17-83 (193)
254 PRK14093 UDP-N-acetylmuramoyla 38.8 1.8E+02 0.0039 29.6 9.1 89 72-163 351-443 (479)
255 PRK05978 hypothetical protein; 38.7 18 0.00039 31.5 1.5 24 205-228 35-63 (148)
256 smart00659 RPOLCX RNA polymera 38.7 24 0.00053 24.3 1.9 25 203-227 2-29 (44)
257 TIGR02363 dhaK1 dihydroxyaceto 38.7 71 0.0015 31.4 5.8 40 90-130 98-137 (329)
258 PF14634 zf-RING_5: zinc-RING 38.5 21 0.00046 24.0 1.5 42 265-311 2-43 (44)
259 PRK14571 D-alanyl-alanine synt 38.5 1.4E+02 0.003 28.1 7.7 17 110-126 24-40 (299)
260 COG2051 RPS27A Ribosomal prote 38.5 13 0.00028 28.1 0.5 27 205-231 21-52 (67)
261 PRK05858 hypothetical protein; 38.3 1.4E+02 0.0031 30.7 8.4 86 68-161 407-517 (542)
262 KOG0978 E3 ubiquitin ligase in 38.3 9.2 0.0002 41.1 -0.4 43 263-313 644-687 (698)
263 cd02338 ZZ_PCMF_like Zinc fing 38.3 19 0.0004 25.3 1.3 29 264-298 2-32 (49)
264 PRK08527 acetolactate synthase 38.2 1.8E+02 0.0038 30.3 9.0 88 68-161 414-525 (563)
265 TIGR01556 rhamnosyltran L-rham 38.1 2.1E+02 0.0045 26.2 8.7 56 66-125 54-109 (281)
266 KOG3217 Protein tyrosine phosp 38.0 46 0.001 29.2 3.8 51 109-167 59-111 (159)
267 KOG0688 Peptide chain release 38.0 98 0.0021 30.7 6.5 56 27-86 138-196 (431)
268 cd02005 TPP_PDC_IPDC Thiamine 37.9 1.7E+02 0.0037 25.6 7.8 92 65-162 47-161 (183)
269 PRK06260 threonine synthase; V 37.8 21 0.00046 35.5 2.1 42 203-244 3-57 (397)
270 KOG1198 Zinc-binding oxidoredu 37.6 93 0.002 30.6 6.5 57 65-128 127-191 (347)
271 TIGR03111 glyc2_xrt_Gpos1 puta 37.5 4.3E+02 0.0094 26.4 11.8 90 14-117 63-159 (439)
272 cd00001 PTS_IIB_man PTS_IIB, P 37.5 99 0.0021 26.7 6.0 56 74-139 60-134 (151)
273 PRK11269 glyoxylate carboligas 37.5 1.8E+02 0.0038 30.5 9.0 86 68-161 419-539 (591)
274 COG1645 Uncharacterized Zn-fin 37.5 14 0.00031 31.5 0.7 24 203-226 28-53 (131)
275 PRK08199 thiamine pyrophosphat 37.5 1.4E+02 0.0031 30.8 8.2 88 68-161 415-525 (557)
276 CHL00073 chlN photochlorophyll 37.4 3.3E+02 0.0071 28.1 10.6 90 90-186 315-416 (457)
277 PF13912 zf-C2H2_6: C2H2-type 37.3 18 0.00038 21.4 0.9 23 283-305 2-24 (27)
278 PRK09124 pyruvate dehydrogenas 37.2 1.3E+02 0.0028 31.3 7.9 86 68-161 408-517 (574)
279 COG2454 Uncharacterized conser 37.2 1.8E+02 0.0038 26.9 7.6 63 68-134 110-173 (211)
280 TIGR02362 dhaK1b probable dihy 37.1 64 0.0014 31.7 5.2 41 90-131 94-134 (326)
281 PRK14481 dihydroxyacetone kina 37.0 67 0.0015 31.6 5.3 41 89-130 96-136 (331)
282 KOG1356 Putative transcription 37.0 16 0.00035 39.9 1.1 44 262-311 229-278 (889)
283 PRK07586 hypothetical protein; 37.0 1.7E+02 0.0037 29.9 8.6 86 68-161 385-502 (514)
284 PF07191 zinc-ribbons_6: zinc- 37.0 11 0.00025 28.7 0.0 33 194-227 7-40 (70)
285 PRK08979 acetolactate synthase 37.0 2.2E+02 0.0047 29.7 9.5 86 68-161 421-532 (572)
286 PRK12380 hydrogenase nickel in 36.8 18 0.00039 29.9 1.1 9 264-272 72-80 (113)
287 cd02344 ZZ_HERC2 Zinc finger, 36.6 26 0.00056 24.4 1.8 29 264-298 2-32 (45)
288 cd04914 ACT_AKi-DapG-BS_1 ACT 36.4 1.2E+02 0.0025 22.2 5.4 25 103-127 12-36 (67)
289 COG5574 PEX10 RING-finger-cont 36.4 18 0.00039 34.4 1.2 51 261-319 214-266 (271)
290 COG0375 HybF Zn finger protein 36.2 19 0.00042 30.1 1.2 26 262-291 70-95 (115)
291 PF02875 Mur_ligase_C: Mur lig 36.2 55 0.0012 25.1 3.8 50 73-124 26-78 (91)
292 PF02635 DrsE: DsrE/DsrF-like 36.1 63 0.0014 25.3 4.3 66 64-131 11-88 (122)
293 COG5399 Uncharacterized protei 36.1 1.1E+02 0.0024 26.0 5.7 55 75-130 28-94 (139)
294 PRK07710 acetolactate synthase 36.0 2.1E+02 0.0045 29.8 9.1 86 68-161 424-535 (571)
295 PF15135 UPF0515: Uncharacteri 35.8 27 0.00059 33.1 2.3 54 263-319 133-189 (278)
296 PRK12361 hypothetical protein; 35.5 2.8E+02 0.0061 28.8 10.0 48 73-130 286-333 (547)
297 PRK06456 acetolactate synthase 35.4 1.7E+02 0.0037 30.4 8.4 86 68-161 421-532 (572)
298 PF02733 Dak1: Dak1 domain; I 35.4 51 0.0011 32.4 4.2 37 89-129 80-119 (325)
299 PF13894 zf-C2H2_4: C2H2-type 35.2 19 0.00042 19.9 0.8 20 283-302 1-20 (24)
300 PF06750 DiS_P_DiS: Bacterial 34.9 13 0.00029 29.6 0.1 37 217-273 33-69 (92)
301 TIGR02418 acolac_catab acetola 34.7 2.1E+02 0.0045 29.5 8.8 86 68-161 408-517 (539)
302 PRK07524 hypothetical protein; 34.6 2.1E+02 0.0046 29.4 8.9 89 68-162 407-517 (535)
303 cd02522 GT_2_like_a GT_2_like_ 34.6 3E+02 0.0064 23.6 10.0 95 14-124 13-107 (221)
304 cd06533 Glyco_transf_WecG_TagA 34.6 89 0.0019 27.3 5.3 76 103-184 30-113 (171)
305 PF13824 zf-Mss51: Zinc-finger 34.5 28 0.0006 25.4 1.7 22 206-227 2-24 (55)
306 cd03375 TPP_OGFOR Thiamine pyr 34.5 2.3E+02 0.005 25.1 8.1 88 68-161 51-171 (193)
307 smart00504 Ubox Modified RING 34.4 38 0.00082 23.9 2.4 44 264-315 3-46 (63)
308 TIGR03457 sulphoacet_xsc sulfo 34.4 2.2E+02 0.0047 29.7 9.0 86 68-161 430-541 (579)
309 COG1996 RPC10 DNA-directed RNA 34.2 21 0.00046 25.4 1.0 27 282-312 6-32 (49)
310 COG3183 Predicted restriction 34.2 9.7 0.00021 36.2 -0.9 32 218-249 196-232 (272)
311 PLN02573 pyruvate decarboxylas 34.1 1.7E+02 0.0037 30.7 8.1 85 69-161 429-537 (578)
312 PRK03815 murD UDP-N-acetylmura 34.0 4.9E+02 0.011 26.0 14.3 66 90-159 299-364 (401)
313 cd04923 ACT_AK-LysC-DapG-like_ 33.9 1.5E+02 0.0033 20.1 7.2 32 95-126 5-36 (63)
314 cd03031 GRX_GRX_like Glutaredo 33.9 1.5E+02 0.0033 25.5 6.5 52 91-142 1-54 (147)
315 PLN03050 pyridoxine (pyridoxam 33.8 1.3E+02 0.0028 28.2 6.5 53 90-144 61-117 (246)
316 cd01017 AdcA Metal binding pro 33.7 1.2E+02 0.0026 28.4 6.4 43 103-145 205-247 (282)
317 PRK11425 PTS system N-acetylga 33.5 1.2E+02 0.0025 26.6 5.8 63 55-128 44-106 (157)
318 PF10122 Mu-like_Com: Mu-like 33.4 20 0.00044 25.7 0.8 31 262-292 4-34 (51)
319 PF02540 NAD_synthase: NAD syn 33.3 3.4E+02 0.0075 25.1 9.3 41 89-129 44-84 (242)
320 cd01019 ZnuA Zinc binding prot 33.3 97 0.0021 29.3 5.7 42 103-144 213-254 (286)
321 PF13453 zf-TFIIB: Transcripti 33.2 21 0.00046 23.8 0.9 28 265-292 2-29 (41)
322 PHA00616 hypothetical protein 33.1 13 0.00027 25.9 -0.3 15 283-297 2-16 (44)
323 PHA00733 hypothetical protein 33.1 34 0.00075 28.8 2.3 33 203-235 73-117 (128)
324 PRK10824 glutaredoxin-4; Provi 33.1 1.5E+02 0.0032 24.6 6.0 50 90-141 15-67 (115)
325 PRK06546 pyruvate dehydrogenas 33.0 1.8E+02 0.0039 30.4 8.1 88 68-161 408-517 (578)
326 TIGR01053 LSD1 zinc finger dom 33.0 39 0.00085 21.6 2.0 25 264-290 3-27 (31)
327 PRK06466 acetolactate synthase 32.8 2.6E+02 0.0057 29.1 9.3 86 68-161 423-534 (574)
328 CHL00099 ilvB acetohydroxyacid 32.7 2E+02 0.0043 30.1 8.4 86 68-161 430-542 (585)
329 PRK06163 hypothetical protein; 32.6 3.6E+02 0.0078 24.3 9.1 85 69-161 58-160 (202)
330 cd03028 GRX_PICOT_like Glutare 32.6 1.8E+02 0.004 22.3 6.3 51 90-141 8-60 (90)
331 cd04921 ACT_AKi-HSDH-ThrA-like 32.4 1.1E+02 0.0023 22.5 4.8 34 94-127 5-38 (80)
332 PRK07064 hypothetical protein; 32.3 1.5E+02 0.0032 30.5 7.3 86 69-162 406-516 (544)
333 PF05596 Taeniidae_ag: Taeniid 32.3 48 0.001 24.8 2.7 27 4-30 4-30 (64)
334 PF13465 zf-H2C2_2: Zinc-finge 32.1 26 0.00057 21.0 1.1 11 282-292 14-24 (26)
335 PRK11889 flhF flagellar biosyn 32.0 5.8E+02 0.013 26.2 11.5 71 90-160 241-315 (436)
336 cd04892 ACT_AK-like_2 ACT doma 32.0 1.3E+02 0.0027 20.3 4.8 36 93-128 3-38 (65)
337 KOG4317 Predicted Zn-finger pr 31.7 22 0.00048 34.7 1.0 24 263-294 8-31 (383)
338 PRK06276 acetolactate synthase 31.7 2E+02 0.0043 30.0 8.2 86 68-161 419-530 (586)
339 cd06427 CESA_like_2 CESA_like_ 31.6 3.7E+02 0.008 23.8 11.2 96 15-124 16-119 (241)
340 TIGR00118 acolac_lg acetolacta 31.6 2.1E+02 0.0045 29.6 8.3 86 68-161 412-523 (558)
341 cd04936 ACT_AKii-LysC-BS-like_ 31.6 1.2E+02 0.0027 20.6 4.8 32 95-126 5-36 (63)
342 PRK07092 benzoylformate decarb 31.5 2.6E+02 0.0057 28.7 9.0 87 69-161 408-517 (530)
343 cd03371 TPP_PpyrDC Thiamine py 31.5 2.5E+02 0.0054 24.8 7.8 68 89-161 66-150 (188)
344 PLN02918 pyridoxine (pyridoxam 31.3 1.1E+02 0.0024 32.2 6.1 53 73-127 119-171 (544)
345 KOG2858 Uncharacterized conser 31.2 17 0.00036 36.1 0.1 14 203-216 29-42 (390)
346 PF11495 Regulator_TrmB: Archa 31.0 1.4E+02 0.003 27.3 6.2 52 69-127 7-58 (233)
347 TIGR00595 priA primosomal prot 30.8 36 0.00078 35.2 2.5 41 261-313 212-262 (505)
348 KOG0804 Cytoplasmic Zn-finger 30.4 17 0.00037 37.1 0.0 25 262-294 228-252 (493)
349 PF13842 Tnp_zf-ribbon_2: DDE_ 30.3 50 0.0011 21.1 2.2 15 281-295 15-29 (32)
350 cd03418 GRX_GRXb_1_3_like Glut 30.1 2.1E+02 0.0045 20.5 6.2 38 106-143 12-49 (75)
351 TIGR03393 indolpyr_decarb indo 30.1 2.3E+02 0.005 29.2 8.3 86 68-161 404-514 (539)
352 COG1198 PriA Primosomal protei 30.0 74 0.0016 34.7 4.7 133 110-290 341-483 (730)
353 PF13911 AhpC-TSA_2: AhpC/TSA 29.9 1.2E+02 0.0026 24.1 5.0 42 109-151 4-45 (115)
354 KOG4399 C2HC-type Zn-finger pr 29.7 19 0.0004 34.4 0.2 28 284-312 251-282 (325)
355 TIGR00570 cdk7 CDK-activating 29.7 25 0.00054 34.3 1.0 26 287-312 25-51 (309)
356 cd06844 STAS Sulphate Transpor 29.7 1.7E+02 0.0036 22.7 5.7 41 90-130 40-83 (100)
357 COG0035 Upp Uracil phosphoribo 29.6 1.7E+02 0.0037 27.0 6.4 102 13-129 79-188 (210)
358 cd04915 ACT_AK-Ectoine_2 ACT d 29.5 1.2E+02 0.0025 22.1 4.5 36 92-128 4-39 (66)
359 cd01826 acyloxyacyl_hydrolase_ 29.4 2.4E+02 0.0051 27.6 7.6 71 71-141 105-192 (305)
360 cd01137 PsaA Metal binding pro 29.3 1E+02 0.0023 29.2 5.2 42 103-144 211-252 (287)
361 PRK09628 oorB 2-oxoglutarate-a 29.3 2.9E+02 0.0063 26.3 8.2 55 69-129 69-124 (277)
362 PRK11788 tetratricopeptide rep 29.2 30 0.00066 33.1 1.5 24 203-226 354-377 (389)
363 PF09862 DUF2089: Protein of u 29.1 23 0.0005 29.5 0.6 22 206-227 1-22 (113)
364 PF14835 zf-RING_6: zf-RING of 29.1 60 0.0013 24.5 2.7 42 264-315 9-51 (65)
365 cd06913 beta3GnTL1_like Beta 1 29.1 3.8E+02 0.0083 23.2 9.4 92 13-118 10-113 (219)
366 TIGR02181 GRX_bact Glutaredoxi 28.9 1.2E+02 0.0026 22.2 4.6 35 107-141 12-46 (79)
367 PF02591 DUF164: Putative zinc 28.8 23 0.00051 25.2 0.5 30 262-291 22-55 (56)
368 PRK13398 3-deoxy-7-phosphohept 28.7 2.7E+02 0.0059 26.4 7.9 67 91-157 27-108 (266)
369 TIGR00595 priA primosomal prot 28.7 39 0.00085 34.9 2.3 49 204-291 214-262 (505)
370 PRK09756 PTS system N-acetylga 28.7 1.5E+02 0.0033 25.9 5.7 55 74-139 66-139 (158)
371 PF14803 Nudix_N_2: Nudix N-te 28.6 27 0.00059 22.8 0.8 28 264-291 2-31 (34)
372 PF00731 AIRC: AIR carboxylase 28.4 3E+02 0.0064 24.0 7.4 73 91-165 2-81 (150)
373 TIGR00243 Dxr 1-deoxy-D-xylulo 28.4 2.9E+02 0.0062 28.0 8.2 58 93-155 4-64 (389)
374 PRK00481 NAD-dependent deacety 28.3 49 0.0011 30.6 2.7 40 282-323 122-161 (242)
375 PF14353 CpXC: CpXC protein 28.3 38 0.00082 28.1 1.8 15 282-296 38-52 (128)
376 KOG1813 Predicted E3 ubiquitin 28.2 22 0.00049 34.4 0.4 50 264-321 243-292 (313)
377 PF03850 Tfb4: Transcription f 28.2 32 0.00069 32.9 1.5 36 263-311 241-276 (276)
378 PRK12723 flagellar biosynthesi 28.1 6.2E+02 0.014 25.4 10.9 72 89-160 173-252 (388)
379 TIGR02803 ExbD_1 TonB system t 28.0 2E+02 0.0044 23.4 6.2 33 93-126 88-121 (122)
380 COG1656 Uncharacterized conser 27.9 28 0.0006 30.9 0.9 30 263-292 98-140 (165)
381 cd02345 ZZ_dah Zinc finger, ZZ 27.8 37 0.00081 23.7 1.4 29 264-298 2-32 (49)
382 PRK06450 threonine synthase; V 27.8 40 0.00087 33.0 2.1 42 203-244 3-48 (338)
383 KOG3362 Predicted BBOX Zn-fing 27.7 37 0.0008 29.6 1.6 27 188-217 117-143 (156)
384 PF01667 Ribosomal_S27e: Ribos 27.6 28 0.0006 25.3 0.7 26 205-230 9-39 (55)
385 cd04934 ACT_AK-Hom3_1 CT domai 27.5 1.3E+02 0.0029 22.5 4.6 30 97-126 8-37 (73)
386 TIGR01143 murF UDP-N-acetylmur 27.5 2.9E+02 0.0062 27.4 8.2 24 71-98 309-332 (417)
387 cd01018 ZntC Metal binding pro 27.3 2.5E+02 0.0055 26.1 7.4 42 103-144 202-243 (266)
388 PRK07119 2-ketoisovalerate fer 27.2 2.3E+02 0.0051 27.8 7.4 66 91-160 248-318 (352)
389 PF12675 DUF3795: Protein of u 27.1 35 0.00077 26.1 1.3 24 291-314 7-44 (78)
390 cd01979 Pchlide_reductase_N Pc 27.1 5.1E+02 0.011 25.6 9.9 79 106-186 287-370 (396)
391 PRK00448 polC DNA polymerase I 27.0 29 0.00063 40.6 1.1 24 203-228 908-944 (1437)
392 PRK10565 putative carbohydrate 27.0 3E+02 0.0065 28.6 8.4 54 89-144 60-119 (508)
393 cd04912 ACT_AKiii-LysC-EC-like 27.0 1.6E+02 0.0034 21.8 4.9 31 96-126 7-37 (75)
394 PF00535 Glycos_transf_2: Glyc 27.0 1.6E+02 0.0035 23.3 5.4 73 74-151 13-88 (169)
395 COG0603 Predicted PP-loop supe 26.9 2.3E+02 0.0051 26.3 6.8 59 90-155 4-68 (222)
396 smart00547 ZnF_RBZ Zinc finger 26.8 36 0.00077 20.1 1.0 24 203-226 2-25 (26)
397 TIGR03394 indol_phenyl_DC indo 26.8 2.7E+02 0.0058 28.8 8.1 85 68-161 403-507 (535)
398 TIGR00854 pts-sorbose PTS syst 26.8 1.9E+02 0.0042 25.0 6.0 56 74-139 61-135 (151)
399 PF14205 Cys_rich_KTR: Cystein 26.7 49 0.0011 24.1 1.8 23 204-226 5-37 (55)
400 PRK07979 acetolactate synthase 26.7 5E+02 0.011 27.0 10.1 86 68-161 421-532 (574)
401 PF08274 PhnA_Zn_Ribbon: PhnA 26.7 18 0.00039 23.0 -0.3 9 282-290 19-27 (30)
402 PLN02891 IMP cyclohydrolase 26.7 3E+02 0.0066 29.0 8.2 71 84-161 17-112 (547)
403 KOG4275 Predicted E3 ubiquitin 26.6 13 0.00028 36.0 -1.5 44 263-311 45-88 (350)
404 PLN00209 ribosomal protein S27 26.4 30 0.00065 27.5 0.8 26 205-230 38-68 (86)
405 smart00184 RING Ring finger. E 26.4 29 0.00062 21.1 0.6 25 286-310 14-39 (39)
406 PRK06154 hypothetical protein; 26.3 2.4E+02 0.0052 29.4 7.7 86 68-161 431-539 (565)
407 COG0770 MurF UDP-N-acetylmuram 26.3 3.4E+02 0.0075 27.8 8.6 86 72-164 340-428 (451)
408 PRK07449 2-succinyl-5-enolpyru 26.3 1.7E+02 0.0036 30.4 6.5 87 66-161 423-536 (568)
409 PRK11869 2-oxoacid ferredoxin 26.1 2.5E+02 0.0054 26.9 7.1 57 68-130 60-117 (280)
410 COG1366 SpoIIAA Anti-anti-sigm 26.0 2.5E+02 0.0053 22.5 6.2 50 89-141 44-96 (117)
411 PRK14479 dihydroxyacetone kina 26.0 1.3E+02 0.0028 31.9 5.5 40 89-129 95-134 (568)
412 PTZ00375 dihydroxyacetone kina 25.9 1.4E+02 0.003 31.8 5.8 40 89-129 98-137 (584)
413 PRK09627 oorA 2-oxoglutarate-a 25.9 2.6E+02 0.0057 27.8 7.5 67 91-161 276-347 (375)
414 KOG2585 Uncharacterized conser 25.7 3.2E+02 0.007 28.1 8.0 53 92-146 269-323 (453)
415 TIGR01405 polC_Gram_pos DNA po 25.7 32 0.00069 39.6 1.1 24 203-228 683-719 (1213)
416 TIGR03846 sulfopy_beta sulfopy 25.6 3.8E+02 0.0082 23.5 7.8 78 68-158 46-141 (181)
417 PRK03564 formate dehydrogenase 25.6 44 0.00095 32.6 1.9 41 264-312 214-260 (309)
418 PRK05447 1-deoxy-D-xylulose 5- 25.6 3.3E+02 0.0072 27.4 8.1 59 93-156 4-65 (385)
419 COG0028 IlvB Thiamine pyrophos 25.5 2.6E+02 0.0056 29.4 7.7 86 69-162 409-519 (550)
420 PRK00432 30S ribosomal protein 25.5 42 0.00092 23.7 1.3 25 203-227 20-47 (50)
421 TIGR00365 monothiol glutaredox 25.3 3.3E+02 0.0071 21.4 6.7 51 90-141 12-64 (97)
422 PRK08659 2-oxoglutarate ferred 25.0 3E+02 0.0065 27.4 7.7 67 91-161 275-346 (376)
423 smart00440 ZnF_C2C2 C2C2 Zinc 24.9 52 0.0011 22.0 1.6 15 278-292 24-38 (40)
424 PRK04155 chaperone protein Hch 24.9 1.5E+02 0.0033 28.4 5.4 42 87-128 47-100 (287)
425 cd04795 SIS SIS domain. SIS (S 24.8 1.7E+02 0.0038 21.3 4.8 33 90-125 48-81 (87)
426 PRK03868 glucose-6-phosphate i 24.8 7.1E+02 0.015 25.1 10.5 30 5-37 38-67 (410)
427 PTZ00083 40S ribosomal protein 24.7 35 0.00075 27.0 0.8 26 205-230 37-67 (85)
428 PF01297 TroA: Periplasmic sol 24.7 2.1E+02 0.0045 26.2 6.2 42 103-144 184-225 (256)
429 PF07894 DUF1669: Protein of u 24.7 2E+02 0.0044 27.7 6.2 31 109-139 165-195 (284)
430 COG0864 NikR Predicted transcr 24.7 1.2E+02 0.0027 26.0 4.3 34 4-37 28-63 (136)
431 COG4888 Uncharacterized Zn rib 24.6 34 0.00073 28.0 0.8 24 203-226 22-55 (104)
432 PRK12496 hypothetical protein; 24.6 40 0.00087 29.6 1.3 25 263-291 128-152 (164)
433 PF07282 OrfB_Zn_ribbon: Putat 24.5 72 0.0016 23.3 2.5 31 260-292 26-56 (69)
434 cd00859 HisRS_anticodon HisRS 24.5 2.8E+02 0.006 20.0 6.0 44 107-150 17-60 (91)
435 KOG2272 Focal adhesion protein 24.4 41 0.0009 32.0 1.4 90 189-292 120-231 (332)
436 PF00641 zf-RanBP: Zn-finger i 24.4 62 0.0013 19.9 1.8 24 203-226 4-27 (30)
437 PF03119 DNA_ligase_ZBD: NAD-d 24.3 34 0.00075 21.2 0.6 13 219-231 1-13 (28)
438 PRK08327 acetolactate synthase 24.2 2.6E+02 0.0056 29.2 7.4 91 66-161 428-550 (569)
439 COG0725 ModA ABC-type molybdat 24.1 4.4E+02 0.0096 24.7 8.4 75 88-167 28-104 (258)
440 COG2176 PolC DNA polymerase II 24.1 35 0.00077 39.0 1.1 40 203-249 914-964 (1444)
441 PF14949 ARF7EP_C: ARF7 effect 24.0 43 0.00093 27.5 1.3 19 263-294 68-86 (103)
442 cd06442 DPM1_like DPM1_like re 24.0 4.6E+02 0.01 22.4 10.6 91 16-120 13-109 (224)
443 cd06355 PBP1_FmdD_like Peripla 23.9 2.9E+02 0.0062 26.3 7.3 16 68-83 17-32 (348)
444 PRK11823 DNA repair protein Ra 23.9 45 0.00098 33.9 1.7 24 203-226 7-30 (446)
445 cd01832 SGNH_hydrolase_like_1 23.8 2.4E+02 0.0053 23.7 6.2 52 91-142 70-146 (185)
446 PRK09259 putative oxalyl-CoA d 23.8 3.5E+02 0.0075 28.1 8.3 84 69-161 425-533 (569)
447 PF06221 zf-C2HC5: Putative zi 23.8 60 0.0013 23.8 1.9 45 190-234 3-52 (57)
448 PHA00626 hypothetical protein 23.8 43 0.00094 24.6 1.1 15 280-294 21-35 (59)
449 PRK05580 primosome assembly pr 23.8 72 0.0016 34.3 3.3 63 189-291 368-430 (679)
450 PF10221 DUF2151: Cell cycle a 23.7 8.2E+02 0.018 26.7 11.0 78 6-83 44-130 (695)
451 PF03808 Glyco_tran_WecB: Glyc 23.7 1.9E+02 0.0041 25.2 5.4 75 104-184 33-115 (172)
452 PF05705 DUF829: Eukaryotic pr 23.7 2.6E+02 0.0056 25.2 6.6 37 92-128 181-218 (240)
453 COG1379 PHP family phosphoeste 23.5 26 0.00056 34.6 -0.1 30 262-292 246-275 (403)
454 PF01096 TFIIS_C: Transcriptio 23.4 45 0.00097 22.2 1.1 15 278-292 24-38 (39)
455 TIGR00686 phnA alkylphosphonat 23.4 48 0.001 27.4 1.5 23 285-312 5-27 (109)
456 PRK09212 pyruvate dehydrogenas 23.3 2.7E+02 0.0059 27.0 7.0 55 106-160 215-279 (327)
457 cd06349 PBP1_ABC_ligand_bindin 23.2 5.4E+02 0.012 24.0 9.0 15 69-83 18-32 (340)
458 TIGR01162 purE phosphoribosyla 23.2 2.6E+02 0.0056 24.6 6.1 70 92-164 1-78 (156)
459 PRK06725 acetolactate synthase 23.2 4.4E+02 0.0096 27.5 9.0 88 68-161 422-532 (570)
460 cd02511 Beta4Glucosyltransfera 23.2 5E+02 0.011 23.0 8.3 68 90-164 27-100 (229)
461 cd02018 TPP_PFOR Thiamine pyro 23.1 3.4E+02 0.0074 25.0 7.3 93 67-161 63-189 (237)
462 PF14206 Cys_rich_CPCC: Cystei 23.1 47 0.001 25.9 1.3 21 204-224 2-27 (78)
463 cd02342 ZZ_UBA_plant Zinc fing 23.0 50 0.0011 22.9 1.2 27 264-296 2-30 (43)
464 PRK08993 2-deoxy-D-gluconate 3 22.9 5.5E+02 0.012 22.9 9.2 17 112-128 174-190 (253)
465 TIGR00377 ant_ant_sig anti-ant 22.9 2.5E+02 0.0055 21.6 5.6 43 89-131 43-88 (108)
466 smart00109 C1 Protein kinase C 22.9 60 0.0013 21.4 1.7 30 262-303 11-40 (49)
467 PF07295 DUF1451: Protein of u 22.8 60 0.0013 28.2 2.0 28 281-312 111-138 (146)
468 TIGR03227 PhnS 2-aminoethylpho 22.7 4.8E+02 0.01 25.3 8.6 54 93-147 38-95 (367)
469 PRK10773 murF UDP-N-acetylmura 22.7 3.8E+02 0.0082 27.0 8.1 81 72-163 339-424 (453)
470 PRK05778 2-oxoglutarate ferred 22.6 3.9E+02 0.0084 25.8 7.8 88 68-161 70-190 (301)
471 TIGR02361 dak_ATP dihydroxyace 22.6 1.8E+02 0.0038 30.9 5.8 40 89-129 95-134 (574)
472 cd04935 ACT_AKiii-DAPDC_1 ACT 22.5 2.2E+02 0.0047 21.3 4.9 30 97-126 8-37 (75)
473 cd04937 ACT_AKi-DapG-BS_2 ACT 22.4 2E+02 0.0044 20.4 4.6 34 92-125 3-36 (64)
474 KOG2857 Predicted MYND Zn-fing 22.2 37 0.00081 29.5 0.6 15 203-217 17-31 (157)
475 cd01407 SIR2-fam SIR2 family o 22.2 66 0.0014 29.2 2.3 40 283-323 110-152 (218)
476 COG1545 Predicted nucleic-acid 22.1 61 0.0013 27.7 1.9 24 203-226 29-52 (140)
477 PF05290 Baculo_IE-1: Baculovi 22.1 44 0.00096 28.7 1.1 29 203-231 103-135 (140)
478 cd04890 ACT_AK-like_1 ACT doma 22.1 2.3E+02 0.005 19.6 4.8 32 95-126 5-36 (62)
479 PF06943 zf-LSD1: LSD1 zinc fi 22.0 85 0.0018 19.2 2.0 24 265-290 1-24 (25)
480 PRK11425 PTS system N-acetylga 21.9 3.3E+02 0.0072 23.7 6.6 70 89-162 28-98 (157)
481 TIGR01307 pgm_bpd_ind 2,3-bisp 21.9 5.9E+02 0.013 26.6 9.3 45 106-151 125-189 (501)
482 PRK05569 flavodoxin; Provision 21.7 1.5E+02 0.0032 24.4 4.2 37 91-128 3-40 (141)
483 COG1707 ACT domain-containing 21.7 2.6E+02 0.0056 25.2 5.8 34 91-127 143-177 (218)
484 PF03854 zf-P11: P-11 zinc fin 21.6 25 0.00055 24.9 -0.4 25 203-227 21-45 (50)
485 KOG1680 Enoyl-CoA hydratase [L 21.5 63 0.0014 31.2 2.0 34 4-37 54-88 (290)
486 KOG1812 Predicted E3 ubiquitin 21.5 63 0.0014 32.4 2.1 47 262-311 306-352 (384)
487 COG1488 PncB Nicotinic acid ph 21.3 6.2E+02 0.014 25.6 9.2 100 11-128 220-324 (405)
488 cd02066 GRX_family Glutaredoxi 21.2 2.8E+02 0.006 18.9 6.1 37 106-142 12-48 (72)
489 TIGR03254 oxalate_oxc oxalyl-C 21.2 4.5E+02 0.0097 27.2 8.5 84 69-161 418-525 (554)
490 PRK07282 acetolactate synthase 21.1 3.3E+02 0.0071 28.4 7.5 85 68-160 418-528 (566)
491 COG0848 ExbD Biopolymer transp 21.1 2.3E+02 0.005 24.1 5.3 44 73-120 83-126 (137)
492 PRK11267 biopolymer transport 21.1 3.2E+02 0.007 23.0 6.2 33 93-126 102-135 (141)
493 KOG1812 Predicted E3 ubiquitin 21.0 37 0.00081 34.0 0.5 40 264-303 240-279 (384)
494 cd07043 STAS_anti-anti-sigma_f 21.0 2.6E+02 0.0056 20.8 5.2 41 90-130 39-82 (99)
495 cd03794 GT1_wbuB_like This fam 21.0 3.7E+02 0.008 24.3 7.1 70 91-160 221-295 (394)
496 KOG2813 Predicted molecular ch 20.9 1.2E+02 0.0026 30.0 3.8 70 190-297 186-263 (406)
497 PF03830 PTSIIB_sorb: PTS syst 20.9 1.8E+02 0.0039 25.1 4.7 45 74-128 61-105 (151)
498 TIGR01668 YqeG_hyp_ppase HAD s 20.9 5.2E+02 0.011 22.1 7.7 57 107-163 48-107 (170)
499 TIGR00375 conserved hypothetic 20.8 29 0.00062 34.8 -0.4 38 205-243 242-299 (374)
500 PHA02926 zinc finger-like prot 20.8 74 0.0016 29.8 2.3 52 261-312 169-227 (242)
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=2.2e-107 Score=760.01 Aligned_cols=302 Identities=60% Similarity=1.083 Sum_probs=287.5
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+||+|||+..+.++++.||.+||||||+||||||+++||+|++++.+|||++.|+++|+.+.++.|++||||||+||...
T Consensus 76 ~Df~P~r~a~~~K~le~Fv~eFFdQNPiSQigii~~k~g~A~~lt~ltgnp~~hI~aL~~~~~~~g~fSLqNaLe~a~~~ 155 (378)
T KOG2807|consen 76 KDFRPSRFANVIKYLEGFVPEFFDQNPISQIGIISIKDGKADRLTDLTGNPRIHIHALKGLTECSGDFSLQNALELAREV 155 (378)
T ss_pred ccCCchHHHHHHHHHHHHHHHHhccCchhheeEEEEecchhhHHHHhcCCHHHHHHHHhcccccCCChHHHHHHHHHHHH
Confidence 59999999999999999999999999999999999999999999999999999999999887899999999999999999
Q ss_pred hhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 81 LSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 81 L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
|+++|+|.+||||||+||+.|+|||||++||+++|+.+|||++|||+||+.|+|++|+.|||.|.|++|++||++||.++
T Consensus 156 Lk~~p~H~sREVLii~sslsT~DPgdi~~tI~~lk~~kIRvsvIgLsaEv~icK~l~kaT~G~Y~V~lDe~HlkeLl~e~ 235 (378)
T KOG2807|consen 156 LKHMPGHVSREVLIIFSSLSTCDPGDIYETIDKLKAYKIRVSVIGLSAEVFICKELCKATGGRYSVALDEGHLKELLLEH 235 (378)
T ss_pred hcCCCcccceEEEEEEeeecccCcccHHHHHHHHHhhCeEEEEEeechhHHHHHHHHHhhCCeEEEEeCHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhccc
Q 020564 161 APPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHL 240 (324)
Q Consensus 161 ~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl 240 (324)
+.|||+.+. .+.+|||||||++...+.+++|+||..++.. ||.||||++++|+||++||+|+|+||||||||||||||
T Consensus 236 ~~Pp~~~~~-~~~sLvkmGFP~~~~e~~ps~C~CH~~~~~~-Gy~CP~CkakvCsLP~eCpiC~ltLVss~hLARSyhhL 313 (378)
T KOG2807|consen 236 THPPPANKS-KECSLVKMGFPSRSPEDTPSFCACHSELSGG-GYFCPQCKAKVCSLPIECPICSLTLVSSPHLARSYHHL 313 (378)
T ss_pred CCCCCcccc-cCCceEEecCCCcccccCcchheeccccccC-ceeCCcccCeeecCCccCCccceeEecchHHHHHHHhh
Confidence 999998744 3899999999999999999999999888888 99999999999999999999999999999999999999
Q ss_pred CCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCCCC
Q 020564 241 FPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLR 314 (324)
Q Consensus 241 ~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~ 314 (324)
|||++|+|++ |.+..+++.||+|+..+. ++.+|+|+.|+++||.|||+||||+||+||||+.++
T Consensus 314 ~PL~~F~Eip-----~~~~~~~~~Cf~C~~~~~-----~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~~ 377 (378)
T KOG2807|consen 314 FPLKPFVEIP-----ETEYNGSRFCFACQGELL-----SSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHKP 377 (378)
T ss_pred cCCcchhhcc-----ccccCCCcceeeeccccC-----CCCcEEchhccceeeccchHHHHhhhhcCCCcCCCC
Confidence 9999999996 445567889999964443 346899999999999999999999999999999654
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=2.6e-94 Score=668.77 Aligned_cols=308 Identities=46% Similarity=0.826 Sum_probs=294.6
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+||+|+|...+.+++++||.+||+|||+||++||.++||.|.+++.+.||+.+|+.+|+.+.+++|++||||||+||+..
T Consensus 103 ~Df~p~r~a~vikya~~Fv~eFf~qNPiSqlsii~irdg~a~~~s~~~gnpq~hi~~lkS~rd~~gnfSLqNaLEmar~~ 182 (421)
T COG5151 103 SDFLPTRRANVIKYAEGFVPEFFSQNPISQLSIISIRDGCAKYTSSMDGNPQAHIGQLKSKRDCSGNFSLQNALEMARIE 182 (421)
T ss_pred hhccchHHHHHHHHHHHHhHHHhccCCchheeeeehhhhHHHHhhhcCCCHHHHHHHhhcccccCCChhHHhHHHHhhhh
Confidence 59999999999999999999999999999999999999999999999999999999999988999999999999999999
Q ss_pred hhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhh----CCeeEEeCCHHHHHHH
Q 020564 81 LSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDT----GGSYSVALDESHFKEL 156 (324)
Q Consensus 81 L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~T----gG~Y~va~d~~hl~~l 156 (324)
|.+.+.|++|||||++||..|.|||||.+||++|..++|||.+|||++|+.|+|+||+.| .|.|+|+.|+.||++|
T Consensus 183 l~~~~~H~trEvLiifgS~st~DPgdi~~tid~Lv~~~IrV~~igL~aevaicKeickaTn~~~e~~y~v~vde~Hl~el 262 (421)
T COG5151 183 LMKNTMHGTREVLIIFGSTSTRDPGDIAETIDKLVAYNIRVHFIGLCAEVAICKEICKATNSSTEGRYYVPVDEGHLSEL 262 (421)
T ss_pred hcccccccceEEEEEEeecccCCCccHHHHHHHHHhhceEEEEEeehhHHHHHHHHHhhcCcCcCceeEeeecHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999 5999999999999999
Q ss_pred HHhcCCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhh
Q 020564 157 IMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARS 236 (324)
Q Consensus 157 L~~~~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLars 236 (324)
+.+...|++....+...+|+|||||++.-++.|++|+||.+++.+ ||.||+|++++|+||+.||+|.|+||+|+|||||
T Consensus 263 ~~E~~~P~~~n~~k~~~sLVkmGFPs~~~E~~Ps~CaCHs~~~~g-Gy~CP~CktkVCsLPi~CP~Csl~LilsthLarS 341 (421)
T COG5151 263 MRELSHPTDFNGTKTDLSLVKMGFPSPMMEQLPSVCACHSEVKGG-GYECPVCKTKVCSLPISCPICSLQLILSTHLARS 341 (421)
T ss_pred HHhcCCCCCCCccccCceEEEecCCchhhhcCccceeeeeeeccC-ceeCCcccceeecCCccCcchhHHHHHHHHHHHH
Confidence 999999999886667789999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred hcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC------CCCceeeCCCCCcccccccchhhhhcCCCCCCC
Q 020564 237 YHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN------KPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 310 (324)
Q Consensus 237 yhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~------~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC 310 (324)
|||||||++|.|++ |.+...+++||.||.+||.+.. ..+++|+|+.|++.||.|||+||||+||+||||
T Consensus 342 yhhL~PLk~f~E~p-----~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gC 416 (421)
T COG5151 342 YHHLYPLKPFVEKP-----EGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGC 416 (421)
T ss_pred HHhhccCccccccc-----CCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCC
Confidence 99999999999996 4455578899999999998752 356799999999999999999999999999999
Q ss_pred CCCC
Q 020564 311 ESLR 314 (324)
Q Consensus 311 ~~~~ 314 (324)
+..+
T Consensus 417 e~~~ 420 (421)
T COG5151 417 ELPH 420 (421)
T ss_pred cCCC
Confidence 8754
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=1.4e-59 Score=420.65 Aligned_cols=181 Identities=53% Similarity=0.971 Sum_probs=175.9
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNALDLVQ 78 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~--~~~G~~sL~naL~~A~ 78 (324)
+||+||||.++++++++||++||+|||+||||||+|+||+|+++++|+||+++|+++|+++. ++.|++||||||++|+
T Consensus 11 ~D~~PtRl~~~~~~l~~Fv~eff~qNPiSqlgii~~~~~~a~~ls~lsgn~~~h~~~L~~~~~~~~~G~~SLqN~Le~A~ 90 (193)
T PF04056_consen 11 KDLKPTRLQCVLKALEEFVREFFDQNPISQLGIIVMRDGRAERLSELSGNPQEHIEALKKLRKLEPSGEPSLQNGLEMAR 90 (193)
T ss_pred CcCCccHHHHHHHHHHHHHHHHHhcCChhheeeeeeecceeEEeeecCCCHHHHHHHHHHhccCCCCCChhHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999998765 6899999999999999
Q ss_pred HHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHH
Q 020564 79 GLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIM 158 (324)
Q Consensus 79 ~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~ 158 (324)
..|+++|+|++||||||+||++|+||+||++|++.+++++|||+||||++|++|||+||++|||+|+|++|++||+++|+
T Consensus 91 ~~L~~~p~~~srEIlvi~gSl~t~Dp~di~~ti~~l~~~~IrvsvI~laaEv~I~k~i~~~T~G~y~V~lde~H~~~lL~ 170 (193)
T PF04056_consen 91 SSLKHMPSHGSREILVIFGSLTTCDPGDIHETIESLKKENIRVSVISLAAEVYICKKICKETGGTYGVILDEDHFKELLM 170 (193)
T ss_pred HHHhhCccccceEEEEEEeecccCCchhHHHHHHHHHHcCCEEEEEEEhHHHHHHHHHHHhhCCEEEEecCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCccchhhhhhceeeecCC
Q 020564 159 EHAPPPPAIAEFAIANLIKMGFP 181 (324)
Q Consensus 159 ~~~~pp~~~~~~~~~~Li~mGfP 181 (324)
++++||++.+...+++|||||||
T Consensus 171 ~~~~PP~~~~~~~~~~Li~mGFP 193 (193)
T PF04056_consen 171 EHVPPPPTSSSKSEASLIKMGFP 193 (193)
T ss_pred hhCCCCcccccCCCCCEEEecCC
Confidence 99999999855458999999999
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=2.6e-50 Score=329.03 Aligned_cols=105 Identities=50% Similarity=1.141 Sum_probs=95.2
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCC-----
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGN----- 277 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~----- 277 (324)
||+||||+||||+||++|++|||||||||||||||||||||++|+||+| .+...++.||||+++|++++.
T Consensus 1 GY~CPrC~skvC~LP~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~-----~~~~~~~~C~~C~~~f~~~~~~~~~~ 75 (112)
T TIGR00622 1 GYFCPQCRAKVCELPVECPICGLTLILSTHLARSYHHLFPLKAFQEIPL-----EEYNGSRFCFGCQGPFPKPPVSPFDE 75 (112)
T ss_pred CccCCCCCCCccCCCCcCCcCCCEEeccchHHHhhhccCCCcccccccc-----cccCCCCcccCcCCCCCCcccccccc
Confidence 7999999999999999999999999999999999999999999999975 334456789999999986531
Q ss_pred -CCCceeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 278 -KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 278 -~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
.++++|+|++|+++||+|||+||||+|||||||++
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=9.1e-42 Score=321.32 Aligned_cols=215 Identities=16% Similarity=0.304 Sum_probs=182.5
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCH------------------------HHHHHHHhh
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP------------------------ESHIKALMG 60 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~------------------------~~~~~~L~~ 60 (324)
+.-|.-+++.+..|+|.|+.+|..|||+||+.+.+.+..|+|-+.+. +.+++.|.+
T Consensus 25 ~~~l~~~l~sllvF~NahL~l~~~N~vaVIAs~~~~~~~LYps~~~~~~~~~~~~~~~~~~~~y~~f~~v~~~v~~~l~~ 104 (279)
T TIGR00627 25 KRTISKVLRAIVVFLNAHLAFNANNKLAVIASHSQDNKYLYPSTRCEDRNASELDPKRLRELLYRDFRTVDETIVEEIKP 104 (279)
T ss_pred CCcHHHHHHHHHHHHHHHHhcCccCCEEEEEecCCcceEEecCCccccccccccccccccchhccchhHHHHHHHHHHHH
Confidence 34577889999999999999999999999999999999999974110 013444443
Q ss_pred hc---C----CCCcchHHHHHHHHHHHhhCCC------CCCCceEEEEEeCCCCC-CcccHHHHHHHHHhcCcEEEEEEc
Q 020564 61 KL---G----CSGDSSLQNALDLVQGLLSQIP------SYGHREVLILYSALSTC-DPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 61 ~~---~----~~G~~sL~naL~~A~~~L~~~p------~~~~reILil~gS~~t~-d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+. . ..+++.|.+||.||+++++++. .+.++|||||.+|++.. +...+|++|+.|||.+|+||||+|
T Consensus 105 l~~~~~~~~~~~~~s~lagals~ALcyinr~~~~~~~~~~~~~RIlii~~s~~~~~qYi~~mn~Ifaaqk~~I~Idv~~L 184 (279)
T TIGR00627 105 LMAHADKHMKKDSRTVLAGALSDALGYINRSEQSETASEKLKSRILVISITPDMALQYIPLMNCIFSAQKQNIPIDVVSI 184 (279)
T ss_pred HHhhchhcccccccccchhHHHhhhhhhcccccccccCcCCcceEEEEECCCCchHHHHHHHHHHHHHHHcCceEEEEEe
Confidence 22 1 1256789999999999998752 24467999999877654 566889999999999999999999
Q ss_pred cch--HHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCee
Q 020564 127 SAE--MFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGY 204 (324)
Q Consensus 127 gae--~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~Gy 204 (324)
++| +.+|||+|++|||.|.++.|++||+++|+.++.||+.. +..|++ |++..+|++++||||++++++ ||
T Consensus 185 ~~e~~~~~lqQa~~~TgG~Y~~~~~~~~L~q~L~~~~~pp~~~----r~~Li~---P~~~~vd~ra~CfCh~k~v~~-Gy 256 (279)
T TIGR00627 185 GGDFTSGFLQQAADITGGSYLHVKKPQGLLQYLMTNMLPDPTL----RAVLSK---PNHNSVDYRASCFCHHQLVSI-GF 256 (279)
T ss_pred CCccccHHHHHHHHHhCCEEeccCCHhHHHHHHHHhcCCChhh----hHhhcC---CCCCCCCCcceeeecCccccc-eE
Confidence 988 99999999999999999999999999999999887754 345765 999999999999999999999 99
Q ss_pred EcCCCCcccccCCCCCCCCCcee
Q 020564 205 TCPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 205 ~Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
+||+|+|+||++|++|++||+.|
T Consensus 257 vCs~Clsi~C~~p~~C~~Cgt~f 279 (279)
T TIGR00627 257 VCSVCLSVLCQYTPICKTCKTAF 279 (279)
T ss_pred ECCCccCCcCCCCCCCCCCCCCC
Confidence 99999999999999999999864
No 6
>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-35 Score=278.05 Aligned_cols=211 Identities=19% Similarity=0.353 Sum_probs=171.3
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC-----C------------H--------HHHHHHHhh
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-----S------------P--------ESHIKALMG 60 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~-----n------------~--------~~~~~~L~~ 60 (324)
.-|.-+++++..|+|.|+.+|..|||+||+...+.++.|+|... + . +.+.+.|++
T Consensus 22 ~~l~~~l~~llvFlNahL~l~~~N~vaVIAs~~~~s~~LYP~~~~~~~~~~~~~~~~~~~~~~y~~f~~v~~~v~~~l~~ 101 (276)
T PF03850_consen 22 LSLSQFLDSLLVFLNAHLALNHSNQVAVIASHSNSSKFLYPSPSSSESSNSGDVEMNSSDSNKYRQFRNVDETVLEELKK 101 (276)
T ss_pred ccHHHHHHHHHHHHHHHHhhCccCCEEEEEEcCCccEEEeCCCccccccCCCcccccccccchhHHHHHHHHHHHHHHHH
Confidence 45778899999999999999999999999999999999999877 0 0 112333333
Q ss_pred hcC-------CCCcchHHHHHHHHHHHhhCC----C---CCCCceEEE-EEeCCCCC-CcccHHHHHHHHHhcCcEEEEE
Q 020564 61 KLG-------CSGDSSLQNALDLVQGLLSQI----P---SYGHREVLI-LYSALSTC-DPGDIMETIQKCKESKIRCSVI 124 (324)
Q Consensus 61 ~~~-------~~G~~sL~naL~~A~~~L~~~----p---~~~~reILi-l~gS~~t~-d~g~i~~ti~~akk~~IrV~vI 124 (324)
..+ ....+.|.+||.||+++++++ + ..-++|||| +.+|++.. ++-.+||+|+.|||.+|.|||+
T Consensus 102 l~~~~~~~~~~~~~s~LagALS~ALCyINR~~~~~~~~~~~~~~RILv~~s~s~d~~~QYi~~MN~iFaAqk~~v~IDv~ 181 (276)
T PF03850_consen 102 LMSETSESSDSTTSSLLAGALSMALCYINRISRESPSGGTSLKSRILVIVSGSPDSSSQYIPLMNCIFAAQKQKVPIDVC 181 (276)
T ss_pred HHhhcccccccccchhhHHHHHHHHHHHhhhhhcccCCCCCcCccEEEEEecCCCccHHHHHHHHHHHHHhcCCceeEEE
Confidence 221 112379999999999999987 2 234568999 66666654 5668999999999999999999
Q ss_pred Eccc-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCe
Q 020564 125 GLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVG 203 (324)
Q Consensus 125 ~Lga-e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~G 203 (324)
.|+. +..+|||+|++|||.|..+.+.+.|.++|+.+..|++.. +..|+ .|.+..+|+||.||||++.++. |
T Consensus 182 ~L~~~~s~fLqQa~d~T~G~y~~~~~~~~l~q~L~~~fl~~~~~----R~~l~---~p~~~~vd~ra~Cfch~k~vd~-g 253 (276)
T PF03850_consen 182 KLGGKDSTFLQQASDITGGIYLKVSKPEGLLQYLLTAFLPDPSS----RSFLI---LPTQSSVDFRASCFCHRKVVDI-G 253 (276)
T ss_pred EecCCchHHHHHHHHHhCceeeccCccccHHHHHHHhhcCCHHH----Hhhcc---CCCCCCCCcceeeeecCCcccc-e
Confidence 9999 899999999999999988888777766665555454432 24443 6999999999999999999999 9
Q ss_pred eEcCCCCcccccCCC--CCCCCC
Q 020564 204 YTCPRCKARVCELPT--DCRICG 224 (324)
Q Consensus 204 y~Cp~C~s~~C~lP~--~C~~C~ 224 (324)
|+||+|+|+||++|. +|++||
T Consensus 254 ~vCsvCLsIfc~~p~~~~C~tC~ 276 (276)
T PF03850_consen 254 YVCSVCLSIFCEFPDGGICPTCG 276 (276)
T ss_pred eEchhhhhhhhCCCCCCCCCCCC
Confidence 999999999999984 999997
No 7
>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=8.8e-34 Score=252.62 Aligned_cols=165 Identities=58% Similarity=0.993 Sum_probs=153.7
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
.||.||||++++..+++|++.+|++||.+|+|||+|+++.+++++|+|.|++.++..|+....+.|+++|.+||++|...
T Consensus 19 ~D~~ptRl~~ak~~~~~fi~~~~~~~~~~~vglv~f~~~~a~~~~PlT~D~~~~~~~L~~~~~~~G~t~l~~aL~~A~~~ 98 (183)
T cd01453 19 QDLKPSRLAVVLKLLELFIEEFFDQNPISQLGIISIKNGRAEKLTDLTGNPRKHIQALKTARECSGEPSLQNGLEMALES 98 (183)
T ss_pred CCCCchHHHHHHHHHHHHHHHHhhcCccccEEEEEEcCCccEEEECCCCCHHHHHHHhhcccCCCCchhHHHHHHHHHHH
Confidence 59999999999999999999999999999999999988999999999999999999998754467889999999999999
Q ss_pred hhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 81 LSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 81 L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
|++.+.+..++||||+++..+.|++++.++++.+++++|+|++|++|.++.+||+||+.|||+|+.+.|+++|+++|..+
T Consensus 99 l~~~~~~~~~~iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~~L~~ia~~tgG~~~~~~~~~~l~~~~~~~ 178 (183)
T cd01453 99 LKHMPSHGSREVLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSAEMHICKEICKATNGTYKVILDETHLKELLLEH 178 (183)
T ss_pred HhcCCccCceEEEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEechHHHHHHHHHHHhCCeeEeeCCHHHHHHHHHhc
Confidence 99876666788999998777778888888999999999999999999999999999999999999999999999999999
Q ss_pred CCCCc
Q 020564 161 APPPP 165 (324)
Q Consensus 161 ~~pp~ 165 (324)
.+||+
T Consensus 179 ~~p~~ 183 (183)
T cd01453 179 VTPPP 183 (183)
T ss_pred CCCCC
Confidence 99985
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=1.8e-33 Score=258.48 Aligned_cols=212 Identities=17% Similarity=0.299 Sum_probs=172.2
Q ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecC--------------CC----CH-------HHHHHHHhhhc
Q 020564 8 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--------------GG----SP-------ESHIKALMGKL 62 (324)
Q Consensus 8 l~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~l--------------t~----n~-------~~~~~~L~~~~ 62 (324)
+.-+++++..|.|+++.+|..||++||+......+.++|- ++ +. +.+++.|.++.
T Consensus 49 i~kvl~aivVFlNAHL~~~~~NrvaViA~~~q~~~~lyp~st~~e~~n~~~~~~t~~~~~~y~~~~~~d~tiv~ei~~lm 128 (314)
T KOG2487|consen 49 ISKVLNAIVVFLNAHLAFSRNNRVAVIASHSQVDNYLYPSSTRCEDRNASELDPTRLVLFDYSEFRTVDDTIVEEIYRLM 128 (314)
T ss_pred HHHHHHHHHHHHHHHHhhccCCcEEEEEecccccceeccccccCCccCccccCchhhhcchhhhhcccchHHHHHHHHHH
Confidence 4467889999999999999999999999977777888882 21 11 12344454432
Q ss_pred C-----CC-CcchHHHHHHHHHHHhhCCCCCC-----CceEEEEEeCCCCC-CcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 63 G-----CS-GDSSLQNALDLVQGLLSQIPSYG-----HREVLILYSALSTC-DPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 63 ~-----~~-G~~sL~naL~~A~~~L~~~p~~~-----~reILil~gS~~t~-d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+ .. ..+-|.+||+.|+.+..++.... +.|||||.-+.+.. ..+++||.|+.|+|.||+|||++|+++.
T Consensus 129 ~~~~~~~~~~rt~lagals~~L~yi~~~~ke~~~~~lkSRilV~t~t~d~~~qyi~~MNciFaAqKq~I~Idv~~l~~~s 208 (314)
T KOG2487|consen 129 EHPDKYDVGDRTVLAGALSDALGYINRLHKEEASEKLKSRILVFTLTRDRALQYIPYMNCIFAAQKQNIPIDVVSLGGDS 208 (314)
T ss_pred hCccccccccceeeccchhhccchHhhhhhhhhhhhhhceEEEEEechHHHhhhhhHHHHHHHHHhcCceeEEEEecCCc
Confidence 1 22 36899999999999998874433 67899998655544 6779999999999999999999999999
Q ss_pred HHHHHHHHhhCCeeEEeCCHHH-HHHHHHhcCCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCeeEcCCC
Q 020564 131 FICKHLCQDTGGSYSVALDESH-FKELIMEHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRC 209 (324)
Q Consensus 131 ~iLk~ia~~TgG~Y~va~d~~h-l~~lL~~~~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C 209 (324)
.+|||.|++|||.|..+.+.+. |+.|++.+++-|..+ +.|++ |.+..+|||+.|+||++++.. ||+||+|
T Consensus 209 ~~LqQa~D~TGG~YL~v~~~~gLLqyLlt~~~~D~~~R-----~~l~k---pnh~~VDfRAtC~CH~~lv~i-G~VCSVC 279 (314)
T KOG2487|consen 209 GFLQQACDITGGDYLHVEKPDGLLQYLLTLLLTDPELR-----AVLSK---PNHNSVDFRATCYCHNRLVLI-GFVCSVC 279 (314)
T ss_pred hHHHHHHhhcCCeeEecCCcchHHHHHHHHhcCCcchh-----hhccC---CCCCCcCcceeeeeecceeee-eeehHHH
Confidence 9999999999999976666555 455566666555544 66765 999999999999999999999 9999999
Q ss_pred CcccccCCCCCCCCCceec
Q 020564 210 KARVCELPTDCRICGLQLV 228 (324)
Q Consensus 210 ~s~~C~lP~~C~~C~l~Lv 228 (324)
+|++|.++++|++|...+-
T Consensus 280 LSVfC~~~PiC~~C~s~F~ 298 (314)
T KOG2487|consen 280 LSVFCRFVPICKTCKSKFS 298 (314)
T ss_pred HHHhhCCCCccchhhhhcc
Confidence 9999999999999999874
No 9
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=99.97 E-value=4.8e-31 Score=236.05 Aligned_cols=149 Identities=15% Similarity=0.245 Sum_probs=136.7
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+||+||||++++++++.|+++||++||++|||||+|+++.+++++|+|+|+.+++..|+++ ++.|+++|++||++|..+
T Consensus 19 ~D~~PnRL~aak~~i~~~~~~f~~~np~~~vGlv~fag~~a~v~~plT~D~~~~~~~L~~i-~~~g~~~l~~AL~~A~~~ 97 (187)
T cd01452 19 GDYPPTRFQAQADAVNLICQAKTRSNPENNVGLMTMAGNSPEVLVTLTNDQGKILSKLHDV-QPKGKANFITGIQIAQLA 97 (187)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHhcCCCccEEEEEecCCceEEEECCCCCHHHHHHHHHhC-CCCCcchHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999889999999999999999999876 678999999999999999
Q ss_pred hhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCC---eeEEeCCH
Q 020564 81 LSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGG---SYSVALDE 150 (324)
Q Consensus 81 L~~~p~~~~r-eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG---~Y~va~d~ 150 (324)
|++++++++| |||||+||+.++|++++.++++.+||+||+|++|+||.+ ...|+.+.+..++ ..++...+
T Consensus 98 L~~~~~~~~~~rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~~~~~~~~l~~~~~~~~~~~~s~~~~~~~ 174 (187)
T cd01452 98 LKHRQNKNQKQRIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGEIDDNTEKLTAFIDAVNGKDGSHLVSVPP 174 (187)
T ss_pred HhcCCCcCCcceEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCCCCCCHHHHHHHHHHhcCCCCceEEEeCC
Confidence 9999999886 999999999999999999999999999999999999975 4788888888864 55444433
No 10
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=99.95 E-value=5.9e-27 Score=210.91 Aligned_cols=212 Identities=16% Similarity=0.207 Sum_probs=168.6
Q ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHH----------------------HHHHHhhhcC-C
Q 020564 8 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPES----------------------HIKALMGKLG-C 64 (324)
Q Consensus 8 l~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~----------------------~~~~L~~~~~-~ 64 (324)
...++..+..|.|+++.-|..|+++||+-....-++++|.+....+ .++.+.++.+ +
T Consensus 43 ~~kvl~di~VFLNAhlaf~~~NrVaVva~~s~~~~yLypss~s~~k~se~e~tr~sd~yrrfr~vde~~i~eiyrl~e~~ 122 (296)
T COG5242 43 RDKVLNDIVVFLNAHLAFSRNNRVAVVAGYSQGKTYLYPSSESALKASESENTRNSDMYRRFRNVDETDITEIYRLIEHP 122 (296)
T ss_pred HHHHHHHHHHHHHHHHhhccCCeEEEEEeccCceEEeccCcchhhhhhcccCccchhhhhhhcccchHHHHHHHHHHhCc
Confidence 3467788999999999999999999999866667888887554211 3444444332 2
Q ss_pred ---CCcchHHHHHHHHHHHhhCCCCCC--CceEEEEEeCC-CCC-CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHH
Q 020564 65 ---SGDSSLQNALDLVQGLLSQIPSYG--HREVLILYSAL-STC-DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLC 137 (324)
Q Consensus 65 ---~G~~sL~naL~~A~~~L~~~p~~~--~reILil~gS~-~t~-d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia 137 (324)
+-.+.+++|+..++.+..++.... ++|||||.-|. +.. +.-.+|+.|+.|+|.||+|+|+++++...+|+|.|
T Consensus 123 ~k~sqr~~v~gams~glay~n~~~~e~slkSriliftlsG~d~~~qYip~mnCiF~Aqk~~ipI~v~~i~g~s~fl~Q~~ 202 (296)
T COG5242 123 HKNSQRYDVGGAMSLGLAYCNHRDEETSLKSRILIFTLSGRDRKDQYIPYMNCIFAAQKFGIPISVFSIFGNSKFLLQCC 202 (296)
T ss_pred ccccceeehhhhhhhhHHHHhhhcccccccceEEEEEecCchhhhhhchhhhheeehhhcCCceEEEEecCccHHHHHHh
Confidence 234689999999999999986543 46899987544 222 34478999999999999999999999999999999
Q ss_pred HhhCCeeEEeCCHHHHHHHHH-hcCCCCccchhhhhhceeeecCCCCCCCCCccceeecCCccccCeeEcCCCCcccccC
Q 020564 138 QDTGGSYSVALDESHFKELIM-EHAPPPPAIAEFAIANLIKMGFPQRAGEGSISICSCHKEVKVGVGYTCPRCKARVCEL 216 (324)
Q Consensus 138 ~~TgG~Y~va~d~~hl~~lL~-~~~~pp~~~~~~~~~~Li~mGfP~~~~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~l 216 (324)
+.|||.|....|.+.|.+.|+ ...+-|..+ +-+++ |.+..+|||+.|+||++.+.. ||+||+|+|++|+.
T Consensus 203 daTgG~Yl~ve~~eGllqyL~~~lf~d~~lr-----p~~~~---pn~~svdFratCych~rvv~~-GfvCsVCLsvfc~p 273 (296)
T COG5242 203 DATGGDYLTVEDTEGLLQYLLSLLFTDGELR-----PLGVK---PNHGSVDFRATCYCHNRVVLL-GFVCSVCLSVFCRP 273 (296)
T ss_pred hccCCeeEeecCchhHHHHHHHHhcCCCCcc-----ccccC---CCcccccccceeEEeccEEEE-eeehhhhheeecCC
Confidence 999999988888766665554 444443333 44443 999999999999999999999 99999999999999
Q ss_pred CCCCCCCCceec
Q 020564 217 PTDCRICGLQLV 228 (324)
Q Consensus 217 P~~C~~C~l~Lv 228 (324)
-+.|+.|...+-
T Consensus 274 ~~~C~~C~skF~ 285 (296)
T COG5242 274 VPVCKKCKSKFS 285 (296)
T ss_pred cCcCcccccccc
Confidence 999999998873
No 11
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=99.86 E-value=5e-23 Score=146.34 Aligned_cols=49 Identities=55% Similarity=1.338 Sum_probs=33.3
Q ss_pred ccccccccccCCCC--CCCceeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 264 TCFGCQQSLLSSGN--KPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 264 ~C~~C~~~~~~~~~--~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
+||||+++|++.+. ..+.+|+||+|+++||+|||+||||+|||||||++
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 23579999999999999999999999999999975
No 12
>KOG2884 consensus 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.84 E-value=7.4e-20 Score=164.46 Aligned_cols=142 Identities=13% Similarity=0.265 Sum_probs=132.0
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+||.||||++++++++-.+..++..||+|.+|||++.+...++|+.+|.+..+++..|+.+ .+.|+..|..||..|...
T Consensus 19 gDy~PtRf~aQ~daVn~v~~~K~~snpEntvGiitla~a~~~vLsT~T~d~gkils~lh~i-~~~g~~~~~~~i~iA~la 97 (259)
T KOG2884|consen 19 GDYLPTRFQAQKDAVNLVCQAKLRSNPENTVGIITLANASVQVLSTLTSDRGKILSKLHGI-QPHGKANFMTGIQIAQLA 97 (259)
T ss_pred CCCChHHHHHHHHHHHHHHHhhhcCCcccceeeEeccCCCceeeeeccccchHHHHHhcCC-CcCCcccHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999889999999999999999999986 789999999999999999
Q ss_pred hhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCe
Q 020564 81 LSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGS 143 (324)
Q Consensus 81 L~~~p~~~~r-eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~ 143 (324)
|||++++++| ||++|+||+...+..++.+.++.+||++|.||+|.+|.. ...|.+.-+.+||.
T Consensus 98 lkhRqnk~~~~riVvFvGSpi~e~ekeLv~~akrlkk~~Vaidii~FGE~~~~~e~l~~fida~N~~ 164 (259)
T KOG2884|consen 98 LKHRQNKNQKQRIVVFVGSPIEESEKELVKLAKRLKKNKVAIDIINFGEAENNTEKLFEFIDALNGK 164 (259)
T ss_pred HHhhcCCCcceEEEEEecCcchhhHHHHHHHHHHHHhcCeeEEEEEeccccccHHHHHHHHHHhcCC
Confidence 9999888765 799999999988888999999999999999999999954 36788888888884
No 13
>PRK13685 hypothetical protein; Provisional
Probab=99.77 E-value=2.2e-17 Score=159.39 Aligned_cols=156 Identities=17% Similarity=0.250 Sum_probs=126.6
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
.|..|+||+.+++++.+|++.. +|.+++|+|+|. +.++.+.|+|.|.+.+...|+++ .+.|.|+++.||..|+..
T Consensus 104 ~D~~p~RL~~ak~~~~~~l~~l---~~~d~vglv~Fa-~~a~~~~p~t~d~~~l~~~l~~l-~~~~~T~~g~al~~A~~~ 178 (326)
T PRK13685 104 TDVEPNRLAAAQEAAKQFADEL---TPGINLGLIAFA-GTATVLVSPTTNREATKNAIDKL-QLADRTATGEAIFTALQA 178 (326)
T ss_pred CCCCCCHHHHHHHHHHHHHHhC---CCCCeEEEEEEc-CceeecCCCCCCHHHHHHHHHhC-CCCCCcchHHHHHHHHHH
Confidence 3788999999999999999873 689999999995 77999999999999999999876 567889999999999999
Q ss_pred hhCC----C--CCCCceEEEEEeCCC-CC--C---cccHHHHHHHHHhcCcEEEEEEccc----------------hHHH
Q 020564 81 LSQI----P--SYGHREVLILYSALS-TC--D---PGDIMETIQKCKESKIRCSVIGLSA----------------EMFI 132 (324)
Q Consensus 81 L~~~----p--~~~~reILil~gS~~-t~--d---~g~i~~ti~~akk~~IrV~vI~Lga----------------e~~i 132 (324)
+... . ....++.||+++... +. + +....++++.+++.+|+|++||+|. +...
T Consensus 179 l~~~~~~~~~~~~~~~~~IILlTDG~~~~~~~~~~~~~~~~aa~~a~~~gi~i~~Ig~G~~~g~~~~~g~~~~~~~d~~~ 258 (326)
T PRK13685 179 IATVGAVIGGGDTPPPARIVLMSDGKETVPTNPDNPRGAYTAARTAKDQGVPISTISFGTPYGSVEINGQRQPVPVDDES 258 (326)
T ss_pred HHhhhcccccccCCCCCEEEEEcCCCCCCCCCCCCcccHHHHHHHHHHcCCeEEEEEECCCCCCcCcCCceeeecCCHHH
Confidence 8742 1 111234455554332 21 1 1234578889999999999999996 3478
Q ss_pred HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
||+||+.|||+|+.+.|.+.|++++.++.
T Consensus 259 L~~iA~~tgG~~~~~~~~~~L~~if~~I~ 287 (326)
T PRK13685 259 LKKIAQLSGGEFYTAASLEELRAVYATLQ 287 (326)
T ss_pred HHHHHHhcCCEEEEcCCHHHHHHHHHHHH
Confidence 99999999999999999999999998885
No 14
>COG5148 RPN10 26S proteasome regulatory complex, subunit RPN10/PSMD4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.75 E-value=3.4e-17 Score=144.61 Aligned_cols=141 Identities=17% Similarity=0.259 Sum_probs=130.4
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 1 MDFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 1 ~D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+||.|+|+++++++++-.++.+|+.||.|.+|+|...+.....++.+|.+..+++..|+.+ ...|+..+..+|+.|...
T Consensus 19 gDy~ptRFeAQkd~ve~if~~K~ndnpEntiGli~~~~a~p~vlsT~T~~~gkilt~lhd~-~~~g~a~~~~~lqiaql~ 97 (243)
T COG5148 19 GDYLPTRFEAQKDAVESIFSKKFNDNPENTIGLIPLVQAQPNVLSTPTKQRGKILTFLHDI-RLHGGADIMRCLQIAQLI 97 (243)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHhcCCccceeeeeecccCCcchhccchhhhhHHHHHhccc-cccCcchHHHHHHHHHHH
Confidence 6999999999999999999999999999999999999999999999999999999999986 668889999999999999
Q ss_pred hhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhhCC
Q 020564 81 LSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGG 142 (324)
Q Consensus 81 L~~~p~~~~r-eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~TgG 142 (324)
|+|+.+++.| +|++|+||+...+..++...++.+||+||.|++|.+|. ++..|.+.-+.||-
T Consensus 98 lkhR~nk~q~qriVaFvgSpi~esedeLirlak~lkknnVAidii~fGE~~n~~~l~efIda~N~ 162 (243)
T COG5148 98 LKHRDNKGQRQRIVAFVGSPIQESEDELIRLAKQLKKNNVAIDIIFFGEAANMAGLFEFIDATNF 162 (243)
T ss_pred HhcccCCccceEEEEEecCcccccHHHHHHHHHHHHhcCeeEEEEehhhhhhhhHHHHHHHhhcc
Confidence 9999887754 79999999998888888899999999999999999984 56788888888886
No 15
>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=99.70 E-value=4e-16 Score=139.95 Aligned_cols=148 Identities=15% Similarity=0.110 Sum_probs=114.2
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCH---------HHHHHHHhhhcC--CCCcchHHHH
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP---------ESHIKALMGKLG--CSGDSSLQNA 73 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~---------~~~~~~L~~~~~--~~G~~sL~na 73 (324)
.+||++++..++.|+ +|-++++.++||+ .|.+..+.|+|.++ +.+.+.|..... ...+|+ .|
T Consensus 24 ~~RL~a~k~v~~~f~-~f~~~r~~DriG~----~g~~~~~~~lt~d~p~t~d~~~~~~l~~~l~~~q~g~ag~~Ta--dA 96 (191)
T cd01455 24 DRSLEAVVMVMEAFD-GFEDKIQYDIIGH----SGDGPCVPFVKTNHPPKNNKERLETLKMMHAHSQFCWSGDHTV--EA 96 (191)
T ss_pred ccHHHHHHHHHHHHH-HHHHhCccceeee----cCcccccCccccccCcccchhHHHHHHHHHHhcccCccCccHH--HH
Confidence 599999999999995 4456799999994 46666677766555 444455544321 223466 99
Q ss_pred HHHHHHHhh-CCCCCCCceEEEEEeCCCCCCcc--cHHH-HHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEeC
Q 020564 74 LDLVQGLLS-QIPSYGHREVLILYSALSTCDPG--DIME-TIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVAL 148 (324)
Q Consensus 74 L~~A~~~L~-~~p~~~~reILil~gS~~t~d~g--~i~~-ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va~ 148 (324)
|.+|+..|+ +.+ ...+|||+++.... +.+ +..+ +++.|++.||+||+|++|. +...|+.+++.|||+||++.
T Consensus 97 i~~av~rl~~~~~--a~~kvvILLTDG~n-~~~~i~P~~aAa~lA~~~gV~iytIgiG~~d~~~l~~iA~~tgG~~F~A~ 173 (191)
T cd01455 97 TEFAIKELAAKED--FDEAIVIVLSDANL-ERYGIQPKKLADALAREPNVNAFVIFIGSLSDEADQLQRELPAGKAFVCM 173 (191)
T ss_pred HHHHHHHHHhcCc--CCCcEEEEEeCCCc-CCCCCChHHHHHHHHHhCCCEEEEEEecCCCHHHHHHHHhCCCCcEEEeC
Confidence 999999998 764 45678888874432 233 3445 4799999999999999997 67889999999999999999
Q ss_pred CHHHHHHHHHhcCC
Q 020564 149 DESHFKELIMEHAP 162 (324)
Q Consensus 149 d~~hl~~lL~~~~~ 162 (324)
|.+.|.++|.++++
T Consensus 174 d~~~L~~iy~~I~~ 187 (191)
T cd01455 174 DTSELPHIMQQIFT 187 (191)
T ss_pred CHHHHHHHHHHHHH
Confidence 99999999999874
No 16
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=99.62 E-value=1.4e-14 Score=123.37 Aligned_cols=150 Identities=19% Similarity=0.286 Sum_probs=120.0
Q ss_pred CCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHHHHHH
Q 020564 2 DFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNALDLVQ 78 (324)
Q Consensus 2 D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~---~~~G~~sL~naL~~A~ 78 (324)
|..++|++.++.++..+++++ |.+++||+.|. +.+.+..|+|.|...+.+.|.++. .+.|.+.+..||..|.
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~----~~~~v~l~~f~-~~~~~~~~~t~~~~~~~~~l~~~~~~~~~~~~t~~~~al~~a~ 90 (172)
T PF13519_consen 16 DGNRTRIDQAKDALNELLANL----PGDRVGLVSFS-DSSRTLSPLTSDKDELKNALNKLSPQGMPGGGTNLYDALQEAA 90 (172)
T ss_dssp TSSS-HHHHHHHHHHHHHHHH----TTSEEEEEEES-TSCEEEEEEESSHHHHHHHHHTHHHHG--SSS--HHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHHHC----CCCEEEEEEec-ccccccccccccHHHHHHHhhcccccccCccCCcHHHHHHHHH
Confidence 345889999999999999983 78899999996 457889999999999999998753 3578899999999999
Q ss_pred HHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH---HHHHHHHHhhCCeeEEe-CCHHHHH
Q 020564 79 GLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---FICKHLCQDTGGSYSVA-LDESHFK 154 (324)
Q Consensus 79 ~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~---~iLk~ia~~TgG~Y~va-~d~~hl~ 154 (324)
..+...+ ..+++||+++... +..+..++++.+++.+|+|++|+++.+. ..|+++|+.|||.|+.+ .+.+.|.
T Consensus 91 ~~~~~~~--~~~~~iv~iTDG~--~~~~~~~~~~~~~~~~i~i~~v~~~~~~~~~~~l~~la~~tgG~~~~~~~~~~~l~ 166 (172)
T PF13519_consen 91 KMLASSD--NRRRAIVLITDGE--DNSSDIEAAKALKQQGITIYTVGIGSDSDANEFLQRLAEATGGRYFHVDNDPEDLD 166 (172)
T ss_dssp HHHHC-S--SEEEEEEEEES-T--THCHHHHHHHHHHCTTEEEEEEEES-TT-EHHHHHHHHHHTEEEEEEE-SSSHHHH
T ss_pred HHHHhCC--CCceEEEEecCCC--CCcchhHHHHHHHHcCCeEEEEEECCCccHHHHHHHHHHhcCCEEEEecCCHHHHH
Confidence 9999874 4566777776432 2245557899999999999999999764 58999999999999998 6899999
Q ss_pred HHHHhc
Q 020564 155 ELIMEH 160 (324)
Q Consensus 155 ~lL~~~ 160 (324)
++|.+|
T Consensus 167 ~~~~~I 172 (172)
T PF13519_consen 167 DAFQQI 172 (172)
T ss_dssp HHHHH-
T ss_pred HHHhcC
Confidence 999875
No 17
>cd01467 vWA_BatA_type VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=99.61 E-value=3.8e-14 Score=123.83 Aligned_cols=142 Identities=21% Similarity=0.237 Sum_probs=111.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHHHHHHHHh
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNALDLVQGLL 81 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~--~~~G~~sL~naL~~A~~~L 81 (324)
.++|++.++..+..|+.. .|.+++|||+|. +..+.+.|++.+...+.+.|+.+. ...|.+++..||..|+..|
T Consensus 22 ~~~r~~~a~~~~~~~~~~----~~~~~v~lv~f~-~~~~~~~~~~~~~~~~~~~l~~l~~~~~~g~T~l~~al~~a~~~l 96 (180)
T cd01467 22 KPSRLEAAKEVLSDFIDR----RENDRIGLVVFA-GAAFTQAPLTLDRESLKELLEDIKIGLAGQGTAIGDAIGLAIKRL 96 (180)
T ss_pred CCCHHHHHHHHHHHHHHh----CCCCeEEEEEEc-CCeeeccCCCccHHHHHHHHHHhhhcccCCCCcHHHHHHHHHHHH
Confidence 478999998888777754 789999999995 667888999999887777676543 3568899999999999999
Q ss_pred hCCCCCCCceEEEEEeCCCCC-CcccHHHHHHHHHhcCcEEEEEEccc-------------hHHHHHHHHHhhCCeeEEe
Q 020564 82 SQIPSYGHREVLILYSALSTC-DPGDIMETIQKCKESKIRCSVIGLSA-------------EMFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 82 ~~~p~~~~reILil~gS~~t~-d~g~i~~ti~~akk~~IrV~vI~Lga-------------e~~iLk~ia~~TgG~Y~va 147 (324)
...+ ..+++|||++..... ++.+..++++.+++.+|+|++|++|. +...|+++|+.|||.|+.+
T Consensus 97 ~~~~--~~~~~iiliTDG~~~~g~~~~~~~~~~~~~~gi~i~~i~ig~~~~~~~~~~~~~~~~~~l~~la~~tgG~~~~~ 174 (180)
T cd01467 97 KNSE--AKERVIVLLTDGENNAGEIDPATAAELAKNKGVRIYTIGVGKSGSGPKPDGSTILDEDSLVEIADKTGGRIFRA 174 (180)
T ss_pred HhcC--CCCCEEEEEeCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecCCCCCcCCCCcccCCHHHHHHHHHhcCCEEEEe
Confidence 7663 345677777644332 22244567788889999999999997 4579999999999999998
Q ss_pred CCHHH
Q 020564 148 LDESH 152 (324)
Q Consensus 148 ~d~~h 152 (324)
.|.+.
T Consensus 175 ~~~~~ 179 (180)
T cd01467 175 LDGFE 179 (180)
T ss_pred cCccc
Confidence 88653
No 18
>TIGR03436 acidobact_VWFA VWFA-related Acidobacterial domain. Members of this family are bacterial domains that include a region related to the von Willebrand factor type A (VWFA) domain (pfam00092). These domains are restricted to, and have undergone a large paralogous family expansion in, the Acidobacteria, including Solibacter usitatus and Acidobacterium capsulatum ATCC 51196.
Probab=99.56 E-value=9.5e-14 Score=131.62 Aligned_cols=153 Identities=16% Similarity=0.176 Sum_probs=118.8
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcC--------------CCCcchHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG--------------CSGDSSLQ 71 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~--------------~~G~~sL~ 71 (324)
.++..+++++..|++..+ +|.+++|||.|. +.+..+.++|.|...+.++|.++.. ..|++.|.
T Consensus 68 ~~~~~a~~a~~~~l~~~l--~~~d~v~lv~f~-~~~~~~~~~t~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~g~T~l~ 144 (296)
T TIGR03436 68 NDLDRARAAAIRFLKTVL--RPNDRVFVVTFN-TRLRLLQDFTSDPRLLEAALNRLKPPLRTDYNSSGAFVRDGGGTALY 144 (296)
T ss_pred HHHHHHHHHHHHHHHhhC--CCCCEEEEEEeC-CceeEeecCCCCHHHHHHHHHhccCCCccccccccccccCCCcchhH
Confidence 467888999999998743 689999999995 7788999999999999999987632 16889999
Q ss_pred HHHHHHHH-HhhCCC-CCCCceEEEEEeCCCC-CCcccHHHHHHHHHhcCcEEEEEEccc---------------hHHHH
Q 020564 72 NALDLVQG-LLSQIP-SYGHREVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLSA---------------EMFIC 133 (324)
Q Consensus 72 naL~~A~~-~L~~~p-~~~~reILil~gS~~t-~d~g~i~~ti~~akk~~IrV~vI~Lga---------------e~~iL 133 (324)
+||.+|.. .+.... ....|++||+++.... .+..++.++++.+++.+|.|++|+++. ....|
T Consensus 145 ~al~~aa~~~~~~~~~~~p~rk~iIllTDG~~~~~~~~~~~~~~~~~~~~v~vy~I~~~~~~~~~~~~~~~~~~~~~~~L 224 (296)
T TIGR03436 145 DAITLAALEQLANALAGIPGRKALIVISDGGDNRSRDTLERAIDAAQRADVAIYSIDARGLRAPDLGAGAKAGLGGPEAL 224 (296)
T ss_pred HHHHHHHHHHHHHhhcCCCCCeEEEEEecCCCcchHHHHHHHHHHHHHcCCEEEEeccCccccCCcccccccCCCcHHHH
Confidence 99987754 333321 1113566777764332 233456789999999999999999973 35799
Q ss_pred HHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 134 KHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 134 k~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
++||+.|||.|+.+ +.+.|.+.+.++..
T Consensus 225 ~~iA~~TGG~~~~~-~~~~l~~~f~~i~~ 252 (296)
T TIGR03436 225 ERLAEETGGRAFYV-NSNDLDGAFAQIAE 252 (296)
T ss_pred HHHHHHhCCeEecc-cCccHHHHHHHHHH
Confidence 99999999999988 88888888877763
No 19
>cd01451 vWA_Magnesium_chelatase Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is a three sub-unit (BchI, BchD and BchH) enzyme with a novel arrangement of domains: the C-terminal helical domain is located behind the nucleotide binding site. The BchD domain contains a AAA domain at its N-terminus and a VWA domain at its C-terminus. The VWA domain has been speculated to be involved in mediating protein-protein interactions.
Probab=99.51 E-value=9.9e-13 Score=115.91 Aligned_cols=144 Identities=22% Similarity=0.270 Sum_probs=112.1
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHh-hCC
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLL-SQI 84 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L-~~~ 84 (324)
+|++.++.++..|+...+ ++.+++|||+|.++.++.+.|++.+...+.+.|..+ ...|.|.|..||..|...+ +..
T Consensus 17 ~rl~~ak~a~~~~~~~~~--~~~d~v~lv~F~~~~~~~~~~~t~~~~~~~~~l~~l-~~~G~T~l~~aL~~a~~~l~~~~ 93 (178)
T cd01451 17 HRMAAAKGAVLSLLRDAY--QRRDKVALIAFRGTEAEVLLPPTRSVELAKRRLARL-PTGGGTPLAAGLLAAYELAAEQA 93 (178)
T ss_pred cHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEeCCCCCHHHHHHHHHhC-CCCCCCcHHHHHHHHHHHHHHHh
Confidence 599999999999986532 578999999997556788899999988888888765 5678899999999999999 322
Q ss_pred CCCCCceEEEEEeCCCCC---Ccc-cH-HHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeCCHHH
Q 020564 85 PSYGHREVLILYSALSTC---DPG-DI-METIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDESH 152 (324)
Q Consensus 85 p~~~~reILil~gS~~t~---d~g-~i-~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~d~~h 152 (324)
+..+.+++||+++..... |+. .. .+.++.+++.+|.|.+|+++.. ...|++||+.|||+|+.+.|.++
T Consensus 94 ~~~~~~~~ivliTDG~~~~g~~~~~~~~~~~~~~l~~~gi~v~~I~~~~~~~~~~~l~~iA~~tgG~~~~~~d~~~ 169 (178)
T cd01451 94 RDPGQRPLIVVITDGRANVGPDPTADRALAAARKLRARGISALVIDTEGRPVRRGLAKDLARALGGQYVRLPDLSA 169 (178)
T ss_pred cCCCCceEEEEECCCCCCCCCCchhHHHHHHHHHHHhcCCcEEEEeCCCCccCccHHHHHHHHcCCeEEEcCcCCH
Confidence 222345677777644322 222 22 4668899999999999999864 57999999999999998877553
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=99.48 E-value=2.5e-12 Score=110.82 Aligned_cols=148 Identities=12% Similarity=0.164 Sum_probs=111.2
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhh
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLS 82 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~ 82 (324)
..+++.+++++..++.. .++.+++|||+|. +.+..+.+++ .+.+.+.+.|.++ .+.|.|.+..||..|+..+.
T Consensus 15 ~~~~~~~k~a~~~~~~~---l~~~~~v~li~f~-~~~~~~~~~~~~~~~~~l~~~l~~~-~~~g~T~~~~al~~a~~~~~ 89 (170)
T cd01465 15 GPKLPLVKSALKLLVDQ---LRPDDRLAIVTYD-GAAETVLPATPVRDKAAILAAIDRL-TAGGSTAGGAGIQLGYQEAQ 89 (170)
T ss_pred ChhHHHHHHHHHHHHHh---CCCCCEEEEEEec-CCccEEecCcccchHHHHHHHHHcC-CCCCCCCHHHHHHHHHHHHH
Confidence 34688899888888876 4788999999996 5677888876 3566666666654 56788999999999999997
Q ss_pred CCCCCCCceEEEEEeCC-CCCCc---ccHHHHHHHHHhcCcEEEEEEccch--HHHHHHHHHhhCCeeEEeCCHHHHHHH
Q 020564 83 QIPSYGHREVLILYSAL-STCDP---GDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKEL 156 (324)
Q Consensus 83 ~~p~~~~reILil~gS~-~t~d~---g~i~~ti~~akk~~IrV~vI~Lgae--~~iLk~ia~~TgG~Y~va~d~~hl~~l 156 (324)
........+.|||++.. .+.++ .++.+.++.+++.+|+|++|++|.+ ...|+++|+.++|.|+.+.|.+.+.++
T Consensus 90 ~~~~~~~~~~ivl~TDG~~~~~~~~~~~~~~~~~~~~~~~v~i~~i~~g~~~~~~~l~~ia~~~~g~~~~~~~~~~~~~~ 169 (170)
T cd01465 90 KHFVPGGVNRILLATDGDFNVGETDPDELARLVAQKRESGITLSTLGFGDNYNEDLMEAIADAGNGNTAYIDNLAEARKV 169 (170)
T ss_pred hhcCCCCeeEEEEEeCCCCCCCCCCHHHHHHHHHHhhcCCeEEEEEEeCCCcCHHHHHHHHhcCCceEEEeCCHHHHHhh
Confidence 65321222445555433 22233 2344567777889999999999953 589999999999999999999888876
Q ss_pred H
Q 020564 157 I 157 (324)
Q Consensus 157 L 157 (324)
+
T Consensus 170 ~ 170 (170)
T cd01465 170 F 170 (170)
T ss_pred C
Confidence 3
No 21
>cd01466 vWA_C3HC4_type VWA C3HC4-type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most,
Probab=99.47 E-value=1.1e-12 Score=113.21 Aligned_cols=136 Identities=15% Similarity=0.260 Sum_probs=100.5
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC----CHHHHHHHHhhhcCCCCcchHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKLGCSGDSSLQNALDLVQ 78 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~----n~~~~~~~L~~~~~~~G~~sL~naL~~A~ 78 (324)
+.-+|++.++.++..+++.+ ++.+++|||+|. +.++.+.|++. +...+.+.+.++ .+.|.|++..||..|.
T Consensus 13 M~~~rl~~ak~a~~~l~~~l---~~~~~~~li~F~-~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~g~T~~~~al~~a~ 87 (155)
T cd01466 13 MAGDKLQLVKHALRFVISSL---GDADRLSIVTFS-TSAKRLSPLRRMTAKGKRSAKRVVDGL-QAGGGTNVVGGLKKAL 87 (155)
T ss_pred CCcHHHHHHHHHHHHHHHhC---CCcceEEEEEec-CCccccCCCcccCHHHHHHHHHHHHhc-cCCCCccHHHHHHHHH
Confidence 34469999999888777664 567899999995 57888888863 234455555553 6788999999999999
Q ss_pred HHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc--chHHHHHHHHHhhCCeeEEe
Q 020564 79 GLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--AEMFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 79 ~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg--ae~~iLk~ia~~TgG~Y~va 147 (324)
..+..........+||+++.... +.+ .....+++.+|+|++|++| .+...|++||+.|||+|+.+
T Consensus 88 ~~~~~~~~~~~~~~iillTDG~~-~~~---~~~~~~~~~~v~v~~igig~~~~~~~l~~iA~~t~G~~~~~ 154 (155)
T cd01466 88 KVLGDRRQKNPVASIMLLSDGQD-NHG---AVVLRADNAPIPIHTFGLGASHDPALLAFIAEITGGTFSYV 154 (155)
T ss_pred HHHhhcccCCCceEEEEEcCCCC-Ccc---hhhhcccCCCceEEEEecCCCCCHHHHHHHHhccCceEEEe
Confidence 99976533333456777764432 222 3344566789999999999 56789999999999999765
No 22
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=99.44 E-value=7e-12 Score=108.49 Aligned_cols=142 Identities=18% Similarity=0.158 Sum_probs=113.8
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+.+.+++.+++++..+++.+-..+...++|||+|. +.+..+.+++ .|.+.+.++|+++....|.|.++.||..|...
T Consensus 13 m~~~~~~~~k~~~~~~~~~l~~~~~~~~~giv~Fs-~~~~~~~~~~~~~~~~~~~~~l~~l~~~~g~T~~~~al~~a~~~ 91 (164)
T cd01472 13 IGLSNFNLVKDFVKRVVERLDIGPDGVRVGVVQYS-DDPRTEFYLNTYRSKDDVLEAVKNLRYIGGGTNTGKALKYVREN 91 (164)
T ss_pred CCHHHHHHHHHHHHHHHhhcccCCCCeEEEEEEEc-CceeEEEecCCCCCHHHHHHHHHhCcCCCCCchHHHHHHHHHHH
Confidence 45678999999999999887656677899999995 7788999999 88899999888764346779999999999999
Q ss_pred hhCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEe
Q 020564 81 LSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 81 L~~~---p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va 147 (324)
|... +....++++|+++.... ..+....+..+++.+|+|++||+|. +...|++||..++|.|.-.
T Consensus 92 l~~~~~~~~~~~~~~iiliTDG~~--~~~~~~~~~~l~~~gv~i~~ig~g~~~~~~L~~ia~~~~~~~~~~ 160 (164)
T cd01472 92 LFTEASGSREGVPKVLVVITDGKS--QDDVEEPAVELKQAGIEVFAVGVKNADEEELKQIASDPKELYVFN 160 (164)
T ss_pred hCCcccCCCCCCCEEEEEEcCCCC--CchHHHHHHHHHHCCCEEEEEECCcCCHHHHHHHHCCCchheEEe
Confidence 9863 22345677788764432 2244566778889999999999996 7899999999999999543
No 23
>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=99.44 E-value=3.2e-12 Score=115.09 Aligned_cols=139 Identities=20% Similarity=0.272 Sum_probs=99.0
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCe-----eeEee---cCC--------CCHHHHHHHHhhhcCCCCc
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV-----ANCLT---DLG--------GSPESHIKALMGKLGCSGD 67 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~-----a~~l~---~lt--------~n~~~~~~~L~~~~~~~G~ 67 (324)
.++||+.+++++..|++.+ +|.+++|||+|.+.. ...+. +++ .+.+.+.+.|.++....|.
T Consensus 40 ~~~rl~~ak~a~~~~l~~l---~~~~~v~lv~F~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~l~~~i~~i~~~~G~ 116 (206)
T cd01456 40 GETRLDNAKAALDETANAL---PDGTRLGLWTFSGDGDNPLDVRVLVPKGCLTAPVNGFPSAQRSALDAALNSLQTPTGW 116 (206)
T ss_pred cchHHHHHHHHHHHHHHhC---CCCceEEEEEecCCCCCCccccccccccccccccCCCCcccHHHHHHHHHhhcCCCCc
Confidence 3789999999999999873 678999999996521 12222 222 3567777777775337889
Q ss_pred chHHHHHHHHHHHhhCCCCCCC-ceEEEEEeCCCCCCcccHHHHHHHHHh-----cCcEEEEEEccch--HHHHHHHHHh
Q 020564 68 SSLQNALDLVQGLLSQIPSYGH-REVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSVIGLSAE--MFICKHLCQD 139 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~-reILil~gS~~t~d~g~i~~ti~~akk-----~~IrV~vI~Lgae--~~iLk~ia~~ 139 (324)
|.|..||+.|...|. + +. +.||+|..+..+++. +..+.+..+.+ .+|+|++|++|.+ ...|++||+.
T Consensus 117 T~l~~aL~~a~~~l~--~--~~~~~iillTDG~~~~~~-~~~~~~~~~~~~~~~~~~i~i~~igiG~~~~~~~l~~iA~~ 191 (206)
T cd01456 117 TPLAAALAEAAAYVD--P--GRVNVVVLITDGEDTCGP-DPCEVARELAKRRTPAPPIKVNVIDFGGDADRAELEAIAEA 191 (206)
T ss_pred ChHHHHHHHHHHHhC--C--CCcceEEEEcCCCccCCC-CHHHHHHHHHHhcCCCCCceEEEEEecCcccHHHHHHHHHh
Confidence 999999999999996 2 23 444444433333322 44454444444 4999999999976 6899999999
Q ss_pred hCCee-EEeCCH
Q 020564 140 TGGSY-SVALDE 150 (324)
Q Consensus 140 TgG~Y-~va~d~ 150 (324)
|||.| +.+.|.
T Consensus 192 tgG~~~~~~~~~ 203 (206)
T cd01456 192 TGGTYAYNQSDL 203 (206)
T ss_pred cCCeEecccccc
Confidence 99999 766553
No 24
>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=99.42 E-value=8.8e-12 Score=107.34 Aligned_cols=148 Identities=12% Similarity=0.281 Sum_probs=109.1
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHH---HHHHHHhhhcCCCCcchHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPE---SHIKALMGKLGCSGDSSLQNALDLV 77 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~---~~~~~L~~~~~~~G~~sL~naL~~A 77 (324)
+...+++.+++++..|+..+ ++.++++|++|. +.+..+.+.+ .+.. ..++.|..+ .+.|.|.+..||..|
T Consensus 15 M~~~~~~~~~~al~~~l~~l---~~~~~~~l~~Fs-~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~g~T~l~~al~~a 89 (171)
T cd01461 15 MSGTKIEQTKEALLTALKDL---PPGDYFNIIGFS-DTVEEFSPSSVSATAENVAAAIEYVNRL-QALGGTNMNDALEAA 89 (171)
T ss_pred CCChhHHHHHHHHHHHHHhC---CCCCEEEEEEeC-CCceeecCcceeCCHHHHHHHHHHHHhc-CCCCCcCHHHHHHHH
Confidence 45678999999999998773 677899999996 4456555432 2322 233334333 457889999999999
Q ss_pred HHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 020564 78 QGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFKE 155 (324)
Q Consensus 78 ~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~TgG~Y~va~d~~hl~~ 155 (324)
...+...+ ..+++||+++.....++.++.++++.+.+.+|+|++|++|. ....|+++|+.|||.|..+.|.+.+.+
T Consensus 90 ~~~l~~~~--~~~~~iillTDG~~~~~~~~~~~~~~~~~~~i~i~~i~~g~~~~~~~l~~ia~~~gG~~~~~~~~~~~~~ 167 (171)
T cd01461 90 LELLNSSP--GSVPQIILLTDGEVTNESQILKNVREALSGRIRLFTFGIGSDVNTYLLERLAREGRGIARRIYETDDIES 167 (171)
T ss_pred HHhhccCC--CCccEEEEEeCCCCCCHHHHHHHHHHhcCCCceEEEEEeCCccCHHHHHHHHHcCCCeEEEecChHHHHH
Confidence 99997632 34567777765544455556677777777899999999995 468999999999999999989887765
Q ss_pred HH
Q 020564 156 LI 157 (324)
Q Consensus 156 lL 157 (324)
-+
T Consensus 168 ~~ 169 (171)
T cd01461 168 QL 169 (171)
T ss_pred Hh
Confidence 44
No 25
>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=99.42 E-value=1.9e-11 Score=104.55 Aligned_cols=150 Identities=25% Similarity=0.300 Sum_probs=121.0
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecC--CCCHHHHHHHHhhhcC-CCCcchHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GGSPESHIKALMGKLG-CSGDSSLQNALDLVQG 79 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~l--t~n~~~~~~~L~~~~~-~~G~~sL~naL~~A~~ 79 (324)
+.++|++.++..+..|+..+..+++..++||++|.+ ......++ +.+...+.+.+..+.. ..|.+++..||..|..
T Consensus 14 M~~~~~~~~~~~~~~~~~~~~~~~~~~~i~ii~f~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~al~~~~~ 92 (177)
T smart00327 14 MGPNRFEKAKEFVLKLVEQLDIGPDGDRVGLVTFSD-DATVLFPLNDSRSKDALLEALASLSYKLGGGTNLGAALQYALE 92 (177)
T ss_pred cchHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCC-CceEEEcccccCCHHHHHHHHHhcCCCCCCCchHHHHHHHHHH
Confidence 346899999999999999999999999999999975 56777787 7888888888887533 5788999999999999
Q ss_pred HhhCCC---CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhhCCeeEEeCCHHHHH
Q 020564 80 LLSQIP---SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFK 154 (324)
Q Consensus 80 ~L~~~p---~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~TgG~Y~va~d~~hl~ 154 (324)
.+.... ....+++||+++.....++.++.+.++.+++.+|.|++|+++. ....+++++..++|.|.. +.+++.
T Consensus 93 ~~~~~~~~~~~~~~~~iviitDg~~~~~~~~~~~~~~~~~~~i~i~~i~~~~~~~~~~l~~~~~~~~~~~~~--~~~~~~ 170 (177)
T smart00327 93 NLFSKSAGSRRGAPKVLILITDGESNDGGDLLKAAKELKRSGVKVFVVGVGNDVDEEELKKLASAPGGVYVF--LPELFD 170 (177)
T ss_pred HhcCcCCCCCCCCCeEEEEEcCCCCCCCccHHHHHHHHHHCCCEEEEEEccCccCHHHHHHHhCCCcceEEe--cHHHhh
Confidence 996321 1223568888875555454578899999999999999999998 578999999999999976 444444
Q ss_pred H
Q 020564 155 E 155 (324)
Q Consensus 155 ~ 155 (324)
+
T Consensus 171 ~ 171 (177)
T smart00327 171 L 171 (177)
T ss_pred h
Confidence 3
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=99.41 E-value=6.2e-12 Score=111.67 Aligned_cols=156 Identities=12% Similarity=0.091 Sum_probs=121.3
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcC------CcCCceEEEEeeCCeeeEeecCC---CCHHHHHHHHhhhcCCCCcchHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQ------NPLSQIGLVTVKDGVANCLTDLG---GSPESHIKALMGKLGCSGDSSLQNA 73 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~q------NP~sqlGiI~~~~g~a~~l~~lt---~n~~~~~~~L~~~~~~~G~~sL~na 73 (324)
+..++++.+++.++.|++.+..+ +...|+|||.|. ..+....+++ .|...+.++|+++....|.|.++.|
T Consensus 15 m~~~~~~~~k~~~~~~~~~l~~~~~~~i~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~~l~~~i~~l~~~gg~T~~~~A 93 (186)
T cd01480 15 VGLQNFDITKNFVKRVAERFLKDYYRKDPAGSWRVGVVQYS-DQQEVEAGFLRDIRNYTSLKEAVDNLEYIGGGTFTDCA 93 (186)
T ss_pred cchhhHHHHHHHHHHHHHHHhhhhccCCCCCceEEEEEEec-CCceeeEecccccCCHHHHHHHHHhCccCCCCccHHHH
Confidence 45678888999999999998653 556899999995 7788889998 6888888989876435788999999
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCC--CcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEeCCH
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDE 150 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~--d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va~d~ 150 (324)
|..|...+........+++||+++...+. +..++.+++..+++.||+|++|++|. ....|++||...+|.|++.
T Consensus 94 L~~a~~~l~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~gi~i~~vgig~~~~~~L~~IA~~~~~~~~~~--- 170 (186)
T cd01480 94 LKYATEQLLEGSHQKENKFLLVITDGHSDGSPDGGIEKAVNEADHLGIKIFFVAVGSQNEEPLSRIACDGKSALYRE--- 170 (186)
T ss_pred HHHHHHHHhccCCCCCceEEEEEeCCCcCCCcchhHHHHHHHHHHCCCEEEEEecCccchHHHHHHHcCCcchhhhc---
Confidence 99999999863223456778887644332 23456788999999999999999985 4567999999999987765
Q ss_pred HHHHHHHHhcCCC
Q 020564 151 SHFKELIMEHAPP 163 (324)
Q Consensus 151 ~hl~~lL~~~~~p 163 (324)
.|.++++.+...
T Consensus 171 -~~~~l~~~~~~~ 182 (186)
T cd01480 171 -NFAELLWSFFID 182 (186)
T ss_pred -chhhhccccccc
Confidence 366666666543
No 27
>TIGR00868 hCaCC calcium-activated chloride channel protein 1. distributions. found a row in 1A13.INFO that was not parsed out
Probab=99.41 E-value=6.8e-12 Score=133.84 Aligned_cols=147 Identities=20% Similarity=0.223 Sum_probs=107.6
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC-CHHHHHHHHhhhc--CCCCcchHHHHHHHHHHHh
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-SPESHIKALMGKL--GCSGDSSLQNALDLVQGLL 81 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~-n~~~~~~~L~~~~--~~~G~~sL~naL~~A~~~L 81 (324)
.+||..++++++.|+...+ +|.++||||+| ++.|+.+.||+. +.....++|.+.. ...|+|+|..||.+|+..|
T Consensus 320 ~dRL~~lkqAA~~fL~~~l--~~~DrVGLVtF-sssA~vl~pLt~Its~~dr~aL~~~L~~~A~GGT~I~~GL~~Alq~L 396 (863)
T TIGR00868 320 EDRLKRMNQAAKLFLLQTV--EKGSWVGMVTF-DSAAYIKNELIQITSSAERDALTANLPTAASGGTSICSGLKAAFQVI 396 (863)
T ss_pred cCHHHHHHHHHHHHHHHhC--CCCCEEEEEEE-CCceeEeeccccCCcHHHHHHHHHhhccccCCCCcHHHHHHHHHHHH
Confidence 3699999999999998753 57899999999 577888888863 1112223333222 3678999999999999999
Q ss_pred hCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHHhhCCeeEEeCCHHHHHHHH
Q 020564 82 SQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGSYSVALDESHFKELI 157 (324)
Q Consensus 82 ~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~~TgG~Y~va~d~~hl~~lL 157 (324)
++.......+.|||++.... .++..++..+++.+|+|++|++|.. ...|++||+.|||.|+.+.|.+.+..|.
T Consensus 397 ~~~~~~~~~~~IILLTDGed---n~~~~~l~~lk~~gVtI~TIg~G~dad~~L~~IA~~TGG~~f~asd~~dl~~L~ 470 (863)
T TIGR00868 397 KKSYQSTDGSEIVLLTDGED---NTISSCFEEVKQSGAIIHTIALGPSAAKELEELSDMTGGLRFYASDQADNNGLI 470 (863)
T ss_pred HhcccccCCCEEEEEeCCCC---CCHHHHHHHHHHcCCEEEEEEeCCChHHHHHHHHHhcCCEEEEeCCHHHHHHHH
Confidence 97643233346666653321 2345678889999999999999964 3568999999999999988876544433
No 28
>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=99.40 E-value=1.4e-11 Score=108.64 Aligned_cols=152 Identities=14% Similarity=0.098 Sum_probs=116.8
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+.|.+++.+++.++.|++.+....+..|+|||.+. +.+....+++ .+..+++++++.+....|.+.++.||+.|...
T Consensus 13 ~~~~~f~~~k~fi~~~i~~l~~~~~~~rvgvv~fs-~~~~~~~~l~~~~~~~~~~~~i~~~~~~~g~T~~~~AL~~a~~~ 91 (177)
T cd01469 13 IYPDDFQKVKNFLSTVMKKLDIGPTKTQFGLVQYS-ESFRTEFTLNEYRTKEEPLSLVKHISQLLGLTNTATAIQYVVTE 91 (177)
T ss_pred CCHHHHHHHHHHHHHHHHHcCcCCCCcEEEEEEEC-CceeEEEecCccCCHHHHHHHHHhCccCCCCccHHHHHHHHHHH
Confidence 46789999999999999988776778999999995 6678888886 34556777777654456779999999999998
Q ss_pred hhCCC---CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch------HHHHHHHHHhhCCee-EEeCCH
Q 020564 81 LSQIP---SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKHLCQDTGGSY-SVALDE 150 (324)
Q Consensus 81 L~~~p---~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae------~~iLk~ia~~TgG~Y-~va~d~ 150 (324)
|.... ....++|+|+++...+.|......+++.||+.||+|++||+|.. ...|+.||..+++.| +...|.
T Consensus 92 l~~~~~g~R~~~~kv~illTDG~~~~~~~~~~~~~~~k~~gv~v~~Vgvg~~~~~~~~~~~L~~ias~p~~~h~f~~~~~ 171 (177)
T cd01469 92 LFSESNGARKDATKVLVVITDGESHDDPLLKDVIPQAEREGIIRYAIGVGGHFQRENSREELKTIASKPPEEHFFNVTDF 171 (177)
T ss_pred hcCcccCCCCCCCeEEEEEeCCCCCCccccHHHHHHHHHCCcEEEEEEecccccccccHHHHHHHhcCCcHHhEEEecCH
Confidence 84321 12356788888755554544445678899999999999999974 478999999998755 667776
Q ss_pred HHHHH
Q 020564 151 SHFKE 155 (324)
Q Consensus 151 ~hl~~ 155 (324)
+.|+.
T Consensus 172 ~~l~~ 176 (177)
T cd01469 172 AALKD 176 (177)
T ss_pred HHhcc
Confidence 66553
No 29
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=99.40 E-value=1.9e-11 Score=109.34 Aligned_cols=154 Identities=12% Similarity=0.148 Sum_probs=111.5
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC----CCHHHHHHHHhhhcC----CCCcchHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG----GSPESHIKALMGKLG----CSGDSSLQNAL 74 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt----~n~~~~~~~L~~~~~----~~G~~sL~naL 74 (324)
+.++||+.++.++..|++.+-..++..++|||+|. +.+..+.|++ .+..+++++|.++.. ..|.|.+..||
T Consensus 13 M~~~~~~~~k~~~~~l~~~l~~~~~~~~v~li~Fs-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ggT~~~~Al 91 (198)
T cd01470 13 IGEEDFDEAKNAIKTLIEKISSYEVSPRYEIISYA-SDPKEIVSIRDFNSNDADDVIKRLEDFNYDDHGDKTGTNTAAAL 91 (198)
T ss_pred ccHHHHHHHHHHHHHHHHHccccCCCceEEEEEec-CCceEEEecccCCCCCHHHHHHHHHhCCcccccCccchhHHHHH
Confidence 56789999999999999886444568999999995 6677777664 456778888876531 24789999999
Q ss_pred HHHHHHhhCC---CC---CCCceEEEEEeCCCCC---CcccHHHHHHHH----------HhcCcEEEEEEccc--hHHHH
Q 020564 75 DLVQGLLSQI---PS---YGHREVLILYSALSTC---DPGDIMETIQKC----------KESKIRCSVIGLSA--EMFIC 133 (324)
Q Consensus 75 ~~A~~~L~~~---p~---~~~reILil~gS~~t~---d~g~i~~ti~~a----------kk~~IrV~vI~Lga--e~~iL 133 (324)
.+|...|... +. ...+++|||++..... +|....+.++.+ ++.+|+|++||+|. ....|
T Consensus 92 ~~~~~~l~~~~~~~~~~~~~~~~~iillTDG~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~iGvG~~~~~~~L 171 (198)
T cd01470 92 KKVYERMALEKVRNKEAFNETRHVIILFTDGKSNMGGSPLPTVDKIKNLVYKNNKSDNPREDYLDVYVFGVGDDVNKEEL 171 (198)
T ss_pred HHHHHHHHHHHhcCccchhhcceEEEEEcCCCcCCCCChhHHHHHHHHHHhcccccccchhcceeEEEEecCcccCHHHH
Confidence 9998877321 11 1235677777644332 232233333333 55689999999985 46899
Q ss_pred HHHHHhhCC--eeEEeCCHHHHHHHH
Q 020564 134 KHLCQDTGG--SYSVALDESHFKELI 157 (324)
Q Consensus 134 k~ia~~TgG--~Y~va~d~~hl~~lL 157 (324)
++||..||| .|+.+.|.+.|+++|
T Consensus 172 ~~iA~~~~g~~~~f~~~~~~~l~~v~ 197 (198)
T cd01470 172 NDLASKKDNERHFFKLKDYEDLQEVF 197 (198)
T ss_pred HHHhcCCCCCceEEEeCCHHHHHHhc
Confidence 999999999 468889998998876
No 30
>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=99.37 E-value=3e-11 Score=102.15 Aligned_cols=141 Identities=18% Similarity=0.171 Sum_probs=114.3
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCC--HHHHHHHHhhhcCCC-CcchHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS--PESHIKALMGKLGCS-GDSSLQNALDLVQG 79 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n--~~~~~~~L~~~~~~~-G~~sL~naL~~A~~ 79 (324)
+...+++.+++.+..|+..+...++.+++||++|. +.+....+++.+ ..++.+.|..+.... |.+++..||+.|..
T Consensus 13 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~t~~~~al~~a~~ 91 (161)
T cd01450 13 VGPENFEKVKDFIEKLVEKLDIGPDKTRVGLVQYS-DDVRVEFSLNDYKSKDDLLKAVKNLKYLGGGGTNTGKALQYALE 91 (161)
T ss_pred cCHHHHHHHHHHHHHHHHheeeCCCceEEEEEEEc-CCceEEEECCCCCCHHHHHHHHHhcccCCCCCccHHHHHHHHHH
Confidence 34558899999999999998888899999999996 456778888776 777888887654334 38999999999999
Q ss_pred HhhCCC--CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCee
Q 020564 80 LLSQIP--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSY 144 (324)
Q Consensus 80 ~L~~~p--~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y 144 (324)
.+.... ....++++|+++.....++.++.++++.+++.+|+|++|+++. ....|++++..||+.|
T Consensus 92 ~~~~~~~~~~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~~~~~~ 159 (161)
T cd01450 92 QLFSESNARENVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIASCPSERH 159 (161)
T ss_pred HhcccccccCCCCeEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCCCCCCc
Confidence 998774 2355678888875554444468899999999999999999997 7789999999995544
No 31
>cd01474 vWA_ATR ATR (Anthrax Toxin Receptor): Anthrax toxin is a key virulence factor for Bacillus anthracis, the causative agent of anthrax. ATR is the cellular receptor for the anthrax protective antigen and facilitates entry of the toxin into cells. The VWA domain in ATR contains the toxin binding site and mediates interaction with protective antigen. The binding is mediated by divalent cations that binds to the MIDAS motif. These proteins are a family of vertebrate ECM receptors expressed by endothelial cells.
Probab=99.36 E-value=3.2e-11 Score=106.77 Aligned_cols=147 Identities=13% Similarity=0.067 Sum_probs=109.9
Q ss_pred HHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc--CCCCcchHHHHHHHHHHHhhCC--CCC
Q 020564 12 AKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL--GCSGDSSLQNALDLVQGLLSQI--PSY 87 (324)
Q Consensus 12 ~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~--~~~G~~sL~naL~~A~~~L~~~--p~~ 87 (324)
++.++.+++.|. +|.+|+|||+|. ..+..+.|++.+...+.++|..+. .+.|.|.++.||+.|...|... ...
T Consensus 25 ~~~~~~l~~~~~--~~~~rvglv~Fs-~~~~~~~~l~~~~~~~~~~l~~l~~~~~~g~T~~~~aL~~a~~~l~~~~~~~r 101 (185)
T cd01474 25 YDFVEQLVDRFN--SPGLRFSFITFS-TRATKILPLTDDSSAIIKGLEVLKKVTPSGQTYIHEGLENANEQIFNRNGGGR 101 (185)
T ss_pred HHHHHHHHHHcC--CCCcEEEEEEec-CCceEEEeccccHHHHHHHHHHHhccCCCCCCcHHHHHHHHHHHHHhhccCCC
Confidence 455666666653 578999999995 778999999988877666664332 3568899999999999988532 111
Q ss_pred CCceEEEEEeCCCCC--CcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 88 GHREVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 88 ~~reILil~gS~~t~--d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
...++||+++...+. +..+..+.++.+++.||.|++||++. ....|++||..+++.|.+..|.+.|+.++.++.
T Consensus 102 ~~~~~villTDG~~~~~~~~~~~~~a~~l~~~gv~i~~vgv~~~~~~~L~~iA~~~~~~f~~~~~~~~l~~~~~~~~ 178 (185)
T cd01474 102 ETVSVIIALTDGQLLLNGHKYPEHEAKLSRKLGAIVYCVGVTDFLKSQLINIADSKEYVFPVTSGFQALSGIIESVV 178 (185)
T ss_pred CCCeEEEEEcCCCcCCCCCcchHHHHHHHHHcCCEEEEEeechhhHHHHHHHhCCCCeeEecCccHHHHHHHHHHHH
Confidence 112677777644432 23355677889999999999999953 356899999999888878889899998887765
No 32
>cd01463 vWA_VGCC_like VWA Voltage gated Calcium channel like: Voltage-gated calcium channels are a complex of five proteins: alpha 1, beta 1, gamma, alpha 2 and delta. The alpha 2 and delta subunits result from proteolytic processing of a single gene product and carries at its N-terminus the VWA and cache domains, The alpha 2 delta gene family has orthologues in D. melanogaster and C. elegans but none have been detected in aither A. thaliana or yeast. The exact biochemical function of the VWA domain is not known but the alpha 2 delta complex has been shown to regulate various functional properties of the channel complex.
Probab=99.32 E-value=4.8e-11 Score=106.09 Aligned_cols=140 Identities=14% Similarity=0.103 Sum_probs=101.4
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC---------CHHHHHHHHhhhcCCCCcchHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG---------SPESHIKALMGKLGCSGDSSLQNA 73 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~---------n~~~~~~~L~~~~~~~G~~sL~na 73 (324)
|..+|++.+++++..|++.+ ++.+++|||+|. +.++.+.|++. |.+.+.+.|..+ ...|.+.+..|
T Consensus 26 M~~~~l~~ak~~~~~ll~~l---~~~d~v~lv~F~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~G~T~~~~a 100 (190)
T cd01463 26 MTGQRLHLAKQTVSSILDTL---SDNDFFNIITFS-NEVNPVVPCFNDTLVQATTSNKKVLKEALDML-EAKGIANYTKA 100 (190)
T ss_pred CCcHHHHHHHHHHHHHHHhC---CCCCEEEEEEeC-CCeeEEeeecccceEecCHHHHHHHHHHHhhC-CCCCcchHHHH
Confidence 44679999999999998874 788999999995 66777777543 445566666553 56788999999
Q ss_pred HHHHHHHhhC---C--CC--CCCceEEEEEeCCCCCCcccHHHHHHHHHh-----cCcEEEEEEccch---HHHHHHHHH
Q 020564 74 LDLVQGLLSQ---I--PS--YGHREVLILYSALSTCDPGDIMETIQKCKE-----SKIRCSVIGLSAE---MFICKHLCQ 138 (324)
Q Consensus 74 L~~A~~~L~~---~--p~--~~~reILil~gS~~t~d~g~i~~ti~~akk-----~~IrV~vI~Lgae---~~iLk~ia~ 138 (324)
|..|...|+. . +. ...+++|||++.....+.. +.+..+++ .+|+|++||+|.+ ...|++||+
T Consensus 101 l~~a~~~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~---~~~~~~~~~~~~~~~v~i~tigiG~~~~d~~~L~~lA~ 177 (190)
T cd01463 101 LEFAFSLLLKNLQSNHSGSRSQCNQAIMLITDGVPENYK---EIFDKYNWDKNSEIPVRVFTYLIGREVTDRREIQWMAC 177 (190)
T ss_pred HHHHHHHHHHhhhcccccccCCceeEEEEEeCCCCCcHh---HHHHHhcccccCCCcEEEEEEecCCccccchHHHHHHh
Confidence 9999999986 1 11 1234577777655433333 33333322 2699999999965 579999999
Q ss_pred hhCCeeEEeCCH
Q 020564 139 DTGGSYSVALDE 150 (324)
Q Consensus 139 ~TgG~Y~va~d~ 150 (324)
.+||.|+.+.|.
T Consensus 178 ~~~G~~~~i~~~ 189 (190)
T cd01463 178 ENKGYYSHIQSL 189 (190)
T ss_pred hcCCeEEEcccC
Confidence 999999888764
No 33
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=99.31 E-value=1.6e-10 Score=105.64 Aligned_cols=157 Identities=15% Similarity=0.098 Sum_probs=121.1
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+.+++++.+++.++.|++.+--.+...|+|||.+. ..+.+..+++ .+..++.++|.++....|.+..+.||..|+..
T Consensus 15 m~~~~~~~~k~f~~~l~~~l~~~~~~~rvglv~fs-~~~~~~~~l~~~~~~~~l~~~i~~i~~~~~~t~tg~AL~~a~~~ 93 (224)
T cd01475 15 VRPENFELVKQFLNQIIDSLDVGPDATRVGLVQYS-STVKQEFPLGRFKSKADLKRAVRRMEYLETGTMTGLAIQYAMNN 93 (224)
T ss_pred CCHHHHHHHHHHHHHHHHhcccCCCccEEEEEEec-CceeEEecccccCCHHHHHHHHHhCcCCCCCChHHHHHHHHHHH
Confidence 46789999999999999886555557899999995 6788899997 56677888887764445678889999998876
Q ss_pred hhC-----CCCC-CCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCC-eeEEeCCHHH
Q 020564 81 LSQ-----IPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGG-SYSVALDESH 152 (324)
Q Consensus 81 L~~-----~p~~-~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG-~Y~va~d~~h 152 (324)
+.. +|.. ..++|||+++...+. .++.+.++.+|+.||+|++||+|. ....|++||..+++ .|+.+.|.+.
T Consensus 94 ~~~~~~g~r~~~~~~~kvvillTDG~s~--~~~~~~a~~lk~~gv~i~~VgvG~~~~~~L~~ias~~~~~~~f~~~~~~~ 171 (224)
T cd01475 94 AFSEAEGARPGSERVPRVGIVVTDGRPQ--DDVSEVAAKARALGIEMFAVGVGRADEEELREIASEPLADHVFYVEDFST 171 (224)
T ss_pred hCChhcCCCCCCCCCCeEEEEEcCCCCc--ccHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhCCCcHhcEEEeCCHHH
Confidence 532 2211 125788888755442 357788999999999999999985 35789999988765 5688889999
Q ss_pred HHHHHHhcCC
Q 020564 153 FKELIMEHAP 162 (324)
Q Consensus 153 l~~lL~~~~~ 162 (324)
|.++...+..
T Consensus 172 l~~~~~~l~~ 181 (224)
T cd01475 172 IEELTKKFQG 181 (224)
T ss_pred HHHHhhhccc
Confidence 9988887763
No 34
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=99.27 E-value=2.9e-10 Score=102.49 Aligned_cols=142 Identities=15% Similarity=0.197 Sum_probs=105.1
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcC--Cc----CCceEEEEeeCCeeeEeecCCC--CHHHHHHHHhhhc---CCCCcchHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQ--NP----LSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKL---GCSGDSSLQ 71 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~q--NP----~sqlGiI~~~~g~a~~l~~lt~--n~~~~~~~L~~~~---~~~G~~sL~ 71 (324)
+.++||+.+++.+..++..+-.. +| ..|+|||++ ++.+++..||+. +.++++++|+... ...|.|.++
T Consensus 32 m~~~~f~~~k~fi~~~~~~~~~~~~~~~~~~~~rVGlV~f-s~~a~~~~~L~d~~~~~~~~~ai~~~~~~~~~~ggT~ig 110 (193)
T cd01477 32 MTQGGLWQVRATISSLFGSSSQIGTDYDDPRSTRVGLVTY-NSNATVVADLNDLQSFDDLYSQIQGSLTDVSSTNASYLD 110 (193)
T ss_pred cchhhHHHHHHHHHHHHhhccccccccCCCCCcEEEEEEc-cCceEEEEecccccCHHHHHHHHHHHhhccccCCcchHH
Confidence 46788988888887777765321 33 369999999 588999999973 4567777777422 244679999
Q ss_pred HHHHHHHHHhhCC---CCCCCceEEEEEeCCCCCCc-ccHHHHHHHHHhcCcEEEEEEccch--HHHHHHHHHhhCCeeE
Q 020564 72 NALDLVQGLLSQI---PSYGHREVLILYSALSTCDP-GDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYS 145 (324)
Q Consensus 72 naL~~A~~~L~~~---p~~~~reILil~gS~~t~d~-g~i~~ti~~akk~~IrV~vI~Lgae--~~iLk~ia~~TgG~Y~ 145 (324)
.||++|...|... .....++|||++++....+. .+....++.|+++||+|++||+|.+ ...+++++++..+.|+
T Consensus 111 ~aL~~A~~~l~~~~~~~R~~v~kvvIllTDg~~~~~~~~~~~~a~~l~~~GI~i~tVGiG~~~d~~~~~~L~~ias~~~~ 190 (193)
T cd01477 111 TGLQAAEQMLAAGKRTSRENYKKVVIVFASDYNDEGSNDPRPIAARLKSTGIAIITVAFTQDESSNLLDKLGKIASPGMN 190 (193)
T ss_pred HHHHHHHHHHHhhhccccCCCCeEEEEEecCccCCCCCCHHHHHHHHHHCCCEEEEEEeCCCCCHHHHHHHHHhcCCCCC
Confidence 9999999999743 11234578888874432222 4567889999999999999999975 4679999999987774
No 35
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=99.24 E-value=2.3e-10 Score=118.56 Aligned_cols=150 Identities=19% Similarity=0.179 Sum_probs=116.4
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhC
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 83 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~ 83 (324)
.-+||..+|.++..|+.+- ..+.++|+||+|++..++++.|+|.+.....+.|..+ ...|.|.|..||.+|...++.
T Consensus 415 ~~~rl~~aK~a~~~ll~~a--y~~rD~v~lI~F~g~~a~~~lppT~~~~~~~~~L~~l-~~gGgTpL~~gL~~A~~~l~~ 491 (584)
T PRK13406 415 ALHRLAEAKGAVELLLAEA--YVRRDQVALVAFRGRGAELLLPPTRSLVRAKRSLAGL-PGGGGTPLAAGLDAAAALALQ 491 (584)
T ss_pred cHhHHHHHHHHHHHHHHhh--cCCCCEEEEEEECCCceeEEcCCCcCHHHHHHHHhcC-CCCCCChHHHHHHHHHHHHHH
Confidence 3469999999999999662 2688999999998777999999999999988888865 567889999999999999987
Q ss_pred CCCCCCceEEEEEeCCCCCCc-----------ccHHHHHHHHHhcCcEEEEEEccchH-HHHHHHHHhhCCeeEEeCC--
Q 020564 84 IPSYGHREVLILYSALSTCDP-----------GDIMETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGGSYSVALD-- 149 (324)
Q Consensus 84 ~p~~~~reILil~gS~~t~d~-----------g~i~~ti~~akk~~IrV~vI~Lgae~-~iLk~ia~~TgG~Y~va~d-- 149 (324)
...++.+.+||+++......+ .+...++..+++.+|++.+|..+... ..+++||+.|||.|+..-+
T Consensus 492 ~~~~~~~~~iVLlTDG~~n~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vId~g~~~~~~~~~LA~~~gg~y~~l~~~~ 571 (584)
T PRK13406 492 VRRKGMTPTVVLLTDGRANIARDGTAGRAQAEEDALAAARALRAAGLPALVIDTSPRPQPQARALAEAMGARYLPLPRAD 571 (584)
T ss_pred hccCCCceEEEEEeCCCCCCCccccccccchhhHHHHHHHHHHhcCCeEEEEecCCCCcHHHHHHHHhcCCeEEECCCCC
Confidence 644455567777753332211 12345688899999999999998554 5799999999999986543
Q ss_pred HHHHHHH
Q 020564 150 ESHFKEL 156 (324)
Q Consensus 150 ~~hl~~l 156 (324)
.+.+.++
T Consensus 572 a~~~~~~ 578 (584)
T PRK13406 572 AGRLSQA 578 (584)
T ss_pred HHHHHHH
Confidence 3344433
No 36
>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=99.23 E-value=5.9e-10 Score=92.42 Aligned_cols=140 Identities=21% Similarity=0.255 Sum_probs=112.8
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC--CHHHHHHHHhhhcC-CCCcchHHHHHHHHHHH
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKALMGKLG-CSGDSSLQNALDLVQGL 80 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~--n~~~~~~~L~~~~~-~~G~~sL~naL~~A~~~ 80 (324)
.++++..+++.+..++..+-..++.+++||+.+. +....+.+++. +.+.+.+.+..+.. ..|.+.+..||..|...
T Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~~f~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~al~~~~~~ 92 (161)
T cd00198 14 GGEKLDKAKEALKALVSSLSASPPGDRVGLVTFG-SNARVVLPLTTDTDKADLLEAIDALKKGLGGGTNIGAALRLALEL 92 (161)
T ss_pred CcchHHHHHHHHHHHHHhcccCCCCcEEEEEEec-CccceeecccccCCHHHHHHHHHhcccCCCCCccHHHHHHHHHHH
Confidence 4789999999999999998888889999999996 45677788776 77888888876543 67889999999999999
Q ss_pred hhCCCCCCCceEEEEEeCCCCCCcc-cHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhh-CCee
Q 020564 81 LSQIPSYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT-GGSY 144 (324)
Q Consensus 81 L~~~p~~~~reILil~gS~~t~d~g-~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~T-gG~Y 144 (324)
+........+++||+++.....+.. ++.++++.+++.+|+|++|+++. ....|+.++..| +|.|
T Consensus 93 ~~~~~~~~~~~~lvvitDg~~~~~~~~~~~~~~~~~~~~v~v~~v~~g~~~~~~~l~~l~~~~~~~~~ 160 (161)
T cd00198 93 LKSAKRPNARRVIILLTDGEPNDGPELLAEAARELRKLGITVYTIGIGDDANEDELKEIADKTTGGAV 160 (161)
T ss_pred hcccCCCCCceEEEEEeCCCCCCCcchhHHHHHHHHHcCCEEEEEEcCCCCCHHHHHHHhcccccccc
Confidence 9876333456677777644443333 67789999999999999999995 678999999998 5544
No 37
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=99.22 E-value=7.2e-10 Score=96.21 Aligned_cols=139 Identities=17% Similarity=0.117 Sum_probs=106.2
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGL 80 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~ 80 (324)
+.+.++..+++.+..+++.+--.++..++|||.|. +.+....+++ .+.+++++.|.++....|.|.++.||..|...
T Consensus 13 m~~~~~~~~k~~~~~l~~~~~~~~~~~rvgli~fs-~~~~~~~~l~~~~~~~~l~~~l~~~~~~~g~T~~~~aL~~a~~~ 91 (164)
T cd01482 13 IGRSNFNLVRSFLSSVVEAFEIGPDGVQVGLVQYS-DDPRTEFDLNAYTSKEDVLAAIKNLPYKGGNTRTGKALTHVREK 91 (164)
T ss_pred cChhhHHHHHHHHHHHHhheeeCCCceEEEEEEEC-CCeeEEEecCCCCCHHHHHHHHHhCcCCCCCChHHHHHHHHHHH
Confidence 34568888899999999886445678999999995 6788888886 67778888888764467889999999998876
Q ss_pred hhCC-C--CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHHhhCCee
Q 020564 81 LSQI-P--SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGSY 144 (324)
Q Consensus 81 L~~~-p--~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~~TgG~Y 144 (324)
+... . ....+++|||++...+. .++.++++.+|+.||.|++||++.. ...|+++|..+++.+
T Consensus 92 ~~~~~~~~r~~~~k~iillTDG~~~--~~~~~~a~~lk~~gi~i~~ig~g~~~~~~L~~ia~~~~~~~ 157 (164)
T cd01482 92 NFTPDAGARPGVPKVVILITDGKSQ--DDVELPARVLRNLGVNVFAVGVKDADESELKMIASKPSETH 157 (164)
T ss_pred hcccccCCCCCCCEEEEEEcCCCCC--chHHHHHHHHHHCCCEEEEEecCcCCHHHHHHHhCCCchhe
Confidence 5332 1 12345678888644432 3677889999999999999999853 678999998887644
No 38
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=99.12 E-value=4.7e-09 Score=92.56 Aligned_cols=152 Identities=16% Similarity=0.135 Sum_probs=106.5
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC----CHHH---HHHHHhhhcCCCCcchHHHHHHHHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPES---HIKALMGKLGCSGDSSLQNALDLVQ 78 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~----n~~~---~~~~L~~~~~~~G~~sL~naL~~A~ 78 (324)
+|+..+++.+..|++.+-..++..++|||+|. +.++.+.+++. +... .+++|.......|.|.+..||..|.
T Consensus 17 ~~~~~~k~~~~~~~~~~~~~~~~~~vglv~Fs-~~~~~~~~l~~~~~~~~~~~~~~i~~l~~~~~~~G~T~l~~aL~~a~ 95 (186)
T cd01471 17 NWVTHVVPFLHTFVQNLNISPDEINLYLVTFS-TNAKELIRLSSPNSTNKDLALNAIRALLSLYYPNGSTNTTSALLVVE 95 (186)
T ss_pred hhHHHHHHHHHHHHHhcccCCCceEEEEEEec-CCceEEEECCCccccchHHHHHHHHHHHhCcCCCCCccHHHHHHHHH
Confidence 35889999999999886445567799999995 66788887764 4444 3444443334678899999999999
Q ss_pred HHhhCC--CCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhh-CC---eeEEeCCH
Q 020564 79 GLLSQI--PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQDT-GG---SYSVALDE 150 (324)
Q Consensus 79 ~~L~~~--p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~T-gG---~Y~va~d~ 150 (324)
..+... .....++++||++.....+.....+.++.+++.+|+|.+||+|. +...|+.|+..- +. ..+...+-
T Consensus 96 ~~l~~~~~~r~~~~~~villTDG~~~~~~~~~~~a~~l~~~gv~v~~igiG~~~d~~~l~~ia~~~~~~~~~~~~~~~~~ 175 (186)
T cd01471 96 KHLFDTRGNRENAPQLVIIMTDGIPDSKFRTLKEARKLRERGVIIAVLGVGQGVNHEENRSLVGCDPDDSPCPLYLQSSW 175 (186)
T ss_pred HHhhccCCCcccCceEEEEEccCCCCCCcchhHHHHHHHHCCCEEEEEEeehhhCHHHHHHhcCCCCCCCCCCeeecCCH
Confidence 999763 11223456777765544444455577889999999999999985 467888888764 11 23555566
Q ss_pred HHHHHHHH
Q 020564 151 SHFKELIM 158 (324)
Q Consensus 151 ~hl~~lL~ 158 (324)
++++..+.
T Consensus 176 ~~~~~~~~ 183 (186)
T cd01471 176 SEVQNVIK 183 (186)
T ss_pred HHHHHHhh
Confidence 66665544
No 39
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=99.12 E-value=3.5e-09 Score=91.05 Aligned_cols=156 Identities=19% Similarity=0.220 Sum_probs=121.7
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC--CHHHHHHHH-hhhcCCCCcchHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SPESHIKAL-MGKLGCSGDSSLQNALDLVQG 79 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~--n~~~~~~~L-~~~~~~~G~~sL~naL~~A~~ 79 (324)
+..+++..+++.+..|++.+-..++..++|||.|. ..+..+.+++. +..++.+.+ .......|.+.++.||..|..
T Consensus 12 m~~~~~~~~~~~v~~~i~~~~~~~~~~rv~iv~f~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~g~t~~~~aL~~a~~ 90 (178)
T PF00092_consen 12 MSGDNFEKAKQFVKSIISRLSISNNGTRVGIVTFS-DSARVLFSLTDYQSKNDLLNAINDSIPSSGGGTNLGAALKFARE 90 (178)
T ss_dssp SCHHHHHHHHHHHHHHHHHSTBSTTSEEEEEEEES-SSEEEEEETTSHSSHHHHHHHHHTTGGCCBSSB-HHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHhhhccccccccceeeee-cccccccccccccccccccccccccccccchhhhHHHHHhhhhh
Confidence 34568889999999999987789999999999995 66777788765 467788877 555467889999999999999
Q ss_pred HhhCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHh-cCcEEEEEEc-cchHHHHHHHHHhh-C-CeeEEeCCHHH
Q 020564 80 LLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGL-SAEMFICKHLCQDT-G-GSYSVALDESH 152 (324)
Q Consensus 80 ~L~~~---p~~~~reILil~gS~~t~d~g~i~~ti~~akk-~~IrV~vI~L-gae~~iLk~ia~~T-g-G~Y~va~d~~h 152 (324)
.+... .....+++||+++.....+..........+++ .+|.+.+||. +++...|+.|+..+ + |.++...|...
T Consensus 91 ~l~~~~~~~r~~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~i~~~~ig~~~~~~~~l~~la~~~~~~~~~~~~~~~~~ 170 (178)
T PF00092_consen 91 QLFSSNNGGRPNSPKVIILITDGNSNDSDSPSEEAANLKKSNGIKVIAIGIDNADNEELRELASCPTSEGHVFYLADFSD 170 (178)
T ss_dssp HTTSGGGTTGTTSEEEEEEEESSSSSSHSGHHHHHHHHHHHCTEEEEEEEESCCHHHHHHHHSHSSTCHHHEEEESSHHH
T ss_pred cccccccccccccccceEEEEeecccCCcchHHHHHHHHHhcCcEEEEEecCcCCHHHHHHHhCCCCCCCcEEEcCCHHH
Confidence 99865 22356788888886666555555555555555 6999999999 78899999999775 3 67788889888
Q ss_pred HHHHHHh
Q 020564 153 FKELIME 159 (324)
Q Consensus 153 l~~lL~~ 159 (324)
+.++..+
T Consensus 171 l~~~~~~ 177 (178)
T PF00092_consen 171 LSQIIQQ 177 (178)
T ss_dssp HHHHHHH
T ss_pred HHHHHhc
Confidence 8887654
No 40
>PTZ00441 sporozoite surface protein 2 (SSP2); Provisional
Probab=99.07 E-value=6.2e-09 Score=106.67 Aligned_cols=156 Identities=15% Similarity=0.134 Sum_probs=115.1
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCC----HHHHHHHHhhhc---CCCCcchHHHHHHH
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGS----PESHIKALMGKL---GCSGDSSLQNALDL 76 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n----~~~~~~~L~~~~---~~~G~~sL~naL~~ 76 (324)
.+++++.++..+..||..+.-+.=..+||+|+|. ..+..+.+++.. .+.++.+|.++. .+.|.|.++.||..
T Consensus 57 ~~Nfle~AK~Fa~~LV~~l~Is~D~V~VgiV~FS-d~~r~vfpL~s~~s~Dk~~aL~~I~sL~~~~~pgGgTnig~AL~~ 135 (576)
T PTZ00441 57 YHNWITHVIPMLMGLIQQLNLSDDAINLYMSLFS-NNTTELIRLGSGASKDKEQALIIVKSLRKTYLPYGKTNMTDALLE 135 (576)
T ss_pred CccHHHHHHHHHHHHHHHhccCCCceEEEEEEeC-CCceEEEecCCCccccHHHHHHHHHHHHhhccCCCCccHHHHHHH
Confidence 4688888899999999887555556678889995 667777788543 345666665442 36788999999999
Q ss_pred HHHHhhCCC-CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHH----HhhCCeeEEeCC
Q 020564 77 VQGLLSQIP-SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLC----QDTGGSYSVALD 149 (324)
Q Consensus 77 A~~~L~~~p-~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia----~~TgG~Y~va~d 149 (324)
|...|.+.. .....++|||++.....+..+..++++.|++.||.|.+|++|. ...+|+.|| ..++|.|+...|
T Consensus 136 Aae~L~sr~~R~nvpKVVILLTDG~sns~~dvleaAq~LR~~GVeI~vIGVG~g~n~e~LrlIAgC~p~~g~c~~Y~vad 215 (576)
T PTZ00441 136 VRKHLNDRVNRENAIQLVILMTDGIPNSKYRALEESRKLKDRNVKLAVIGIGQGINHQFNRLLAGCRPREGKCKFYSDAD 215 (576)
T ss_pred HHHHHhhcccccCCceEEEEEecCCCCCcccHHHHHHHHHHCCCEEEEEEeCCCcCHHHHHHHhccCCCCCCCceEEeCC
Confidence 999998642 1233468888875554444567788899999999999999996 457888888 446678988888
Q ss_pred HHHHHHHHHhc
Q 020564 150 ESHFKELIMEH 160 (324)
Q Consensus 150 ~~hl~~lL~~~ 160 (324)
-+.|+.+...+
T Consensus 216 f~eL~~ivk~L 226 (576)
T PTZ00441 216 WEEAKNLIKPF 226 (576)
T ss_pred HHHHHHHHHHH
Confidence 87776655433
No 41
>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=99.00 E-value=1.3e-08 Score=106.79 Aligned_cols=140 Identities=20% Similarity=0.215 Sum_probs=107.8
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCC
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 84 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~ 84 (324)
.+|+..++.++..|+..-+ .+.+++|||+|++..++.+.|+|.+.......|..+ ...|.|.|..||..|...|+..
T Consensus 481 ~~rl~~ak~a~~~ll~~a~--~~~D~v~lI~F~g~~a~~~~p~t~~~~~~~~~L~~l-~~gG~Tpl~~aL~~A~~~l~~~ 557 (633)
T TIGR02442 481 RGRMAAAKGAVLSLLRDAY--QKRDKVALITFRGEEAEVLLPPTSSVELAARRLEEL-PTGGRTPLAAGLLKAAEVLSNE 557 (633)
T ss_pred ccHHHHHHHHHHHHHHHhh--cCCCEEEEEEECCCCceEEcCCCCCHHHHHHHHHhC-CCCCCCCHHHHHHHHHHHHHHh
Confidence 3699999999999887533 457999999997667999999999988877777764 5678899999999999999842
Q ss_pred --CCCCCceEEEEEeCCCCCCc-------ccHHHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEe
Q 020564 85 --PSYGHREVLILYSALSTCDP-------GDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 85 --p~~~~reILil~gS~~t~d~-------g~i~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va 147 (324)
.....+.+|||++......+ .+...++..+++.+|.+.+|..+.. ...+++||+.+||.|+..
T Consensus 558 ~~~~~~~~~~vvliTDG~~n~~~~~~~~~~~~~~~a~~l~~~~i~~~vIdt~~~~~~~~~~~~lA~~~gg~y~~l 632 (633)
T TIGR02442 558 LLRDDDGRPLLVVITDGRANVADGGEPPTDDARTIAAKLAARGILFVVIDTESGFVRLGLAEDLARALGGEYVRL 632 (633)
T ss_pred hccCCCCceEEEEECCCCCCCCCCCCChHHHHHHHHHHHHhcCCeEEEEeCCCCCcchhHHHHHHHhhCCeEEec
Confidence 22234556777764433221 1344567888889999999988654 578999999999999853
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=98.99 E-value=3e-08 Score=89.08 Aligned_cols=128 Identities=13% Similarity=0.135 Sum_probs=95.4
Q ss_pred HHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC----CHHHHHHHHhhhc---CCCCcchHHHHHHHHHHHhhC
Q 020564 11 VAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG----SPESHIKALMGKL---GCSGDSSLQNALDLVQGLLSQ 83 (324)
Q Consensus 11 ~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~----n~~~~~~~L~~~~---~~~G~~sL~naL~~A~~~L~~ 83 (324)
+++.++.+++.|--.+...|+|||.|. +.++...|++. +..+++++++++. ...|.|.++.||+.|+..+..
T Consensus 22 ~~~f~~~lv~~l~i~~~~~rvgvv~fs-~~~~~~~~~~~~~~~~~~~l~~~i~~l~~~~~~~g~T~~~~AL~~a~~~~~~ 100 (192)
T cd01473 22 VIPFTEKIINNLNISKDKVHVGILLFA-EKNRDVVPFSDEERYDKNELLKKINDLKNSYRSGGETYIVEALKYGLKNYTK 100 (192)
T ss_pred HHHHHHHHHHhCccCCCccEEEEEEec-CCceeEEecCcccccCHHHHHHHHHHHHhccCCCCcCcHHHHHHHHHHHhcc
Confidence 455677777776666778999999995 77888888875 4566777776542 246889999999999999865
Q ss_pred CCC--CCCceEEEEEeCCCCCCc--ccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHHh
Q 020564 84 IPS--YGHREVLILYSALSTCDP--GDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQD 139 (324)
Q Consensus 84 ~p~--~~~reILil~gS~~t~d~--g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~~ 139 (324)
..+ ...++|+|+++...+.++ .++.++++.||+.||+|++||+|.. ..-|+.||.-
T Consensus 101 ~~~~r~~~~kv~IllTDG~s~~~~~~~~~~~a~~lk~~gV~i~~vGiG~~~~~el~~ia~~ 161 (192)
T cd01473 101 HGNRRKDAPKVTMLFTDGNDTSASKKELQDISLLYKEENVKLLVVGVGAASENKLKLLAGC 161 (192)
T ss_pred CCCCcccCCeEEEEEecCCCCCcchhhHHHHHHHHHHCCCEEEEEEeccccHHHHHHhcCC
Confidence 321 223678999886655443 3577889999999999999999953 4568888753
No 43
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=98.97 E-value=2e-08 Score=104.58 Aligned_cols=144 Identities=19% Similarity=0.184 Sum_probs=111.0
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhh
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLS 82 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~ 82 (324)
|..+||..++.++..|+...+ .+.+++|||+|+++.++.+.|+|.+.....+.|..+ ...|.|.|..||.+|...++
T Consensus 420 M~~~rl~~aK~av~~Ll~~~~--~~~D~v~Li~F~~~~a~~~lp~t~~~~~~~~~L~~l-~~gGgTpL~~gL~~A~~~~~ 496 (589)
T TIGR02031 420 AAVARMSEAKGAVELLLGEAY--VHRDQVSLIAFRGTAAEVLLPPSRSVEQAKRRLDVL-PGGGGTPLAAGLAAAFQTAL 496 (589)
T ss_pred CChHHHHHHHHHHHHHHHhhc--cCCCEEEEEEECCCCceEECCCCCCHHHHHHHHhcC-CCCCCCcHHHHHHHHHHHHH
Confidence 345799999999999987643 356899999998777788899999988887777765 56788999999999999998
Q ss_pred CCCCCCCceEEEEEeCCCCC---Cc-------------ccHHHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCe
Q 020564 83 QIPSYGHREVLILYSALSTC---DP-------------GDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGS 143 (324)
Q Consensus 83 ~~p~~~~reILil~gS~~t~---d~-------------g~i~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~ 143 (324)
.......+.+||+++..... +. .++...+..+++.||.+.||+.+.. ...+++||+..||.
T Consensus 497 ~~~~~~~~~~ivllTDG~~nv~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~gi~~~vid~~~~~~~~~~~~~lA~~~~g~ 576 (589)
T TIGR02031 497 QARSSGGTPTIVLITDGRGNIPLDGDPESIKADREQAAEEALALARKIREAGMPALVIDTAMRFVSTGFAQKLARKMGAH 576 (589)
T ss_pred HhcccCCceEEEEECCCCCCCCCCcccccccccchhHHHHHHHHHHHHHhcCCeEEEEeCCCCCccchHHHHHHHhcCCc
Confidence 64333444566666533321 11 1234568889999999999999854 46799999999999
Q ss_pred eEEeCC
Q 020564 144 YSVALD 149 (324)
Q Consensus 144 Y~va~d 149 (324)
|+..-|
T Consensus 577 y~~l~~ 582 (589)
T TIGR02031 577 YIYLPN 582 (589)
T ss_pred EEeCCC
Confidence 987654
No 44
>cd01476 VWA_integrin_invertebrates VWA_integrin (invertebrates): Integrins are a family of cell surface receptors that have diverse functions in cell-cell and cell-extracellular matrix interactions. Because of their involvement in many biologically important adhesion processes, integrins are conserved across a wide range of multicellular animals. Integrins from invertebrates have been identified from six phyla. There are no data to date to suggest any immunological functions for the invertebrate integrins. The members of this sub-group have the conserved MIDAS motif that is charateristic of this domain suggesting the involvement of the integrins in the recognition and binding of multi-ligands.
Probab=98.95 E-value=5.5e-08 Score=83.60 Aligned_cols=133 Identities=14% Similarity=0.119 Sum_probs=94.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCC-eeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhC
Q 020564 7 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG-VANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 83 (324)
Q Consensus 7 Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g-~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~ 83 (324)
++..+++.++.+++.+...++..++|||.|.+. .+....+++ .++..+.+.+..+....|.+.++.||..|...|..
T Consensus 16 ~~~~~~~~~~~~~~~l~~~~~~~~v~lv~f~~~~~~~~~~~l~~~~~~~~l~~~i~~l~~~gg~T~l~~aL~~a~~~l~~ 95 (163)
T cd01476 16 KFEKYKKYIERIVEGLEIGPTATRVALITYSGRGRQRVRFNLPKHNDGEELLEKVDNLRFIGGTTATGAAIEVALQQLDP 95 (163)
T ss_pred hHHHHHHHHHHHHHhcCCCCCCcEEEEEEEcCCCceEEEecCCCCCCHHHHHHHHHhCccCCCCccHHHHHHHHHHHhcc
Confidence 566778888999988776677899999999643 566677775 46777888887753346779999999999999963
Q ss_pred C--CCCCCceEEEEEeCCCCCCcccHHHHHHHHHh-cCcEEEEEEccchH-HHHHHHHHhhC
Q 020564 84 I--PSYGHREVLILYSALSTCDPGDIMETIQKCKE-SKIRCSVIGLSAEM-FICKHLCQDTG 141 (324)
Q Consensus 84 ~--p~~~~reILil~gS~~t~d~g~i~~ti~~akk-~~IrV~vI~Lgae~-~iLk~ia~~Tg 141 (324)
. .....++++|+++...+. .+....++.+++ .+|.|++|+++... .-.++|.+++|
T Consensus 96 ~~~~r~~~~~~villTDG~~~--~~~~~~~~~l~~~~~v~v~~vg~g~~~~~~~~~L~~ia~ 155 (163)
T cd01476 96 SEGRREGIPKVVVVLTDGRSH--DDPEKQARILRAVPNIETFAVGTGDPGTVDTEELHSITG 155 (163)
T ss_pred ccCCCCCCCeEEEEECCCCCC--CchHHHHHHHhhcCCCEEEEEECCCccccCHHHHHHHhC
Confidence 2 112234677777644332 234566788888 99999999998761 11444444444
No 45
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=98.93 E-value=3.6e-08 Score=84.33 Aligned_cols=132 Identities=18% Similarity=0.307 Sum_probs=90.3
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecC--CC---CHHHHHHHHhhhcCC-CCcchHHHHHHHH
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL--GG---SPESHIKALMGKLGC-SGDSSLQNALDLV 77 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~l--t~---n~~~~~~~L~~~~~~-~G~~sL~naL~~A 77 (324)
.... +.++++++.++++ .+|.+++.||+|. ..+..+.|- .. +.++..+.++++ ++ .|.+.+..||+.|
T Consensus 14 ~g~~-~~~k~al~~~l~~---L~~~d~fnii~f~-~~~~~~~~~~~~~~~~~~~~a~~~I~~~-~~~~G~t~l~~aL~~a 87 (155)
T PF13768_consen 14 SGEK-ELVKDALRAILRS---LPPGDRFNIIAFG-SSVRPLFPGLVPATEENRQEALQWIKSL-EANSGGTDLLAALRAA 87 (155)
T ss_pred CCcH-HHHHHHHHHHHHh---CCCCCEEEEEEeC-CEeeEcchhHHHHhHHHHHHHHHHHHHh-cccCCCccHHHHHHHH
Confidence 4445 7889999999988 6899999999995 556666654 12 222333444443 45 8999999999999
Q ss_pred HHHhhCCCCCCCceEEEEEeCCC-CCCcccHHHHHHHHHhcCcEEEEEEccch--HHHHHHHHHhhCCeeE
Q 020564 78 QGLLSQIPSYGHREVLILYSALS-TCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYS 145 (324)
Q Consensus 78 ~~~L~~~p~~~~reILil~gS~~-t~d~g~i~~ti~~akk~~IrV~vI~Lgae--~~iLk~ia~~TgG~Y~ 145 (324)
+..+. + .+..+.|++++... +.+...+.+.++... .+|||.++++|.+ ..+||+||+.|||.|.
T Consensus 88 ~~~~~--~-~~~~~~IilltDG~~~~~~~~i~~~v~~~~-~~~~i~~~~~g~~~~~~~L~~LA~~~~G~~~ 154 (155)
T PF13768_consen 88 LALLQ--R-PGCVRAIILLTDGQPVSGEEEILDLVRRAR-GHIRIFTFGIGSDADADFLRELARATGGSFH 154 (155)
T ss_pred HHhcc--c-CCCccEEEEEEeccCCCCHHHHHHHHHhcC-CCceEEEEEECChhHHHHHHHHHHcCCCEEE
Confidence 98772 1 22334455554332 223334555555433 6799999999975 4799999999999994
No 46
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=98.93 E-value=1.2e-08 Score=92.77 Aligned_cols=127 Identities=17% Similarity=0.186 Sum_probs=88.1
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCe---------eeEeecCCCCHHHHHHHHhhhcC-----------
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV---------ANCLTDLGGSPESHIKALMGKLG----------- 63 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~---------a~~l~~lt~n~~~~~~~L~~~~~----------- 63 (324)
.|+||+.+++++..|+++..-.+|.+++|||.|.... ...+.|+.....+.++.|.+...
T Consensus 22 ~~s~l~~a~~~i~~~~~~ki~~~~~D~vGlilf~t~~~~~~~~~~~i~v~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~ 101 (218)
T cd01458 22 YESPFEEALKCIRQLMKSKIISSPKDLVGVVFYGTEESKNPVGYENIYVLLDLDTPGAERVEDLKELIEPGGLSFAGQVG 101 (218)
T ss_pred CCChHHHHHHHHHHHHHhceeCCCCCeEEEEEEcccCCCCcCCCCceEEeecCCCCCHHHHHHHHHHhhcchhhhcccCC
Confidence 4899999999999999988778999999999996442 12456674333444455554321
Q ss_pred CCCcchHHHHHHHHHHHhhCCCC-CCCceEEEEEeCCCCCC-----cccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 64 CSGDSSLQNALDLVQGLLSQIPS-YGHREVLILYSALSTCD-----PGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 64 ~~G~~sL~naL~~A~~~L~~~p~-~~~reILil~gS~~t~d-----~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
..++++|.+||..|+.+|.+... ..+|+|++|.-...... ..++.+.++.+++.||+|++|+++.+.
T Consensus 102 ~~~~~~l~~aL~~a~~~~~~~~~~~~~k~IvL~TDg~~p~~~~~~~~~~~~~~a~~l~~~gI~i~~i~i~~~~ 174 (218)
T cd01458 102 DSGQVSLSDALWVCLDLFSKGKKKKSHKRIFLFTNNDDPHGGDSIKDSQAAVKAEDLKDKGIELELFPLSSPG 174 (218)
T ss_pred CCCCccHHHHHHHHHHHHHhccccccccEEEEECCCCCCCCCCHHHHHHHHHHHHHHHhCCcEEEEEecCCCC
Confidence 24578999999999999998432 34454444443222111 123345688888999999999998654
No 47
>TIGR03788 marine_srt_targ marine proteobacterial sortase target protein. Members of this protein family are restricted to the Proteobacteria. Each contains a C-terminal sortase-recognition motif, transmembrane domain, and basic residues cluster at the the C-terminus, and is encoded adjacent to a sortase gene. This protein is frequently the only sortase target in its genome, which is as unusual its occurrence in Gram-negative rather than Gram-positive genomes. Many bacteria with this system are marine. In addition to the LPXTG signal, members carry a vault protein inter-alpha-trypsin inhibitor domain (pfam08487) and a von Willebrand factor type A domain (pfam00092).
Probab=98.92 E-value=3.7e-08 Score=102.57 Aligned_cols=148 Identities=10% Similarity=0.133 Sum_probs=102.0
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC--CH---HHHHHHHhhhcCCCCcchHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG--SP---ESHIKALMGKLGCSGDSSLQNALDLV 77 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~--n~---~~~~~~L~~~~~~~G~~sL~naL~~A 77 (324)
|..++++.+++++..+++. .+|.++++||+|. ..++.+.+.+. +. ++..+.|.++ ...|+|.|..||..|
T Consensus 284 M~g~~i~~ak~al~~~l~~---L~~~d~~~ii~F~-~~~~~~~~~~~~~~~~~~~~a~~~i~~l-~a~GgT~l~~aL~~a 358 (596)
T TIGR03788 284 MAGESIEQAKSALLLALDQ---LRPGDRFNIIQFD-SDVTLLFPVPVPATAHNLARARQFVAGL-QADGGTEMAGALSAA 358 (596)
T ss_pred CCCccHHHHHHHHHHHHHh---CCCCCEEEEEEEC-CcceEeccccccCCHHHHHHHHHHHhhC-CCCCCccHHHHHHHH
Confidence 3446788899988888876 5899999999995 66777766532 22 2333344443 467899999999999
Q ss_pred HHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch--HHHHHHHHHhhCCeeEEeCCHHHHHH
Q 020564 78 QGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MFICKHLCQDTGGSYSVALDESHFKE 155 (324)
Q Consensus 78 ~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae--~~iLk~ia~~TgG~Y~va~d~~hl~~ 155 (324)
+...........+ .|||++.....|...+.+.++. +..++||++||+|.. ..+|++||+.+||.|..+.+.+.+.+
T Consensus 359 ~~~~~~~~~~~~~-~iillTDG~~~~~~~~~~~~~~-~~~~~ri~tvGiG~~~n~~lL~~lA~~g~G~~~~i~~~~~~~~ 436 (596)
T TIGR03788 359 LRDDGPESSGALR-QVVFLTDGAVGNEDALFQLIRT-KLGDSRLFTVGIGSAPNSYFMRKAAQFGRGSFTFIGSTDEVQR 436 (596)
T ss_pred HHhhcccCCCcee-EEEEEeCCCCCCHHHHHHHHHH-hcCCceEEEEEeCCCcCHHHHHHHHHcCCCEEEECCCHHHHHH
Confidence 9875333222233 4555553333344455554433 335799999999975 68999999999999988888777654
Q ss_pred HH
Q 020564 156 LI 157 (324)
Q Consensus 156 lL 157 (324)
.+
T Consensus 437 ~~ 438 (596)
T TIGR03788 437 KM 438 (596)
T ss_pred HH
Confidence 43
No 48
>COG1240 ChlD Mg-chelatase subunit ChlD [Coenzyme metabolism]
Probab=98.83 E-value=1.3e-07 Score=88.32 Aligned_cols=142 Identities=20% Similarity=0.231 Sum_probs=114.1
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCCC
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIP 85 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p 85 (324)
.|+.+++.++..|+++=+ .--+||++|+|++..|+++.|+|.+.+...+.|+++ ...|.|-|..||.+|...+.+..
T Consensus 95 ~Rm~aaKG~~~~lL~dAY--q~RdkvavI~F~G~~A~lll~pT~sv~~~~~~L~~l-~~GG~TPL~~aL~~a~ev~~r~~ 171 (261)
T COG1240 95 RRMAAAKGAALSLLRDAY--QRRDKVAVIAFRGEKAELLLPPTSSVELAERALERL-PTGGKTPLADALRQAYEVLAREK 171 (261)
T ss_pred HHHHHHHHHHHHHHHHHH--HccceEEEEEecCCcceEEeCCcccHHHHHHHHHhC-CCCCCCchHHHHHHHHHHHHHhh
Confidence 489999999999998743 456999999999999999999999999999999885 67889999999999999998764
Q ss_pred CCC--CceEEEEEeCCCCCC--cccH-H---HHHHHHHhcCcEEEEEEccchH---HHHHHHHHhhCCeeEEeCCH
Q 020564 86 SYG--HREVLILYSALSTCD--PGDI-M---ETIQKCKESKIRCSVIGLSAEM---FICKHLCQDTGGSYSVALDE 150 (324)
Q Consensus 86 ~~~--~reILil~gS~~t~d--~g~i-~---~ti~~akk~~IrV~vI~Lgae~---~iLk~ia~~TgG~Y~va~d~ 150 (324)
.++ .+-++|+++.....+ +.++ . .++..+...++.+-||...... .+-++||..-||.|+...|.
T Consensus 172 r~~p~~~~~~vviTDGr~n~~~~~~~~~e~~~~a~~~~~~g~~~lvid~e~~~~~~g~~~~iA~~~Gg~~~~L~~l 247 (261)
T COG1240 172 RRGPDRRPVMVVITDGRANVPIPLGPKAETLEAASKLRLRGIQLLVIDTEGSEVRLGLAEEIARASGGEYYHLDDL 247 (261)
T ss_pred ccCCCcceEEEEEeCCccCCCCCCchHHHHHHHHHHHhhcCCcEEEEecCCccccccHHHHHHHHhCCeEEecccc
Confidence 322 445777776444433 3342 2 4567778889999999987553 68999999999999877553
No 49
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=98.76 E-value=6.3e-07 Score=78.59 Aligned_cols=135 Identities=16% Similarity=0.114 Sum_probs=101.3
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCC-cchHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSG-DSSLQNALDLVQG 79 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G-~~sL~naL~~A~~ 79 (324)
+.+..++.+++.+..+++.|--.+...|+|||.+. ..+....++. .+.+++++++.++....| .+..+.||..+..
T Consensus 13 i~~~~f~~~k~fi~~lv~~f~i~~~~~rVgvv~ys-~~~~~~~~l~~~~~~~~l~~~i~~i~~~~g~~t~t~~AL~~~~~ 91 (165)
T cd01481 13 VGSGNFPAIRDFIERIVQSLDVGPDKIRVAVVQFS-DTPRPEFYLNTHSTKADVLGAVRRLRLRGGSQLNTGSALDYVVK 91 (165)
T ss_pred cCHHHHHHHHHHHHHHHhhccCCCCCcEEEEEEec-CCeeEEEeccccCCHHHHHHHHHhcccCCCCcccHHHHHHHHHH
Confidence 35678999999999999887555567899999995 6677777774 467788888887643344 4789999999988
Q ss_pred HhhCCCC-----CCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc-chHHHHHHHHHhh
Q 020564 80 LLSQIPS-----YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQDT 140 (324)
Q Consensus 80 ~L~~~p~-----~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg-ae~~iLk~ia~~T 140 (324)
.+-..++ .+-+++||+++...+. +++.+.++.||+.||.|.+||.+ .+..-|++||..-
T Consensus 92 ~~f~~~~g~R~~~~~~kv~vviTdG~s~--d~~~~~a~~lr~~gv~i~~vG~~~~~~~eL~~ias~p 156 (165)
T cd01481 92 NLFTKSAGSRIEEGVPQFLVLITGGKSQ--DDVERPAVALKRAGIVPFAIGARNADLAELQQIAFDP 156 (165)
T ss_pred hhcCccccCCccCCCCeEEEEEeCCCCc--chHHHHHHHHHHCCcEEEEEeCCcCCHHHHHHHhCCC
Confidence 7754422 2234688888755543 46788999999999999999998 6666677776544
No 50
>cd01454 vWA_norD_type norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial denitrification has been established as NO3- ------ NO2- ------ NO ------- N2O --------- N2. This reaction generally occurs under oxygen limiting conditions. Genetic and biochemical studies have shown that the first srep of the biochemical pathway is catalyzed by periplasmic nitrate reductases. This family is widely present in proteobacteria and firmicutes. This version of the domain is also present in some archaeal members. The function of the vWA domain in this sub-group is not known. Members of this subgroup have a conserved MIDAS motif.
Probab=98.74 E-value=5.5e-07 Score=78.74 Aligned_cols=120 Identities=14% Similarity=0.115 Sum_probs=84.0
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCC---e--eeEeecCCCCH---HHHHHHHhhhcCCCCcchHHHHHHHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---V--ANCLTDLGGSP---ESHIKALMGKLGCSGDSSLQNALDLV 77 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g---~--a~~l~~lt~n~---~~~~~~L~~~~~~~G~~sL~naL~~A 77 (324)
+|++.+++++..|+..... +.+++||++|.++ . ...+.+.+.+. ....+.|..+ .+.|.|.++.||..|
T Consensus 17 ~kl~~ak~a~~~l~~~l~~--~~d~~~l~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~g~T~~~~al~~a 93 (174)
T cd01454 17 RRIDVAKKAAVLLAEALEA--CGVPHAILGFTTDAGGRERVRWIKIKDFDESLHERARKRLAAL-SPGGNTRDGAAIRHA 93 (174)
T ss_pred cHHHHHHHHHHHHHHHHHH--cCCcEEEEEecCCCCCccceEEEEecCcccccchhHHHHHHcc-CCCCCCcHHHHHHHH
Confidence 7999999999998877533 7899999999755 1 13334223222 2344555543 567789999999999
Q ss_pred HHHhhCCCCCCCceEEEEEeCCCCCCc----cc---HHHH---HHHHHhcCcEEEEEEccchH
Q 020564 78 QGLLSQIPSYGHREVLILYSALSTCDP----GD---IMET---IQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 78 ~~~L~~~p~~~~reILil~gS~~t~d~----g~---i~~t---i~~akk~~IrV~vI~Lgae~ 130 (324)
...|...+ ..+++||+++.....+. ++ +.++ ++.+++.||+|++|++|.+.
T Consensus 94 ~~~l~~~~--~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~igig~~~ 154 (174)
T cd01454 94 AERLLARP--EKRKILLVISDGEPNDLDYYEGNVFATEDALRAVIEARKLGIEVFGITIDRDA 154 (174)
T ss_pred HHHHhcCC--CcCcEEEEEeCCCcCcccccCcchhHHHHHHHHHHHHHhCCcEEEEEEecCcc
Confidence 99998764 34678888764433221 22 3344 78889999999999999764
No 51
>cd01460 vWA_midasin VWA_Midasin: Midasin is a member of the AAA ATPase family. The proteins of this family are unified by their common archetectural organization that is based upon a conserved ATPase domain. The AAA domain of midasin contains six tandem AAA protomers. The AAA domains in midasin is followed by a D/E rich domain that is following by a VWA domain. The members of this subgroup have a conserved MIDAS motif. The function of this domain is not exactly known although it has been speculated to play a crucial role in midasin function.
Probab=98.73 E-value=2.5e-07 Score=87.45 Aligned_cols=121 Identities=11% Similarity=0.070 Sum_probs=90.0
Q ss_pred CCCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc---CCCCcchHHHHHHHHH
Q 020564 2 DFRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL---GCSGDSSLQNALDLVQ 78 (324)
Q Consensus 2 D~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~---~~~G~~sL~naL~~A~ 78 (324)
|..|+|++ ++..+.+|+ .+.+.+++||++|. +.+..+.|+|.|... ...++.+. -..++|.+..+|++|+
T Consensus 77 ~~~~~ale-ak~lIs~al----~~Le~g~vgVv~Fg-~~~~~v~Plt~d~~~-~a~~~~l~~~~f~~~~Tni~~aL~~a~ 149 (266)
T cd01460 77 NSKKLALE-SLCLVSKAL----TLLEVGQLGVCSFG-EDVQILHPFDEQFSS-QSGPRILNQFTFQQDKTDIANLLKFTA 149 (266)
T ss_pred cccccHHH-HHHHHHHHH----HhCcCCcEEEEEeC-CCceEeCCCCCCchh-hHHHHHhCcccCCCCCCcHHHHHHHHH
Confidence 56799998 555555555 55899999999995 789999999999987 44444321 2456799999999999
Q ss_pred HHhhCC--CCCCC--ceEEEEEeCCCC-CCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 79 GLLSQI--PSYGH--REVLILYSALST-CDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 79 ~~L~~~--p~~~~--reILil~gS~~t-~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
..+... +.++. .+++||++.... .+.+..-..++.|++++|.|++|+|...
T Consensus 150 ~~f~~~~~~~~s~~~~qlilLISDG~~~~~e~~~~~~~r~a~e~~i~l~~I~ld~~ 205 (266)
T cd01460 150 QIFEDARTQSSSGSLWQLLLIISDGRGEFSEGAQKVRLREAREQNVFVVFIIIDNP 205 (266)
T ss_pred HHHHhhhccccccccccEEEEEECCCcccCccHHHHHHHHHHHcCCeEEEEEEcCC
Confidence 999865 22332 267777764442 2445544669999999999999999764
No 52
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.69 E-value=1.9e-07 Score=81.93 Aligned_cols=131 Identities=16% Similarity=0.194 Sum_probs=90.7
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcC---CcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQ---NPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQG 79 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~q---NP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~ 79 (324)
+...++..+++++..|++..... .+..++|||+|. +.++.+.|++...... +.. ....|.|.+..||..|+.
T Consensus 16 M~~~~~~~~k~a~~~~~~~l~~~~~~~~~~~v~ii~F~-~~a~~~~~l~~~~~~~---~~~-l~~~GgT~l~~aL~~a~~ 90 (176)
T cd01464 16 MAGEPIEALNQGLQMLQSELRQDPYALESVEISVITFD-SAARVIVPLTPLESFQ---PPR-LTASGGTSMGAALELALD 90 (176)
T ss_pred CCChHHHHHHHHHHHHHHHHhcChhhccccEEEEEEec-CCceEecCCccHHhcC---CCc-ccCCCCCcHHHHHHHHHH
Confidence 45678888999999998875432 256799999995 6789999987633211 111 246788999999999999
Q ss_pred HhhCCCC-------CCCceEEEEEeCCCCCC-cccHHHHHHHHHhcCcEEEEEEccc--hHHHHHHHHH
Q 020564 80 LLSQIPS-------YGHREVLILYSALSTCD-PGDIMETIQKCKESKIRCSVIGLSA--EMFICKHLCQ 138 (324)
Q Consensus 80 ~L~~~p~-------~~~reILil~gS~~t~d-~g~i~~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~ 138 (324)
.|..... ...+.+||+++.....| .....+.++.+++.+++|++||+|. +...|++||+
T Consensus 91 ~l~~~~~~~~~~~~~~~~~~iillTDG~~~~~~~~~~~~~~~~~~~~~~i~~igiG~~~~~~~L~~ia~ 159 (176)
T cd01464 91 CIDRRVQRYRADQKGDWRPWVFLLTDGEPTDDLTAAIERIKEARDSKGRIVACAVGPKADLDTLKQITE 159 (176)
T ss_pred HHHHHHHHhcccCcCCcCcEEEEEcCCCCCchHHHHHHHHHhhcccCCcEEEEEeccccCHHHHHHHHC
Confidence 9965311 11234677776443322 2233356777777889999999995 4577888875
No 53
>cd01462 VWA_YIEM_type VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=98.64 E-value=1.7e-06 Score=73.61 Aligned_cols=121 Identities=12% Similarity=0.143 Sum_probs=85.0
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhC
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 83 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~ 83 (324)
..+|+..++..+..++..... +.++++||+|.++......+...+..+.++.|... ...|+|.+..||..|...+..
T Consensus 14 ~~~k~~~a~~~~~~l~~~~~~--~~~~v~li~F~~~~~~~~~~~~~~~~~~~~~l~~~-~~~ggT~l~~al~~a~~~l~~ 90 (152)
T cd01462 14 YGAPEEVAKAVALALLRIALA--ENRDTYLILFDSEFQTKIVDKTDDLEEPVEFLSGV-QLGGGTDINKALRYALELIER 90 (152)
T ss_pred CCCHHHHHHHHHHHHHHHHHH--cCCcEEEEEeCCCceEEecCCcccHHHHHHHHhcC-CCCCCcCHHHHHHHHHHHHHh
Confidence 346788888888888877543 47899999997663333334456666666666643 467889999999999999976
Q ss_pred CCCCCCceEEEEEeCC-CCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 84 IPSYGHREVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 84 ~p~~~~reILil~gS~-~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
.. ..+.+|||++.. ...++..+.+..+.+++.+++|++|++|..
T Consensus 91 ~~--~~~~~ivliTDG~~~~~~~~~~~~~~~~~~~~~~v~~~~~g~~ 135 (152)
T cd01462 91 RD--PRKADIVLITDGYEGGVSDELLREVELKRSRVARFVALALGDH 135 (152)
T ss_pred cC--CCCceEEEECCCCCCCCCHHHHHHHHHHHhcCcEEEEEEecCC
Confidence 42 234567777644 333444555556777788899999999964
No 54
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=98.23 E-value=2.8e-05 Score=69.72 Aligned_cols=136 Identities=13% Similarity=0.162 Sum_probs=89.5
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhC
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQ 83 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~ 83 (324)
.|+|+..+++++..++..- .+...++++++.|. +....+.+++ ...+.+.+.+. .+.|.|.+..+|+.|+..+..
T Consensus 23 ~~~k~~~ak~~~~~l~~~~-~~~D~d~i~l~~f~-~~~~~~~~~~--~~~v~~~~~~~-~p~G~T~l~~~l~~a~~~~~~ 97 (199)
T cd01457 23 ERSRWEEAQESTRALARKC-EEYDSDGITVYLFS-GDFRRYDNVN--SSKVDQLFAEN-SPDGGTNLAAVLQDALNNYFQ 97 (199)
T ss_pred CchHHHHHHHHHHHHHHHH-HhcCCCCeEEEEec-CCccccCCcC--HHHHHHHHhcC-CCCCcCcHHHHHHHHHHHHHH
Confidence 5689999999999988643 34456679999984 5556666766 55555555443 567889999999999854432
Q ss_pred C-CC---CCCceEEEEEeCCCCCCcccHHHHH-HHHHh----cCcEEEEEEccch---HHHHHHHHHh---hCCee
Q 020564 84 I-PS---YGHREVLILYSALSTCDPGDIMETI-QKCKE----SKIRCSVIGLSAE---MFICKHLCQD---TGGSY 144 (324)
Q Consensus 84 ~-p~---~~~reILil~gS~~t~d~g~i~~ti-~~akk----~~IrV~vI~Lgae---~~iLk~ia~~---TgG~Y 144 (324)
. .. ...+.+|||++.....|...+.+.| +.+++ ++|.|++|++|.+ ...|+++.+. +|..+
T Consensus 98 ~~~~~~~~p~~~~vIiiTDG~~~d~~~~~~~i~~a~~~l~~~~~i~i~~v~vG~~~~~~~~L~~ld~~~~~~~~~~ 173 (199)
T cd01457 98 RKENGATCPEGETFLVITDGAPDDKDAVERVIIKASDELDADNELAISFLQIGRDPAATAFLKALDDQLQEVGAKF 173 (199)
T ss_pred HHhhccCCCCceEEEEEcCCCCCcHHHHHHHHHHHHHhhccccCceEEEEEeCCcHHHHHHHHHHhHHHHhcCCcc
Confidence 2 11 1124677777644444554444432 33222 4899999999964 4579999886 55533
No 55
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=97.99 E-value=0.00028 Score=65.84 Aligned_cols=131 Identities=19% Similarity=0.251 Sum_probs=85.9
Q ss_pred HHHHHHHHHHHHHHHhcCC-cCCceEEEEeeCCeeeEeecCCC------------------------------CHHHHHH
Q 020564 8 MAVVAKQVEAFVREFFDQN-PLSQIGLVTVKDGVANCLTDLGG------------------------------SPESHIK 56 (324)
Q Consensus 8 l~~~~~~l~~Fv~~~f~qN-P~sqlGiI~~~~g~a~~l~~lt~------------------------------n~~~~~~ 56 (324)
++.+++.+..-++.. ..+ |..+||||+|. ... .+..+.. +...+.+
T Consensus 22 ~~~~~~si~~~L~~l-p~~~~~~~VgiITfd-~~v-~~y~l~~~~~~~q~~vv~dl~d~f~P~~~~~lv~l~e~~~~i~~ 98 (244)
T cd01479 22 LATACEALLSNLDNL-PGDDPRTRVGFITFD-STL-HFFNLKSSLEQPQMMVVSDLDDPFLPLPDGLLVNLKESRQVIED 98 (244)
T ss_pred HHHHHHHHHHHHHhc-CCCCCCeEEEEEEEC-CeE-EEEECCCCCCCCeEEEeeCcccccCCCCcceeecHHHHHHHHHH
Confidence 556677777777652 333 67999999994 322 1222211 1122223
Q ss_pred HHhhhc-----CCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCccc------------------------H
Q 020564 57 ALMGKL-----GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD------------------------I 107 (324)
Q Consensus 57 ~L~~~~-----~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~------------------------i 107 (324)
.|+++. ....+..++.||+.|...|++. --+|+++.+++-+.-||. .
T Consensus 99 lL~~L~~~~~~~~~~~~c~G~Al~~A~~lL~~~----GGkIi~f~s~~pt~GpG~l~~~~~~~~~~~~~e~~~~~p~~~f 174 (244)
T cd01479 99 LLDQIPEMFQDTKETESALGPALQAAFLLLKET----GGKIIVFQSSLPTLGAGKLKSREDPKLLSTDKEKQLLQPQTDF 174 (244)
T ss_pred HHHHHHHHHhcCCCCcccHHHHHHHHHHHHHhc----CCEEEEEeCCCCCcCCcccccCccccccCchhhhhhcCcchHH
Confidence 333321 1234689999999999999955 246888876654433332 2
Q ss_pred H-HHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeE
Q 020564 108 M-ETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYS 145 (324)
Q Consensus 108 ~-~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~ 145 (324)
. +.+..+.+++|-||+...+.+ +..++.+++.|||..+
T Consensus 175 Y~~la~~~~~~~isvDlF~~~~~~~dla~l~~l~~~TGG~v~ 216 (244)
T cd01479 175 YKKLALECVKSQISVDLFLFSNQYVDVATLGCLSRLTGGQVY 216 (244)
T ss_pred HHHHHHHHHHcCeEEEEEEccCcccChhhhhhhhhhcCceEE
Confidence 2 578899999999999988754 6889999999999653
No 56
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=97.95 E-value=0.00028 Score=65.28 Aligned_cols=139 Identities=17% Similarity=0.264 Sum_probs=87.2
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC------------------------------CHHHHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG------------------------------SPESHI 55 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~------------------------------n~~~~~ 55 (324)
..++.+++++...++.. ..++..+||||+|. ... .+..+.. ....+.
T Consensus 20 g~~~~~~~sl~~~l~~l-~~~~~~~vgiitfd-~~V-~~y~l~~~~~~~~~~v~~dl~~~~~p~~~~llv~~~e~~~~i~ 96 (243)
T PF04811_consen 20 GLLQSLIESLKSALDSL-PGDERTRVGIITFD-SSV-HFYNLSSSLSQPQMIVVSDLDDPFIPLPDGLLVPLSECRDAIE 96 (243)
T ss_dssp THHHHHHHHHHHHGCTS-STSTT-EEEEEEES-SSE-EEEETTTTSSSTEEEEEHHTTSHHSSTSSSSSEETTTCHHHHH
T ss_pred cHHHHHHHHHHHHHHhc-cCCCCcEEEEEEeC-CEE-EEEECCCCcCCCcccchHHHhhcccCCcccEEEEhHHhHHHHH
Confidence 35677888888888553 35589999999994 332 2233322 112233
Q ss_pred HHHhhh---cC----CCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcc-----------------------
Q 020564 56 KALMGK---LG----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG----------------------- 105 (324)
Q Consensus 56 ~~L~~~---~~----~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g----------------------- 105 (324)
+.|+++ .. ...+..++.||+.|...|+... ..-+|+++.+++-+.-||
T Consensus 97 ~ll~~L~~~~~~~~~~~~~~c~G~Al~~A~~ll~~~~--~gGkI~~F~s~~pt~G~Gg~l~~~~~~~~~~~~~~~~~~~~ 174 (243)
T PF04811_consen 97 ELLESLPSIFPETAGKRPERCLGSALSAALSLLSSRN--TGGKILVFTSGPPTYGPGGSLKKREDSSHYDTEKEKALLLP 174 (243)
T ss_dssp HHHHHHHHHSTT-TTB-----HHHHHHHHHHHHHHHT--S-EEEEEEESS---SSSTTSS-SBTTSCCCCHCTTHHCHSH
T ss_pred HHHHHhhhhcccccccCccccHHHHHHHHHHHHhccc--cCCEEEEEeccCCCCCCCceecccccccccccccchhhhcc
Confidence 333322 11 2345799999999999999432 235799998766544441
Q ss_pred --c-H-HHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeCC
Q 020564 106 --D-I-METIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD 149 (324)
Q Consensus 106 --~-i-~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~d 149 (324)
+ . .+.+..+.+.+|-||+...+.+ +..++.+++.|||.-+.-.+
T Consensus 175 ~~~~fY~~la~~~~~~~isvDlf~~~~~~~~l~tl~~l~~~TGG~l~~y~~ 225 (243)
T PF04811_consen 175 PANEFYKKLAEECSKQGISVDLFVFSSDYVDLATLGPLARYTGGSLYYYPN 225 (243)
T ss_dssp SSSHHHHHHHHHHHHCTEEEEEEEECSS--SHHHHTHHHHCTT-EEEEETT
T ss_pred ccchHHHHHHHHHHhcCCEEEEEeecCCCCCcHhHHHHHHhCceeEEEeCC
Confidence 1 2 3679999999999999999865 68899999999997655443
No 57
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=97.86 E-value=0.00083 Score=62.19 Aligned_cols=139 Identities=18% Similarity=0.235 Sum_probs=92.8
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCH------------------------------HHH
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSP------------------------------ESH 54 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~------------------------------~~~ 54 (324)
..-++.+++.+...+... ..++..+||||+|. +.. .+..+.... ..+
T Consensus 19 ~~~l~~~~~sl~~~l~~l-p~~~~~~igiITf~-~~V-~~~~~~~~~~~~~~~v~~dl~d~f~p~~~~~l~~~~e~~~~i 95 (239)
T cd01468 19 EGLLQALKESLLASLDLL-PGDPRARVGLITYD-STV-HFYNLSSDLAQPKMYVVSDLKDVFLPLPDRFLVPLSECKKVI 95 (239)
T ss_pred ccHHHHHHHHHHHHHHhC-CCCCCcEEEEEEeC-CeE-EEEECCCCCCCCeEEEeCCCccCcCCCcCceeeeHHHHHHHH
Confidence 446777888888888762 23488999999993 322 222222110 122
Q ss_pred HHHHhhhc---C----CCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCccc---------------------
Q 020564 55 IKALMGKL---G----CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD--------------------- 106 (324)
Q Consensus 55 ~~~L~~~~---~----~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~--------------------- 106 (324)
.+.|+++. . ...+..++.||+.|...|+..- ..-+|+++.+++-+.-||.
T Consensus 96 ~~~l~~l~~~~~~~~~~~~~~~~G~Al~~A~~ll~~~~--~gGkI~~f~sg~pt~GpG~l~~~~~~~~~~~~~e~~~~~~ 173 (239)
T cd01468 96 HDLLEQLPPMFWPVPTHRPERCLGPALQAAFLLLKGTF--AGGRIIVFQGGLPTVGPGKLKSREDKEPIRSHDEAQLLKP 173 (239)
T ss_pred HHHHHhhhhhccccCCCCCcccHHHHHHHHHHHHhhcC--CCceEEEEECCCCCCCCCccccCcccccCCCccchhcccc
Confidence 23333321 1 2245799999999999999872 2347888886665533332
Q ss_pred ---HH-HHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeC
Q 020564 107 ---IM-ETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVAL 148 (324)
Q Consensus 107 ---i~-~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~ 148 (324)
.. +.+..+.+.+|-||+...+.+ +..++.+++.|||..+.-.
T Consensus 174 a~~fY~~la~~~~~~~isvdlF~~~~~~~dl~~l~~l~~~TGG~v~~y~ 222 (239)
T cd01468 174 ATKFYKSLAKECVKSGICVDLFAFSLDYVDVATLKQLAKSTGGQVYLYD 222 (239)
T ss_pred cHHHHHHHHHHHHHcCeEEEEEeccccccCHHHhhhhhhcCCceEEEeC
Confidence 22 568889999999999988864 6789999999999765443
No 58
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=97.63 E-value=0.0028 Score=60.07 Aligned_cols=92 Identities=17% Similarity=0.244 Sum_probs=65.2
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH-----------------------------H-HHHHHHH
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCK 115 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i-----------------------------~-~ti~~ak 115 (324)
.+..++.||..|...|+..-++.--+|++|.+++-|.-||.+ . +.+..+.
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 457999999999999996522223579999877655444322 1 2456678
Q ss_pred hcCcEEEEEEccch---HHHHHHHHHhhCCeeEEe--CCHHHHHHHH
Q 020564 116 ESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA--LDESHFKELI 157 (324)
Q Consensus 116 k~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va--~d~~hl~~lL 157 (324)
+.+|-||+...+.+ +..++.+++.|||.-+.. -+..-|++-|
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 89999999998854 688999999999965443 4455566544
No 59
>PLN00162 transport protein sec23; Provisional
Probab=97.44 E-value=0.0056 Score=66.03 Aligned_cols=96 Identities=20% Similarity=0.190 Sum_probs=70.7
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH-----------------------------H-HHHHHHHh
Q 020564 67 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-----------------------------M-ETIQKCKE 116 (324)
Q Consensus 67 ~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i-----------------------------~-~ti~~akk 116 (324)
..+++.||+.|...|...-....-+|++|.|++-|.-||.+ . +.+..+.+
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 57899999999999986532334579999987755444321 2 35677888
Q ss_pred cCcEEEEEEccch---HHHHHHHHHhhCCeeEEe--CCHHHHHHHHHhcCC
Q 020564 117 SKIRCSVIGLSAE---MFICKHLCQDTGGSYSVA--LDESHFKELIMEHAP 162 (324)
Q Consensus 117 ~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va--~d~~hl~~lL~~~~~ 162 (324)
++|-||+...+.+ +..++.+++.|||.-+.. -+...|++-|..++.
T Consensus 341 ~gisvDlF~~s~dqvglaem~~l~~~TGG~v~~~~sF~~~~f~~~l~r~~~ 391 (761)
T PLN00162 341 QGHVLDVFACSLDQVGVAEMKVAVERTGGLVVLAESFGHSVFKDSLRRVFE 391 (761)
T ss_pred cCceEEEEEccccccCHHHHhhhHhhcCcEEEEeCCcChHHHHHHHHHHhc
Confidence 9999999988754 688999999999965433 355567777766664
No 60
>PF03731 Ku_N: Ku70/Ku80 N-terminal alpha/beta domain; InterPro: IPR005161 The Ku heterodimer (composed of Ku70 P12956 from SWISSPROT and Ku80 P13010 from SWISSPROT) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the N-terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [].; PDB: 1JEQ_A 1JEY_A.
Probab=97.40 E-value=0.0032 Score=57.20 Aligned_cols=120 Identities=17% Similarity=0.248 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCe------------eeEeecCCCCHHHHHHHHhhhcC----------C
Q 020564 7 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGV------------ANCLTDLGGSPESHIKALMGKLG----------C 64 (324)
Q Consensus 7 Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~------------a~~l~~lt~n~~~~~~~L~~~~~----------~ 64 (324)
.|+.+++++..++.+..-.+|.+.+|||.++-.. ...+.+++.--.+.++.|.+... .
T Consensus 22 ~l~~al~~i~~~~~~ki~~~~kD~vgvvl~gt~~t~n~~~~~~~~~i~~l~~l~~~~~~~l~~L~~~~~~~~~~~~~~~~ 101 (224)
T PF03731_consen 22 PLEEALKAIEDLMQQKIISSPKDEVGVVLFGTDETNNPDEDSGYENIFVLQPLDPPSAERLKELEELLKPGDKFENFFSG 101 (224)
T ss_dssp HHHHHHHHHHHHHHHHHHTT---EEEEEEES-SS-BST-TTT-STTEEEEEECC--BHHHHHHHHTTSHHHHHHHHHC-S
T ss_pred hHHHHHHHHHHHHHHHHcCCCCCeEEEEEEcCCCCCCcccccCCCceEEeecCCccCHHHHHHHHHhhcccccccccCCC
Confidence 7999999999999999999999999999983222 23456666555566677765432 3
Q ss_pred CCcchHHHHHHHHHHHhhC--C-CCCCCceEEEEEeCCCCC-CcccHHHHHHH-----HHhcCcEEEEEEc
Q 020564 65 SGDSSLQNALDLVQGLLSQ--I-PSYGHREVLILYSALSTC-DPGDIMETIQK-----CKESKIRCSVIGL 126 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~--~-p~~~~reILil~gS~~t~-d~g~i~~ti~~-----akk~~IrV~vI~L 126 (324)
..+.++.+||-.|..+|+. . +...+|+|++|.-...-. +..++..++.. ++..+|.+.++.|
T Consensus 102 ~~~~~l~~al~v~~~~~~~~~~~~k~~~krI~l~Td~d~p~~~~~~~~~~~~~l~~~Dl~~~~i~~~~~~l 172 (224)
T PF03731_consen 102 SDEGDLSDALWVASDMFRERTCKKKKNKKRIFLFTDNDGPHEDDDELERIIQKLKAKDLQDNGIEIELFFL 172 (224)
T ss_dssp SS---HHHHHHHHHHHHHCHCTTS-ECEEEEEEEES-SSTTT-CCCHHHHHHHHHHHHHHHHTEEEEEEEC
T ss_pred CCccCHHHHHHHHHHHHHHHhhcccCCCcEEEEEeCCCCCCCCHHHHHHHHHhhccccchhcCcceeEeec
Confidence 4567999999999999986 3 334556665555322222 45556655554 9999999999999
No 61
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=96.98 E-value=0.0098 Score=53.59 Aligned_cols=144 Identities=15% Similarity=0.238 Sum_probs=89.5
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcC----CceEEEEeeCCeeeEeecCCCCHHHHHHHHh-hhcCCCCcchHHHHHHHHH
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPL----SQIGLVTVKDGVANCLTDLGGSPESHIKALM-GKLGCSGDSSLQNALDLVQ 78 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~----sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~-~~~~~~G~~sL~naL~~A~ 78 (324)
.=+++++.-.-++.++++ +.|+|. ..|+||+| +|.|.+..|++.- +.+. ..+...|+|+|+.||+.|+
T Consensus 17 ~Ge~IealN~Glq~m~~~-Lkqdp~Ale~v~lsIVTF-~~~a~~~~pf~~~-----~nF~~p~L~a~GgT~lGaAl~~a~ 89 (207)
T COG4245 17 IGEPIEALNAGLQMMIDT-LKQDPYALERVELSIVTF-GGPARVIQPFTDA-----ANFNPPILTAQGGTPLGAALTLAL 89 (207)
T ss_pred ccccHHHHHHHHHHHHHH-HHhChhhhheeEEEEEEe-cCcceEEechhhH-----hhcCCCceecCCCCchHHHHHHHH
Confidence 446888888889999988 588886 56999999 5789999998532 1111 1124579999999999999
Q ss_pred HHhhCCCC------CC-CceEEEEEeCCCCCCcccHHH--HHHHHHhcC--cEEEEEEcc---chHHHHHHHHHhhCCee
Q 020564 79 GLLSQIPS------YG-HREVLILYSALSTCDPGDIME--TIQKCKESK--IRCSVIGLS---AEMFICKHLCQDTGGSY 144 (324)
Q Consensus 79 ~~L~~~p~------~~-~reILil~gS~~t~d~g~i~~--ti~~akk~~--IrV~vI~Lg---ae~~iLk~ia~~TgG~Y 144 (324)
..+..... ++ =|-.+++++.. + |.|-.. ++...++.. .+|=.+++| ++...|+|+++.-+=-|
T Consensus 90 d~Ie~~~~~~~a~~kgdyrP~vfLiTDG-~--PtD~w~~~~~~~~~~~~~~k~v~a~~~G~~~ad~~~L~qit~~V~~~~ 166 (207)
T COG4245 90 DMIEERKRKYDANGKGDYRPWVFLITDG-E--PTDDWQAGAALVFQGERRAKSVAAFSVGVQGADNKTLNQITEKVRQFL 166 (207)
T ss_pred HHHHHHHhhcccCCccccceEEEEecCC-C--cchHHHhHHHHhhhcccccceEEEEEecccccccHHHHHHHHhhcccc
Confidence 99976511 11 13355555422 2 333232 122222222 334444444 45778888887665333
Q ss_pred EEeCCHHHHHHHHHh
Q 020564 145 SVALDESHFKELIME 159 (324)
Q Consensus 145 ~va~d~~hl~~lL~~ 159 (324)
.+|...|.+++.=
T Consensus 167 --t~d~~~f~~fFkW 179 (207)
T COG4245 167 --TLDGLQFREFFKW 179 (207)
T ss_pred --ccchHHHHHHHHH
Confidence 4477777777643
No 62
>PF10138 vWA-TerF-like: vWA found in TerF C terminus ; InterPro: IPR019303 This entry represents the N-terminal domain of a family of proteins that confer resistance to the metalloid element tellurium and its salts.
Probab=96.90 E-value=0.031 Score=50.93 Aligned_cols=131 Identities=15% Similarity=0.167 Sum_probs=93.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC-CHHHHHHHHhhhc---CCCCcchHHHHHHHHHHHhh
Q 020564 7 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-SPESHIKALMGKL---GCSGDSSLQNALDLVQGLLS 82 (324)
Q Consensus 7 Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~-n~~~~~~~L~~~~---~~~G~~sL~naL~~A~~~L~ 82 (324)
+.+.+.+-+...--. | .+...|=+..|. ....++-++|. |....++.+.... ..-|.+...-+|+.++..-.
T Consensus 22 ~vQ~~~Er~lalA~~-~--DdDG~i~v~~Fs-~~~~~~~~vt~~~~~~~v~~~~~~~~~~~~~G~t~y~~vm~~v~~~y~ 97 (200)
T PF10138_consen 22 TVQRVVERILALAAQ-F--DDDGEIDVWFFS-TEFDRLPDVTLDNYEGYVDELHAGLPDWGRMGGTNYAPVMEDVLDHYF 97 (200)
T ss_pred cHHHHHHHHHHHHhh-c--CCCCceEEEEeC-CCCCcCCCcCHHHHHHHHHHHhccccccCCCCCcchHHHHHHHHHHHh
Confidence 444444444444433 3 567889999995 66778888874 4444555554321 33477999999999999888
Q ss_pred CCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHHhhC
Q 020564 83 QIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTG 141 (324)
Q Consensus 83 ~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~~Tg 141 (324)
...+......++|++.....|...+.+.|..+.+..|-...||+|.+ -.+|+++-++.|
T Consensus 98 ~~~~~~~P~~VlFiTDG~~~~~~~~~~~i~~as~~pifwqFVgiG~~~f~fL~kLD~l~g 157 (200)
T PF10138_consen 98 KREPSDAPALVLFITDGGPDDRRAIEKLIREASDEPIFWQFVGIGDSNFGFLEKLDDLAG 157 (200)
T ss_pred hcCCCCCCeEEEEEecCCccchHHHHHHHHhccCCCeeEEEEEecCCcchHHHHhhccCC
Confidence 55433445666667655555777899999999999999999999975 579999999744
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=96.38 E-value=0.063 Score=56.36 Aligned_cols=124 Identities=12% Similarity=0.135 Sum_probs=88.2
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCC---------eeeEeecCCCCHHHHHHHHhhhcC-----------C
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDG---------VANCLTDLGGSPESHIKALMGKLG-----------C 64 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g---------~a~~l~~lt~n~~~~~~~L~~~~~-----------~ 64 (324)
-++|..+++.+..++.+..-.+|.+.|||+.+.-. ..+++.+|..--.+.++.|+++.. +
T Consensus 33 ~s~~~~al~~i~~l~q~kIis~~~D~vGivlfgT~~t~n~~~~~~i~v~~~L~~p~a~~i~~L~~l~~~~~~~~~~~~~~ 112 (584)
T TIGR00578 33 LTPFDMSIQCIQSVYTSKIISSDKDLLAVVFYGTEKDKNSVNFKNIYVLQELDNPGAKRILELDQFKGDQGPKKFRDTYG 112 (584)
T ss_pred CChHHHHHHHHHHHHHhcCCCCCCCeEEEEEEeccCCCCccCCCceEEEeeCCCCCHHHHHHHHHHhhccCccchhhccC
Confidence 36899999999999999999999999999998422 234467776555666677765422 1
Q ss_pred CCc-chHHHHHHHHHHHhhCC-CCCCCceEEEEEeCCCCC-CcccHH----HHHHHHHhcCcEEEEEEccc
Q 020564 65 SGD-SSLQNALDLVQGLLSQI-PSYGHREVLILYSALSTC-DPGDIM----ETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 65 ~G~-~sL~naL~~A~~~L~~~-p~~~~reILil~gS~~t~-d~g~i~----~ti~~akk~~IrV~vI~Lga 128 (324)
.++ .+|.++|-.|..+|... +..++|||++|.-.+.-. +..+.. .-++-+++.||.|..+.|..
T Consensus 113 ~~~~~~l~daL~~~~~~f~~~~~k~~~kRI~lfTd~D~P~~~~~~~~~~a~~~a~dl~~~gi~ielf~l~~ 183 (584)
T TIGR00578 113 HGSDYSLSEVLWVCANLFSDVQFRMSHKRIMLFTNEDNPHGNDSAKASRARTKAGDLRDTGIFLDLMHLKK 183 (584)
T ss_pred CCCCCcHHHHHHHHHHHHHhcchhhcCcEEEEECCCCCCCCCchhHHHHHHHHHHHHHhcCeEEEEEecCC
Confidence 222 48999999999999864 445677777776322111 112221 24788999999999998864
No 64
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.18 E-value=0.07 Score=57.48 Aligned_cols=130 Identities=16% Similarity=0.244 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCC-----------------------------CHHHHHHHHhh
Q 020564 10 VVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGG-----------------------------SPESHIKALMG 60 (324)
Q Consensus 10 ~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~-----------------------------n~~~~~~~L~~ 60 (324)
++-++++.-+..+-...|.-+||||+|. +..+ +..++. +-+++|+.|-.
T Consensus 438 a~ce~ik~~l~~lp~~~p~~~Vgivtfd-~tvh-Ffnl~s~L~qp~mliVsdv~dvfvPf~~g~~V~~~es~~~i~~lLd 515 (1007)
T KOG1984|consen 438 AACEAIKSVLEDLPREEPNIRVGIVTFD-KTVH-FFNLSSNLAQPQMLIVSDVDDVFVPFLDGLFVNPNESRKVIELLLD 515 (1007)
T ss_pred HHHHHHHHHHhhcCccCCceEEEEEEec-ceeE-eeccCccccCceEEEeecccccccccccCeeccchHHHHHHHHHHH
Confidence 3444555555554456788999999993 3322 222222 12345555543
Q ss_pred hc------CCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcc--------------------------cHH
Q 020564 61 KL------GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG--------------------------DIM 108 (324)
Q Consensus 61 ~~------~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g--------------------------~i~ 108 (324)
.. +..-++.++++|+.|+.+||... + .+++||.+++.+.+.+ .+.
T Consensus 516 ~Ip~mf~~sk~pes~~g~alqaa~lalk~~~--g-GKl~vF~s~Lpt~g~g~kl~~r~D~~l~~t~kek~l~~pq~~~y~ 592 (1007)
T KOG1984|consen 516 SIPTMFQDSKIPESVFGSALQAAKLALKAAD--G-GKLFVFHSVLPTAGAGGKLSNRDDRRLIGTDKEKNLLQPQDKTYT 592 (1007)
T ss_pred HhhhhhccCCCCchhHHHHHHHHHHHHhccC--C-ceEEEEecccccccCcccccccchhhhhcccchhhccCcchhHHH
Confidence 21 13467899999999999999884 3 4688888887776554 123
Q ss_pred HHHHHHHhcCcEEEEEEccc---hHHHHHHHHHhhCCee
Q 020564 109 ETIQKCKESKIRCSVIGLSA---EMFICKHLCQDTGGSY 144 (324)
Q Consensus 109 ~ti~~akk~~IrV~vI~Lga---e~~iLk~ia~~TgG~Y 144 (324)
+.++.+.+.+|-||+..... ++..+-++++.|||+-
T Consensus 593 ~LA~e~v~~g~svDlF~t~~ayvDvAtlg~v~~~TgG~v 631 (1007)
T KOG1984|consen 593 TLAKEFVESGCSVDLFLTPNAYVDVATLGVVPALTGGQV 631 (1007)
T ss_pred HHHHHHHHhCceEEEEEcccceeeeeeecccccccCcee
Confidence 56888889999999988854 4788999999999954
No 65
>PTZ00395 Sec24-related protein; Provisional
Probab=96.08 E-value=0.063 Score=60.35 Aligned_cols=98 Identities=17% Similarity=0.243 Sum_probs=68.2
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCccc-------------------HH-HHHHHHHhcCcEEEEE
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD-------------------IM-ETIQKCKESKIRCSVI 124 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~-------------------i~-~ti~~akk~~IrV~vI 124 (324)
..+..|+.||+.|..+|+... +.-+|++|.+++-+.-+|. .. +.+..+.+.+|-||+.
T Consensus 1073 ~~esCLGSALqAA~~aLk~~G--GGGKIiVF~SSLPniGpGaLK~Re~~~KEk~Ll~pqd~FYK~LA~ECsk~qISVDLF 1150 (1560)
T PTZ00395 1073 SYGSCGNSALKIAMDMLKERN--GLGSICMFYTTTPNCGIGAIKELKKDLQENFLEVKQKIFYDSLLLDLYAFNISVDIF 1150 (1560)
T ss_pred CCcccHHHHHHHHHHHHHhcC--CCceEEEEEcCCCCCCCCcccccccccccccccccchHHHHHHHHHHHhcCCceEEE
Confidence 456899999999999999873 2347888887665443332 23 4688899999999999
Q ss_pred Eccch-----HHHHHHHHHhhCCe-eEE-----eCCHHHHH-HHHHhcCCCC
Q 020564 125 GLSAE-----MFICKHLCQDTGGS-YSV-----ALDESHFK-ELIMEHAPPP 164 (324)
Q Consensus 125 ~Lgae-----~~iLk~ia~~TgG~-Y~v-----a~d~~hl~-~lL~~~~~pp 164 (324)
.++.+ +..|..+++.|||. |+. ..|...|. +++..++..+
T Consensus 1151 LfSsqYvDVDVATLg~Lsr~TGGqlyyYPnFna~rD~~KL~~DL~r~LTre~ 1202 (1560)
T PTZ00395 1151 IISSNNVRVCVPSLQYVAQNTGGKILFVENFLWQKDYKEIYMNIMDTLTSED 1202 (1560)
T ss_pred EccCcccccccccccchhcccceeEEEeCCCcccccHHHHHHHHHHHhhccc
Confidence 88753 46799999999993 222 23443443 4555554333
No 66
>PRK10997 yieM hypothetical protein; Provisional
Probab=96.07 E-value=0.13 Score=52.82 Aligned_cols=99 Identities=13% Similarity=0.162 Sum_probs=70.5
Q ss_pred cCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCC
Q 020564 24 DQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST 101 (324)
Q Consensus 24 ~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t 101 (324)
.....+++++|.|.++.... +++ ....++++.|... ..|+|.+..+|..|+..++... -++..||+++....
T Consensus 355 Al~q~dr~~li~Fs~~i~~~--~l~~~~gl~~ll~fL~~~--f~GGTDl~~aL~~al~~l~~~~--~r~adIVVISDF~~ 428 (487)
T PRK10997 355 ALAENRRCYIMLFSTEVVTY--ELTGPDGLEQAIRFLSQS--FRGGTDLAPCLRAIIEKMQGRE--WFDADAVVISDFIA 428 (487)
T ss_pred HHhcCCCEEEEEecCCceee--ccCCccCHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHcccc--cCCceEEEECCCCC
Confidence 34788999999997654432 333 3455666666543 4788999999999999998642 23456666664433
Q ss_pred C-CcccHHHHHHHHHh-cCcEEEEEEccc
Q 020564 102 C-DPGDIMETIQKCKE-SKIRCSVIGLSA 128 (324)
Q Consensus 102 ~-d~g~i~~ti~~akk-~~IrV~vI~Lga 128 (324)
. .|.++.+.++.+++ .+.|++.+.++.
T Consensus 429 ~~~~eel~~~L~~Lk~~~~~rf~~l~i~~ 457 (487)
T PRK10997 429 QRLPDELVAKVKELQRQHQHRFHAVAMSA 457 (487)
T ss_pred CCChHHHHHHHHHHHHhcCcEEEEEEeCC
Confidence 2 24567888999988 899999999984
No 67
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=95.89 E-value=0.36 Score=44.83 Aligned_cols=121 Identities=12% Similarity=0.117 Sum_probs=80.9
Q ss_pred CCcCCceEEEEeeCCee-----eEeecCCCCHHHHHHHHhhhcCCCCc----chHHHHHHHHHHHhhCCC-------CC-
Q 020564 25 QNPLSQIGLVTVKDGVA-----NCLTDLGGSPESHIKALMGKLGCSGD----SSLQNALDLVQGLLSQIP-------SY- 87 (324)
Q Consensus 25 qNP~sqlGiI~~~~g~a-----~~l~~lt~n~~~~~~~L~~~~~~~G~----~sL~naL~~A~~~L~~~p-------~~- 87 (324)
++...+.|||+++.... -.-+.+|.|+.++++.|+++.-..|+ ..+..||..|+..+...+ ..
T Consensus 58 ~~~~t~y~LVvf~t~d~~~~~~v~~~g~T~~~~~fl~~L~~I~f~GGG~e~~a~iaEGLa~AL~~fd~~~~~r~~~~~~~ 137 (226)
T PF11265_consen 58 DYSNTEYGLVVFNTADCYPEPIVQRSGPTSSPQKFLQWLDAIQFSGGGFESCAAIAEGLAEALQCFDDFKQMRQQQQQTD 137 (226)
T ss_pred cCCCceEEEEEEeccCCCcccceeccCCcCCHHHHHHHHHccCcCCCCcccchhHHHHHHHHHHHhcchhhhccccCccc
Confidence 45778999999975522 22356799999999999987422222 359999999999887432 11
Q ss_pred CCceEEEEEeCCCCCCc---------ccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEE
Q 020564 88 GHREVLILYSALSTCDP---------GDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 146 (324)
Q Consensus 88 ~~reILil~gS~~t~d~---------g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~v 146 (324)
..|..|+|-.|+-..-| ...++.+....+.+|..++|+- -....|+++-+..+|.=..
T Consensus 138 ~~khcILI~nSpP~~~p~~~~~~~~~~~~d~la~~~~~~~I~LSiisP-rklP~l~~Lfeka~~~~~~ 204 (226)
T PF11265_consen 138 VQKHCILICNSPPYRLPVNECPQYSGKTCDQLAVLISERNISLSIISP-RKLPSLRSLFEKAKGNPRA 204 (226)
T ss_pred ccceEEEEeCCCCccccccCCCcccCCCHHHHHHHHHhcCceEEEEcC-ccCHHHHHHHHhcCCCccc
Confidence 23444444434322111 1455678888899999999988 5566778888877765433
No 68
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.87 E-value=0.28 Score=51.91 Aligned_cols=153 Identities=16% Similarity=0.192 Sum_probs=101.3
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecC-----------CCCH----------------------
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL-----------GGSP---------------------- 51 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~l-----------t~n~---------------------- 51 (324)
+.+|+..++.+..++.- ..|...||+|++ |+--.+.++ .|+.
T Consensus 134 eeeL~~LkssL~~~l~l---LP~~alvGlItf--g~~v~v~el~~~~~sk~~VF~G~ke~s~~q~~~~L~~~~~~~~~~~ 208 (745)
T KOG1986|consen 134 EEELQALKSSLKQSLSL---LPENALVGLITF--GTMVQVHELGFEECSKSYVFSGNKEYSAKQLLDLLGLSGGAGKGSE 208 (745)
T ss_pred hHHHHHHHHHHHHHHhh---CCCcceEEEEEe--cceEEEEEcCCCcccceeEEeccccccHHHHHHHhcCCcccccCCc
Confidence 56889999999888876 477888999999 333334444 1111
Q ss_pred ----------------HHHHHHHhhhc-----CCCCc---chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH
Q 020564 52 ----------------ESHIKALMGKL-----GCSGD---SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI 107 (324)
Q Consensus 52 ----------------~~~~~~L~~~~-----~~~G~---~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i 107 (324)
..+.+.|.++. -+.|. -..+.||++|...|...-+....+|+.+.|++-|.-||-+
T Consensus 209 ~~~~~~rFL~P~~~c~~~L~~lle~L~~d~wpV~~g~Rp~RcTG~Al~iA~~Ll~~c~p~~g~rIv~f~gGPcT~GpG~v 288 (745)
T KOG1986|consen 209 NQSASNRFLLPAQECEFKLTNLLEELQPDPWPVPPGHRPLRCTGVALSIASGLLEGCFPNTGARIVLFAGGPCTRGPGTV 288 (745)
T ss_pred ccccchhhhccHHHHHHHHHHHHHHhcCCCCCCCCCCCcccchhHHHHHHHHHhcccCCCCcceEEEeccCCCCcCCcee
Confidence 01111122211 02232 4788999999999987644455679999888766555421
Q ss_pred ------------------------------HHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeCC--HHH
Q 020564 108 ------------------------------METIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALD--ESH 152 (324)
Q Consensus 108 ------------------------------~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~d--~~h 152 (324)
.+.++.+.++|-.+|+.+-+-+ +..+|.+++.|||.-....+ .+-
T Consensus 289 v~~el~~piRshhdi~~d~a~y~kKa~KfY~~La~r~~~~ghvlDifa~~lDQvGi~EMk~l~~~TGG~lvl~dsF~~s~ 368 (745)
T KOG1986|consen 289 VSRELKEPIRSHHDIEKDNAPYYKKAIKFYEKLAERLANQGHVLDIFAAALDQVGILEMKPLVESTGGVLVLGDSFNTSI 368 (745)
T ss_pred cchhhcCCCcCcccccCcchHHHHHHHHHHHHHHHHHHhCCceEeeeeeeccccchHHHHHHhhcCCcEEEEecccchHH
Confidence 2457778889999998766533 56799999999997755544 456
Q ss_pred HHHHHHhcCC
Q 020564 153 FKELIMEHAP 162 (324)
Q Consensus 153 l~~lL~~~~~ 162 (324)
|++-|..++.
T Consensus 369 Fk~sfqR~f~ 378 (745)
T KOG1986|consen 369 FKQSFQRIFT 378 (745)
T ss_pred HHHHHHHHhc
Confidence 8887877775
No 69
>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=94.77 E-value=0.54 Score=43.10 Aligned_cols=108 Identities=17% Similarity=0.193 Sum_probs=73.8
Q ss_pred HHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhh-cCCCCcchHHHHHHHHHHHhhCCCCCCCc
Q 020564 14 QVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGK-LGCSGDSSLQNALDLVQGLLSQIPSYGHR 90 (324)
Q Consensus 14 ~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~-~~~~G~~sL~naL~~A~~~L~~~p~~~~r 90 (324)
.+..|+.....+.+ ++.++.|.+. ...+++.- .++.+.+..+... ..-.|+|.|+.||+.+...+.... . .+
T Consensus 76 ~~l~~~~~l~~~~~--~~~~f~F~~~-l~~vT~~l~~~~~~~~l~~~~~~~~~~~GgTdi~~aL~~~~~~~~~~~-~-~~ 150 (222)
T PF05762_consen 76 FMLAFLYALQRQFR--RVRVFVFSTR-LTEVTPLLRRRDPEEALARLSALVQSFGGGTDIGQALREFLRQYARPD-L-RR 150 (222)
T ss_pred HHHHHHHHHHHhCC--CEEEEEEeee-hhhhhhhhccCCHHHHHHHHHhhccCCCCccHHHHHHHHHHHHhhccc-c-cC
Confidence 45567777666666 8999999643 34444442 3666666666432 235789999999999998887431 2 45
Q ss_pred eEEEEEeCC-CCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 91 EVLILYSAL-STCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 91 eILil~gS~-~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
-+|||+|.. .+.++....+.+..+++.+.+|..+.=
T Consensus 151 t~vvIiSDg~~~~~~~~~~~~l~~l~~r~~rviwLnP 187 (222)
T PF05762_consen 151 TTVVIISDGWDTNDPEPLAEELRRLRRRGRRVIWLNP 187 (222)
T ss_pred cEEEEEecccccCChHHHHHHHHHHHHhCCEEEEECC
Confidence 577777755 455666677889999999988775543
No 70
>COG2304 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.88 E-value=0.75 Score=44.70 Aligned_cols=136 Identities=18% Similarity=0.241 Sum_probs=96.6
Q ss_pred HHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC--CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCC-
Q 020564 8 MAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG--GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI- 84 (324)
Q Consensus 8 l~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt--~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~- 84 (324)
+.-++.....+++. .++.+.+.++++.. .+..+.+.+ .+...+..++.......|.+.+..++..+...+...
T Consensus 55 ~~~~~~~~~~~v~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 130 (399)
T COG2304 55 LELAKSAAIELVNG---LNPGDLLSIVTFAG-SADVLIPPTGATNKESITAAIDQSLQAGGATAVEASLSLAVELAAKAL 130 (399)
T ss_pred HHHHHHHHHHHhcc---cCCCCceEEEEecC-CcceecCcccccCHHHHHHHHhhhhccccccHHHHHHHHHHHHhhhcC
Confidence 45566666666666 49999999999975 888888877 777788888887556788899999999999888874
Q ss_pred CCCCCceEEEEEeCCCCC---CcccHHHHHHHHHhcCcEEEEEEccchH--HHHHHHHHhhCCeeEEe
Q 020564 85 PSYGHREVLILYSALSTC---DPGDIMETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSVA 147 (324)
Q Consensus 85 p~~~~reILil~gS~~t~---d~g~i~~ti~~akk~~IrV~vI~Lgae~--~iLk~ia~~TgG~Y~va 147 (324)
+.....++++...+.... |+..++...+..-+.+|.++++|++.+. ..+..+...++|.+...
T Consensus 131 ~~~~~~~~~~~tdg~~~~~~~d~~~~~~~~~~~~~~~i~~~~~g~~~~~n~~~~~~~~~~~~g~l~~~ 198 (399)
T COG2304 131 PRGTLNRILLLTDGENNLGLVDPSRLSALAKLAAGKGIVLDTLGLGDDVNEDELTGIAAAANGNLAFI 198 (399)
T ss_pred CccceeeEeeeccCccccCCCCHHHHHHHhcccccCceEEEEEecccccchhhhhhhhhccCcccccc
Confidence 333333455554433332 3444555666666679999999999773 45667778877766433
No 71
>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=93.74 E-value=1.3 Score=38.29 Aligned_cols=120 Identities=13% Similarity=0.236 Sum_probs=71.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCee-----eEeecCCCCH--------HHHHHHHhhhc---CCCCc
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-----NCLTDLGGSP--------ESHIKALMGKL---GCSGD 67 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a-----~~l~~lt~n~--------~~~~~~L~~~~---~~~G~ 67 (324)
.||.++.++.++-+.+..| ++..++-+..|.++.. .---||++|+ +.++++-++.. ...|-
T Consensus 9 ~~N~Y~~ai~~vg~il~~Y---d~dk~~p~~GFGa~~~~~~~vsh~F~ln~~~~~p~~~Gi~gvl~~Y~~~~~~v~l~GP 85 (146)
T PF07002_consen 9 QPNPYQQAIRAVGEILQDY---DSDKMIPAYGFGAKIPPDYSVSHCFPLNGNPQNPECQGIDGVLEAYRKALPKVQLSGP 85 (146)
T ss_pred CCCHHHHHHHHHHHHHHhh---ccCCccceeccCCcCCCCcccccceeeecCCCCCcccCHHHHHHHHHHHhhheEECCC
Confidence 4899999999999999998 6777777777754432 1124566654 34565555432 46788
Q ss_pred chHHHHHHHHHHHhhCCCCC-CCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 68 SSLQNALDLVQGLLSQIPSY-GHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~-~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
|.+.--|+.|...-+..... .+=-||+|++...-.|-..-.++|-.|.+.-+-|=+||+
T Consensus 86 T~fapiI~~a~~~a~~~~~~~~~Y~iLlIlTDG~i~D~~~T~~aIv~AS~~PlSIIiVGV 145 (146)
T PF07002_consen 86 TNFAPIINHAAKIAKQSNQNGQQYFILLILTDGQITDMEETIDAIVEASKLPLSIIIVGV 145 (146)
T ss_pred ccHHHHHHHHHHHHhhhccCCceEEEEEEecccccccHHHHHHHHHHHccCCeEEEEEEe
Confidence 88888887777777642111 112488888744332332223344444444444444444
No 72
>COG2425 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.71 E-value=0.57 Score=47.53 Aligned_cols=134 Identities=12% Similarity=0.038 Sum_probs=91.5
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCee-eEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCC
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA-NCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQI 84 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a-~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~ 84 (324)
+..++++..+...++-=+. -.-++.++.|++..- ..+++...|.+++++.|... ..|+|.+..+|..|+..++..
T Consensus 288 ~~e~~AKAvalAl~~~ala--enR~~~~~lF~s~~~~~el~~k~~~~~e~i~fL~~~--f~GGTD~~~~l~~al~~~k~~ 363 (437)
T COG2425 288 FKEQWAKAVALALMRIALA--ENRDCYVILFDSEVIEYELYEKKIDIEELIEFLSYV--FGGGTDITKALRSALEDLKSR 363 (437)
T ss_pred cHHHHHHHHHHHHHHHHHH--hccceEEEEecccceeeeecCCccCHHHHHHHHhhh--cCCCCChHHHHHHHHHHhhcc
Confidence 4556666655555544333 334689999976322 23456666778888877664 344499999999999999988
Q ss_pred CCCCCceEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccchH-HHHHHHHHhhCCeeEEe
Q 020564 85 PSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEM-FICKHLCQDTGGSYSVA 147 (324)
Q Consensus 85 p~~~~reILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae~-~iLk~ia~~TgG~Y~va 147 (324)
+-+. -.||+|.-.-..-+ .++. +.-+..++.+.+++.|.+++.- .-|++|.+.+ .|.+.
T Consensus 364 ~~~~-adiv~ITDg~~~~~-~~~~~~v~e~~k~~~~rl~aV~I~~~~~~~l~~Isd~~--i~~~~ 424 (437)
T COG2425 364 ELFK-ADIVVITDGEDERL-DDFLRKVKELKKRRNARLHAVLIGGYGKPGLMRISDHI--IYRVE 424 (437)
T ss_pred cccC-CCEEEEeccHhhhh-hHHHHHHHHHHHHhhceEEEEEecCCCCcccceeeeee--EEeeC
Confidence 7666 55777753332222 2333 5677777999999999999876 7788888887 66553
No 73
>COG4867 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=93.70 E-value=1.5 Score=44.38 Aligned_cols=125 Identities=14% Similarity=0.158 Sum_probs=81.7
Q ss_pred CCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc-CCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEE-eCCCC-
Q 020564 25 QNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILY-SALST- 101 (324)
Q Consensus 25 qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~-~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~-gS~~t- 101 (324)
+=|-+.|.+|+|. ..|+.+. ++.|-.+. ...-.|.+..||.+|-..|++-++ ..+.|||+. |-++.
T Consensus 499 rfrGD~l~~i~Fg-r~A~~v~---------v~eLt~l~~v~eqgTNlhhaL~LA~r~l~Rh~~-~~~~il~vTDGePtAh 567 (652)
T COG4867 499 RFRGDALQIIAFG-RYARTVT---------AAELTGLAGVYEQGTNLHHALALAGRHLRRHAG-AQPVVLVVTDGEPTAH 567 (652)
T ss_pred cCCCcceEEEecc-chhcccC---------HHHHhcCCCccccccchHHHHHHHHHHHHhCcc-cCceEEEEeCCCcccc
Confidence 4588999999995 4444321 23443331 122348999999999999998753 344466665 22211
Q ss_pred --------------CCcccHHHH---HHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 102 --------------CDPGDIMET---IQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 102 --------------~d~g~i~~t---i~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
-||..|..| .....+.||.|.+.-||.+ ++++++++++|+|+-+++.-.+-=..++.++
T Consensus 568 le~~DG~~~~f~yp~DP~t~~~Tvr~~d~~~r~G~q~t~FrLg~DpgL~~Fv~qva~rv~G~vv~pdldglGaaVvgdy 646 (652)
T COG4867 568 LEDGDGTSVFFDYPPDPRTIAHTVRGFDDMARLGAQVTIFRLGSDPGLARFIDQVARRVQGRVVVPDLDGLGAAVVGDY 646 (652)
T ss_pred ccCCCCceEecCCCCChhHHHHHHHHHHHHHhccceeeEEeecCCHhHHHHHHHHHHHhCCeEEecCcchhhHHHHHHH
Confidence 133334443 5668899999999999976 5899999999999987774333323444443
No 74
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=93.26 E-value=0.11 Score=49.39 Aligned_cols=40 Identities=33% Similarity=0.722 Sum_probs=33.5
Q ss_pred eeEcCCCCcccccCC-----------------CCCCCCCceecCchhHHhhhc-ccCC
Q 020564 203 GYTCPRCKARVCELP-----------------TDCRICGLQLVSSPHLARSYH-HLFP 242 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP-----------------~~C~~C~l~Lvs~~hLarsyh-hl~p 242 (324)
-|.|+.|+..|-... -.|++||..-||-|-|+.-.. |-.|
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 799999999888665 389999999999999997655 6544
No 75
>COG5028 Vesicle coat complex COPII, subunit SEC24/subunit SFB2/subunit SFB3 [Intracellular trafficking and secretion]
Probab=92.82 E-value=1.3 Score=47.56 Aligned_cols=75 Identities=24% Similarity=0.392 Sum_probs=55.7
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCccc------------------HHHHHHHHHhcCcEEEEEEc
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD------------------IMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~------------------i~~ti~~akk~~IrV~vI~L 126 (324)
.-+..+|+||+.|...++.. ..+|+++++++-+---|+ +.+.+..+.|.+|-||+...
T Consensus 385 ~pk~~~G~aLk~a~~l~g~~----GGkii~~~stlPn~G~Gkl~~r~d~e~~ll~c~d~fYk~~a~e~~k~gIsvd~Flt 460 (861)
T COG5028 385 SPKNALGPALKAAKSLIGGT----GGKIIVFLSTLPNMGIGKLQLREDKESSLLSCKDSFYKEFAIECSKVGISVDLFLT 460 (861)
T ss_pred CCccccCHHHHHHHHHhhcc----CceEEEEeecCCCcccccccccccchhhhccccchHHHHHHHHHHHhcceEEEEec
Confidence 34579999999999998876 235777776532221111 22457788999999999888
Q ss_pred cc---hHHHHHHHHHhhCCe
Q 020564 127 SA---EMFICKHLCQDTGGS 143 (324)
Q Consensus 127 ga---e~~iLk~ia~~TgG~ 143 (324)
.+ ++..+-.+++.|||+
T Consensus 461 ~~~yidvaTls~l~~~T~G~ 480 (861)
T COG5028 461 SEDYIDVATLSHLCRYTGGQ 480 (861)
T ss_pred cccccchhhhcchhhccCcc
Confidence 65 588999999999995
No 76
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=92.76 E-value=0.063 Score=40.00 Aligned_cols=37 Identities=19% Similarity=0.477 Sum_probs=20.8
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccccchh
Q 020564 259 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY 299 (324)
Q Consensus 259 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~f 299 (324)
......|..|.++|.-. ..++-|..|+..||.+|-.+
T Consensus 6 d~~~~~C~~C~~~F~~~----~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLF----RRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GGG-SB-TTT--B-BSS----S-EEE-TTT--EEECCCS-E
T ss_pred CCCCCcCcCcCCcCCCc----eeeEccCCCCCEECCchhCC
Confidence 34567899999999532 34789999999999999753
No 77
>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=92.09 E-value=6.3 Score=39.92 Aligned_cols=151 Identities=17% Similarity=0.148 Sum_probs=93.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCee----------------------------eEeecCCCCHHHHHHHH
Q 020564 7 RMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA----------------------------NCLTDLGGSPESHIKAL 58 (324)
Q Consensus 7 Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a----------------------------~~l~~lt~n~~~~~~~L 58 (324)
-++..+.....+.++.=+.-..-|||+=+|-|+.. .-+-+||.|..+..+++
T Consensus 115 dl~~lk~lg~~L~~~m~~it~n~rlGfGsFVDK~v~P~~~t~p~~l~~PC~~~~~~c~p~f~f~~~L~LT~~~~~F~~~V 194 (423)
T smart00187 115 DLDNLKSLGDDLAREMKGLTSNFRLGFGSFVDKTVSPFVSTRPEKLENPCPNYNLTCEPPYGFKHVLSLTDDTDEFNEEV 194 (423)
T ss_pred HHHHHHHHHHHHHHHHHhcccCceeeEEEeecCccCCcccCCHHHhcCCCcCCCCCcCCCcceeeeccCCCCHHHHHHHH
Confidence 45566666677777766667888999988877622 23467888988888888
Q ss_pred hhhc------CCCCcchHHHHHHHHHHHhhCCC-CCCCceEEEEEeCCCC------------------------------
Q 020564 59 MGKL------GCSGDSSLQNALDLVQGLLSQIP-SYGHREVLILYSALST------------------------------ 101 (324)
Q Consensus 59 ~~~~------~~~G~~sL~naL~~A~~~L~~~p-~~~~reILil~gS~~t------------------------------ 101 (324)
.+.. .++|+. +||..|.-.-+.+- ....||+|||.+....
T Consensus 195 ~~~~iSgN~D~PEgG~---DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~Yt~s 271 (423)
T smart00187 195 KKQRISGNLDAPEGGF---DAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNGEYTMS 271 (423)
T ss_pred hhceeecCCcCCcccH---HHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCCCcCcc
Confidence 7542 144432 23332221112221 1346789998752211
Q ss_pred --CCcccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHHhhCCeeE--EeCCHHHHHHHHHhcC
Q 020564 102 --CDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQDTGGSYS--VALDESHFKELIMEHA 161 (324)
Q Consensus 102 --~d~g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~~TgG~Y~--va~d~~hl~~lL~~~~ 161 (324)
-|.-.|-+..+.|++++|.+= .++..+ ..+.+++++...|... ...|....-+|..+-.
T Consensus 272 ~~~DYPSi~ql~~kL~e~nI~~I-FAVT~~~~~~Y~~Ls~lipgs~vg~Ls~DSsNIv~LI~~aY 335 (423)
T smart00187 272 TTQDYPSIGQLNQKLAENNINPI-FAVTKKQVSLYKELSALIPGSSVGVLSEDSSNVVELIKDAY 335 (423)
T ss_pred CcCCCCCHHHHHHHHHhcCceEE-EEEcccchhHHHHHHHhcCcceeeecccCcchHHHHHHHHH
Confidence 155577789999999999653 344444 5799999999998873 3445555555544433
No 78
>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 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=91.51 E-value=5.4 Score=36.60 Aligned_cols=104 Identities=18% Similarity=0.278 Sum_probs=71.7
Q ss_pred CCcCCceEEEEe--eC-CeeeEeecCC--CCHHH---HHHHHhhhc-CCCCcchHHHHHHHHHHHhhCCCCCCCceEEEE
Q 020564 25 QNPLSQIGLVTV--KD-GVANCLTDLG--GSPES---HIKALMGKL-GCSGDSSLQNALDLVQGLLSQIPSYGHREVLIL 95 (324)
Q Consensus 25 qNP~sqlGiI~~--~~-g~a~~l~~lt--~n~~~---~~~~L~~~~-~~~G~~sL~naL~~A~~~L~~~p~~~~reILil 95 (324)
..|..+|+|-.+ .+ +...++.|-| .++++ ..+.|...- ...+.|+|++||..|...|...|....|+||=+
T Consensus 43 ~g~~g~Iav~~~eWsg~~~q~~~v~Wt~i~~~~da~a~A~~l~~~~r~~~~~Taig~Al~~a~~ll~~~~~~~~RrVIDv 122 (205)
T PF06707_consen 43 SGPIGRIAVAVVEWSGPGRQRVVVPWTRIDSPADAEAFAARLRAAPRRFGGRTAIGSALDFAAALLAQNPFECWRRVIDV 122 (205)
T ss_pred cCCCCeEEEEEEEecCCCCceEEeCCEEeCCHHHHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHhCCCCCceEEEEE
Confidence 367788877665 22 2445566654 33443 344444321 234559999999999999999987799999999
Q ss_pred EeCCCCCCcc--cHHHHHHHHHhcCcEEEEEEccch
Q 020564 96 YSALSTCDPG--DIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 96 ~gS~~t~d~g--~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
.|...+ |.| ....+-+.+...||.|+-+.+..+
T Consensus 123 SGDG~~-N~G~~p~~~ard~~~~~GitINgL~I~~~ 157 (205)
T PF06707_consen 123 SGDGPN-NQGPRPVTSARDAAVAAGITINGLAILDD 157 (205)
T ss_pred CCCCCC-CCCCCccHHHHHHHHHCCeEEeeeEecCC
Confidence 884444 333 333677888999999998888754
No 80
>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=91.17 E-value=5.1 Score=37.84 Aligned_cols=132 Identities=12% Similarity=0.165 Sum_probs=85.4
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCee--eEeecCC-CCH--------HHHHHHHhhhc---CCCCcch
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVA--NCLTDLG-GSP--------ESHIKALMGKL---GCSGDSS 69 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a--~~l~~lt-~n~--------~~~~~~L~~~~---~~~G~~s 69 (324)
.||-++.+++.+-.-+..| +...++-+.+|.++.. ..++++- +|+ +.++++-++.+ ...|.|.
T Consensus 60 ~~N~Yq~aI~~vg~il~~y---D~D~~ip~~GFGa~~~~~~~v~~~f~~~~~~p~~~Gi~gvl~aY~~~l~~v~lsGpT~ 136 (254)
T cd01459 60 RLNPYQKAIRIVGEVLQPY---DSDKLIPAFGFGAIVTKDQSVFSFFPGYSESPECQGFEGVLRAYREALPNVSLSGPTN 136 (254)
T ss_pred CccHHHHHHHHHHHHHHhc---CCCCceeeEeecccCCCCCccccccCCCCCCCcccCHHHHHHHHHHHhceeeecCcch
Confidence 4678888888888888887 7778899998864321 1122221 222 45665555432 3568788
Q ss_pred HHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-HHHHHHHHH
Q 020564 70 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-MFICKHLCQ 138 (324)
Q Consensus 70 L~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-~~iLk~ia~ 138 (324)
+.-.|..|...-+.....++--||+|++...-.|.....++|..|.+.-|-|=+||+|.. -..++++-.
T Consensus 137 fapvI~~a~~~a~~~~~~~~Y~VLLIiTDG~i~D~~~t~~aIv~AS~~PlSIiiVGVGd~~F~~M~~LD~ 206 (254)
T cd01459 137 FAPVIRAAANIAKASNSQSKYHILLIITDGEITDMNETIKAIVEASKYPLSIVIVGVGDGPFDAMERLDD 206 (254)
T ss_pred HHHHHHHHHHHHHHhcCCCceEEEEEECCCCcccHHHHHHHHHHHhcCCeEEEEEEeCCCChHHHHHhcC
Confidence 888888777766654322234578888755444555566778888888888888888754 456666654
No 81
>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=91.11 E-value=2.2 Score=37.68 Aligned_cols=113 Identities=14% Similarity=0.135 Sum_probs=67.6
Q ss_pred HHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc-----------------------------CC
Q 020564 14 QVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL-----------------------------GC 64 (324)
Q Consensus 14 ~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~-----------------------------~~ 64 (324)
.+.+|+-..-.+|+.-+|+|.+=.++.+. ..+..|.+.+++.+.+.. ..
T Consensus 8 ~~~~~~~~~~~~~~~~riAvfID~~Nv~~--~~~~~d~~~i~~~ls~~G~i~~~R~Y~~a~a~~~l~~~l~~~Gf~pv~~ 85 (160)
T TIGR00288 8 SLKEYISIKKKRKGEKKIGLLVDGPNMLR--KEFNIDLDEIREILSEYGDIKIGKVLLNQYASDKLIEAVVNQGFEPIIV 85 (160)
T ss_pred chhhheEeccccCCCCcEEEEEeCCccCh--hhhccCHHHHHHHHHhcCCeEEEEEEechhccHHHHHHHHHCCceEEEe
Confidence 35556555556777888888876555432 222345555555554211 02
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHH
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQ 138 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~ 138 (324)
+|.+.+ +||+.++.-.-+ ..=..+||++|+ +|+.-.+..+++.|.+|.++|... -..-|++.|+
T Consensus 86 kG~~Dv----~laIDame~~~~-~~iD~~vLvSgD-----~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd 150 (160)
T TIGR00288 86 AGDVDV----RMAVEAMELIYN-PNIDAVALVTRD-----ADFLPVINKAKENGKETIVIGAEPGFSTALQNSAD 150 (160)
T ss_pred cCcccH----HHHHHHHHHhcc-CCCCEEEEEecc-----HhHHHHHHHHHHCCCEEEEEeCCCCChHHHHHhcC
Confidence 343333 344444443310 112467777766 578899999999999999999754 3457888886
No 82
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=89.80 E-value=0.26 Score=46.79 Aligned_cols=75 Identities=27% Similarity=0.653 Sum_probs=47.0
Q ss_pred eeEcCCCCccccc------------CCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccc
Q 020564 203 GYTCPRCKARVCE------------LPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQ 270 (324)
Q Consensus 203 Gy~Cp~C~s~~C~------------lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~ 270 (324)
.+.|+.|...|=+ ||-+|.+||..|-- |-|-.. |+ .+ -+-...-.|.-|.+
T Consensus 161 a~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSR-PWLLQG--Hi---------RT-----HTGEKPF~C~hC~k 223 (279)
T KOG2462|consen 161 AFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSR-PWLLQG--HI---------RT-----HTGEKPFSCPHCGK 223 (279)
T ss_pred cccCCCCCceeeehHHHhhHhhccCCCcccccccccccc-hHHhhc--cc---------cc-----ccCCCCccCCcccc
Confidence 7899999998875 56799999987521 111000 11 00 00011336999999
Q ss_pred cccCCCC--------CCCceeeCCCCCccccc
Q 020564 271 SLLSSGN--------KPGLYVACPKCKKHFCL 294 (324)
Q Consensus 271 ~~~~~~~--------~~~~~~~C~~C~~~fC~ 294 (324)
.|.+..+ .+...|+|++|++.|=.
T Consensus 224 AFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 224 AFADRSNLRAHMQTHSDVKKHQCPRCGKSFAL 255 (279)
T ss_pred hhcchHHHHHHHHhhcCCccccCcchhhHHHH
Confidence 9987531 12236999999998843
No 83
>KOG1985 consensus Vesicle coat complex COPII, subunit SEC24/subunit SFB2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.51 E-value=5.3 Score=43.40 Aligned_cols=75 Identities=23% Similarity=0.332 Sum_probs=56.0
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcc------------------------cHHH-HHHHHHhcCc
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPG------------------------DIME-TIQKCKESKI 119 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g------------------------~i~~-ti~~akk~~I 119 (324)
+-+.+||.||+.|...|...- .||+||.+++-+--.| ++.+ .+-.+-|.+|
T Consensus 402 ~t~~alGpALkaaf~li~~~G----Gri~vf~s~lPnlG~G~L~~rEdp~~~~s~~~~qlL~~~t~FYK~~a~~cs~~qI 477 (887)
T KOG1985|consen 402 STGSALGPALKAAFNLIGSTG----GRISVFQSTLPNLGAGKLKPREDPNVRSSDEDSQLLSPATDFYKDLALECSKSQI 477 (887)
T ss_pred CcccccCHHHHHHHHHHhhcC----CeEEEEeccCCCCCccccccccccccccchhhhhccCCCchHHHHHHHHhccCce
Confidence 345799999999999999872 2688887554321111 2333 4566889999
Q ss_pred EEEEEEccc---hHHHHHHHHHhhCCe
Q 020564 120 RCSVIGLSA---EMFICKHLCQDTGGS 143 (324)
Q Consensus 120 rV~vI~Lga---e~~iLk~ia~~TgG~ 143 (324)
.||...+.. ++..|..|++-|||.
T Consensus 478 ~VDlFl~s~qY~DlAsLs~LskySgG~ 504 (887)
T KOG1985|consen 478 CVDLFLFSEQYTDLASLSCLSKYSGGQ 504 (887)
T ss_pred EEEEEeecccccchhhhhccccccCce
Confidence 999999985 578999999999993
No 84
>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=88.61 E-value=0.3 Score=42.78 Aligned_cols=26 Identities=31% Similarity=0.534 Sum_probs=22.3
Q ss_pred eeEcCCCCccccc-----CCCCCCCCCceec
Q 020564 203 GYTCPRCKARVCE-----LPTDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~-----lP~~C~~C~l~Lv 228 (324)
+|+||+|+.+|-. .--.||.||.+|+
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 9999999999863 4569999999986
No 85
>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=88.09 E-value=0.4 Score=31.31 Aligned_cols=24 Identities=33% Similarity=0.778 Sum_probs=19.7
Q ss_pred eeEcCCCCccccc--CCCCCCCCCce
Q 020564 203 GYTCPRCKARVCE--LPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~--lP~~C~~C~l~ 226 (324)
-|+|+.|+-++=. .|..||+||..
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCc
Confidence 4899999998654 57899999963
No 86
>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=87.80 E-value=0.3 Score=34.71 Aligned_cols=34 Identities=26% Similarity=0.729 Sum_probs=27.7
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhh
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI 300 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fi 300 (324)
..|..|.+.|... ...+.|..|+..||.+|..+-
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 4699999999742 235889999999999998764
No 87
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=87.05 E-value=0.39 Score=42.92 Aligned_cols=27 Identities=30% Similarity=0.618 Sum_probs=23.0
Q ss_pred eeEcCCCCccccc-----CCCCCCCCCceecC
Q 020564 203 GYTCPRCKARVCE-----LPTDCRICGLQLVS 229 (324)
Q Consensus 203 Gy~Cp~C~s~~C~-----lP~~C~~C~l~Lvs 229 (324)
+|+||+|+.+|-. .--.||.||..|+-
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 44699999999874
No 88
>PRK04023 DNA polymerase II large subunit; Validated
Probab=86.31 E-value=0.45 Score=52.40 Aligned_cols=68 Identities=29% Similarity=0.595 Sum_probs=43.5
Q ss_pred cccCCCCCCcccCccC--CCC-----CCCCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhhcCC
Q 020564 238 HHLFPIAPFDEVTPLC--LND-----PRNRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHESLH 305 (324)
Q Consensus 238 hhl~p~~~f~~~~~~~--~~~-----~~~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----fC~dCd~fihe~lh 305 (324)
|-|||+...--...++ +.. .-..+...|..|.... ..++||+|+.. ||.+|-.-... -
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 7799987764322110 000 0112456999998553 24789999964 99999765543 4
Q ss_pred CCCCCCCCCC
Q 020564 306 NCPGCESLRH 315 (324)
Q Consensus 306 ~CpgC~~~~~ 315 (324)
.||.|.....
T Consensus 665 ~CPKCG~El~ 674 (1121)
T PRK04023 665 ECEKCGREPT 674 (1121)
T ss_pred cCCCCCCCCC
Confidence 4999987554
No 89
>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=84.40 E-value=0.85 Score=29.39 Aligned_cols=22 Identities=36% Similarity=0.827 Sum_probs=18.3
Q ss_pred eEcCCCCcccccC--CCCCCCCCc
Q 020564 204 YTCPRCKARVCEL--PTDCRICGL 225 (324)
Q Consensus 204 y~Cp~C~s~~C~l--P~~C~~C~l 225 (324)
|+|+.|+-++=.- |-.||+||.
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCCC
Confidence 8899999887654 679999986
No 90
>PRK12496 hypothetical protein; Provisional
Probab=83.83 E-value=5.2 Score=35.26 Aligned_cols=94 Identities=18% Similarity=0.246 Sum_probs=52.6
Q ss_pred cHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCCC
Q 020564 106 DIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQRA 184 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mGfP~~~ 184 (324)
.+..+.+.|++-| |.-.|+. |..++ .+|.+.+| .+.+|+-.++.+...+-.+-... . ...
T Consensus 59 ~i~~v~~~a~~tg---d~~~Ls~~D~~~i-aLA~el~~--~lvtDD~~~~~vA~~lgi~v~~~--------~-----~~~ 119 (164)
T PRK12496 59 SIEKVEEAAIKTG---DLMRLSNTDIEVL-ALALELNG--TLYTDDYGIQNVAKKLNIKFENI--------K-----TKG 119 (164)
T ss_pred HHHHHHHHHHhcC---CccccchhhHHHH-HHHHHhCC--cEECcHHHHHHHHHHcCCeEecc--------c-----ccc
Confidence 4455666666654 2222443 33333 35666666 45567777776666555332110 0 000
Q ss_pred CCCCccceeecCCccccCeeEcCCCCcccccCC--CCCCCCCceecC
Q 020564 185 GEGSISICSCHKEVKVGVGYTCPRCKARVCELP--TDCRICGLQLVS 229 (324)
Q Consensus 185 ~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP--~~C~~C~l~Lvs 229 (324)
. .+.... .|.|+-|+..|=+-+ -.||+||..|.-
T Consensus 120 i----------~~~~~w-~~~C~gC~~~~~~~~~~~~C~~CG~~~~r 155 (164)
T PRK12496 120 I----------KKVIKW-RKVCKGCKKKYPEDYPDDVCEICGSPVKR 155 (164)
T ss_pred c----------hhheee-eEECCCCCccccCCCCCCcCCCCCChhhh
Confidence 0 122334 799999999986544 469999988643
No 91
>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=82.28 E-value=0.96 Score=32.41 Aligned_cols=42 Identities=26% Similarity=0.639 Sum_probs=25.8
Q ss_pred Ccccc--ccccccCCCCCCCceeeCCCCCcccccccchhhhhcC
Q 020564 263 STCFG--CQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 304 (324)
Q Consensus 263 ~~C~~--C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~l 304 (324)
+.|.. |...+............|+.|+..||..|..=.|+.+
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~ 62 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGV 62 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCC
Confidence 58966 9887765433222236899999999999998888754
No 92
>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=81.94 E-value=4.2 Score=34.12 Aligned_cols=43 Identities=16% Similarity=0.277 Sum_probs=33.2
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc-chHHHHHHHHH
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-AEMFICKHLCQ 138 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg-ae~~iLk~ia~ 138 (324)
..+||++++ +|+..+++.+++.|.+|-+++.. ....-|+..|+
T Consensus 101 d~ivLvSgD-----~Df~~~i~~lr~~G~~V~v~~~~~~~s~~L~~~~d 144 (149)
T cd06167 101 DTIVLVSGD-----SDFVPLVERLRELGKRVIVVGFEAKTSRELRKAAD 144 (149)
T ss_pred CEEEEEECC-----ccHHHHHHHHHHcCCEEEEEccCccChHHHHHhCC
Confidence 456666655 37889999999999999999997 44566777665
No 93
>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=81.90 E-value=0.93 Score=30.83 Aligned_cols=30 Identities=27% Similarity=0.544 Sum_probs=24.8
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
.|+|++|++.|=.---+-- +....||.|..
T Consensus 5 ey~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EEEeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 5899999999988766544 58889999987
No 94
>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=81.40 E-value=1 Score=30.91 Aligned_cols=28 Identities=29% Similarity=0.869 Sum_probs=21.7
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECD 297 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dCd 297 (324)
.|-+|..++.. .||+|..| .-..|.+|-
T Consensus 2 ~Cd~C~~~i~G------~ry~C~~C~d~dLC~~C~ 30 (43)
T cd02340 2 ICDGCQGPIVG------VRYKCLVCPDYDLCESCE 30 (43)
T ss_pred CCCCCCCcCcC------CeEECCCCCCccchHHhh
Confidence 58999975532 48999999 577888883
No 95
>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=81.29 E-value=0.73 Score=38.05 Aligned_cols=28 Identities=36% Similarity=0.859 Sum_probs=24.3
Q ss_pred eeEcCCCCcccccC---CCCCCCCCceecCc
Q 020564 203 GYTCPRCKARVCEL---PTDCRICGLQLVSS 230 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lvs~ 230 (324)
-.+||-|++||=.| |..||-||..+..+
T Consensus 9 KR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 9 KRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 47899999999876 68899999998766
No 96
>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=80.79 E-value=0.9 Score=30.67 Aligned_cols=42 Identities=24% Similarity=0.472 Sum_probs=29.6
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCC
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGC 310 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC 310 (324)
.|.-|+..+... ......+ |++.||.+|=.-.=+.-..||-|
T Consensus 2 ~C~IC~~~~~~~----~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~C 43 (44)
T PF13639_consen 2 ECPICLEEFEDG----EKVVKLP-CGHVFHRSCIKEWLKRNNSCPVC 43 (44)
T ss_dssp CETTTTCBHHTT----SCEEEET-TSEEEEHHHHHHHHHHSSB-TTT
T ss_pred CCcCCChhhcCC----CeEEEcc-CCCeeCHHHHHHHHHhCCcCCcc
Confidence 488898888542 2355677 99999999965444555799988
No 97
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=80.58 E-value=1.3 Score=30.59 Aligned_cols=26 Identities=31% Similarity=0.764 Sum_probs=20.5
Q ss_pred eeEcCCCCcccccC----CCCCCCCCceec
Q 020564 203 GYTCPRCKARVCEL----PTDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l----P~~C~~C~l~Lv 228 (324)
-|.||.|++.+=.- ...||-||..++
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~ 32 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCGYRIL 32 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCCCeEE
Confidence 59999999977322 568999998775
No 98
>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=79.74 E-value=0.75 Score=29.26 Aligned_cols=14 Identities=64% Similarity=1.483 Sum_probs=10.1
Q ss_pred eeEcCCCCcccccC
Q 020564 203 GYTCPRCKARVCEL 216 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l 216 (324)
-|.||+|+.++|++
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 99
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=79.72 E-value=1 Score=38.75 Aligned_cols=27 Identities=33% Similarity=0.760 Sum_probs=22.5
Q ss_pred eeEcCCCCccccc-----CC-----CCCCCCCceecC
Q 020564 203 GYTCPRCKARVCE-----LP-----TDCRICGLQLVS 229 (324)
Q Consensus 203 Gy~Cp~C~s~~C~-----lP-----~~C~~C~l~Lvs 229 (324)
+|+||.|+.+|-. +. -.||.||..|+.
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 589999999863
No 100
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=79.71 E-value=1.3 Score=39.39 Aligned_cols=24 Identities=38% Similarity=0.822 Sum_probs=19.0
Q ss_pred eeEcCCCCcccc-cCCCCCCCCCce
Q 020564 203 GYTCPRCKARVC-ELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C-~lP~~C~~C~l~ 226 (324)
-|+||+|+-..= +-|-.||+||..
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 599999997654 456699999964
No 101
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=79.49 E-value=2.3 Score=31.41 Aligned_cols=47 Identities=21% Similarity=0.583 Sum_probs=35.8
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc---cccccchhhhhcCCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH---FCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~---fC~dCd~fihe~lh~CpgC~~ 312 (324)
...|.+|...+...+ ....|.||+|+.. .|..|-.+. ....||-|..
T Consensus 7 ~~~CtSCg~~i~~~~--~~~~F~CPnCG~~~I~RC~~CRk~~--~~Y~CP~CGF 56 (59)
T PRK14890 7 PPKCTSCGIEIAPRE--KAVKFLCPNCGEVIIYRCEKCRKQS--NPYTCPKCGF 56 (59)
T ss_pred CccccCCCCcccCCC--ccCEeeCCCCCCeeEeechhHHhcC--CceECCCCCC
Confidence 447999998886432 2357999999977 899998854 6778999875
No 102
>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=79.43 E-value=6.6 Score=34.38 Aligned_cols=78 Identities=12% Similarity=0.030 Sum_probs=52.4
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc------hHHHHHHHHHhhCCeeEE
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA------EMFICKHLCQDTGGSYSV 146 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga------e~~iLk~ia~~TgG~Y~v 146 (324)
|..+|...++..+....++|+||.|+.. +-||=.-++..|.+.|++|.++.+.. +...-.++++.+|+.+..
T Consensus 9 g~~~a~~i~~~~~~~~~~~v~il~G~Gn--NGgDgl~~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 86 (169)
T PF03853_consen 9 GRAIAELIRKLFGSPKGPRVLILCGPGN--NGGDGLVAARHLANRGYNVTVYLVGPPEKLSEDAKQQLEILKKMGIKIIE 86 (169)
T ss_dssp HHHHHHHHHHHSTCCTT-EEEEEE-SSH--HHHHHHHHHHHHHHTTCEEEEEEEESSSSTSHHHHHHHHHHHHTT-EEES
T ss_pred HHHHHHHHHHHhcccCCCeEEEEECCCC--ChHHHHHHHHHHHHCCCeEEEEEEeccccCCHHHHHHHHHHHhcCCcEee
Confidence 3344444444443445678999999763 46677889999999999999977753 346777888889988866
Q ss_pred eCCHHH
Q 020564 147 ALDESH 152 (324)
Q Consensus 147 a~d~~h 152 (324)
..+...
T Consensus 87 ~~~~~~ 92 (169)
T PF03853_consen 87 LDSDED 92 (169)
T ss_dssp SCCGSG
T ss_pred ccccch
Confidence 555433
No 103
>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=79.19 E-value=1.1 Score=27.51 Aligned_cols=23 Identities=43% Similarity=0.902 Sum_probs=19.3
Q ss_pred EcCCCCcccccCCCCCCCCCcee
Q 020564 205 TCPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 205 ~Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
.||.|.+.+=.--..||.||-.+
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 59999999877778999999765
No 104
>KOG3768 consensus DEAD box RNA helicase [General function prediction only]
Probab=79.17 E-value=30 Score=36.74 Aligned_cols=52 Identities=27% Similarity=0.394 Sum_probs=33.1
Q ss_pred HHHHHHHHHhhCCeeEEeCCHHHHHHHHHh--------------cCCCCccchhhhhhceeeecCC
Q 020564 130 MFICKHLCQDTGGSYSVALDESHFKELIME--------------HAPPPPAIAEFAIANLIKMGFP 181 (324)
Q Consensus 130 ~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~--------------~~~pp~~~~~~~~~~Li~mGfP 181 (324)
..+...+|+.|||+-+.....-.|.+-+.. -+.|-|+.....+..+|.|-|-
T Consensus 194 ds~IermCevTGGRSysV~Spr~lnqciesLvqkvQ~gVvv~FE~~~p~papi~s~~~~~Is~~fg 259 (888)
T KOG3768|consen 194 DSVIERMCEVTGGRSYSVVSPRQLNQCIESLVQKVQYGVVVRFECLPPIPAPITSDEVNLISMKFG 259 (888)
T ss_pred chhhHHhhhhcCCceeeeeCHHHHHHHHHHHHHhhccCeEEEeeecCCCCCCcccCcccccccccc
Confidence 468899999999987777777666543322 2333333323344678888773
No 105
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=79.17 E-value=13 Score=34.47 Aligned_cols=58 Identities=26% Similarity=0.432 Sum_probs=39.2
Q ss_pred HHHHHHHHHHhhCCCCCCCceEEEEEe--CCC-----CCCcccHH-----HHHHHHHh-cCcEEEEEEccchH
Q 020564 71 QNALDLVQGLLSQIPSYGHREVLILYS--ALS-----TCDPGDIM-----ETIQKCKE-SKIRCSVIGLSAEM 130 (324)
Q Consensus 71 ~naL~~A~~~L~~~p~~~~reILil~g--S~~-----t~d~g~i~-----~ti~~akk-~~IrV~vI~Lgae~ 130 (324)
+.||.-|...|...| ..|+||++++ .+. +.+++++. ++++...+ .+|.+-.||++.++
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 468888999998875 4678999985 333 12444443 45666554 47999888888763
No 106
>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=79.03 E-value=1.7 Score=26.35 Aligned_cols=24 Identities=21% Similarity=0.715 Sum_probs=16.1
Q ss_pred cccccccccCCCCCCCceeeCCCCCc
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKK 290 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~ 290 (324)
|..|...+... +....|.||+|+.
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 66787666532 2245799999974
No 107
>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=78.99 E-value=1.1 Score=37.94 Aligned_cols=32 Identities=22% Similarity=0.390 Sum_probs=26.4
Q ss_pred eeEcCCCCcccccC---CCCCCCCCceecCchhHH
Q 020564 203 GYTCPRCKARVCEL---PTDCRICGLQLVSSPHLA 234 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l---P~~C~~C~l~Lvs~~hLa 234 (324)
-.+||.|++||=.| |+.||-||...-.+|-+.
T Consensus 9 Kr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~~~~ 43 (129)
T TIGR02300 9 KRICPNTGSKFYDLNRRPAVSPYTGEQFPPEEALK 43 (129)
T ss_pred cccCCCcCccccccCCCCccCCCcCCccCcchhhc
Confidence 57999999999865 799999999976665443
No 108
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=78.90 E-value=1.2 Score=31.24 Aligned_cols=30 Identities=33% Similarity=0.651 Sum_probs=21.9
Q ss_pred eeEcCCCCcccccC-------CCCCCCCCc----eecCchh
Q 020564 203 GYTCPRCKARVCEL-------PTDCRICGL----QLVSSPH 232 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l-------P~~C~~C~l----~Lvs~~h 232 (324)
-|.|+.|+..|=.+ ++.||.||. .++|+|.
T Consensus 5 ey~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~~~r~~s~~~ 45 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSDDPLATCPECGGEKLRRLLSAVG 45 (52)
T ss_pred EEEeCCCCCEeEEEEecCCCCCCCCCCCCCCceeEEecccc
Confidence 58999999855443 457999997 3667664
No 109
>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=78.55 E-value=3.3 Score=34.25 Aligned_cols=43 Identities=19% Similarity=0.269 Sum_probs=27.6
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEc-cchHHHHHHHHH
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGL-SAEMFICKHLCQ 138 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L-gae~~iLk~ia~ 138 (324)
..+||++++ +|+..+++.+++.|++|.+++. ..-..-|++.|+
T Consensus 97 d~ivLvSgD-----~Df~~~v~~l~~~g~~V~v~~~~~~~s~~L~~~ad 140 (146)
T PF01936_consen 97 DTIVLVSGD-----SDFAPLVRKLRERGKRVIVVGAEDSASEALRSAAD 140 (146)
T ss_dssp SEEEEE--------GGGHHHHHHHHHH--EEEEEE-GGGS-HHHHHHSS
T ss_pred CEEEEEECc-----HHHHHHHHHHHHcCCEEEEEEeCCCCCHHHHHhcC
Confidence 345555434 5788999999999999999995 334567777775
No 110
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=78.53 E-value=2.4 Score=34.08 Aligned_cols=31 Identities=19% Similarity=0.477 Sum_probs=18.6
Q ss_pred CCcccccccc--------ccCCCCCCCceeeCCCCCccc
Q 020564 262 RSTCFGCQQS--------LLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 262 ~~~C~~C~~~--------~~~~~~~~~~~~~C~~C~~~f 292 (324)
...|..|... ..+.+...+..|.|.+|++.+
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 4689989421 212222345679999998753
No 111
>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=76.88 E-value=1.4 Score=31.99 Aligned_cols=24 Identities=42% Similarity=1.020 Sum_probs=18.8
Q ss_pred eeEcCCCCcccccCC-------CCCCCCCcee
Q 020564 203 GYTCPRCKARVCELP-------TDCRICGLQL 227 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP-------~~C~~C~l~L 227 (324)
-|.||.|++.+ ++| ..|+.||..|
T Consensus 2 ~~~CP~CG~~i-ev~~~~~GeiV~Cp~CGael 32 (54)
T TIGR01206 2 QFECPDCGAEI-ELENPELGELVICDECGAEL 32 (54)
T ss_pred ccCCCCCCCEE-ecCCCccCCEEeCCCCCCEE
Confidence 36899999866 555 4899999886
No 112
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=76.45 E-value=1.4 Score=26.30 Aligned_cols=22 Identities=36% Similarity=0.844 Sum_probs=14.7
Q ss_pred cCCCCcccccCCCCCCCCCcee
Q 020564 206 CPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 206 Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
||.|++..=+--..|+.||..|
T Consensus 2 Cp~CG~~~~~~~~fC~~CG~~l 23 (23)
T PF13240_consen 2 CPNCGAEIEDDAKFCPNCGTPL 23 (23)
T ss_pred CcccCCCCCCcCcchhhhCCcC
Confidence 7777776655556677777653
No 113
>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=76.37 E-value=1.7 Score=28.64 Aligned_cols=29 Identities=34% Similarity=0.675 Sum_probs=22.5
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPGC 310 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~CpgC 310 (324)
...-..|++.||.+|=.-..+.-..||.|
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 34678999999999977666667788876
No 114
>PTZ00062 glutaredoxin; Provisional
Probab=76.35 E-value=62 Score=29.55 Aligned_cols=98 Identities=5% Similarity=0.009 Sum_probs=59.5
Q ss_pred EEEeeCCeeeEeecCC-CCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEe-CCCCCCcccHHHH
Q 020564 33 LVTVKDGVANCLTDLG-GSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYS-ALSTCDPGDIMET 110 (324)
Q Consensus 33 iI~~~~g~a~~l~~lt-~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~g-S~~t~d~g~i~~t 110 (324)
+|.++||. .+-.+. .|+.++.+.+++.....+. + .+...++.. -.+..|++|+- +++.-.-+.-..+
T Consensus 66 fv~~~~g~--~i~r~~G~~~~~~~~~~~~~~~~~~~---~----~~~~~v~~l--i~~~~Vvvf~Kg~~~~p~C~~C~~~ 134 (204)
T PTZ00062 66 FEFYQNSQ--LINSLEGCNTSTLVSFIRGWAQKGSS---E----DTVEKIERL--IRNHKILLFMKGSKTFPFCRFSNAV 134 (204)
T ss_pred EEEEECCE--EEeeeeCCCHHHHHHHHHHHcCCCCH---H----HHHHHHHHH--HhcCCEEEEEccCCCCCCChhHHHH
Confidence 55667775 344554 5999999999876432221 1 233333332 12345777774 3332123334478
Q ss_pred HHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 111 IQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 111 i~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
.+.+++.+|....+-+..+..+-+.+-+.||
T Consensus 135 k~~L~~~~i~y~~~DI~~d~~~~~~l~~~sg 165 (204)
T PTZ00062 135 VNMLNSSGVKYETYNIFEDPDLREELKVYSN 165 (204)
T ss_pred HHHHHHcCCCEEEEEcCCCHHHHHHHHHHhC
Confidence 8999999999999988766666666666655
No 115
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=76.31 E-value=1.5 Score=28.99 Aligned_cols=29 Identities=38% Similarity=0.776 Sum_probs=20.7
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 020564 264 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 292 (324)
Q Consensus 264 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~f 292 (324)
.|-.|+..|.-+++ ......+|++|++.|
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 58899888764432 233467999999987
No 116
>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=76.08 E-value=1.3 Score=30.53 Aligned_cols=23 Identities=35% Similarity=1.026 Sum_probs=16.7
Q ss_pred eeEcCCCCc-ccccCCC----CCCCCCc
Q 020564 203 GYTCPRCKA-RVCELPT----DCRICGL 225 (324)
Q Consensus 203 Gy~Cp~C~s-~~C~lP~----~C~~C~l 225 (324)
|++||.|++ ++..+.. .|.-|+-
T Consensus 18 g~~CP~Cg~~~~~~~~~~~~~~C~~C~~ 45 (46)
T PF12760_consen 18 GFVCPHCGSTKHYRLKTRGRYRCKACRK 45 (46)
T ss_pred CCCCCCCCCeeeEEeCCCCeEECCCCCC
Confidence 899999998 4555554 6776653
No 117
>KOG2353 consensus L-type voltage-dependent Ca2+ channel, alpha2/delta subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=75.39 E-value=19 Score=40.85 Aligned_cols=143 Identities=13% Similarity=0.179 Sum_probs=91.1
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecC---------CCCHHHHHHHHhhhcCCCCcchHHHH
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDL---------GGSPESHIKALMGKLGCSGDSSLQNA 73 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~l---------t~n~~~~~~~L~~~~~~~G~~sL~na 73 (324)
+..-||..++..+...+..+ -+.+-+-|+++. ..+..++|- ..|.+.+.+++..+ +.+|.+-+..|
T Consensus 238 m~g~~~~lak~tv~~iLdtL---s~~Dfvni~tf~-~~~~~v~pc~~~~lvqAt~~nk~~~~~~i~~l-~~k~~a~~~~~ 312 (1104)
T KOG2353|consen 238 MSGLRLDLAKQTVNEILDTL---SDNDFVNILTFN-SEVNPVSPCFNGTLVQATMRNKKVFKEAIETL-DAKGIANYTAA 312 (1104)
T ss_pred ccchhhHHHHHHHHHHHHhc---ccCCeEEEEeec-cccCcccccccCceeecchHHHHHHHHHHhhh-ccccccchhhh
Confidence 46779999999988888884 778888999994 666666654 23444455555554 58899999999
Q ss_pred HHHHHHHhhCCCC--CCC-----ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHH---HHHHHHhhCCe
Q 020564 74 LDLVQGLLSQIPS--YGH-----REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFI---CKHLCQDTGGS 143 (324)
Q Consensus 74 L~~A~~~L~~~p~--~~~-----reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~i---Lk~ia~~TgG~ 143 (324)
|+.|...|..... .++ -.++++++.....++.+|.+.-.. -...|||.+..+|.++.. +|-.|=.-.|-
T Consensus 313 ~e~aF~lL~~~n~s~~~~~~~~C~~~iml~tdG~~~~~~~If~~yn~-~~~~Vrvftflig~~~~~~~~~~wmac~n~gy 391 (1104)
T KOG2353|consen 313 LEYAFSLLRDYNDSRANTQRSPCNQAIMLITDGVDENAKEIFEKYNW-PDKKVRVFTFLIGDEVYDLDEIQWMACANKGY 391 (1104)
T ss_pred HHHHHHHHHHhccccccccccccceeeEEeecCCcccHHHHHHhhcc-CCCceEEEEEEecccccccccchhhhhhCCCc
Confidence 9999999985421 111 125566662222233333321110 157899999999987643 45555555566
Q ss_pred eEEeCCHH
Q 020564 144 YSVALDES 151 (324)
Q Consensus 144 Y~va~d~~ 151 (324)
|.-+.+-+
T Consensus 392 y~~I~~~~ 399 (1104)
T KOG2353|consen 392 YVHIISIA 399 (1104)
T ss_pred eEeccchh
Confidence 65554443
No 118
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.15 E-value=2.8 Score=42.16 Aligned_cols=46 Identities=20% Similarity=0.431 Sum_probs=33.1
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRH 315 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~ 315 (324)
...|..|...|..+. =..|++.||..|-...=+.-..||.|.....
T Consensus 26 ~l~C~IC~d~~~~Pv--------itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 26 SLRCHICKDFFDVPV--------LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccCCCcCchhhhCcc--------CCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 458999997775431 2489999999997644444457999986443
No 119
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=75.14 E-value=1.1 Score=30.49 Aligned_cols=24 Identities=33% Similarity=0.785 Sum_probs=14.2
Q ss_pred eEcCCCCcccc--c---CCCCCCCCCcee
Q 020564 204 YTCPRCKARVC--E---LPTDCRICGLQL 227 (324)
Q Consensus 204 y~Cp~C~s~~C--~---lP~~C~~C~l~L 227 (324)
|.||.|++..= + --..|+.||+.|
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 120
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=73.63 E-value=3.3 Score=29.59 Aligned_cols=43 Identities=26% Similarity=0.671 Sum_probs=30.6
Q ss_pred CCccc--cccccccCCCCCCCceeeCCCCCcccccccchhhhhcC
Q 020564 262 RSTCF--GCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESL 304 (324)
Q Consensus 262 ~~~C~--~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~l 304 (324)
-..|- +|...+....+.....-.|+.|+..||..|-.--|+-.
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~ 62 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPV 62 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCC
Confidence 44688 89766654321223356899999999999988877644
No 121
>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=72.26 E-value=1.2 Score=48.38 Aligned_cols=68 Identities=29% Similarity=0.677 Sum_probs=0.0
Q ss_pred hcccCCCCCCcccCccCCCCCC--------CCCCCccccccccccCCCCCCCceeeCCCCCcc-----cccccchhhhhc
Q 020564 237 YHHLFPIAPFDEVTPLCLNDPR--------NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKH-----FCLECDIYIHES 303 (324)
Q Consensus 237 yhhl~p~~~f~~~~~~~~~~~~--------~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-----fC~dCd~fihe~ 303 (324)
-|-|||+...--...+...+.. ..+.+.|-.|.. .+...+||.|+.+ +|.+|..-+-+.
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 PHVLFPIGEAGGSRRDIQKAAKKGKGTIEVEIGRRRCPKCGK--------ETFYNRCPECGSHTEPVYVCPDCGIEVEED 693 (900)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CceeccccccCcccccHHHHHhcCCCeeEEeeecccCcccCC--------cchhhcCcccCCccccceeccccccccCcc
Confidence 5779998765332111100000 113468999972 2335689999988 999999977666
Q ss_pred CCCCCCCCCCC
Q 020564 304 LHNCPGCESLR 314 (324)
Q Consensus 304 lh~CpgC~~~~ 314 (324)
.||-|....
T Consensus 694 --~C~~C~~~~ 702 (900)
T PF03833_consen 694 --ECPKCGRET 702 (900)
T ss_dssp -----------
T ss_pred --ccccccccC
Confidence 999998643
No 122
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=72.24 E-value=1.8 Score=26.37 Aligned_cols=24 Identities=33% Similarity=0.718 Sum_probs=15.8
Q ss_pred eEcCCCCcccccCCCCCCCCCcee
Q 020564 204 YTCPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 204 y~Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
..||.|++..=.=-..|+-||..|
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~L 26 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAKL 26 (26)
T ss_pred CCCcccCCcCCcccccChhhCCCC
Confidence 368888885444445788888754
No 123
>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=71.44 E-value=2.9 Score=27.50 Aligned_cols=30 Identities=27% Similarity=0.594 Sum_probs=21.7
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
.|+|+.|++.|=..-.+-. +.+..||.|..
T Consensus 5 ~y~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (41)
T smart00834 5 EYRCEDCGHTFEVLQKISD-DPLATCPECGG 34 (41)
T ss_pred EEEcCCCCCEEEEEEecCC-CCCCCCCCCCC
Confidence 5899999998754443322 66788999987
No 124
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=71.41 E-value=3.6 Score=30.44 Aligned_cols=47 Identities=21% Similarity=0.655 Sum_probs=35.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCc---ccccccchhhhhcCCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKK---HFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~---~fC~dCd~fihe~lh~CpgC~~ 312 (324)
...|.+|...+... +....|.||+|++ ..|.-|-. |-+...||.|..
T Consensus 9 ~~~CtSCg~~i~p~--e~~v~F~CPnCGe~~I~Rc~~CRk--~g~~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPG--ETAVKFPCPNCGEVEIYRCAKCRK--LGNPYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccC--CceeEeeCCCCCceeeehhhhHHH--cCCceECCCcCc
Confidence 45799999888322 2234689999994 57888887 567788999875
No 125
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=70.65 E-value=79 Score=32.04 Aligned_cols=94 Identities=10% Similarity=0.059 Sum_probs=62.5
Q ss_pred CcchHHHHHHHHHHHhhCC-C-----CCCCceEEEEEeCCCCCCcc-cHHHHHHHHHhcCcEEEEEEccc----hHHHHH
Q 020564 66 GDSSLQNALDLVQGLLSQI-P-----SYGHREVLILYSALSTCDPG-DIMETIQKCKESKIRCSVIGLSA----EMFICK 134 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~-p-----~~~~reILil~gS~~t~d~g-~i~~ti~~akk~~IrV~vI~Lga----e~~iLk 134 (324)
+...+.......+..|..+ | ....++|+.|+|.... -.. -+.+.+..+.+.+.+|-+|.... .+.-|+
T Consensus 176 ~~~~~~~v~~~~~~~L~~~l~~~~~~~~~~~~ii~lvGptGv-GKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk 254 (407)
T PRK12726 176 ETAHLDDITDWFVPYLSGKLAVEDSFDLSNHRIISLIGQTGV-GKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQ 254 (407)
T ss_pred ccccHHHHHHHHHHHhcCcEeeCCCceecCCeEEEEECCCCC-CHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHH
Confidence 3345677777777777654 1 1224678888884322 222 23355566777888998888863 356899
Q ss_pred HHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 135 HLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 135 ~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
+.+++.|=.++++.|++.+.+.+..+
T Consensus 255 ~yae~lgvpv~~~~dp~dL~~al~~l 280 (407)
T PRK12726 255 GYADKLDVELIVATSPAELEEAVQYM 280 (407)
T ss_pred HHhhcCCCCEEecCCHHHHHHHHHHH
Confidence 99999886677888988888766544
No 126
>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=70.45 E-value=43 Score=29.32 Aligned_cols=90 Identities=14% Similarity=0.085 Sum_probs=63.7
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H-------
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F------- 131 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~------- 131 (324)
.|-.+++-||..|+.+=-..| .++|+.|.|.. +-.| ..+.++++++++|-+|-+.... .
T Consensus 45 ~~~g~mG~~lp~aiGa~la~~---~~~vv~i~GDG-----~f~m~~~eL~ta~~~~l~vi~vV~NN~~~g~~~~~~~~~~ 116 (177)
T cd02010 45 NGLATMGVALPGAIGAKLVYP---DRKVVAVSGDG-----GFMMNSQELETAVRLKIPLVVLIWNDNGYGLIKWKQEKEY 116 (177)
T ss_pred CCChhhhhHHHHHHHHHHhCC---CCcEEEEEcch-----HHHhHHHHHHHHHHHCCCeEEEEEECCcchHHHHHHHHhc
Confidence 344577877777776443333 56799998832 3223 4577789999999999776421 1
Q ss_pred -----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 132 -----------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 132 -----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
=+.++|+.-|+.+..+.+.+.|++.|.+...
T Consensus 117 ~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~~ 158 (177)
T cd02010 117 GRDSGVDFGNPDFVKYAESFGAKGYRIESADDLLPVLERALA 158 (177)
T ss_pred CCcccCcCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHHh
Confidence 1346888888999999999999999987763
No 127
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=69.91 E-value=4.4 Score=46.03 Aligned_cols=52 Identities=25% Similarity=0.636 Sum_probs=34.4
Q ss_pred eeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLY 282 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~ 282 (324)
-+.||.|++.. ....|+.||..+ + ....|..|...++.... ..
T Consensus 667 ~rkCPkCG~~t--~~~fCP~CGs~t--------------------e------------~vy~CPsCGaev~~des---~a 709 (1337)
T PRK14714 667 RRRCPSCGTET--YENRCPDCGTHT--------------------E------------PVYVCPDCGAEVPPDES---GR 709 (1337)
T ss_pred EEECCCCCCcc--ccccCcccCCcC--------------------C------------CceeCccCCCccCCCcc---cc
Confidence 37899999964 335999999875 0 01258899877653221 14
Q ss_pred eeCCCCCcc
Q 020564 283 VACPKCKKH 291 (324)
Q Consensus 283 ~~C~~C~~~ 291 (324)
..||.|+..
T Consensus 710 ~~CP~CGtp 718 (1337)
T PRK14714 710 VECPRCDVE 718 (1337)
T ss_pred ccCCCCCCc
Confidence 568888754
No 128
>PRK07418 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=68.74 E-value=50 Score=34.77 Aligned_cols=86 Identities=14% Similarity=0.177 Sum_probs=60.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----HH---------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----FI--------- 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~i--------- 132 (324)
-+++.||-.|+.+=-..| .|+|+.|.|.. +-.| ..+.++++.+++|-+|-+.... ..
T Consensus 434 g~mG~glpaAiGA~lA~p---~r~Vv~i~GDG-----~f~m~~~eL~Ta~r~~lpvi~vV~NN~~~g~i~~~q~~~~~~~ 505 (616)
T PRK07418 434 GTMGFGMPAAMGVKVALP---DEEVICIAGDA-----SFLMNIQELGTLAQYGINVKTVIINNGWQGMVRQWQESFYGER 505 (616)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcch-----HhhhhHHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCC
Confidence 456666665555433333 46799888833 3233 4578899999999999887431 11
Q ss_pred ------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 ------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 ------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.++.+.+.|++.|.+..
T Consensus 506 ~~~~~~~~~~~d~~~~A~a~G~~g~~V~~~~el~~al~~a~ 546 (616)
T PRK07418 506 YSASNMEPGMPDFVKLAEAFGVKGMVISERDQLKDAIAEAL 546 (616)
T ss_pred ceeecCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 34678888899999999999999987765
No 129
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=68.62 E-value=21 Score=34.49 Aligned_cols=108 Identities=19% Similarity=0.296 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCccc-------HH-HHHHHHHhcCcEEEEEEccc----hHHHHHHHH
Q 020564 70 LQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGD-------IM-ETIQKCKESKIRCSVIGLSA----EMFICKHLC 137 (324)
Q Consensus 70 L~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~-------i~-~ti~~akk~~IrV~vI~Lga----e~~iLk~ia 137 (324)
-.|.++.+-..|... ..+..+|.+|+.+ ||-. ++ ...+.+.+.+.+|.+.-=++ ++.+|++++
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 356777777777644 3455677777554 5543 33 46888999999999887777 789999999
Q ss_pred Hh--hCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCCC
Q 020564 138 QD--TGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQR 183 (324)
Q Consensus 138 ~~--TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mGfP~~ 183 (324)
+. +.-...+..++..+...+.-.+++|..+ -.+-..|..-|.|..
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 7777888887777888888777776655 222334445555544
No 130
>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=68.07 E-value=5.1 Score=26.50 Aligned_cols=26 Identities=31% Similarity=0.646 Sum_probs=20.2
Q ss_pred eEcCCCCccccc------CCCCCCCCCceecC
Q 020564 204 YTCPRCKARVCE------LPTDCRICGLQLVS 229 (324)
Q Consensus 204 y~Cp~C~s~~C~------lP~~C~~C~l~Lvs 229 (324)
++||.|+++|=. .+-.|..||-.||-
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 34689999998863
No 131
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=67.22 E-value=2.5 Score=41.05 Aligned_cols=27 Identities=33% Similarity=0.645 Sum_probs=20.9
Q ss_pred ceeecCCccccCeeEcCCCCcccccCC
Q 020564 191 ICSCHKEVKVGVGYTCPRCKARVCELP 217 (324)
Q Consensus 191 ~C~CH~~~~~~~Gy~Cp~C~s~~C~lP 217 (324)
.=+||--.+...-|.||||...||+|+
T Consensus 7 ~~~C~ic~vq~~~YtCPRCn~~YCsl~ 33 (383)
T KOG4317|consen 7 FLACGICGVQKREYTCPRCNLLYCSLK 33 (383)
T ss_pred eeeccccccccccccCCCCCccceeee
Confidence 446776544444799999999999997
No 132
>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=67.20 E-value=3.8 Score=28.72 Aligned_cols=30 Identities=27% Similarity=0.770 Sum_probs=22.4
Q ss_pred ccccccccccCCCCCCCceeeCCCC-Ccccccccch
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLECDI 298 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dCd~ 298 (324)
.|.+|.+.+.. ..||+|..| .-..|.+|=.
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 48999876643 258999999 6677888754
No 133
>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=66.55 E-value=20 Score=30.34 Aligned_cols=88 Identities=17% Similarity=0.130 Sum_probs=62.5
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM------------- 130 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~------------- 130 (324)
+..+++.|+..|+..=...| .|+|+++.| |-+-.| ..+.++.+.+++|-+|-+..+.
T Consensus 26 ~~g~mG~~~~~aiGa~~a~p---~~~vv~i~G-----DG~f~~~~~el~ta~~~~~~v~~vv~nN~~~~~~~~~~~~~~~ 97 (153)
T PF02775_consen 26 GFGSMGYALPAAIGAALARP---DRPVVAITG-----DGSFLMSLQELATAVRYGLPVVIVVLNNGGYGMTGGQQTPFGG 97 (153)
T ss_dssp TTT-TTTHHHHHHHHHHHST---TSEEEEEEE-----HHHHHHHGGGHHHHHHTTSSEEEEEEESSBSHHHHHHHHHTTS
T ss_pred CccccCCHHHhhhHHHhhcC---cceeEEecC-----CcceeeccchhHHHhhccceEEEEEEeCCcceEeccccccCcC
Confidence 44455555555555544444 578999998 223233 5688999999999999996430
Q ss_pred ------H-------HHHHHHHhhCCeeEEeCCH--HHHHHHHHhcC
Q 020564 131 ------F-------ICKHLCQDTGGSYSVALDE--SHFKELIMEHA 161 (324)
Q Consensus 131 ------~-------iLk~ia~~TgG~Y~va~d~--~hl~~lL~~~~ 161 (324)
. =+.++|+.-|+.+.+..+. ++|++.|.+..
T Consensus 98 ~~~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~~~el~~al~~a~ 143 (153)
T PF02775_consen 98 GRFSGVDGKTFPNPDFAALAEAFGIKGARVTTPDPEELEEALREAL 143 (153)
T ss_dssp TCHHSTBTTTSTTCGHHHHHHHTTSEEEEESCHSHHHHHHHHHHHH
T ss_pred cccccccccccccCCHHHHHHHcCCcEEEEccCCHHHHHHHHHHHH
Confidence 0 2778899999999888788 99999988776
No 134
>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=66.21 E-value=3.8 Score=28.19 Aligned_cols=29 Identities=24% Similarity=0.768 Sum_probs=21.5
Q ss_pred ccccccccccCCCCCCCceeeCCCCC-cccccccch
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCK-KHFCLECDI 298 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~-~~fC~dCd~ 298 (324)
.|.+|.+++.. .+|+|..|. -..|.+|=.
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 58999986542 489999998 566777743
No 135
>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=66.14 E-value=4.9 Score=33.14 Aligned_cols=34 Identities=26% Similarity=0.604 Sum_probs=25.5
Q ss_pred CCCCCccccccccccCCCCCCCceeeCCCCCcccccc
Q 020564 259 NRSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLE 295 (324)
Q Consensus 259 ~~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~d 295 (324)
.+.++.|..|.+.|...... .-.||+|+..|=.+
T Consensus 6 lGtKR~Cp~CG~kFYDLnk~---PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 6 LGTKRTCPSCGAKFYDLNKD---PIVCPKCGTEFPPE 39 (108)
T ss_pred cCCcccCCCCcchhccCCCC---CccCCCCCCccCcc
Confidence 35678999999999876532 24699999987444
No 136
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=65.75 E-value=2 Score=44.24 Aligned_cols=34 Identities=24% Similarity=0.618 Sum_probs=26.3
Q ss_pred CCCCccccccccccCCCCCCCceeeCCCCCcccccccc
Q 020564 260 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECD 297 (324)
Q Consensus 260 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd 297 (324)
.....|-+|+++|..- ..+.-|..|+.+||..|.
T Consensus 899 ~~a~~cmacq~pf~af----rrrhhcrncggifcg~cs 932 (990)
T KOG1819|consen 899 EDAEQCMACQMPFNAF----RRRHHCRNCGGIFCGKCS 932 (990)
T ss_pred CcchhhhhccCcHHHH----HHhhhhcccCceeecccc
Confidence 3455799999999732 124679999999999985
No 137
>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=65.67 E-value=6.1 Score=33.92 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=8.5
Q ss_pred eeeCCCCCccc
Q 020564 282 YVACPKCKKHF 292 (324)
Q Consensus 282 ~~~C~~C~~~f 292 (324)
.|+||.|+++|
T Consensus 124 f~~C~~C~kiy 134 (147)
T PF01927_consen 124 FWRCPGCGKIY 134 (147)
T ss_pred EEECCCCCCEe
Confidence 57888888876
No 138
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=64.84 E-value=5 Score=26.40 Aligned_cols=29 Identities=34% Similarity=0.651 Sum_probs=19.9
Q ss_pred ccccccccccCCCC---CCCceeeCCCCCccc
Q 020564 264 TCFGCQQSLLSSGN---KPGLYVACPKCKKHF 292 (324)
Q Consensus 264 ~C~~C~~~~~~~~~---~~~~~~~C~~C~~~f 292 (324)
.|-.|+..|.-++. ......+|++|++.|
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 58889888764431 223357899999876
No 139
>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=64.61 E-value=5.1 Score=25.72 Aligned_cols=41 Identities=27% Similarity=0.535 Sum_probs=27.9
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhhc-CCCCCCCCC
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCES 312 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~-lh~CpgC~~ 312 (324)
|..|...+.. .+.-+.|++.||.+|-.-.-+. --.||.|..
T Consensus 2 C~iC~~~~~~-------~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFRE-------PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRT 43 (45)
T ss_pred CCcCchhhhC-------ceEecCCCChhcHHHHHHHHHhCcCCCCCCCC
Confidence 6677755521 3556779999999997544444 456999864
No 140
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=64.42 E-value=24 Score=32.26 Aligned_cols=56 Identities=21% Similarity=0.286 Sum_probs=44.9
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
|.+.|...++..|.-..++|+|+-|+.+ |-||=+-++..|+..+..|.|+-++.+.
T Consensus 33 G~aVa~~i~~~~~~~~~~~v~vlcG~Gn--NGGDG~VaAR~L~~~G~~V~v~~~~~~~ 88 (203)
T COG0062 33 GLAVARAILREYPLGRARRVLVLCGPGN--NGGDGLVAARHLKAAGYAVTVLLLGDPK 88 (203)
T ss_pred HHHHHHHHHHHcCcccCCEEEEEECCCC--ccHHHHHHHHHHHhCCCceEEEEeCCCC
Confidence 5667777777776433678999998665 5788899999999999999999998654
No 141
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=63.93 E-value=4.6 Score=28.72 Aligned_cols=22 Identities=36% Similarity=0.851 Sum_probs=15.9
Q ss_pred eEcCCCCccccc-----------------CCC--CCCCCCc
Q 020564 204 YTCPRCKARVCE-----------------LPT--DCRICGL 225 (324)
Q Consensus 204 y~Cp~C~s~~C~-----------------lP~--~C~~C~l 225 (324)
|+|..|+-+|=+ ||. .||+|+.
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 678888877763 665 7888875
No 142
>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=63.72 E-value=82 Score=28.19 Aligned_cols=89 Identities=13% Similarity=0.107 Sum_probs=59.8
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH---------
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI--------- 132 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i--------- 132 (324)
.|--+++-||-.|+.+=-..| .|+|+.|.|.. +-.| ..+.++++.++++-+|-+.... .+
T Consensus 45 ~~~gsmG~~lpaAiGa~la~p---~~~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~ivV~NN~~~g~~~~~q~~~~ 116 (205)
T cd02003 45 YGYSCMGYEIAAGLGAKLAKP---DREVYVLVGDG-----SYLMLHSEIVTAVQEGLKIIIVLFDNHGFGCINNLQESTG 116 (205)
T ss_pred CCcchhhhHHHHHHHHHHhCC---CCeEEEEEccc-----hhhccHHHHHHHHHcCCCCEEEEEECCccHHHHHHHHHhc
Confidence 344678888887777644443 46788888833 2122 4577789999999999887532 11
Q ss_pred --------------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 --------------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 --------------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 171 (205)
T cd02003 117 SGSFGTEFRDRDQESGQLDGALLPVDFAANARSLGARVEKVKTIEELKAALAKAK 171 (205)
T ss_pred CccccchhcccccccccccCCCCCCCHHHHHHhCCCEEEEECCHHHHHHHHHHHH
Confidence 23355666677777788888888887765
No 143
>PHA02929 N1R/p28-like protein; Provisional
Probab=63.66 E-value=7.6 Score=36.43 Aligned_cols=51 Identities=22% Similarity=0.543 Sum_probs=35.5
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
...|.-|...+.++.......-.=+.|++.||.+|=.--.+.-..||-|-.
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 458999997765421100000134689999999998777888889999964
No 144
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=63.47 E-value=4.1 Score=36.53 Aligned_cols=27 Identities=37% Similarity=0.838 Sum_probs=22.9
Q ss_pred eeEcCCCCcccc-----cCCCCCCCCCceecC
Q 020564 203 GYTCPRCKARVC-----ELPTDCRICGLQLVS 229 (324)
Q Consensus 203 Gy~Cp~C~s~~C-----~lP~~C~~C~l~Lvs 229 (324)
+|+||+|..++- ++--.||.||-.|+-
T Consensus 113 ~y~C~~~~~r~sfdeA~~~~F~Cp~Cg~~L~~ 144 (176)
T COG1675 113 YYVCPNCHVKYSFDEAMELGFTCPKCGEDLEE 144 (176)
T ss_pred ceeCCCCCCcccHHHHHHhCCCCCCCCchhhh
Confidence 999999999985 566789999998874
No 145
>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=63.37 E-value=46 Score=28.66 Aligned_cols=90 Identities=9% Similarity=0.037 Sum_probs=61.2
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-H-------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------- 131 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~------------- 131 (324)
+..+++.||-+|+..-...| .|+|+.|.|...- . .+ .+.+.++.+.++++-+|-+.... .
T Consensus 46 ~~g~mG~~lp~AiGa~la~~---~~~vv~i~GDG~f-~-~~-~~el~ta~~~~lpv~ivv~NN~~~~~~~~~~~~~~~~~ 119 (172)
T cd02004 46 TFGTLGVGLGYAIAAALARP---DKRVVLVEGDGAF-G-FS-GMELETAVRYNLPIVVVVGNNGGWYQGLDGQQLSYGLG 119 (172)
T ss_pred CCCcccchHHHHHHHHHhCC---CCeEEEEEcchhh-c-CC-HHHHHHHHHcCCCEEEEEEECcccccchhhhhhhccCC
Confidence 34567777777766544333 4679988884422 1 11 25577889999998888876321 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++++.-|..+..+.+.+.|++.|.+..
T Consensus 120 ~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 159 (172)
T cd02004 120 LPVTTLLPDTRYDLVAEAFGGKGELVTTPEELKPALKRAL 159 (172)
T ss_pred CceeccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145678888888888888888988888765
No 146
>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=63.23 E-value=14 Score=30.01 Aligned_cols=51 Identities=12% Similarity=0.170 Sum_probs=34.0
Q ss_pred eEEEEEe-CCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEe
Q 020564 91 EVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 91 eILil~g-S~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va 147 (324)
-++|+++ |.. ..++.++++.|++.|++|=+|- +... +.++++..|+.-.+.
T Consensus 45 dl~I~iS~SG~---t~e~i~~~~~a~~~g~~iI~IT--~~~~-l~~~~~~~~~~~~~~ 96 (119)
T cd05017 45 TLVIAVSYSGN---TEETLSAVEQAKERGAKIVAIT--SGGK-LLEMAREHGVPVIII 96 (119)
T ss_pred CEEEEEECCCC---CHHHHHHHHHHHHCCCEEEEEe--CCch-HHHHHHHcCCcEEEC
Confidence 3555554 332 3467789999999998665544 3333 888999887766543
No 147
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=62.28 E-value=5.4 Score=26.78 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=17.0
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPG 309 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~Cpg 309 (324)
.+.|..|++.||.+ =-+-..|.|++
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 11224555553
No 148
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=62.01 E-value=89 Score=32.98 Aligned_cols=116 Identities=17% Similarity=0.120 Sum_probs=68.6
Q ss_pred cCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCC
Q 020564 24 DQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCD 103 (324)
Q Consensus 24 ~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d 103 (324)
..+|..++|-|..- ..|.++..+.++......+ .....+++...+|.|++||.+ |
T Consensus 368 ~~r~~rkmGhV~~~----------g~~~~e~~~~~~~~~~~~~-------------~~~~~~~~~~~~v~i~~gs~s--d 422 (577)
T PLN02948 368 EMRKQRKMGHITVV----------GPSAAEVEARLDQLLAEES-------------ADPDALPKGTPLVGIIMGSDS--D 422 (577)
T ss_pred CCCCCCeeEEEEEe----------cCCHHHHHHHHHHHHhhhc-------------cCCCCCCCCCCeEEEEECchh--h
Confidence 34666777777663 2355665555554422111 001333455667999999764 4
Q ss_pred cccHHHHHHHHHhcCcEEEEEEccch--H----HHHHHHHHhhC-Cee-EEeCCHHHHHHHHHhcCCCCc
Q 020564 104 PGDIMETIQKCKESKIRCSVIGLSAE--M----FICKHLCQDTG-GSY-SVALDESHFKELIMEHAPPPP 165 (324)
Q Consensus 104 ~g~i~~ti~~akk~~IrV~vI~Lgae--~----~iLk~ia~~Tg-G~Y-~va~d~~hl~~lL~~~~~pp~ 165 (324)
-.-..++++.|++.||..++--.++. . .+.+++-+ -| -.+ -+|--+.||--.+..+++-|.
T Consensus 423 ~~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~-~~~~v~i~~ag~~~~l~~~~a~~t~~pv 491 (577)
T PLN02948 423 LPTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHS-RGLQVIIAGAGGAAHLPGMVASMTPLPV 491 (577)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHH-CCCCEEEEEcCccccchHHHhhccCCCE
Confidence 44444799999999999886666654 1 23333332 23 233 445567788888888776554
No 149
>PRK08611 pyruvate oxidase; Provisional
Probab=61.17 E-value=54 Score=34.22 Aligned_cols=86 Identities=13% Similarity=0.106 Sum_probs=61.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++.||..|+.+=-..| .|+||.|.|.. +-.| +.+.+++++++++-+|-+.... .
T Consensus 408 g~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----sf~m~~~eL~Ta~r~~l~~iivV~NN~~~g~i~~~q~~~~~~~ 479 (576)
T PRK08611 408 GTMGCGLPGAIAAKIAFP---DRQAIAICGDG-----GFSMVMQDFVTAVKYKLPIVVVVLNNQQLAFIKYEQQAAGELE 479 (576)
T ss_pred hhhhhhHHHHHHHHHhCC---CCcEEEEEccc-----HHhhhHHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCc
Confidence 466666666665443333 46799999833 3233 4578899999999999886421 0
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+.|..+.+.+.|++.|.+..
T Consensus 480 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 517 (576)
T PRK08611 480 YAIDLSDMDYAKFAEACGGKGYRVEKAEELDPAFEEAL 517 (576)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 146788888999999999999999998776
No 150
>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=60.95 E-value=5.2 Score=28.15 Aligned_cols=28 Identities=25% Similarity=0.762 Sum_probs=21.1
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCC---cccccccc
Q 020564 264 TCFGCQQ-SLLSSGNKPGLYVACPKCK---KHFCLECD 297 (324)
Q Consensus 264 ~C~~C~~-~~~~~~~~~~~~~~C~~C~---~~fC~dCd 297 (324)
.|-+|.. ++. ..||.|..|. -.+|.+|-
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 443 2489999998 67888883
No 151
>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=60.58 E-value=6.2 Score=26.93 Aligned_cols=29 Identities=21% Similarity=0.715 Sum_probs=20.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCC-Cccccccc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKC-KKHFCLEC 296 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C-~~~fC~dC 296 (324)
...|.+|.+++.. .+|+|..| +-..|.+|
T Consensus 4 ~~~C~~C~~~i~g------~ry~C~~C~d~dlC~~C 33 (44)
T smart00291 4 SYSCDTCGKPIVG------VRYHCLVCPDYDLCQSC 33 (44)
T ss_pred CcCCCCCCCCCcC------CEEECCCCCCccchHHH
Confidence 3469999976542 48999998 34455555
No 152
>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=60.56 E-value=63 Score=34.32 Aligned_cols=79 Identities=16% Similarity=0.286 Sum_probs=52.4
Q ss_pred HHHHHHHHHHhhCCCCCCCceEEEEEeC--CC-----CCCcccHH-----HHHHHHHhc-CcEEEEEEccchHHHHHHHH
Q 020564 71 QNALDLVQGLLSQIPSYGHREVLILYSA--LS-----TCDPGDIM-----ETIQKCKES-KIRCSVIGLSAEMFICKHLC 137 (324)
Q Consensus 71 ~naL~~A~~~L~~~p~~~~reILil~gS--~~-----t~d~g~i~-----~ti~~akk~-~IrV~vI~Lgae~~iLk~ia 137 (324)
+.||..|...|..+| ..|+||++++. +. +.|++++. .+|+...+. +|.+=.||+|.++.
T Consensus 499 GeAl~wa~~rL~~R~--e~rKiL~ViSDG~P~D~~TlsvN~~~~l~~hLr~vi~~~e~~~~vel~aigIg~Dv~------ 570 (600)
T TIGR01651 499 GEALMWAHQRLIARP--EQRRILMMISDGAPVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGHDVT------ 570 (600)
T ss_pred hHHHHHHHHHHhcCc--ccceEEEEEeCCCcCCccccccCchhHHHHHHHHHHHHHhccCCceEEEeeccccHH------
Confidence 579999999999886 47789999853 22 12455443 567777775 89999999998742
Q ss_pred HhhCCeeEEeCCHHHHHHHHH
Q 020564 138 QDTGGSYSVALDESHFKELIM 158 (324)
Q Consensus 138 ~~TgG~Y~va~d~~hl~~lL~ 158 (324)
+.- ..+.++.|.+.|-..+.
T Consensus 571 r~Y-~~~v~i~~~~eL~~~~~ 590 (600)
T TIGR01651 571 RYY-RRAVTIVDAEELAGAMT 590 (600)
T ss_pred HHc-cccceecCHHHHHHHHH
Confidence 111 34455666665554443
No 153
>PLN03086 PRLI-interacting factor K; Provisional
Probab=60.45 E-value=13 Score=39.21 Aligned_cols=23 Identities=26% Similarity=0.716 Sum_probs=12.1
Q ss_pred EcCC--CCccccc----CCCCCCCCCcee
Q 020564 205 TCPR--CKARVCE----LPTDCRICGLQL 227 (324)
Q Consensus 205 ~Cp~--C~s~~C~----lP~~C~~C~l~L 227 (324)
.||+ |+.++-. =+..|+.|+..+
T Consensus 435 ~Cp~~~Cg~v~~r~el~~H~~C~~Cgk~f 463 (567)
T PLN03086 435 VCPHDGCGIVLRVEEAKNHVHCEKCGQAF 463 (567)
T ss_pred eCCcccccceeeccccccCccCCCCCCcc
Confidence 4663 6655532 123566676655
No 154
>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=60.44 E-value=85 Score=27.87 Aligned_cols=88 Identities=11% Similarity=0.052 Sum_probs=59.5
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H--------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F-------- 131 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~-------- 131 (324)
|-.+++-||-.|+.+=-..| .|+|++|.|.. +-.| ..+.++++++++|-+|-+.... .
T Consensus 51 ~~g~mG~~lpaaiGa~la~p---~r~vv~i~GDG-----~f~m~~~eL~Ta~~~~lpvi~vV~NN~~yg~~~~~q~~~~~ 122 (196)
T cd02013 51 SFGNCGYALPAIIGAKAAAP---DRPVVAIAGDG-----AWGMSMMEIMTAVRHKLPVTAVVFRNRQWGAEKKNQVDFYN 122 (196)
T ss_pred CCcccccHHHHHHHHHHhCC---CCcEEEEEcch-----HHhccHHHHHHHHHhCCCeEEEEEECchhHHHHHHHHHHcC
Confidence 33456666666666533333 46799998833 2222 4567789999999888876431 0
Q ss_pred -----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|..+..+.+.+.|++.|.+..
T Consensus 123 ~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 163 (196)
T cd02013 123 NRFVGTELESESFAKIAEACGAKGITVDKPEDVGPALQKAI 163 (196)
T ss_pred CCcccccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 134678888888888889999998888766
No 155
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=60.42 E-value=4.7 Score=39.20 Aligned_cols=40 Identities=33% Similarity=0.708 Sum_probs=30.9
Q ss_pred CccccccccccCCCCCCCcee-eCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
..|--|..++. .| |=--|+++||+||-. -|+...||+|-.
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 47899987764 34 445699999999976 355889999964
No 156
>KOG2326 consensus DNA-binding subunit of a DNA-dependent protein kinase (Ku80 autoantigen) [Replication, recombination and repair]
Probab=60.30 E-value=1.3e+02 Score=32.03 Aligned_cols=151 Identities=17% Similarity=0.094 Sum_probs=92.5
Q ss_pred HHHHHHHHHHHHHHHHhcCC-cCCceEEEEee---------CCee----eEeecC-CCCHHHHHHHHhhhcC-CCCcchH
Q 020564 7 RMAVVAKQVEAFVREFFDQN-PLSQIGLVTVK---------DGVA----NCLTDL-GGSPESHIKALMGKLG-CSGDSSL 70 (324)
Q Consensus 7 Rl~~~~~~l~~Fv~~~f~qN-P~sqlGiI~~~---------~g~a----~~l~~l-t~n~~~~~~~L~~~~~-~~G~~sL 70 (324)
-++-++.++..|+...+-.+ --+-+|++++. +|.+ ..+.|. |.....+++.+.+... .+-..++
T Consensus 27 ~fE~a~~y~~~~lsrK~fa~rktD~is~vlyncD~ten~legg~~fqnisvl~p~~tpaf~~l~k~~~~~~qqns~q~Df 106 (669)
T KOG2326|consen 27 NFEKAMAYLEYTLSRKSFASRKTDWISCVLYNCDVTENSLEGGNVFQNISVLAPVTTPAFIGLIKRLKQYCQQNSHQSDF 106 (669)
T ss_pred cHHHHHHHHHHHHHHHHhhccCCceEEEEEecCCCccCccccccccceeEEeecccchhhHHHHHHHHHhcCCCccccch
Confidence 57889999999986655444 77889999872 1221 223333 3333445555554322 2233468
Q ss_pred HHHHHHHHHHhhCC---CCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-----------------H
Q 020564 71 QNALDLVQGLLSQI---PSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-----------------M 130 (324)
Q Consensus 71 ~naL~~A~~~L~~~---p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-----------------~ 130 (324)
-+||.+....+-.. +....+++|++...+.+.-..++. .++.+.+.+|-.-++||.-. -
T Consensus 107 ~gal~vs~dL~~qhe~~~k~~~kr~Il~~~~l~~dfsd~~~-ive~l~~~didL~~~gldf~~e~id~s~dl~e~~kk~n 185 (669)
T KOG2326|consen 107 EGALSVSQDLLVQHEDIKKQFQKRKILKQIVLFTDFSDDLF-IVEDLTDEDIDLLTEGLDFRIELIDCSKDLQEERKKSN 185 (669)
T ss_pred hhhHHHHHHHHHHHHhccchhhceEEEEeecccccchhhHH-HHHHHhhcCcceeEeeccCCccccccCccccccccccc
Confidence 88998888855432 333444555555545443333344 88999999999999998632 1
Q ss_pred H-HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCC
Q 020564 131 F-ICKHLCQDTGGSYSVALDESHFKELIMEHAPPP 164 (324)
Q Consensus 131 ~-iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp 164 (324)
+ .+|+.-..-.|+|+. +.++|..+..|-
T Consensus 186 ~~~~q~~e~l~~~q~~~------~~eiYn~i~spa 214 (669)
T KOG2326|consen 186 YTWLQLVEALPNSQIYN------MNEIYNEITSPA 214 (669)
T ss_pred hHHHHHHHhcchhhHHh------HHHHHHhhcCcc
Confidence 3 344444555566654 388888888663
No 157
>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=60.26 E-value=88 Score=28.91 Aligned_cols=88 Identities=10% Similarity=0.057 Sum_probs=59.2
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccchHH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEMF--------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae~~--------------- 131 (324)
.+++-||-.|+.+....| .|.||.|.|.... ..+. +.+.++.+.+++|-+|-+....+
T Consensus 62 gsmG~GlpaAiGa~~a~p---~r~VV~i~GDG~~---~~m~~~eL~ta~~~~~pv~~vVlNN~~yg~tg~q~~~~~~~~~ 135 (235)
T cd03376 62 AAVASGIEAALKALGRGK---DITVVAFAGDGGT---ADIGFQALSGAAERGHDILYICYDNEAYMNTGIQRSGSTPYGA 135 (235)
T ss_pred HHHHHHHHHHHHHhccCC---CCeEEEEEcCchH---HhhHHHHHHHHHHcCCCeEEEEECCcccccCCCCCCCCCCCCC
Confidence 488889999888754443 4678888873310 1122 55778899999999998864321
Q ss_pred -------------------HHHHHHHhhCCeeE---EeCCHHHHHHHHHhcC
Q 020564 132 -------------------ICKHLCQDTGGSYS---VALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------------------iLk~ia~~TgG~Y~---va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|..|. .+.+.++|++.|.+..
T Consensus 136 ~~~~~~~g~~~~~~~~~~~d~~~iA~a~G~~~~~~~~v~~~~el~~al~~a~ 187 (235)
T cd03376 136 WTTTTPVGKVSFGKKQPKKDLPLIMAAHNIPYVATASVAYPEDLYKKVKKAL 187 (235)
T ss_pred EeecCCCCccccccccccCCHHHHHHHcCCcEEEEEcCCCHHHHHHHHHHHH
Confidence 14467777776663 4677788887777665
No 158
>PF14369 zf-RING_3: zinc-finger
Probab=59.90 E-value=6.5 Score=25.79 Aligned_cols=28 Identities=29% Similarity=0.659 Sum_probs=14.5
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
.|+.|++.+.-.....+. -.||.|+.-|
T Consensus 4 wCh~C~~~V~~~~~~~~~-~~CP~C~~gF 31 (35)
T PF14369_consen 4 WCHQCNRFVRIAPSPDSD-VACPRCHGGF 31 (35)
T ss_pred eCccCCCEeEeCcCCCCC-cCCcCCCCcE
Confidence 577777655432111111 1477777655
No 159
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.68 E-value=6.9 Score=35.16 Aligned_cols=28 Identities=29% Similarity=0.755 Sum_probs=25.5
Q ss_pred CCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 285 CPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 285 C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
=.+|+++||..|-.=.-..-+.||-|-.
T Consensus 148 sTkCGHvFC~~Cik~alk~~~~CP~C~k 175 (187)
T KOG0320|consen 148 STKCGHVFCSQCIKDALKNTNKCPTCRK 175 (187)
T ss_pred ccccchhHHHHHHHHHHHhCCCCCCccc
Confidence 4589999999999999999999999975
No 160
>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=59.62 E-value=28 Score=30.42 Aligned_cols=83 Identities=12% Similarity=0.148 Sum_probs=53.1
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH------------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM------------------ 130 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~------------------ 130 (324)
+++.+|..|+.+=...| .++|+.|.|...-- .+..+.+.++.+.++++-+|-+....
T Consensus 52 ~mG~gl~~AiGa~la~p---~~~Vv~i~GDG~f~--~~g~~eL~ta~~~~l~i~vvV~nN~~~g~~~~~~~~~~~~~~~~ 126 (178)
T cd02008 52 CMGASIGVAIGMAKASE---DKKVVAVIGDSTFF--HSGILGLINAVYNKANITVVILDNRTTAMTGGQPHPGTGKTLTE 126 (178)
T ss_pred cCccHHHHHhhHHhhCC---CCCEEEEecChHHh--hccHHHHHHHHHcCCCEEEEEECCcceeccCCCCCCCCcccccC
Confidence 45555554444332233 46799998843210 01135577788999999988886431
Q ss_pred ----HHHHHHHHhhCCeeEEeCCHHHHHHH
Q 020564 131 ----FICKHLCQDTGGSYSVALDESHFKEL 156 (324)
Q Consensus 131 ----~iLk~ia~~TgG~Y~va~d~~hl~~l 156 (324)
.=+.++++.-|..|..+.+.+.|+++
T Consensus 127 ~~~~~d~~~~a~a~G~~~~~v~~~~~l~~~ 156 (178)
T cd02008 127 PTTVIDIEALVRAIGVKRVVVVDPYDLKAI 156 (178)
T ss_pred CCCccCHHHHHHHCCCCEEEecCccCHHHH
Confidence 12678888889999888888888743
No 161
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=59.39 E-value=1.1e+02 Score=30.78 Aligned_cols=79 Identities=13% Similarity=0.032 Sum_probs=45.1
Q ss_pred HHHHHHHHHh-cCcEEEEEEccch--HHHHHHHHHhhCCeeEEe-CCHHHHHHHHHhcCCCCccc-hhhhhhceeeecCC
Q 020564 107 IMETIQKCKE-SKIRCSVIGLSAE--MFICKHLCQDTGGSYSVA-LDESHFKELIMEHAPPPPAI-AEFAIANLIKMGFP 181 (324)
Q Consensus 107 i~~ti~~akk-~~IrV~vI~Lgae--~~iLk~ia~~TgG~Y~va-~d~~hl~~lL~~~~~pp~~~-~~~~~~~Li~mGfP 181 (324)
..-.++.+.+ .|+.+-.++-+.. ...-+.+....+|.--+. .|..++.+++.+.- |.-.- .......|++||||
T Consensus 302 ~~~la~~L~eelGm~~v~v~t~~~~~~~~~~~~~~l~~~~~v~~~~D~~~l~~~i~~~~-pDllig~~~~~~pl~r~GfP 380 (427)
T PRK02842 302 EIPLARFLSRECGMELVEVGTPYLNRRFLAAELALLPDGVRIVEGQDVERQLDRIRALR-PDLVVCGLGLANPLEAEGIT 380 (427)
T ss_pred HHHHHHHHHHhCCCEEEEeCCCCCCHHHHHHHHHhccCCCEEEECCCHHHHHHHHHHcC-CCEEEccCccCCchhhcCCc
Confidence 4456777887 9999988877543 222233444444543222 35556666665532 33222 12334689999999
Q ss_pred CCCCC
Q 020564 182 QRAGE 186 (324)
Q Consensus 182 ~~~~~ 186 (324)
.....
T Consensus 381 ~~dr~ 385 (427)
T PRK02842 381 TKWSI 385 (427)
T ss_pred eeEEE
Confidence 96543
No 162
>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=59.38 E-value=6.1 Score=27.40 Aligned_cols=29 Identities=24% Similarity=0.834 Sum_probs=21.4
Q ss_pred ccccccc-cccCCCCCCCceeeCCCC-Ccccccccch
Q 020564 264 TCFGCQQ-SLLSSGNKPGLYVACPKC-KKHFCLECDI 298 (324)
Q Consensus 264 ~C~~C~~-~~~~~~~~~~~~~~C~~C-~~~fC~dCd~ 298 (324)
.|-+|.+ ++. ..||+|..| .-..|.+|-.
T Consensus 2 ~Cd~C~~~~i~------G~RykC~~C~dyDLC~~C~~ 32 (45)
T cd02339 2 ICDTCRKQGII------GIRWKCAECPNYDLCTTCYH 32 (45)
T ss_pred CCCCCCCCCcc------cCeEECCCCCCccchHHHhC
Confidence 5889983 332 258999999 5778888855
No 163
>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=59.22 E-value=68 Score=27.60 Aligned_cols=85 Identities=13% Similarity=0.019 Sum_probs=55.3
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhc-CcEEEEEEccchH-------------HH
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKES-KIRCSVIGLSAEM-------------FI 132 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~-~IrV~vI~Lgae~-------------~i 132 (324)
+++.+|-.|+..=...| |+|++|.|.. +-.| ..+.++.+. ++++-+|-+..+. .=
T Consensus 43 smG~~lp~AiGa~~a~~----~~Vv~i~GDG-----~f~m~~~el~t~~~~~~~~i~~vV~nN~~~g~~~~~~~~~~~~d 113 (157)
T cd02001 43 SMGLAGSIGLGLALGLS----RKVIVVDGDG-----SLLMNPGVLLTAGEFTPLNLILVVLDNRAYGSTGGQPTPSSNVN 113 (157)
T ss_pred chhhHHHHHHHHHhcCC----CcEEEEECch-----HHHhcccHHHHHHHhcCCCEEEEEEeCccccccCCcCCCCCCCC
Confidence 45555555544433222 7799998833 2112 234555666 5888777765331 12
Q ss_pred HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 133 CKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 133 Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
+.++|+.-|..+..+.+.+.|++.+.+...
T Consensus 114 ~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 143 (157)
T cd02001 114 LEAWAAACGYLVLSAPLLGGLGSEFAGLLA 143 (157)
T ss_pred HHHHHHHCCCceEEcCCHHHHHHHHHHHHh
Confidence 678899999999999999999999988763
No 164
>PTZ00260 dolichyl-phosphate beta-glucosyltransferase; Provisional
Probab=58.84 E-value=1.4e+02 Score=28.83 Aligned_cols=97 Identities=12% Similarity=0.129 Sum_probs=61.9
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhh----------cCCCCcchHHHHHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----------LGCSGDSSLQNALD 75 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~----------~~~~G~~sL~naL~ 75 (324)
.++..+++.+.....+.+.++|....=||+..||. +-+-.++++.+... .....+...+.|+.
T Consensus 83 ~~i~~~L~~l~~~~~~~~~~~~~~~~EIIVVDDgS-------tD~T~~i~~~~~~~~~~~~~~i~vi~~~~N~G~~~A~~ 155 (333)
T PTZ00260 83 DRLPKMLKETIKYLESRSRKDPKFKYEIIIVNDGS-------KDKTLKVAKDFWRQNINPNIDIRLLSLLRNKGKGGAVR 155 (333)
T ss_pred HHHHHHHHHHHHHHHhhhccCCCCCEEEEEEeCCC-------CCchHHHHHHHHHhcCCCCCcEEEEEcCCCCChHHHHH
Confidence 36777777777777777788888788888887874 22233444444211 11122234566666
Q ss_pred HHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHh
Q 020564 76 LVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKE 116 (324)
Q Consensus 76 ~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk 116 (324)
.++.. ++.++|+++-++...|+.++.+.++.+++
T Consensus 156 ~Gi~~-------a~gd~I~~~DaD~~~~~~~l~~l~~~l~~ 189 (333)
T PTZ00260 156 IGMLA-------SRGKYILMVDADGATDIDDFDKLEDIMLK 189 (333)
T ss_pred HHHHH-------ccCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence 65542 23478888888888889888877777654
No 165
>PF12773 DZR: Double zinc ribbon
Probab=58.70 E-value=11 Score=25.94 Aligned_cols=23 Identities=30% Similarity=0.671 Sum_probs=9.7
Q ss_pred cCCCCcccccCCCCCCCCCceec
Q 020564 206 CPRCKARVCELPTDCRICGLQLV 228 (324)
Q Consensus 206 Cp~C~s~~C~lP~~C~~C~l~Lv 228 (324)
||.|+...=.=-..|+.||..|.
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 34444443322334455554443
No 166
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=58.69 E-value=5.3 Score=32.52 Aligned_cols=25 Identities=32% Similarity=0.704 Sum_probs=19.1
Q ss_pred eeEcCCCCccccc-------CCCCCCCCCcee
Q 020564 203 GYTCPRCKARVCE-------LPTDCRICGLQL 227 (324)
Q Consensus 203 Gy~Cp~C~s~~C~-------lP~~C~~C~l~L 227 (324)
-|.||+|++..-. .-..|+.||..-
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 7999999975333 247899999863
No 167
>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=58.62 E-value=4.8 Score=26.67 Aligned_cols=34 Identities=24% Similarity=0.610 Sum_probs=25.5
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 303 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~ 303 (324)
...|.-+..+. ..|-|..|+..+|.+|....|..
T Consensus 3 ~~~C~~H~~~~--------~~~~C~~C~~~~C~~C~~~~H~~ 36 (42)
T PF00643_consen 3 EPKCPEHPEEP--------LSLFCEDCNEPLCSECTVSGHKG 36 (42)
T ss_dssp SSB-SSTTTSB--------EEEEETTTTEEEEHHHHHTSTTT
T ss_pred CccCccCCccc--------eEEEecCCCCccCccCCCCCCCC
Confidence 34677776432 35789999999999999998865
No 168
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=58.45 E-value=4.7 Score=29.78 Aligned_cols=26 Identities=27% Similarity=0.747 Sum_probs=21.6
Q ss_pred EcCCCCccc-----ccCCCCCCCCCceecCc
Q 020564 205 TCPRCKARV-----CELPTDCRICGLQLVSS 230 (324)
Q Consensus 205 ~Cp~C~s~~-----C~lP~~C~~C~l~Lvs~ 230 (324)
.||.|.... -..++.|.+||.+|.-+
T Consensus 13 kCp~C~n~q~vFsha~t~V~C~~Cg~~L~~P 43 (59)
T PRK00415 13 KCPDCGNEQVVFSHASTVVRCLVCGKTLAEP 43 (59)
T ss_pred ECCCCCCeEEEEecCCcEEECcccCCCcccC
Confidence 599999887 56778999999998654
No 169
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=58.09 E-value=8.1 Score=41.30 Aligned_cols=7 Identities=29% Similarity=0.767 Sum_probs=2.9
Q ss_pred ccccccc
Q 020564 264 TCFGCQQ 270 (324)
Q Consensus 264 ~C~~C~~ 270 (324)
+|-.|..
T Consensus 17 FC~~CG~ 23 (645)
T PRK14559 17 FCQKCGT 23 (645)
T ss_pred cccccCC
Confidence 4444433
No 170
>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=58.01 E-value=92 Score=26.04 Aligned_cols=75 Identities=9% Similarity=0.034 Sum_probs=48.5
Q ss_pred HHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch-------HHHHHHHHHhhCCe
Q 020564 71 QNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE-------MFICKHLCQDTGGS 143 (324)
Q Consensus 71 ~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae-------~~iLk~ia~~TgG~ 143 (324)
..|+......+.. .+..+-|+|.+|+++.....++.+.++.++ .+.+|..++.-.. -.+++++|+...+.
T Consensus 35 ~~~~~~l~~~~~~--~~~~d~vvi~lGtNd~~~~~nl~~ii~~~~-~~~~ivlv~~~~~~~~~~~~n~~~~~~a~~~~~v 111 (150)
T cd01840 35 SEAPDLIRQLKDS--GKLRKTVVIGLGTNGPFTKDQLDELLDALG-PDRQVYLVNPHVPRPWEPDVNAYLLDAAKKYKNV 111 (150)
T ss_pred HHHHHHHHHHHHc--CCCCCeEEEEecCCCCCCHHHHHHHHHHcC-CCCEEEEEECCCCcchHHHHHHHHHHHHHHCCCc
Confidence 4555554444431 122344556668777655667878888875 4688888887632 26788999888777
Q ss_pred eEEeC
Q 020564 144 YSVAL 148 (324)
Q Consensus 144 Y~va~ 148 (324)
.++..
T Consensus 112 ~~id~ 116 (150)
T cd01840 112 TIIDW 116 (150)
T ss_pred EEecH
Confidence 77664
No 171
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=57.83 E-value=10 Score=26.18 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=16.4
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
+|-.|...+.........+|.|+.|+.++
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~ 30 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYEE 30 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCeE
Confidence 56677655433221112378888888654
No 172
>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=57.65 E-value=1.2e+02 Score=26.37 Aligned_cols=90 Identities=11% Similarity=0.001 Sum_probs=57.8
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-H-------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F------------- 131 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~------------- 131 (324)
+--+++.|+..|+.+=-..| .|++|+|.|.... -.+. ..+.++.+.++.+-+|-+.... .
T Consensus 49 ~~g~mG~~~~~aiGa~~a~~---~~~vv~i~GDG~f--~~~~-~el~t~~~~~lp~~~iv~NN~~~~~~~~~~~~~~~~~ 122 (178)
T cd02014 49 LLATMGNGLPGAIAAKLAYP---DRQVIALSGDGGF--AMLM-GDLITAVKYNLPVIVVVFNNSDLGFIKWEQEVMGQPE 122 (178)
T ss_pred CCchhhhHHHHHHHHHHhCC---CCcEEEEEcchHH--HhhH-HHHHHHHHhCCCcEEEEEECCchhHHHHHHHHhcCCc
Confidence 44577777777766432222 4679999883321 0111 3466688888988887775431 1
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++++..|+.|..+.+.+.+++.+.+..
T Consensus 123 ~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~~l~~a~ 160 (178)
T cd02014 123 FGVDLPNPDFAKIAEAMGIKGIRVEDPDELEAALDEAL 160 (178)
T ss_pred eeccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 145788888888888888888888776654
No 173
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=57.45 E-value=14 Score=35.45 Aligned_cols=35 Identities=29% Similarity=0.844 Sum_probs=25.6
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
..|| |-+.+.+ ..|.|+.|...||.-- -.||.|.+
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 5544433 3599999999999654 38999975
No 174
>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=57.43 E-value=1e+02 Score=27.37 Aligned_cols=86 Identities=10% Similarity=0.086 Sum_probs=58.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+++-+|-.|+.+=-..| .|+|+.|.|.. +-.| ..+.++++.+++|-+|-+.... .+
T Consensus 57 GsmG~~lpaaiGa~la~p---~~~vv~i~GDG-----~f~m~~~eL~Ta~~~~lpviivV~NN~~yg~~~~~q~~~~~~~ 128 (202)
T cd02006 57 GPLGWTVPAALGVAAADP---DRQVVALSGDY-----DFQFMIEELAVGAQHRIPYIHVLVNNAYLGLIRQAQRAFDMDY 128 (202)
T ss_pred cchhhhhHHHHhHHhhCC---CCeEEEEEeCh-----HhhccHHHHHHHHHhCCCeEEEEEeCchHHHHHHHHHHhcCcc
Confidence 456666666666432223 56899998833 2222 4567799999999999987532 11
Q ss_pred --------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 --------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 --------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 129 ~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 177 (202)
T cd02006 129 QVNLAFENINSSELGGYGVDHVKVAEGLGCKAIRVTKPEELAAAFEQAK 177 (202)
T ss_pred ccccccccccccccCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 23466667778888888888888887765
No 175
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=57.00 E-value=6.3 Score=44.82 Aligned_cols=44 Identities=25% Similarity=0.686 Sum_probs=30.1
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccc-----ccccchhhhhc---CCCCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHF-----CLECDIYIHES---LHNCPGCESLR 314 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f-----C~dCd~fihe~---lh~CpgC~~~~ 314 (324)
..|-.|..... ...||+|+.+. |.+|..-+... --.||.|....
T Consensus 668 rkCPkCG~~t~--------~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtpl 719 (1337)
T PRK14714 668 RRCPSCGTETY--------ENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVEL 719 (1337)
T ss_pred EECCCCCCccc--------cccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcc
Confidence 57889974432 24799999774 99998866433 23699998644
No 176
>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=56.84 E-value=1.1e+02 Score=25.56 Aligned_cols=91 Identities=12% Similarity=0.085 Sum_probs=59.7
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHH-------------
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF------------- 131 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~------------- 131 (324)
.+..+++.++..|+..=...| .++|+++.|...- .- . .+.+.++.+.++++-+|-+.....
T Consensus 43 ~~~g~~G~~~~~a~Gaa~a~~---~~~vv~~~GDG~~-~~-~-~~~l~ta~~~~~~~~~iv~nN~~~~~~~~~~~~~~~~ 116 (168)
T cd00568 43 TGFGAMGYGLPAAIGAALAAP---DRPVVCIAGDGGF-MM-T-GQELATAVRYGLPVIVVVFNNGGYGTIRMHQEAFYGG 116 (168)
T ss_pred CCchhhhhhHHHHHHHHHhCC---CCcEEEEEcCcHH-hc-c-HHHHHHHHHcCCCcEEEEEECCccHHHHHHHHHHcCC
Confidence 344677888877777554443 4678888873322 11 1 267778888899999988875421
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++++.-|..|..+.+.+.+++.+.+..
T Consensus 117 ~~~~~~~~~~d~~~~a~~~G~~~~~v~~~~~l~~a~~~a~ 156 (168)
T cd00568 117 RVSGTDLSNPDFAALAEAYGAKGVRVEDPEDLEAALAEAL 156 (168)
T ss_pred CcccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 134566666777777777777777776654
No 177
>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=56.31 E-value=1.1e+02 Score=26.16 Aligned_cols=91 Identities=15% Similarity=0.091 Sum_probs=57.3
Q ss_pred CCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HH----------
Q 020564 64 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI---------- 132 (324)
Q Consensus 64 ~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~i---------- 132 (324)
..| .+++.+|-.|+.+--..| .++|+++.|...- . ..+ +.+.++.++++++-+|-+.... .+
T Consensus 46 ~~~-g~mG~~lp~aiGaala~~---~~~vv~i~GDG~f-~-~~~-~el~ta~~~~~p~~~iV~nN~~~~~~~~~~~~~~~ 118 (178)
T cd02002 46 LRG-GGLGWGLPAAVGAALANP---DRKVVAIIGDGSF-M-YTI-QALWTAARYGLPVTVVILNNRGYGALRSFLKRVGP 118 (178)
T ss_pred cCC-ccccchHHHHHHHHhcCC---CCeEEEEEcCchh-h-ccH-HHHHHHHHhCCCeEEEEEcCccHHHHHHHHHHHcC
Confidence 344 677777777776544433 4678888884322 1 112 5677788889999988776531 22
Q ss_pred -------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++++.-|..|....+.+.|++.+.+..
T Consensus 119 ~~~~~~~~~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 166 (178)
T cd02002 119 EGPGENAPDGLDLLDPGIDFAAIAKAFGVEAERVETPEELDEALREAL 166 (178)
T ss_pred CCcccccccccccCCCCCCHHHHHHHcCCceEEeCCHHHHHHHHHHHH
Confidence 23455666677777777777777776654
No 178
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=56.10 E-value=11 Score=36.18 Aligned_cols=51 Identities=18% Similarity=0.472 Sum_probs=38.1
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCCCCCCCCc
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 319 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~~~~~ 319 (324)
+...|..|...-..+ .|.-|++.||..|=.=-=+.---||-|-..-.++-|
T Consensus 238 a~~kC~LCLe~~~~p--------SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNP--------SATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCCCC--------CcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 456899998443222 488999999999988888888889999765444433
No 179
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=55.77 E-value=8.1 Score=28.20 Aligned_cols=25 Identities=28% Similarity=0.739 Sum_probs=20.2
Q ss_pred eEcCCCCcccccCCCCCCCCCceecCc
Q 020564 204 YTCPRCKARVCELPTDCRICGLQLVSS 230 (324)
Q Consensus 204 y~Cp~C~s~~C~lP~~C~~C~l~Lvs~ 230 (324)
-.|+.|+.. .|-..||.||..+.++
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 4578999999986554
No 180
>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=55.50 E-value=92 Score=27.23 Aligned_cols=88 Identities=11% Similarity=0.087 Sum_probs=56.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HH--------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI-------------- 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~i-------------- 132 (324)
.+++-+|..|+.+=-..| .|+|+++.|...- -.++ +.+.++.+.++++-+|-+.... .+
T Consensus 50 g~mG~~lp~aiGa~la~~---~~~vv~i~GDG~f--~~~~-~eL~ta~~~~lpi~ivV~nN~~~~~~~~~~~~~~~~~~~ 123 (186)
T cd02015 50 GTMGFGLPAAIGAKVARP---DKTVICIDGDGSF--QMNI-QELATAAQYNLPVKIVILNNGSLGMVRQWQELFYEGRYS 123 (186)
T ss_pred cchhchHHHHHHHHHhCC---CCeEEEEEcccHH--hccH-HHHHHHHHhCCCeEEEEEECCccHHHHHHHHHHcCCcee
Confidence 466667766666533333 4678888883321 0111 4577789999999888886431 11
Q ss_pred ---------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 ---------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 ---------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.++.+.+.|++.+.+..
T Consensus 124 ~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 161 (186)
T cd02015 124 HTTLDSNPDFVKLAEAYGIKGLRVEKPEELEAALKEAL 161 (186)
T ss_pred eccCCCCCCHHHHHHHCCCceEEeCCHHHHHHHHHHHH
Confidence 34567777777888888888888776654
No 181
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=55.32 E-value=7.6 Score=27.48 Aligned_cols=44 Identities=30% Similarity=0.650 Sum_probs=21.7
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhh-cCCCCCCCCC
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHE-SLHNCPGCES 312 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe-~lh~CpgC~~ 312 (324)
|-+|..++.. ++...+-| .|+-..|.+|-.-|-+ .-..||||..
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 4567666632 23345678 7999999999777776 5789999953
No 182
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=54.81 E-value=75 Score=32.90 Aligned_cols=87 Identities=14% Similarity=0.073 Sum_probs=61.6
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++-||-.|+.+=-..| ..|+|++|.|.. +-.| +.+.+++++++++-+|-+.... .
T Consensus 396 g~mG~glpaaiGa~la~p--~~~~Vv~i~GDG-----sf~~~~~eL~Ta~~~~lpi~ivV~NN~~~g~i~~~q~~~~~~~ 468 (549)
T PRK06457 396 GSMGIGVPGSVGASFAVE--NKRQVISFVGDG-----GFTMTMMELITAKKYDLPVKIIIYNNSKLGMIKFEQEVMGYPE 468 (549)
T ss_pred chhhhhHHHHHHHHhcCC--CCCeEEEEEccc-----HHhhhHHHHHHHHHHCCCeEEEEEECCccchHHHHHHHhcCCc
Confidence 466666666666543332 147899998833 3233 4578899999999888886321 0
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.|.++.+.+.|+..+.+.+
T Consensus 469 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 506 (549)
T PRK06457 469 WGVDLYNPDFTKIAESIGFKGFRLEEPKEAEEIIEEFL 506 (549)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 156788889999999999999999888776
No 183
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=54.64 E-value=66 Score=33.65 Aligned_cols=89 Identities=8% Similarity=0.020 Sum_probs=63.1
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchHH------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEMF------------ 131 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~~------------ 131 (324)
|.-+++.||-.|+.+--..| .|+|++|.|.. +-.| +.+.++++++++|-+|-+....+
T Consensus 433 ~~g~mG~glp~aiGa~la~p---~r~vv~i~GDG-----~f~~~~~el~Ta~~~~lpv~ivV~NN~~y~~~~~~~~~~~~ 504 (588)
T PRK07525 433 SFGNCGYAFPAIIGAKIACP---DRPVVGFAGDG-----AWGISMNEVMTAVRHNWPVTAVVFRNYQWGAEKKNQVDFYN 504 (588)
T ss_pred cccccccHHHHHHHHHHhCC---CCcEEEEEcCc-----hHhccHHHHHHHHHhCCCeEEEEEeCchhHHHHHHHHHHhC
Confidence 33567777777776554443 46799998833 2222 45778999999999998864321
Q ss_pred ------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 132 ------------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 132 ------------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
=+.++|+..|+.+..+.+.+.|+..|.+.+.
T Consensus 505 ~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~~ 547 (588)
T PRK07525 505 NRFVGTELDNNVSYAGIAEAMGAEGVVVDTQEELGPALKRAID 547 (588)
T ss_pred CCcccccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHHh
Confidence 1355888889999899999999988877663
No 184
>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=54.53 E-value=8.7 Score=31.78 Aligned_cols=47 Identities=26% Similarity=0.598 Sum_probs=31.4
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhh-hhcCCCCCCC
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI-HESLHNCPGC 310 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fi-he~lh~CpgC 310 (324)
+...|.-|..+|.-..+ ..-.|..|+..+|..|-++. .+..-.|--|
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 56799999988854332 13579999999999999983 2334344444
No 185
>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=54.53 E-value=1.1e+02 Score=25.85 Aligned_cols=63 Identities=19% Similarity=0.277 Sum_probs=44.2
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEcc--chHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 93 LILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLS--AEMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lg--ae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
|+|+||- |+|- +|++.++++.=+..+++|. .....|.+.+++-+=.|-+..|++.++++-...
T Consensus 1 i~ILGsT-----GSIG~qtLdVi~~~~d~f~v~~Lsa~~n~~~L~~q~~~f~p~~v~i~~~~~~~~l~~~~ 66 (129)
T PF02670_consen 1 IAILGST-----GSIGTQTLDVIRKHPDKFEVVALSAGSNIEKLAEQAREFKPKYVVIADEEAYEELKKAL 66 (129)
T ss_dssp EEEESTT-----SHHHHHHHHHHHHCTTTEEEEEEEESSTHHHHHHHHHHHT-SEEEESSHHHHHHHHHHH
T ss_pred CEEEcCC-----cHHHHHHHHHHHhCCCceEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHHHHHh
Confidence 4567755 5676 6888888887444455554 567889999999999998888887665554433
No 186
>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=54.12 E-value=66 Score=33.60 Aligned_cols=87 Identities=9% Similarity=-0.013 Sum_probs=60.2
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH-----------
Q 020564 67 DSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI----------- 132 (324)
Q Consensus 67 ~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i----------- 132 (324)
.-+|+-||-.|+.+=-..| .|+|++|.|.. +-.| +.+.++.+++++|-+|-+.... .+
T Consensus 407 ~gsmG~glpaAiGa~la~p---~r~Vv~i~GDG-----sf~m~~~eL~Tavr~~lpi~~VV~NN~~yg~i~~~~~~~~~~ 478 (575)
T TIGR02720 407 FATMGVGVPGAIAAKLNYP---DRQVFNLAGDG-----AFSMTMQDLLTQVQYHLPVINIVFSNCTYGFIKDEQEDTNQP 478 (575)
T ss_pred cchhhchHHHHHHHHHhCC---CCcEEEEEccc-----HHHhhHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhCCC
Confidence 3567777776666433333 47799998833 3233 4578999999999999775321 11
Q ss_pred ----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 ----------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 ----------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+..|+.+.++.+.+.|++.+.+..
T Consensus 479 ~~~~~~~~~df~~iA~a~G~~~~~v~~~~el~~al~~a~ 517 (575)
T TIGR02720 479 LIGVDFNDADFAKIAEGVGAVGFRVNKIEQLPAVFEQAK 517 (575)
T ss_pred cccccCCCCCHHHHHHHCCCEEEEeCCHHHHHHHHHHHH
Confidence 45677778888888888888888887765
No 187
>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=53.86 E-value=5.6 Score=22.70 Aligned_cols=13 Identities=38% Similarity=0.899 Sum_probs=9.6
Q ss_pred eeCCCCCcccccc
Q 020564 283 VACPKCKKHFCLE 295 (324)
Q Consensus 283 ~~C~~C~~~fC~d 295 (324)
|+|+.|+..|=.-
T Consensus 1 y~C~~C~~~f~~~ 13 (23)
T PF00096_consen 1 YKCPICGKSFSSK 13 (23)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCccCCH
Confidence 6899998887433
No 188
>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=53.84 E-value=5.8 Score=28.56 Aligned_cols=24 Identities=38% Similarity=0.722 Sum_probs=16.3
Q ss_pred cCCCCCCCCCceecCchhHHhhhc
Q 020564 215 ELPTDCRICGLQLVSSPHLARSYH 238 (324)
Q Consensus 215 ~lP~~C~~C~l~Lvs~~hLarsyh 238 (324)
+-|..||+|+.++-++=.|.|-.+
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 457899999999999999998753
No 189
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=53.21 E-value=58 Score=33.62 Aligned_cols=86 Identities=10% Similarity=0.075 Sum_probs=61.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++-||-.|+.+=-..| .|+|++|.|.. +-.| +.+.++++.+++|-+|-+.... .
T Consensus 401 g~mG~glpaAiGa~la~p---~~~vv~i~GDG-----~f~~~~~eL~ta~~~~l~v~ivV~NN~~~~~~~~~~~~~~~~~ 472 (548)
T PRK08978 401 GTMGFGLPAAIGAQVARP---DDTVICVSGDG-----SFMMNVQELGTIKRKQLPVKIVLLDNQRLGMVRQWQQLFFDER 472 (548)
T ss_pred hhhhchHHHHHHHHHhCC---CCcEEEEEccc-----hhhccHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCc
Confidence 466667777766543333 56899998833 3233 5678889999999999886420 0
Q ss_pred ---H-------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ---I-------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ---i-------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+ +.++|+.-|+.|..+.+.+.|++.|.+..
T Consensus 473 ~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (548)
T PRK08978 473 YSETDLSDNPDFVMLASAFGIPGQTITRKDQVEAALDTLL 512 (548)
T ss_pred ceecCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1 56688888899999999999998887775
No 190
>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=52.45 E-value=36 Score=24.09 Aligned_cols=36 Identities=14% Similarity=0.081 Sum_probs=27.9
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
+|-++|+....+++-..+.++.+.+.+|+|+.|+-+
T Consensus 3 ~isvvg~~~~~~~~~~~~if~~L~~~~I~v~~i~q~ 38 (66)
T cd04919 3 ILSLVGKHMKNMIGIAGRMFTTLADHRINIEMISQG 38 (66)
T ss_pred EEEEECCCCCCCcCHHHHHHHHHHHCCCCEEEEEec
Confidence 455667666656776678899999999999999764
No 191
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=51.88 E-value=5.7 Score=26.89 Aligned_cols=11 Identities=36% Similarity=1.035 Sum_probs=6.6
Q ss_pred CCCcccccccc
Q 020564 287 KCKKHFCLECD 297 (324)
Q Consensus 287 ~C~~~fC~dCd 297 (324)
.|++.||.+|=
T Consensus 15 ~CGH~FC~~Cl 25 (42)
T PF15227_consen 15 PCGHSFCRSCL 25 (42)
T ss_dssp SSSSEEEHHHH
T ss_pred CCcCHHHHHHH
Confidence 46666666663
No 192
>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=51.67 E-value=65 Score=25.28 Aligned_cols=42 Identities=17% Similarity=0.250 Sum_probs=30.6
Q ss_pred ceEEEEEeCCCCCCccc---HHHHHHHHHhcCcEEEEEEccchHH
Q 020564 90 REVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSAEMF 131 (324)
Q Consensus 90 reILil~gS~~t~d~g~---i~~ti~~akk~~IrV~vI~Lgae~~ 131 (324)
+.||+=++.....|... +.+..+.+++.|+++.++++..++.
T Consensus 42 ~~vvlDls~v~~iDssg~~~l~~~~~~~~~~g~~l~l~g~~~~v~ 86 (109)
T cd07041 42 RGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTGIRPEVA 86 (109)
T ss_pred CEEEEECCCCchhcHHHHHHHHHHHHHHHHcCCeEEEEeCCHHHH
Confidence 44555466666666653 3478899999999999999987763
No 193
>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=51.43 E-value=6.8 Score=24.40 Aligned_cols=28 Identities=25% Similarity=0.755 Sum_probs=9.3
Q ss_pred ccccccccccCCCCCCCceeeCCCCCccccccc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLEC 296 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dC 296 (324)
.|.+|..+... ...|.|+.|+-.+..+|
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 48889866642 24687776655544433
No 194
>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=50.50 E-value=6.1 Score=27.32 Aligned_cols=44 Identities=25% Similarity=0.517 Sum_probs=32.4
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc-cccccchhhhhcCCCCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKH-FCLECDIYIHESLHNCPGCESLR 314 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~-fC~dCd~fihe~lh~CpgC~~~~ 314 (324)
..|.-|.....+ ..--.|++. ||.+|-.-+...-..||.|....
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 99999999999999999997643
No 195
>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=50.38 E-value=36 Score=27.73 Aligned_cols=47 Identities=19% Similarity=0.314 Sum_probs=32.4
Q ss_pred eEEEEE-eCCCCCCcccHHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhC
Q 020564 91 EVLILY-SALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTG 141 (324)
Q Consensus 91 eILil~-gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~Tg 141 (324)
+|+|+- |+. -....++++.|+++||++.+|.+-- +...++++.+.++
T Consensus 11 di~iia~G~~----~~~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~ 62 (124)
T PF02780_consen 11 DITIIAYGSM----VEEALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTG 62 (124)
T ss_dssp SEEEEEETTH----HHHHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHH
T ss_pred CEEEEeehHH----HHHHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhc
Confidence 466664 332 2355689999999999999999953 3456666666655
No 196
>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=50.32 E-value=6.1 Score=26.41 Aligned_cols=14 Identities=36% Similarity=0.994 Sum_probs=6.0
Q ss_pred cccccccchhh-hhc
Q 020564 290 KHFCLECDIYI-HES 303 (324)
Q Consensus 290 ~~fC~dCd~fi-he~ 303 (324)
..||.-||+|+ |++
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 197
>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=49.93 E-value=40 Score=23.66 Aligned_cols=36 Identities=14% Similarity=0.160 Sum_probs=26.8
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
++-++|.....+++-+.+..+.+.+.||+|+.|+-+
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~ 38 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQG 38 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 344566555546666668899999999999999754
No 198
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=49.19 E-value=4.4 Score=39.53 Aligned_cols=22 Identities=36% Similarity=0.730 Sum_probs=15.5
Q ss_pred cccccccchhhhhc--CCCCCCCC
Q 020564 290 KHFCLECDIYIHES--LHNCPGCE 311 (324)
Q Consensus 290 ~~fC~dCd~fihe~--lh~CpgC~ 311 (324)
+.+|..||++||.+ |++++.+-
T Consensus 50 ~~~CP~C~i~ih~t~pl~ni~~Dr 73 (331)
T KOG2660|consen 50 SKYCPTCDIVIHKTHPLLNIRSDR 73 (331)
T ss_pred hccCCccceeccCccccccCCcch
Confidence 55677777888877 77776653
No 199
>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=48.99 E-value=77 Score=27.56 Aligned_cols=88 Identities=13% Similarity=0.206 Sum_probs=58.1
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH------------
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM------------ 130 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~------------ 130 (324)
.|-..++.+|-.|+.+=... .|+|+.|.| |-+-.| ..+.++.+++++|-+|-+....
T Consensus 48 ~g~g~mG~~l~~aiGa~la~----~~~Vv~i~G-----DGsf~m~~~eL~ta~~~~l~v~ivVlNN~~~g~~~~~~~~~~ 118 (175)
T cd02009 48 RGASGIDGTLSTALGIALAT----DKPTVLLTG-----DLSFLHDLNGLLLGKQEPLNLTIVVINNNGGGIFSLLPQASF 118 (175)
T ss_pred CCccchhhHHHHHHHHHhcC----CCCEEEEEe-----hHHHHHhHHHHHhccccCCCeEEEEEECCCCchheeccCCcc
Confidence 34344555555555532211 467998888 333333 4567788889999888876320
Q ss_pred ------H-------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 ------F-------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 ------~-------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
. =..++|+.-|..+..+.+.+.|++.|.+..
T Consensus 119 ~~~~~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 162 (175)
T cd02009 119 EDEFERLFGTPQGLDFEHLAKAYGLEYRRVSSLDELEQALESAL 162 (175)
T ss_pred cchhhhhhcCCCCCCHHHHHHHcCCCeeeCCCHHHHHHHHHHHH
Confidence 0 145788888888988889999998888775
No 200
>COG4548 NorD Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]
Probab=48.55 E-value=91 Score=32.87 Aligned_cols=88 Identities=18% Similarity=0.152 Sum_probs=58.8
Q ss_pred CCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCC--CC-cc---cHH---HHHHHHHhcCcEEEEEEccchHHHH
Q 020564 63 GCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST--CD-PG---DIM---ETIQKCKESKIRCSVIGLSAEMFIC 133 (324)
Q Consensus 63 ~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t--~d-~g---~i~---~ti~~akk~~IrV~vI~Lgae~~iL 133 (324)
++.-.+=.+.||..|...|.+.| ..++.||+++...- -| +. .|. ++...++|.||-|--|-+..|..
T Consensus 528 ePg~ytR~G~AIR~As~kL~~rp--q~qklLivlSDGkPnd~d~YEgr~gIeDTr~AV~eaRk~Gi~VF~Vtld~ea~-- 603 (637)
T COG4548 528 EPGYYTRDGAAIRHASAKLMERP--QRQKLLIVLSDGKPNDFDHYEGRFGIEDTREAVIEARKSGIEVFNVTLDREAI-- 603 (637)
T ss_pred CccccccccHHHHHHHHHHhcCc--ccceEEEEecCCCcccccccccccchhhHHHHHHHHHhcCceEEEEEecchhh--
Confidence 34455788999999999999997 36678888864332 24 21 243 57888999999999888876532
Q ss_pred HHHHHhhC-CeeEEeCCHHHHH
Q 020564 134 KHLCQDTG-GSYSVALDESHFK 154 (324)
Q Consensus 134 k~ia~~Tg-G~Y~va~d~~hl~ 154 (324)
..+-.+|| +.|....+.++|-
T Consensus 604 ~y~p~~fgqngYa~V~~v~~LP 625 (637)
T COG4548 604 SYLPALFGQNGYAFVERVAQLP 625 (637)
T ss_pred hhhHHHhccCceEEccchhhcc
Confidence 23444555 5565444555443
No 201
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=48.51 E-value=77 Score=20.88 Aligned_cols=34 Identities=18% Similarity=0.183 Sum_probs=25.2
Q ss_pred EEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 95 LYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 95 l~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
+.|.....+++-+.+.++.+.+.+|+|+.++-+.
T Consensus 5 v~g~~~~~~~~~~~~i~~~l~~~~i~i~~i~~~~ 38 (60)
T cd04868 5 IVGVGMRGTPGVAAKIFSALAEAGINVDMISQSE 38 (60)
T ss_pred EECCCCCCCCCHHHHHHHHHHHCCCcEEEEEcCC
Confidence 4554433356656688999999999999998754
No 202
>KOG1327 consensus Copine [Signal transduction mechanisms]
Probab=48.50 E-value=2.3e+02 Score=29.73 Aligned_cols=136 Identities=13% Similarity=0.177 Sum_probs=84.6
Q ss_pred CCCcHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeee-----EeecCCCCH--------HHHHHHHhhhc---CCCC
Q 020564 3 FRPSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVAN-----CLTDLGGSP--------ESHIKALMGKL---GCSG 66 (324)
Q Consensus 3 ~~P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~-----~l~~lt~n~--------~~~~~~L~~~~---~~~G 66 (324)
..||=++.++..+-+-+..| +|..++.-.+|.++..- --..+++++ +.++++-++.+ ..-|
T Consensus 313 ~~~N~Y~~Ai~~vG~~lq~y---dsdk~fpa~GFGakip~~~~vs~~f~ln~~~~~~~c~Gi~gVl~aY~~~lp~v~l~G 389 (529)
T KOG1327|consen 313 HQPNPYEQAIRSVGETLQDY---DSDKLFPAFGFGAKIPPDGQVSHEFVLNFNPEDPECRGIEGVLEAYRKALPNVQLYG 389 (529)
T ss_pred CCCCHHHHHHHHHhhhhccc---CCCCccccccccccCCCCcccccceeecCCCCCCccccHHHHHHHHHhhcccccccC
Confidence 46888999999999999888 88888887778654211 112344443 34666666543 4568
Q ss_pred cchHHHHHHHHHHHhhCCCCCCCc-eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhC
Q 020564 67 DSSLQNALDLVQGLLSQIPSYGHR-EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTG 141 (324)
Q Consensus 67 ~~sL~naL~~A~~~L~~~p~~~~r-eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~Tg 141 (324)
.|++.--|..|...-+....++.+ -||+|++...-.|-....++|-.|-+.=.-|=+||+|. +-.-++++-...+
T Consensus 390 PTnFaPII~~va~~a~~~~~~~~qY~VLlIitDG~vTdm~~T~~AIV~AS~lPlSIIiVGVGd~df~~M~~lD~d~~ 466 (529)
T KOG1327|consen 390 PTNFSPIINHVARIAQQSGNTAGQYHVLLIITDGVVTDMKETRDAIVSASDLPLSIIIVGVGDADFDMMRELDGDDP 466 (529)
T ss_pred CCccHHHHHHHHHHHHHhccCCcceEEEEEEeCCccccHHHHHHHHHhhccCCeEEEEEEeCCCCHHHHHHhhcCCc
Confidence 887777777776666654322222 49999875543343333355666666666677777774 3455566555444
No 203
>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=48.47 E-value=45 Score=23.34 Aligned_cols=36 Identities=14% Similarity=0.109 Sum_probs=27.2
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
++=++|.....+++-+.+.++.+.+.+|+|+.|+-+
T Consensus 3 ~isivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~q~ 38 (66)
T cd04924 3 VVAVVGSGMRGTPGVAGRVFGALGKAGINVIMISQG 38 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 455567665556665668899999999999999864
No 204
>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=48.31 E-value=89 Score=32.80 Aligned_cols=86 Identities=10% Similarity=0.086 Sum_probs=60.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+|+-||-.|+.+=-..| .|+|+.|.|.. +-.| ..+.+++++|++|-+|-+.... .+
T Consensus 418 gsmG~glpaaiGa~lA~p---dr~Vv~i~GDG-----~f~m~~~EL~Ta~r~~lpvv~iV~NN~~yg~i~~~q~~~~~~~ 489 (588)
T TIGR01504 418 GPLGWTIPAALGVCAADP---KRNVVALSGDY-----DFQFMIEELAVGAQHNIPYIHVLVNNAYLGLIRQAQRAFDMDY 489 (588)
T ss_pred ccccchHhHHHhhhhhCC---CCcEEEEEcch-----HhhccHHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcccc
Confidence 456666666666544443 56799998832 3223 5688999999999999986431 01
Q ss_pred --------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 --------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 --------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.+..+.+.|++.|.+.+
T Consensus 490 ~~~~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 538 (588)
T TIGR01504 490 CVQLAFENINSSEVNGYGVDHVKVAEGLGCKAIRVFKPEEIAPAFEQAK 538 (588)
T ss_pred cceeeccccccccccCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 34577777888888889999988887765
No 205
>smart00355 ZnF_C2H2 zinc finger.
Probab=48.23 E-value=6 Score=22.33 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=17.9
Q ss_pred eeCCCCCcccccccchhhhhcCC
Q 020564 283 VACPKCKKHFCLECDIYIHESLH 305 (324)
Q Consensus 283 ~~C~~C~~~fC~dCd~fihe~lh 305 (324)
|+|+.|+..|-..-+...|...|
T Consensus 1 ~~C~~C~~~f~~~~~l~~H~~~H 23 (26)
T smart00355 1 YRCPECGKVFKSKSALKEHMRTH 23 (26)
T ss_pred CCCCCCcchhCCHHHHHHHHHHh
Confidence 57888988888888887776644
No 206
>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=47.99 E-value=1.1e+02 Score=30.62 Aligned_cols=80 Identities=14% Similarity=0.006 Sum_probs=43.6
Q ss_pred cHHHHHHHHHhcCcEEEEEEccchH-HH-HHHHHHhhCCe-eEEeCCHHHHHHHHHhcCCCCccch-hhhhhceeeecCC
Q 020564 106 DIMETIQKCKESKIRCSVIGLSAEM-FI-CKHLCQDTGGS-YSVALDESHFKELIMEHAPPPPAIA-EFAIANLIKMGFP 181 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lgae~-~i-Lk~ia~~TgG~-Y~va~d~~hl~~lL~~~~~pp~~~~-~~~~~~Li~mGfP 181 (324)
-..-.++.+.+.|+.+-.++-+... .. -+.+....++. -.--.|..++.+++.+. .|.-.-. ......|+++|||
T Consensus 285 ~~~~l~~~L~elGm~~v~~~t~~~~~~~~~~~~~~l~~~~~v~~~~d~~~l~~~i~~~-~pDllig~~~~~~pl~r~GfP 363 (407)
T TIGR01279 285 LELPLARFLKRCGMEVVECGTPYIHRRFHAAELALLEGGVRIVEQPDFHRQLQRIRAT-RPDLVVTGLGTANPLEAQGFT 363 (407)
T ss_pred HHHHHHHHHHHCCCEEEEecCCCCChHHHHHHHhhcCCCCeEEeCCCHHHHHHHHHhc-CCCEEecCccCCCcHhhCCcc
Confidence 3456788889999999777765431 12 22222222232 12223555555665543 2332221 2335689999999
Q ss_pred CCCCC
Q 020564 182 QRAGE 186 (324)
Q Consensus 182 ~~~~~ 186 (324)
.....
T Consensus 364 ~~dr~ 368 (407)
T TIGR01279 364 TKWSI 368 (407)
T ss_pred eeEee
Confidence 87543
No 207
>PRK08617 acetolactate synthase; Reviewed
Probab=47.30 E-value=65 Score=33.32 Aligned_cols=85 Identities=12% Similarity=0.038 Sum_probs=59.4
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H-----------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F----------- 131 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~----------- 131 (324)
+++.||-.|+.+=-..| .|+|++|.|.. +-.| +.+.+++++|++|-+|-+.... .
T Consensus 415 ~mG~~lpaaiGa~la~p---~~~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~~vV~NN~~~~~~~~~~~~~~~~~~ 486 (552)
T PRK08617 415 TLGVALPWAIAAALVRP---GKKVVSVSGDG-----GFLFSAMELETAVRLKLNIVHIIWNDGHYNMVEFQEEMKYGRSS 486 (552)
T ss_pred cccccccHHHhhHhhcC---CCcEEEEEech-----HHhhhHHHHHHHHHhCCCeEEEEEECCccchHHHHHHhhcCCcc
Confidence 55555555554332222 46799998833 3233 4578899999999988876421 0
Q ss_pred -------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+.|..+.+.+.|++.|.+..
T Consensus 487 ~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 523 (552)
T PRK08617 487 GVDFGPVDFVKYAESFGAKGLRVTSPDELEPVLREAL 523 (552)
T ss_pred cCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 045788999999999999999999998876
No 208
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=47.20 E-value=5.8 Score=40.09 Aligned_cols=26 Identities=42% Similarity=1.041 Sum_probs=22.5
Q ss_pred eeEcCCCCcccccCC-----------CCCCCCCceec
Q 020564 203 GYTCPRCKARVCELP-----------TDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP-----------~~C~~C~l~Lv 228 (324)
||.||.|+++|-.|- -.|..|+.-||
T Consensus 128 ~Y~Cp~C~kkyt~Lea~~L~~~~~~~F~C~~C~gelv 164 (436)
T KOG2593|consen 128 GYVCPNCQKKYTSLEALQLLDNETGEFHCENCGGELV 164 (436)
T ss_pred cccCCccccchhhhHHHHhhcccCceEEEecCCCchh
Confidence 999999999987642 37999999998
No 209
>PLN02470 acetolactate synthase
Probab=47.12 E-value=72 Score=33.35 Aligned_cols=86 Identities=12% Similarity=0.067 Sum_probs=60.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-H-------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-F------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~------------- 131 (324)
-+++-||-.|+.+=-..| .|+|++|.|.. +-.| +.+.++.+.+++|-+|-+.... .
T Consensus 426 g~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~l~v~ivV~NN~~yg~i~~~~~~~~~~~ 497 (585)
T PLN02470 426 GAMGFGLPAAIGAAAANP---DAIVVDIDGDG-----SFIMNIQELATIHVENLPVKIMVLNNQHLGMVVQWEDRFYKAN 497 (585)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEccc-----hhhccHHHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHHhCCc
Confidence 355556655555433333 46799998832 3233 5688999999999998886421 0
Q ss_pred -----------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -----------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -----------------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+.+..+.+.+.|++.|.+..
T Consensus 498 ~~~~~~~~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~el~~al~~a~ 544 (585)
T PLN02470 498 RAHTYLGDPDAEAEIFPDFLKFAEGCKIPAARVTRKSDLREAIQKML 544 (585)
T ss_pred eeeeecCccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145688888899999999999998887765
No 210
>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=47.03 E-value=14 Score=31.41 Aligned_cols=32 Identities=9% Similarity=0.191 Sum_probs=24.1
Q ss_pred CCCCccccccccccCCCCCCCceeeCCCCCccccc
Q 020564 260 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 294 (324)
Q Consensus 260 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 294 (324)
+.++.|..|.+.|...... .-.||+|+..|=.
T Consensus 7 GtKr~Cp~cg~kFYDLnk~---p~vcP~cg~~~~~ 38 (129)
T TIGR02300 7 GTKRICPNTGSKFYDLNRR---PAVSPYTGEQFPP 38 (129)
T ss_pred CccccCCCcCccccccCCC---CccCCCcCCccCc
Confidence 4678999999999876432 3469999988633
No 211
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=46.27 E-value=87 Score=30.17 Aligned_cols=43 Identities=12% Similarity=0.097 Sum_probs=36.1
Q ss_pred cccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEE
Q 020564 104 PGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV 146 (324)
Q Consensus 104 ~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~v 146 (324)
+.+|.++++.+|+.+|++=+.-=.......+.+++.||....+
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 4588899999999999987766666678999999999987644
No 212
>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=46.19 E-value=15 Score=23.92 Aligned_cols=26 Identities=31% Similarity=0.662 Sum_probs=19.5
Q ss_pred CCCCCcccccccchhhhh--cCCCCCCC
Q 020564 285 CPKCKKHFCLECDIYIHE--SLHNCPGC 310 (324)
Q Consensus 285 C~~C~~~fC~dCd~fihe--~lh~CpgC 310 (324)
=..|++.||.+|=.-.-+ .-..||.|
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 568999999999766555 55567766
No 213
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=46.16 E-value=1.2e+02 Score=31.58 Aligned_cols=86 Identities=13% Similarity=0.127 Sum_probs=60.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchHH--------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEMF-------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~~-------------- 131 (324)
-+++.||-.|+.+--..| .|+|++|.|.. +-.| +.+.++.+.+++|-+|-+....+
T Consensus 421 g~mG~~lp~aiGa~la~p---~~~vv~i~GDG-----~f~~~~~eL~ta~~~~lpv~~vV~NN~~~~~i~~~q~~~~~~~ 492 (574)
T PRK06882 421 GTMGFGLPAAIGVKFAHP---EATVVCVTGDG-----SIQMNIQELSTAKQYDIPVVIVSLNNRFLGMVKQWQDLIYSGR 492 (574)
T ss_pred ccccchhHHHHHHHhhcC---CCcEEEEEcch-----hhhccHHHHHHHHHhCCCeEEEEEECchhHHHHHHHHHhcCCc
Confidence 456666666665433333 46788888833 2222 56788899999999988864310
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.+..+.+.+.|+..|.+..
T Consensus 493 ~~~~~~~~~~d~~~la~a~G~~~~~v~~~~eL~~al~~a~ 532 (574)
T PRK06882 493 HSQVYMNSLPDFAKLAEAYGHVGIQIDTPDELEEKLTQAF 532 (574)
T ss_pred ccccCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 045688888999999999999999887765
No 214
>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=45.61 E-value=15 Score=25.73 Aligned_cols=11 Identities=36% Similarity=0.812 Sum_probs=6.0
Q ss_pred eEcCCCCcccc
Q 020564 204 YTCPRCKARVC 214 (324)
Q Consensus 204 y~Cp~C~s~~C 214 (324)
|.|++|+.+|=
T Consensus 2 y~C~~CgyvYd 12 (47)
T PF00301_consen 2 YQCPVCGYVYD 12 (47)
T ss_dssp EEETTTSBEEE
T ss_pred cCCCCCCEEEc
Confidence 55666655443
No 215
>PF11181 YflT: Heat induced stress protein YflT
Probab=45.57 E-value=29 Score=27.85 Aligned_cols=76 Identities=16% Similarity=0.156 Sum_probs=50.9
Q ss_pred cccHHHHHHHHHhcCcEEEEEEccc-hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeecCCC
Q 020564 104 PGDIMETIQKCKESKIRCSVIGLSA-EMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMGFPQ 182 (324)
Q Consensus 104 ~g~i~~ti~~akk~~IrV~vI~Lga-e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mGfP~ 182 (324)
...+..+|+.|+++|..=+=|.+=+ +-.-...|++.| +...+-..+..+.+-+..+++. .....+..|..||||.
T Consensus 9 ~~E~~~~I~~L~~~Gy~~ddI~Vva~d~~~~~~l~~~t-~~~~~~~~~~~~~d~~~~~f~~---~~d~~~~~l~~lGl~~ 84 (103)
T PF11181_consen 9 EEEALSAIEELKAQGYSEDDIYVVAKDKDRTERLADQT-DTNTVGASEESFWDKIKNFFTS---GGDELRSKLESLGLSE 84 (103)
T ss_pred HHHHHHHHHHHHHcCCCcccEEEEEcCchHHHHHHHhc-CCceeccccccHHHHHHHhccC---CcHHHHHHHHHcCCCH
Confidence 4466788999999888765555444 455667888888 3444455556677777776651 2234567889999986
Q ss_pred C
Q 020564 183 R 183 (324)
Q Consensus 183 ~ 183 (324)
.
T Consensus 85 ~ 85 (103)
T PF11181_consen 85 D 85 (103)
T ss_pred H
Confidence 5
No 216
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=45.32 E-value=9.6 Score=31.01 Aligned_cols=31 Identities=26% Similarity=0.514 Sum_probs=18.6
Q ss_pred CCCcccccc--------ccccCCCCCCCceeeCCCCCcc
Q 020564 261 SRSTCFGCQ--------QSLLSSGNKPGLYVACPKCKKH 291 (324)
Q Consensus 261 ~~~~C~~C~--------~~~~~~~~~~~~~~~C~~C~~~ 291 (324)
....|--|. .+.-+.+...+..|+|-+|++.
T Consensus 64 t~~~Cp~Cgh~rayF~qlQtRSADEPmT~FYkC~~C~~~ 102 (105)
T KOG2906|consen 64 TEATCPTCGHERAYFMQLQTRSADEPMTTFYKCCKCKHR 102 (105)
T ss_pred ccCcCCCCCCCceEEEEeeeccCCCcHhHhhhhhccccc
Confidence 455788883 2222223334567999999863
No 217
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=45.31 E-value=35 Score=28.41 Aligned_cols=22 Identities=36% Similarity=0.748 Sum_probs=16.8
Q ss_pred eeEcCCCCcccc--------cCCCCCCCCC
Q 020564 203 GYTCPRCKARVC--------ELPTDCRICG 224 (324)
Q Consensus 203 Gy~Cp~C~s~~C--------~lP~~C~~C~ 224 (324)
.|.|++|+..|| +.--.||.|.
T Consensus 81 ~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 81 RYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred ceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 899999999999 2223577665
No 218
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=44.85 E-value=12 Score=25.35 Aligned_cols=25 Identities=36% Similarity=0.745 Sum_probs=15.4
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPG 309 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~Cpg 309 (324)
.+.|+.|+..||.+= .+..-|.|++
T Consensus 13 ~~~C~~C~~~FC~~H---r~~e~H~C~~ 37 (43)
T PF01428_consen 13 PFKCKHCGKSFCLKH---RLPEDHNCSK 37 (43)
T ss_dssp HEE-TTTS-EE-TTT---HSTTTCT-SS
T ss_pred CeECCCCCcccCccc---cCccccCCcc
Confidence 589999999999864 3456677764
No 219
>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=44.21 E-value=56 Score=22.86 Aligned_cols=36 Identities=8% Similarity=0.067 Sum_probs=27.3
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
++-++|.....+++-+.+....+.+.+|.|+.|+-+
T Consensus 3 lisivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~~ 38 (66)
T cd04916 3 LIMVVGEGMKNTVGVSARATAALAKAGINIRMINQG 38 (66)
T ss_pred EEEEEcCCCCCCccHHHHHHHHHHHCCCCEEEEEec
Confidence 344567655556666668899999999999999874
No 220
>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=43.89 E-value=2.2e+02 Score=24.81 Aligned_cols=93 Identities=13% Similarity=0.155 Sum_probs=53.4
Q ss_pred HHHHHHHHHhcCCcC-CceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc-----CCCCcchHHHHHHHHHHHhhCCCCC
Q 020564 14 QVEAFVREFFDQNPL-SQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL-----GCSGDSSLQNALDLVQGLLSQIPSY 87 (324)
Q Consensus 14 ~l~~Fv~~~f~qNP~-sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~-----~~~G~~sL~naL~~A~~~L~~~p~~ 87 (324)
.+.+.+++...|..- ...-||+..|+.. .+..+.++.+.... ....+.....|+..|+...
T Consensus 14 ~l~~~l~sl~~q~~~~~~~evivvd~~s~-------d~~~~~~~~~~~~~~~v~~i~~~~~~~~~a~N~g~~~a------ 80 (249)
T cd02525 14 YIEELLESLLNQSYPKDLIEIIVVDGGST-------DGTREIVQEYAAKDPRIRLIDNPKRIQSAGLNIGIRNS------ 80 (249)
T ss_pred hHHHHHHHHHhccCCCCccEEEEEeCCCC-------ccHHHHHHHHHhcCCeEEEEeCCCCCchHHHHHHHHHh------
Confidence 345556666666543 5566666655542 23455556554311 0111223556666666543
Q ss_pred CCceEEEEEeCCCCCCcccHHHHHHHHHhcCcE
Q 020564 88 GHREVLILYSALSTCDPGDIMETIQKCKESKIR 120 (324)
Q Consensus 88 ~~reILil~gS~~t~d~g~i~~ti~~akk~~Ir 120 (324)
+-++|+++.++...+|+-+.+....+++.++.
T Consensus 81 -~~d~v~~lD~D~~~~~~~l~~~~~~~~~~~~~ 112 (249)
T cd02525 81 -RGDIIIRVDAHAVYPKDYILELVEALKRTGAD 112 (249)
T ss_pred -CCCEEEEECCCccCCHHHHHHHHHHHhcCCCC
Confidence 24689999888777888777777666665543
No 221
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=43.86 E-value=16 Score=39.77 Aligned_cols=37 Identities=19% Similarity=0.507 Sum_probs=25.9
Q ss_pred CCccccccccccCCCCC-CCceeeCCCCCcccccccch
Q 020564 262 RSTCFGCQQSLLSSGNK-PGLYVACPKCKKHFCLECDI 298 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~-~~~~~~C~~C~~~fC~dCd~ 298 (324)
...|..|.+.|..-... ..-++-|-+|+..||..|--
T Consensus 460 SdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSS 497 (1374)
T PTZ00303 460 SDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCIT 497 (1374)
T ss_pred CCcccCcCCcccccccccccccccccCCccccCccccC
Confidence 35799999999531100 01246699999999999974
No 222
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=43.70 E-value=59 Score=28.87 Aligned_cols=65 Identities=17% Similarity=0.276 Sum_probs=44.4
Q ss_pred CCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HHHHHHHH
Q 020564 64 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FICKHLCQ 138 (324)
Q Consensus 64 ~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~iLk~ia~ 138 (324)
.+|+.....|+++.....+.. -. .+|+++++ +|+.-+++.|+..|.+|.++++..-. .=|+..|+
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 357777777777766655432 33 45555434 46777899999999999999998732 34666653
No 223
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=43.62 E-value=1e+02 Score=32.38 Aligned_cols=86 Identities=15% Similarity=0.077 Sum_probs=62.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++-||-.|+.+--..| .|+|+.|.|.. +-.| +.+.++.+++++|-+|-+.... .
T Consensus 447 G~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~q~~~~~~~ 518 (612)
T PRK07789 447 GTMGYAVPAAMGAKVGRP---DKEVWAIDGDG-----CFQMTNQELATCAIEGIPIKVALINNGNLGMVRQWQTLFYEER 518 (612)
T ss_pred ccccchhhhHHhhhccCC---CCcEEEEEcch-----hhhccHHHHHHHHHcCCCeEEEEEECCchHHHHHHHHHhhCCC
Confidence 457777777775544333 46788888833 3233 5688899999999999886421 0
Q ss_pred --------------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.|..+.+.+.|++.|.+..
T Consensus 519 ~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 562 (612)
T PRK07789 519 YSNTDLHTHSHRIPDFVKLAEAYGCVGLRCEREEDVDAVIEKAR 562 (612)
T ss_pred cceeecCcCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 056788899999999999999999887765
No 224
>PRK13981 NAD synthetase; Provisional
Probab=43.60 E-value=2.3e+02 Score=29.36 Aligned_cols=40 Identities=10% Similarity=0.135 Sum_probs=27.2
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+|+.++-.....++.++..+-+.+++.||+..+|.+....
T Consensus 308 ~v~~~~~p~~~~~~~~~~~a~~~a~~lgi~~~~i~i~~~~ 347 (540)
T PRK13981 308 RVRAVMMPSRYTSEESLDDAAALAKNLGVRYDIIPIEPAF 347 (540)
T ss_pred cEEEEECCCCCCCHHHHHHHHHHHHHcCCeEEEEECHHHH
Confidence 4555443222224556777888899999999999997554
No 225
>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=43.43 E-value=2.1e+02 Score=28.86 Aligned_cols=77 Identities=13% Similarity=0.046 Sum_probs=49.6
Q ss_pred cccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccc--------hhhhhhce
Q 020564 104 PGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAI--------AEFAIANL 175 (324)
Q Consensus 104 ~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~--------~~~~~~~L 175 (324)
+....-.++.+.+.|+.|..+..+.....+++ .-.+.. +..|..++.+++.+.- |+..- +....-.|
T Consensus 320 ~~~~~~l~~~l~elGm~v~~~~~~~~~~~~~~---~~~~~~-~~~D~~~l~~~i~~~~-~dliig~s~~k~~A~~l~ip~ 394 (432)
T TIGR01285 320 PDLLAAWATFFTSMGAQIVAAVTTTGSPLLQK---LPVETV-VIGDLEDLEDLACAAG-ADLLITNSHGRALAQRLALPL 394 (432)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEeCCCCHHHHh---CCcCcE-EeCCHHHHHHHHhhcC-CCEEEECcchHHHHHHcCCCE
Confidence 33456778889999999999999866554444 233333 3467777777775542 33221 12344589
Q ss_pred eeecCCCCCC
Q 020564 176 IKMGFPQRAG 185 (324)
Q Consensus 176 i~mGfP~~~~ 185 (324)
+++|||....
T Consensus 395 ir~g~Pi~dr 404 (432)
T TIGR01285 395 VRAGFPLFDQ 404 (432)
T ss_pred EEecCCcccc
Confidence 9999998643
No 226
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=43.37 E-value=1.7e+02 Score=30.76 Aligned_cols=86 Identities=12% Similarity=0.115 Sum_probs=61.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+|+-||-.|+.+=-..| .|+|+.|.|. -+-.| ..+.++++++++|-+|-+.... .+
T Consensus 430 gsmG~glpaaiGa~lA~p---~r~Vv~i~GD-----G~f~m~~~EL~Ta~r~~lpvi~vV~NN~~y~~i~~~q~~~~~~~ 501 (595)
T PRK09107 430 GTMGYGLPAALGVQIAHP---DALVIDIAGD-----ASIQMCIQEMSTAVQYNLPVKIFILNNQYMGMVRQWQQLLHGNR 501 (595)
T ss_pred hhhhhhHHHHHHHHHhCC---CCeEEEEEcC-----chhhccHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHHhCCc
Confidence 567777777776544444 5679999883 23233 4589999999999999986431 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -----------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+..|+.+.++.+.+.|++.|.+..
T Consensus 502 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 541 (595)
T PRK09107 502 LSHSYTEAMPDFVKLAEAYGAVGIRCEKPGDLDDAIQEMI 541 (595)
T ss_pred cccccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 34678888888888888888888887765
No 227
>PRK00420 hypothetical protein; Validated
Probab=42.67 E-value=14 Score=30.72 Aligned_cols=26 Identities=27% Similarity=0.603 Sum_probs=19.2
Q ss_pred eeEcCCCCcccccCC---CCCCCCCceec
Q 020564 203 GYTCPRCKARVCELP---TDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP---~~C~~C~l~Lv 228 (324)
+-.||+|++..=++. ..||.||-.++
T Consensus 23 ~~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 23 SKHCPVCGLPLFELKDGEVVCPVHGKVYI 51 (112)
T ss_pred cCCCCCCCCcceecCCCceECCCCCCeee
Confidence 567999998766543 68999998654
No 228
>PRK08445 hypothetical protein; Provisional
Probab=42.67 E-value=23 Score=34.84 Aligned_cols=46 Identities=17% Similarity=0.250 Sum_probs=35.2
Q ss_pred CcccHHHHHHHHHhcCcEEEE---EEccch-------HHHHHHHHHhhCCeeEEeC
Q 020564 103 DPGDIMETIQKCKESKIRCSV---IGLSAE-------MFICKHLCQDTGGSYSVAL 148 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~v---I~Lgae-------~~iLk~ia~~TgG~Y~va~ 148 (324)
+..+..++++.|++.||++.. +|++.. ...|+++-..|||...++.
T Consensus 180 t~~~~i~~i~~a~~~Gi~~~sg~i~G~~Et~edr~~~l~~lreLq~~~~g~~~fi~ 235 (348)
T PRK08445 180 DSDRWLEVHRQAHLIGMKSTATMMFGTVENDEEIIEHWERIRDLQDETGGFRAFIL 235 (348)
T ss_pred CHHHHHHHHHHHHHcCCeeeeEEEecCCCCHHHHHHHHHHHHHHHHHhCCeeEEec
Confidence 344556899999999999985 455422 3679999999999886653
No 229
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=42.54 E-value=1.1e+02 Score=21.17 Aligned_cols=46 Identities=11% Similarity=0.091 Sum_probs=33.9
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 93 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
|+++++.+ -..=..+.+.+++.||+...+-+..+....+++.+.+|
T Consensus 1 V~vy~~~~---C~~C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g 46 (60)
T PF00462_consen 1 VVVYTKPG---CPYCKKAKEFLDEKGIPYEEVDVDEDEEAREELKELSG 46 (60)
T ss_dssp EEEEESTT---SHHHHHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHS
T ss_pred cEEEEcCC---CcCHHHHHHHHHHcCCeeeEcccccchhHHHHHHHHcC
Confidence 34555432 12344788899999999999999988777777777773
No 230
>COG0743 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]
Probab=42.17 E-value=1.1e+02 Score=30.67 Aligned_cols=59 Identities=25% Similarity=0.331 Sum_probs=45.3
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccc--hHHHHHHHHHhhCCeeEEeCCHHHHHHH
Q 020564 93 LILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSA--EMFICKHLCQDTGGSYSVALDESHFKEL 156 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lga--e~~iLk~ia~~TgG~Y~va~d~~hl~~l 156 (324)
|+++||- |+|- +|.+.++++.-+..+++|.+ .+..+.+.+++.+=.|-+..|+...+.+
T Consensus 4 i~iLGST-----GSIG~qtLdVi~~~p~~f~vval~ag~n~~~l~~q~~~f~P~~v~~~d~~~~~~l 65 (385)
T COG0743 4 LTILGST-----GSIGTQTLDVIRRNPDKFEVVALAAGKNVELLAEQIREFKPKYVVIADESAAKEL 65 (385)
T ss_pred EEEEecC-----CchhHHHHHHHHhCCCcEEEEEEecCCcHHHHHHHHHHhCCceEEecChHHHHHH
Confidence 5666655 5576 79999999999988888765 5788999999999999666666554443
No 231
>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=41.78 E-value=2.8e+02 Score=25.66 Aligned_cols=72 Identities=11% Similarity=0.010 Sum_probs=47.3
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-h------------HHHHHHHHHhhCCeeEEeC--CHHHH
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-E------------MFICKHLCQDTGGSYSVAL--DESHF 153 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-e------------~~iLk~ia~~TgG~Y~va~--d~~hl 153 (324)
.++|++|+| +.+.+.|...+++..+.+.++..=++-+.. . ..=+.++++.-|..+.... |.+.+
T Consensus 127 ~~~v~~i~G-DG~~~~G~~~eal~~a~~~~l~~li~vvdnN~~~~~~~~~~~~~~~~~~~~~~a~G~~~~~v~G~d~~~l 205 (255)
T cd02012 127 DYRVYVLLG-DGELQEGSVWEAASFAGHYKLDNLIAIVDSNRIQIDGPTDDILFTEDLAKKFEAFGWNVIEVDGHDVEEI 205 (255)
T ss_pred CCEEEEEEC-cccccccHHHHHHHHHHHcCCCcEEEEEECCCccccCcHhhccCchhHHHHHHHcCCeEEEECCCCHHHH
Confidence 467888887 444566767788888888887533333321 1 1235677777788887776 77777
Q ss_pred HHHHHhcC
Q 020564 154 KELIMEHA 161 (324)
Q Consensus 154 ~~lL~~~~ 161 (324)
.+.+.+..
T Consensus 206 ~~al~~a~ 213 (255)
T cd02012 206 LAALEEAK 213 (255)
T ss_pred HHHHHHHH
Confidence 77776543
No 232
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=41.69 E-value=1.2e+02 Score=23.57 Aligned_cols=43 Identities=12% Similarity=0.165 Sum_probs=31.0
Q ss_pred CceEEEEEeCCCCCCcccH---HHHHHHHHhcCcEEEEEEccchHH
Q 020564 89 HREVLILYSALSTCDPGDI---METIQKCKESKIRCSVIGLSAEMF 131 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i---~~ti~~akk~~IrV~vI~Lgae~~ 131 (324)
.+.|++=++.....|..-+ .+.++.+++.|+++.++++..++.
T Consensus 39 ~~~vilDls~v~~iDssgi~~L~~~~~~~~~~g~~l~l~~~~~~v~ 84 (106)
T TIGR02886 39 IKHLILNLKNVTFMDSSGLGVILGRYKKIKNEGGEVIVCNVSPAVK 84 (106)
T ss_pred CCEEEEECCCCcEecchHHHHHHHHHHHHHHcCCEEEEEeCCHHHH
Confidence 3445555666665676543 378999999999999999976653
No 233
>PRK06048 acetolactate synthase 3 catalytic subunit; Reviewed
Probab=41.52 E-value=1.9e+02 Score=29.99 Aligned_cols=86 Identities=14% Similarity=0.061 Sum_probs=61.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++.||-.|+.+--..| .|+|+.|.|.. +-.| +.+.++.++|+++-+|-+.... .
T Consensus 414 g~mG~glpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~l~i~~vV~NN~~y~~i~~~~~~~~~~~ 485 (561)
T PRK06048 414 GTMGYGFPAAIGAKVGKP---DKTVIDIAGDG-----SFQMNSQELATAVQNDIPVIVAILNNGYLGMVRQWQELFYDKR 485 (561)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEeCc-----hhhccHHHHHHHHHcCCCeEEEEEECCccHHHHHHHHHHcCCc
Confidence 466667776666543333 46799998833 2222 4578899999999999886421 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.|.++.+.+.|++.|.+..
T Consensus 486 ~~~~~~~~~~d~~~lA~a~G~~~~~v~t~~el~~al~~a~ 525 (561)
T PRK06048 486 YSHTCIKGSVDFVKLAEAYGALGLRVEKPSEVRPAIEEAV 525 (561)
T ss_pred ccccCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 045678888899999999999999887776
No 234
>COG3958 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]
Probab=41.39 E-value=1.5e+02 Score=29.02 Aligned_cols=66 Identities=23% Similarity=0.395 Sum_probs=46.7
Q ss_pred HHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCH-------HHHHHHHHhcCCCCccchhhhhhce
Q 020564 107 IMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDE-------SHFKELIMEHAPPPPAIAEFAIANL 175 (324)
Q Consensus 107 i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~-------~hl~~lL~~~~~pp~~~~~~~~~~L 175 (324)
..++++.|+++||.+-||.+.. +..++.+.|++|| .-..+.+- +..-++|.+..++ + +
T Consensus 207 al~AA~~L~~~GIsa~Vi~m~tIKPiD~~~i~~~A~~t~-~IvT~EeHsi~GGlGsaVAEvlse~~p~-~---------~ 275 (312)
T COG3958 207 ALEAAEILKKEGISAAVINMFTIKPIDEQAILKAARETG-RIVTAEEHSIIGGLGSAVAEVLSENGPT-P---------M 275 (312)
T ss_pred HHHHHHHHHhcCCCEEEEecCccCCCCHHHHHHHHhhcC-cEEEEecceeecchhHHHHHHHHhcCCc-c---------e
Confidence 3478999999999999999974 5688899999994 33333221 2366777777753 3 3
Q ss_pred eeecCCCC
Q 020564 176 IKMGFPQR 183 (324)
Q Consensus 176 i~mGfP~~ 183 (324)
.+||-|..
T Consensus 276 ~riGvp~~ 283 (312)
T COG3958 276 RRIGVPDT 283 (312)
T ss_pred EEecCCch
Confidence 57787744
No 235
>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=41.31 E-value=61 Score=22.20 Aligned_cols=41 Identities=12% Similarity=0.013 Sum_probs=28.4
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccch------------HHHHHHHHHhhCCe
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAE------------MFICKHLCQDTGGS 143 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae------------~~iLk~ia~~TgG~ 143 (324)
|...+...-..+++.++.|.=..+++. ..+.++++++|+|+
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 344445555667788888866666654 37899999999995
No 236
>PRK11468 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=41.29 E-value=58 Score=32.41 Aligned_cols=39 Identities=13% Similarity=0.185 Sum_probs=30.5
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
+-||+|+. +.+-|-.++.-+++.|+.++|+|.+|-++.+
T Consensus 97 ~GvLlivk-NYtGDvlNF~mAaE~a~~eGi~v~~V~V~DD 135 (356)
T PRK11468 97 EGVLLIIK-NYTGDVLNFETATELLHDSGVKVTTVLIDDD 135 (356)
T ss_pred CCEEEEec-ccHHhhccHHHHHHHHHhCCCcEEEEEeCCc
Confidence 46888887 5444555555689999999999999999755
No 237
>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=41.11 E-value=15 Score=25.25 Aligned_cols=31 Identities=26% Similarity=0.683 Sum_probs=20.0
Q ss_pred CCccccccc-cccCCCCCCCceeeCCCCC-cccccccch
Q 020564 262 RSTCFGCQQ-SLLSSGNKPGLYVACPKCK-KHFCLECDI 298 (324)
Q Consensus 262 ~~~C~~C~~-~~~~~~~~~~~~~~C~~C~-~~fC~dCd~ 298 (324)
...|-+|.. ++.. .||+|..|. -.+|.+|-.
T Consensus 4 ~~~C~~C~~~~i~g------~Ry~C~~C~d~dLC~~C~~ 36 (46)
T PF00569_consen 4 GYTCDGCGTDPIIG------VRYHCLVCPDYDLCEDCFS 36 (46)
T ss_dssp SCE-SSS-SSSEES------SEEEESSSSS-EEEHHHHH
T ss_pred CeECcCCCCCcCcC------CeEECCCCCCCchhhHHHh
Confidence 457999986 4432 489999998 457777743
No 238
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=41.07 E-value=1.6e+02 Score=30.73 Aligned_cols=86 Identities=14% Similarity=0.146 Sum_probs=62.8
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++.||-.|+.+--..| .|+|+.|.|.. +-.| ..+.++.+++++|-+|-+.... .
T Consensus 437 gsmG~glpaaiGa~lA~p---~r~Vv~i~GDG-----sf~m~~~eL~Ta~r~~lpviivV~NN~~~~~i~~~q~~~~~~~ 508 (587)
T PRK06965 437 GTMGVGLPYAMGIKMAHP---DDDVVCITGEG-----SIQMCIQELSTCLQYDTPVKIISLNNRYLGMVRQWQEIEYSKR 508 (587)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcch-----hhhcCHHHHHHHHHcCCCeEEEEEECCcchHHHHHHHHhcCCC
Confidence 477777777777554443 46799998832 3233 4588889999999999886421 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+.+..+.+.+.|++.|.+.+
T Consensus 509 ~~~~~~~~~~d~~~iA~a~G~~~~~v~~~~eL~~al~~a~ 548 (587)
T PRK06965 509 YSHSYMDALPDFVKLAEAYGHVGMRIEKTSDVEPALREAL 548 (587)
T ss_pred ccccCCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 135688999999999999999998888775
No 239
>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=40.79 E-value=19 Score=23.42 Aligned_cols=11 Identities=36% Similarity=0.800 Sum_probs=6.6
Q ss_pred eeeCCCCCccc
Q 020564 282 YVACPKCKKHF 292 (324)
Q Consensus 282 ~~~C~~C~~~f 292 (324)
..+||+|++.|
T Consensus 25 ~v~C~~C~~~~ 35 (38)
T TIGR02098 25 KVRCGKCGHVW 35 (38)
T ss_pred EEECCCCCCEE
Confidence 45677766654
No 240
>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=40.68 E-value=23 Score=22.81 Aligned_cols=24 Identities=38% Similarity=0.825 Sum_probs=16.7
Q ss_pred eEcCCCCccccc---CCCCCCCCCcee
Q 020564 204 YTCPRCKARVCE---LPTDCRICGLQL 227 (324)
Q Consensus 204 y~Cp~C~s~~C~---lP~~C~~C~l~L 227 (324)
|+|..|++.+=- -|..|+-||-..
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 236899998654
No 241
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=40.56 E-value=59 Score=27.03 Aligned_cols=38 Identities=18% Similarity=0.320 Sum_probs=28.2
Q ss_pred eEEEEEeCCCCC-CcccHHH-HHHHHHhcCcEEEEEEccc
Q 020564 91 EVLILYSALSTC-DPGDIME-TIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 91 eILil~gS~~t~-d~g~i~~-ti~~akk~~IrV~vI~Lga 128 (324)
+|++|.||+... +...+.+ +.+.+++.++.+.+|-|..
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~~ 41 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLAD 41 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECTT
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEeccc
Confidence 699999998632 2223444 5777888899999999975
No 242
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=40.45 E-value=14 Score=39.32 Aligned_cols=45 Identities=22% Similarity=0.655 Sum_probs=33.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchh--------hhhcCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--------IHESLHNCPGC 310 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~f--------ihe~lh~CpgC 310 (324)
+..|+.|...|.-.. .-+-|-.|+.+||..|-.+ |-+-...|-.|
T Consensus 165 ~~~C~rCr~~F~~~~----rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTN----RKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccceeeeeeeecc----ccccccccchhhccCccccccCcccccccccceehhhh
Confidence 457999999996533 2367999999999999754 33444677777
No 243
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=40.10 E-value=71 Score=32.82 Aligned_cols=54 Identities=15% Similarity=0.111 Sum_probs=38.3
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
|.++|...+++.+....++|+||.|..+ |.||=.-++..|++.|..|+|+-++.
T Consensus 43 G~ava~~i~~~~~~~~~~~VlVlcG~GN--NGGDGlv~AR~L~~~G~~V~v~~~~~ 96 (462)
T PLN03049 43 GLSVASAIAEVYSPSEYRRVLALCGPGN--NGGDGLVAARHLHHFGYKPSICYPKR 96 (462)
T ss_pred HHHHHHHHHHhcccccCCEEEEEECCCC--CHHHHHHHHHHHHHCCCceEEEEECC
Confidence 3455554445444322357998888664 57788889999999999999998764
No 244
>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=39.89 E-value=2.5e+02 Score=24.54 Aligned_cols=87 Identities=15% Similarity=0.156 Sum_probs=53.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCc-EEEEEEccchH--------------HH
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKI-RCSVIGLSAEM--------------FI 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~I-rV~vI~Lgae~--------------~i 132 (324)
.+++.||-.|+.+=-..| ++|+++.|...-- .++ ..+.++.+.++ ++-+|-+.... .=
T Consensus 42 g~mG~~lp~AiGaala~~----~~vv~i~GDG~f~--m~~-~el~ta~~~~~~~l~vvV~NN~~~~~~~~~~~~~~~~~d 114 (179)
T cd03372 42 GSMGLASSIGLGLALAQP----RKVIVIDGDGSLL--MNL-GALATIAAEKPKNLIIVVLDNGAYGSTGNQPTHAGKKTD 114 (179)
T ss_pred cchhhHHHHHHHHHhcCC----CcEEEEECCcHHH--hCH-HHHHHHHHcCCCCEEEEEEcCccccccCCCCCCCCCCCC
Confidence 355666665555433333 6788888833210 011 34555666664 46555443210 12
Q ss_pred HHHHHHhhCCeeEEeC-CHHHHHHHHHhcC
Q 020564 133 CKHLCQDTGGSYSVAL-DESHFKELIMEHA 161 (324)
Q Consensus 133 Lk~ia~~TgG~Y~va~-d~~hl~~lL~~~~ 161 (324)
..++|+.-|..|.... +.+.|++.|.+..
T Consensus 115 ~~~lA~a~G~~~~~v~~~~~el~~al~~a~ 144 (179)
T cd03372 115 LEAVAKACGLDNVATVASEEAFEKAVEQAL 144 (179)
T ss_pred HHHHHHHcCCCeEEecCCHHHHHHHHHHhc
Confidence 5678999999998888 8999999998876
No 245
>PRK06112 acetolactate synthase catalytic subunit; Validated
Probab=39.79 E-value=1.3e+02 Score=31.31 Aligned_cols=90 Identities=10% Similarity=0.135 Sum_probs=62.3
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH---------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM--------------- 130 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~--------------- 130 (324)
|--+|+.||..|+..-...| .|+|++|.|...- .--.+.+.+++++|+++-+|-+....
T Consensus 435 g~gsmG~~l~~aiGa~la~~---~~~vv~i~GDGsf---~~~~~el~ta~~~~l~~~~vv~NN~~~g~~~~~~~~~~~~~ 508 (578)
T PRK06112 435 GLAGLGWGVPMAIGAKVARP---GAPVICLVGDGGF---AHVWAELETARRMGVPVTIVVLNNGILGFQKHAETVKFGTH 508 (578)
T ss_pred CccccccHHHHHHHHHhhCC---CCcEEEEEcchHH---HhHHHHHHHHHHhCCCeEEEEEeCCccCCEEeccccccCCc
Confidence 33467777777776532222 4679999883321 10115677899999999888876431
Q ss_pred --------HHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 --------FICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 --------~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
.=+.++|+.-|+.+..+.+.+.|++.|.+..
T Consensus 509 ~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 547 (578)
T PRK06112 509 TDACHFAAVDHAAIARACGCDGVRVEDPAELAQALAAAM 547 (578)
T ss_pred cccCcCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 0157899999999999999999999888765
No 246
>PRK08322 acetolactate synthase; Reviewed
Probab=39.50 E-value=1.2e+02 Score=31.23 Aligned_cols=89 Identities=12% Similarity=0.066 Sum_probs=62.5
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H--------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F-------- 131 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~-------- 131 (324)
|--+|+.||-.|+.+=-..| .|+|+.+.|.. +-.| ..+.++++.+++|-+|-+.... .
T Consensus 404 ~~g~mG~~lpaaiGa~la~p---~~~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~iiV~NN~~~g~~~~~~~~~~~ 475 (547)
T PRK08322 404 ALATMGAGLPSAIAAKLVHP---DRKVLAVCGDG-----GFMMNSQELETAVRLGLPLVVLILNDNAYGMIRWKQENMGF 475 (547)
T ss_pred CcccccchhHHHHHHHHhCC---CCcEEEEEcch-----hHhccHHHHHHHHHhCCCeEEEEEeCCCcchHHHHHHhhcC
Confidence 33577777777776543333 46788888833 2223 4577789999999999886321 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
=+.++|+.-|..|..+.+.+.|++.|.+...
T Consensus 476 ~~~~~~~~~~df~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 516 (547)
T PRK08322 476 EDFGLDFGNPDFVKYAESYGAKGYRVESADDLLPTLEEALA 516 (547)
T ss_pred CcccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHh
Confidence 1456888888999999999999999988763
No 247
>PRK14483 DhaKLM operon coactivator DhaQ; Provisional
Probab=39.25 E-value=57 Score=32.10 Aligned_cols=41 Identities=12% Similarity=0.166 Sum_probs=30.6
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHH
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 131 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~ 131 (324)
+-||+|+. +.+-|-.++.-+++.|+.+||+|.+|-++.++.
T Consensus 96 ~GvL~ivk-NYtGDvlnF~mA~E~a~~eGi~v~~VvV~DDva 136 (329)
T PRK14483 96 KGVFFIIK-NFEADVAEFSAAIQIARQEGRQIKYIIVHDDIS 136 (329)
T ss_pred CCEEEEec-ccHHHhhhHHHHHHHHHhCCCcEEEEEeCCccc
Confidence 56888887 444344444458999999999999999886654
No 248
>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=39.18 E-value=1.1e+02 Score=27.67 Aligned_cols=50 Identities=16% Similarity=0.214 Sum_probs=34.9
Q ss_pred HHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 75 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 75 ~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
++|...+++.+. .++|+|+-|+.+ |-||=.-++..|.+.+++|++++...
T Consensus 33 ~va~~i~~~~~~--~~~v~vl~G~GN--NGGDGlv~AR~L~~~~v~V~~~~~~~ 82 (205)
T TIGR00197 33 AVAQAVLQAFPL--AGHVIIFCGPGN--NGGDGFVVARHLKGFGVEVFLLKKEK 82 (205)
T ss_pred HHHHHHHHHcCC--CCeEEEEECCCC--CccHHHHHHHHHHhCCCEEEEEccCC
Confidence 344444444442 457888888664 57787888889988999999987643
No 249
>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=39.16 E-value=70 Score=23.06 Aligned_cols=37 Identities=8% Similarity=0.053 Sum_probs=28.3
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
-++-++|. ...+++-..+.+..+.+.||+|..|+-|+
T Consensus 2 a~VsvVG~-~~~~~~~~~~i~~aL~~~~I~v~~i~~g~ 38 (65)
T cd04918 2 SIISLIGN-VQRSSLILERAFHVLYTKGVNVQMISQGA 38 (65)
T ss_pred cEEEEECC-CCCCccHHHHHHHHHHHCCCCEEEEEecC
Confidence 36778887 44467744588999999999999888754
No 250
>PRK08266 hypothetical protein; Provisional
Probab=39.14 E-value=1.5e+02 Score=30.61 Aligned_cols=88 Identities=9% Similarity=0.030 Sum_probs=60.2
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-H---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~--------------- 131 (324)
-+++.||-.|+.+-...| .|+|++|.|...- . .++ +.+.++.+.++++-+|-+.... .
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 467777777776543333 4678888883321 1 122 4567789999999888775421 0
Q ss_pred -------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|..|..+.+.+.|++.+.+..
T Consensus 476 ~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 512 (542)
T PRK08266 476 ASDLVNPDFVKLAESFGVAAFRVDSPEELRAALEAAL 512 (542)
T ss_pred cCCCCCCCHHHHHHHcCCeEEEeCCHHHHHHHHHHHH
Confidence 145678888888999999999999887765
No 251
>PHA02768 hypothetical protein; Provisional
Probab=39.10 E-value=24 Score=25.68 Aligned_cols=19 Identities=21% Similarity=0.606 Sum_probs=15.0
Q ss_pred CCCCCCceecCchhHHhhh
Q 020564 219 DCRICGLQLVSSPHLARSY 237 (324)
Q Consensus 219 ~C~~C~l~Lvs~~hLarsy 237 (324)
+|+.||..+..+.+|.+..
T Consensus 7 ~C~~CGK~Fs~~~~L~~H~ 25 (55)
T PHA02768 7 ECPICGEIYIKRKSMITHL 25 (55)
T ss_pred CcchhCCeeccHHHHHHHH
Confidence 5667889999999997653
No 252
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=39.10 E-value=1.9e+02 Score=25.41 Aligned_cols=83 Identities=14% Similarity=0.154 Sum_probs=46.8
Q ss_pred CCcHHHHHHHHHHHHHHHH-----------hcCCcCCceEEEEe---------eCCeeeEe-ecC------CC----CHH
Q 020564 4 RPSRMAVVAKQVEAFVREF-----------FDQNPLSQIGLVTV---------KDGVANCL-TDL------GG----SPE 52 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~-----------f~qNP~sqlGiI~~---------~~g~a~~l-~~l------t~----n~~ 52 (324)
.|.||....+.+.+.+++| |.+||.+-+.+--. +.+..-.- +|. || +.+
T Consensus 38 ~~~RL~~I~~~l~~~i~~y~P~~~aiE~~F~~~N~~sa~~lg~arGvilla~~~~~ipv~Ey~P~~vKkavtG~G~A~Ke 117 (156)
T TIGR00228 38 LPSRLKLIYAGVTEIITQFQPNYFAIEQVFMAKNADSALKLGQARGVAIVAAVNQELPVFEYAARQVKQTVVGIGSAEKS 117 (156)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCEEEEeHHhhccCHHHHHHHHHHHHHHHHHHHHcCCCEEEECHHHHHHHhcCCCCCCHH
Confidence 4679999999999999764 56677664322111 11221111 121 22 233
Q ss_pred HHHHHHhhhcCCCCc--chHHHHHHHHHHHhhCCCC
Q 020564 53 SHIKALMGKLGCSGD--SSLQNALDLVQGLLSQIPS 86 (324)
Q Consensus 53 ~~~~~L~~~~~~~G~--~sL~naL~~A~~~L~~~p~ 86 (324)
++...+++++..+.. ..-.+||++|++.+.+.++
T Consensus 118 QV~~mV~~lL~l~~~p~~DaaDALAiAi~h~~~~~~ 153 (156)
T TIGR00228 118 QVQHMVRRLLKLPANPQADAADALAIAITHAHVSQN 153 (156)
T ss_pred HHHHHHHHHcCCCCCCCCCHHHHHHHHHHHhcccCc
Confidence 444444444322211 4788999999999987753
No 253
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=38.98 E-value=25 Score=32.01 Aligned_cols=51 Identities=20% Similarity=0.398 Sum_probs=33.6
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchhhhh----------------cCCCCCCCCCCCCCCCc
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHE----------------SLHNCPGCESLRHSNPI 319 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe----------------~lh~CpgC~~~~~~~~~ 319 (324)
+...|.-|...+.++ .-..|++.||.+|=.-... .-..||-|........+
T Consensus 17 ~~~~CpICld~~~dP--------VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 17 GDFDCNICLDQVRDP--------VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CccCCccCCCcCCCc--------EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 456799998666432 2357999999999653211 12479999876554333
No 254
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=38.82 E-value=1.8e+02 Score=29.59 Aligned_cols=89 Identities=10% Similarity=0.096 Sum_probs=43.8
Q ss_pred HHHHHHHHHhhCCCCCCCceEEEEEeCC---CCCCcccHH-HHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEe
Q 020564 72 NALDLVQGLLSQIPSYGHREVLILYSAL---STCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVA 147 (324)
Q Consensus 72 naL~~A~~~L~~~p~~~~reILil~gS~---~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va 147 (324)
.+++.|+..|+..+....+++++++|.. .+ ....++ +.++.+.+.++. .||.+|.+...+.+-. ..+......
T Consensus 351 ~s~~aaL~~l~~~~~~~~~r~i~V~G~m~elg~-~~~~~h~~~~~~~~~~~~d-~v~~~G~~~~~~~~~~-~~~~~~~~~ 427 (479)
T PRK14093 351 ASMAAALGVLGRAPVGPQGRRIAVLGDMLELGP-RGPELHRGLAEAIRANAID-LVFCCGPLMRNLWDAL-SSGKRGGYA 427 (479)
T ss_pred HHHHHHHHHHHhhhccCCCCEEEEECChHHcCc-HHHHHHHHHHHHHHHcCCC-EEEEEchhHHHHHHhh-cccccceee
Confidence 4666677777765321233566666642 22 223455 567777766653 2333344333222210 012111123
Q ss_pred CCHHHHHHHHHhcCCC
Q 020564 148 LDESHFKELIMEHAPP 163 (324)
Q Consensus 148 ~d~~hl~~lL~~~~~p 163 (324)
.|.+.+.+.|...+.|
T Consensus 428 ~~~~~~~~~l~~~~~~ 443 (479)
T PRK14093 428 EDAAALESQVVAAIRA 443 (479)
T ss_pred CCHHHHHHHHHHhcCC
Confidence 6777777777776654
No 255
>PRK05978 hypothetical protein; Provisional
Probab=38.75 E-value=18 Score=31.55 Aligned_cols=24 Identities=25% Similarity=0.729 Sum_probs=19.5
Q ss_pred EcCCCCc-----ccccCCCCCCCCCceec
Q 020564 205 TCPRCKA-----RVCELPTDCRICGLQLV 228 (324)
Q Consensus 205 ~Cp~C~s-----~~C~lP~~C~~C~l~Lv 228 (324)
-||+|+. .|=++...|+.||+.+-
T Consensus 35 rCP~CG~G~LF~g~Lkv~~~C~~CG~~~~ 63 (148)
T PRK05978 35 RCPACGEGKLFRAFLKPVDHCAACGEDFT 63 (148)
T ss_pred cCCCCCCCcccccccccCCCccccCCccc
Confidence 6999986 44578899999999863
No 256
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=38.75 E-value=24 Score=24.29 Aligned_cols=25 Identities=28% Similarity=0.602 Sum_probs=18.8
Q ss_pred eeEcCCCCccccc---CCCCCCCCCcee
Q 020564 203 GYTCPRCKARVCE---LPTDCRICGLQL 227 (324)
Q Consensus 203 Gy~Cp~C~s~~C~---lP~~C~~C~l~L 227 (324)
-|+|..|+..+=. -+..|+-||--+
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG~rI 29 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECGYRI 29 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCCceE
Confidence 4899999986653 357899998654
No 257
>TIGR02363 dhaK1 dihydroxyacetone kinase, DhaK subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form (EC 2.7.1.-) with a phosphoprotein donor related to PTS transport proteins. This family represents the DhaK subunit of the latter type of dihydroxyacetone kinase, but it specifically excludes the DhaK paralog DhaK2 (TIGR02362) found in the same operon as DhaK and DhaK in the Firmicutes.
Probab=38.73 E-value=71 Score=31.45 Aligned_cols=40 Identities=13% Similarity=0.189 Sum_probs=30.9
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+-||+|++ +.+-|-.++.-+++.|++++|+|.+|-.+.++
T Consensus 98 ~GvL~iv~-NYtGD~lnF~mA~E~a~~eGi~v~~V~V~DDv 137 (329)
T TIGR02363 98 AGVLLIVK-NYTGDVMNFEMAAELAEDEGIKVATVVVDDDI 137 (329)
T ss_pred CCEEEEeC-CcHHHhccHHHHHHHHHHcCCcEEEEEECCcc
Confidence 56888887 54435555556899999999999999998654
No 258
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=38.54 E-value=21 Score=24.02 Aligned_cols=42 Identities=21% Similarity=0.478 Sum_probs=28.7
Q ss_pred cccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCC
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 311 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~ 311 (324)
|-.|..++.+. .++.=..|++.||.+|=.-....-..||.|.
T Consensus 2 C~~C~~~~~~~-----~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~ 43 (44)
T PF14634_consen 2 CNICFEKYSEE-----RRPRLTSCGHIFCEKCLKKLKGKSVKCPICR 43 (44)
T ss_pred CcCcCccccCC-----CCeEEcccCCHHHHHHHHhhcCCCCCCcCCC
Confidence 66777666211 1244457999999999776666677888884
No 259
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=38.52 E-value=1.4e+02 Score=28.07 Aligned_cols=17 Identities=6% Similarity=0.085 Sum_probs=8.2
Q ss_pred HHHHHHhcCcEEEEEEc
Q 020564 110 TIQKCKESKIRCSVIGL 126 (324)
Q Consensus 110 ti~~akk~~IrV~vI~L 126 (324)
.++.+++.|.++..|..
T Consensus 24 i~~al~~~g~~~~~i~~ 40 (299)
T PRK14571 24 VKKALEKLGYEVTVFDV 40 (299)
T ss_pred HHHHHHHcCCeEEEEcc
Confidence 34444555555554443
No 260
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=38.46 E-value=13 Score=28.08 Aligned_cols=27 Identities=30% Similarity=0.754 Sum_probs=21.1
Q ss_pred EcCCCCcccccC-----CCCCCCCCceecCch
Q 020564 205 TCPRCKARVCEL-----PTDCRICGLQLVSSP 231 (324)
Q Consensus 205 ~Cp~C~s~~C~l-----P~~C~~C~l~Lvs~~ 231 (324)
.||-|+-..+-+ .+.|.+||.+|+-++
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 599999877743 478999999997553
No 261
>PRK05858 hypothetical protein; Provisional
Probab=38.31 E-value=1.4e+02 Score=30.75 Aligned_cols=86 Identities=8% Similarity=0.016 Sum_probs=60.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH--------H------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM--------F------ 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~--------~------ 131 (324)
-+++.||-+|+.+--..| .|+|+.+.|.. +-.| .-+.++.++++++-+|-+.... .
T Consensus 407 gsmG~~lp~aiGa~la~p---~r~vv~i~GDG-----~f~~~~~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~ 478 (542)
T PRK05858 407 GCLGTGPGYALAARLARP---SRQVVLLQGDG-----AFGFSLMDVDTLVRHNLPVVSVIGNNGIWGLEKHPMEALYGYD 478 (542)
T ss_pred cccccchhHHHHHHHhCC---CCcEEEEEcCc-----hhcCcHHHHHHHHHcCCCEEEEEEeCCchhhHHHHHHHhcCCc
Confidence 466666666665433333 46789898833 2222 4577788899999999987421 0
Q ss_pred ---------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ---------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ---------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.+.++.+.+.|++.|.+.+
T Consensus 479 ~~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 517 (542)
T PRK05858 479 VAADLRPGTRYDEVVRALGGHGELVTVPAELGPALERAF 517 (542)
T ss_pred cccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 024688888999999999999999997765
No 262
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=38.30 E-value=9.2 Score=41.07 Aligned_cols=43 Identities=28% Similarity=0.622 Sum_probs=31.0
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhhc-CCCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES-LHNCPGCESL 313 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~-lh~CpgC~~~ 313 (324)
-+|..|+....+. .=++|.+.||.+|--=--|+ -.-||+|...
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 4799999555432 23589999999997554454 4589999853
No 263
>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=38.28 E-value=19 Score=25.25 Aligned_cols=29 Identities=24% Similarity=0.685 Sum_probs=20.4
Q ss_pred cccccc-ccccCCCCCCCceeeCCCCCc-ccccccch
Q 020564 264 TCFGCQ-QSLLSSGNKPGLYVACPKCKK-HFCLECDI 298 (324)
Q Consensus 264 ~C~~C~-~~~~~~~~~~~~~~~C~~C~~-~fC~dCd~ 298 (324)
.|.+|. .++.. .||+|..|.. ..|.+|-.
T Consensus 2 ~C~~C~~~~i~g------~R~~C~~C~d~dlC~~Cf~ 32 (49)
T cd02338 2 SCDGCGKSNFTG------RRYKCLICYDYDLCADCYD 32 (49)
T ss_pred CCCCCcCCCcEE------eeEEeCCCCCCccchhHHh
Confidence 588998 45542 4899999965 46777743
No 264
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=38.17 E-value=1.8e+02 Score=30.26 Aligned_cols=88 Identities=18% Similarity=0.152 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch----HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE----MF------------ 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae----~~------------ 131 (324)
-+++.||-.|+.+=...| .|+|++|.|...- -.++ +.+.++.++|+++=+|-+... +.
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--LMNI-QELMTAVEYKIPVINIILNNNFLGMVRQWQTFFYEERYS 487 (563)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEecCchh--cccH-HHHHHHHHhCCCeEEEEEECCcchhHHHHHHhhcCCcee
Confidence 466666666665433333 4678888883321 0122 346778889999988877532 11
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.+..+.+.+.|++.|.+..
T Consensus 488 ~~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 525 (563)
T PRK08527 488 ETDLSTQPDFVKLAESFGGIGFRVTTKEEFDKALKEAL 525 (563)
T ss_pred eccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 135688888999999999999999987765
No 265
>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=38.09 E-value=2.1e+02 Score=26.22 Aligned_cols=56 Identities=7% Similarity=-0.022 Sum_probs=35.7
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEE
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIG 125 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~ 125 (324)
.+.-++.|+..++...... .-+.|+++-++..-+++.+.+.++.+.+.+..+.+++
T Consensus 54 ~N~G~a~a~N~Gi~~a~~~----~~d~i~~lD~D~~~~~~~l~~l~~~~~~~~~~~~~~~ 109 (281)
T TIGR01556 54 DNQGIAGAQNQGLDASFRR----GVQGVLLLDQDSRPGNAFLAAQWKLLSAENGQACALG 109 (281)
T ss_pred CCcchHHHHHHHHHHHHHC----CCCEEEEECCCCCCCHHHHHHHHHHHHhcCCceEEEC
Confidence 3345666666666555422 2378999987777777777777777776654555544
No 266
>KOG3217 consensus Protein tyrosine phosphatase [Signal transduction mechanisms]
Probab=38.00 E-value=46 Score=29.15 Aligned_cols=51 Identities=20% Similarity=0.388 Sum_probs=34.9
Q ss_pred HHHHHHHhcCcEEEEEEccchHHHHHHHHHhh--CCeeEEeCCHHHHHHHHHhcCCCCccc
Q 020564 109 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDT--GGSYSVALDESHFKELIMEHAPPPPAI 167 (324)
Q Consensus 109 ~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~T--gG~Y~va~d~~hl~~lL~~~~~pp~~~ 167 (324)
.+...||+.||+++ +..|++...- .=-|.+++|+..+++|+.....+|+.+
T Consensus 59 R~~s~lK~hGI~~~--------H~aRqit~~DF~~FDYI~~MDesN~~dL~~~a~~~~~~~ 111 (159)
T KOG3217|consen 59 RTLSILKKHGIKID--------HLARQITTSDFREFDYILAMDESNLRDLLRKASNQPKGS 111 (159)
T ss_pred HHHHHHHHcCCcch--------hhcccccHhHhhhcceeEEecHHHHHHHHHHhccCCCCc
Confidence 57888888888865 3333333221 136789999999999998765566544
No 267
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=37.96 E-value=98 Score=30.68 Aligned_cols=56 Identities=18% Similarity=0.293 Sum_probs=40.8
Q ss_pred cCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcC---CCCcchHHHHHHHHHHHhhCCCC
Q 020564 27 PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLG---CSGDSSLQNALDLVQGLLSQIPS 86 (324)
Q Consensus 27 P~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~---~~G~~sL~naL~~A~~~L~~~p~ 86 (324)
..++.|.|+| ||.....-.++||..+++..+.--+. ..|+ |.||.-|+.+...+.+
T Consensus 138 sd~kfgfivm-Dg~~tlfgtl~gntrevLhkftVdlPkkhgrgg---qSalrfarlR~ekRhn 196 (431)
T KOG0688|consen 138 SDNKFGFIVM-DGNGTLFGTLQGNTREVLHKFTVDLPKKHGRGG---QSALRFARLRMEKRHN 196 (431)
T ss_pred hcccccEEEE-cCCceeEEEeccchHhhhheeeecCccccCccc---hhHHhhhhhhhhhhcc
Confidence 4689999999 78889999999999999887752211 2333 5577777777765533
No 268
>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=37.88 E-value=1.7e+02 Score=25.60 Aligned_cols=92 Identities=13% Similarity=0.084 Sum_probs=62.2
Q ss_pred CCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH--------------
Q 020564 65 SGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-------------- 130 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-------------- 130 (324)
.+--+++.+|..|+.+=-..| .+.|+++.|...- -.++ +.+.++++.++++-+|-+....
T Consensus 47 ~~~g~mG~~l~~aiGaala~~---~~~vv~i~GDG~f--~~~~-~el~ta~~~~~p~~ivV~nN~~~~~~~~~~~~~~~~ 120 (183)
T cd02005 47 PLWGSIGYSVPAALGAALAAP---DRRVILLVGDGSF--QMTV-QELSTMIRYGLNPIIFLINNDGYTIERAIHGPEASY 120 (183)
T ss_pred cchhhHhhhHHHHHHHHHhCC---CCeEEEEECCchh--hccH-HHHHHHHHhCCCCEEEEEECCCcEEEEEeccCCcCc
Confidence 344577777777777533333 3678888884322 1123 3356788888888888775320
Q ss_pred -----HHHHHHHHhhC----CeeEEeCCHHHHHHHHHhcCC
Q 020564 131 -----FICKHLCQDTG----GSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 131 -----~iLk~ia~~Tg----G~Y~va~d~~hl~~lL~~~~~ 162 (324)
.=+.++|+..| +.|..+.+.+.|++.|.+...
T Consensus 121 ~~~~~~d~~~ia~a~G~~~~~~~~~v~~~~el~~al~~a~~ 161 (183)
T cd02005 121 NDIANWNYTKLPEVFGGGGGGLSFRVKTEGELDEALKDALF 161 (183)
T ss_pred ccCCCCCHHHHHHHhCCCccccEEEecCHHHHHHHHHHHHh
Confidence 12578899998 588889999999999988764
No 269
>PRK06260 threonine synthase; Validated
Probab=37.80 E-value=21 Score=35.48 Aligned_cols=42 Identities=24% Similarity=0.421 Sum_probs=29.9
Q ss_pred eeEcCCCCccccc--CCCCCCCCCceecCchhHH-----------hhhcccCCCC
Q 020564 203 GYTCPRCKARVCE--LPTDCRICGLQLVSSPHLA-----------RSYHHLFPIA 244 (324)
Q Consensus 203 Gy~Cp~C~s~~C~--lP~~C~~C~l~Lvs~~hLa-----------rsyhhl~p~~ 244 (324)
.|.|++|+..|=. ++..||.||-.|-....+. +.|+.++|+.
T Consensus 3 ~~~C~~cg~~~~~~~~~~~Cp~cg~~l~~~y~~~~~~~~~~~~~~wry~~~lp~~ 57 (397)
T PRK06260 3 WLKCIECGKEYDPDEIIYTCPECGGLLEVIYDLDKIFDKLRGRGVWRYKELLPVK 57 (397)
T ss_pred EEEECCCCCCCCCCCccccCCCCCCeEEEEecchhhhhccCCcceeeehhhcCCC
Confidence 5899999998753 4467999987765554332 2378888884
No 270
>KOG1198 consensus Zinc-binding oxidoreductase [Energy production and conversion; General function prediction only]
Probab=37.64 E-value=93 Score=30.62 Aligned_cols=57 Identities=19% Similarity=0.139 Sum_probs=36.8
Q ss_pred CCcchHHHHHHHHHHHhhCCC------CCCCc-eEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccc
Q 020564 65 SGDSSLQNALDLVQGLLSQIP------SYGHR-EVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 65 ~G~~sL~naL~~A~~~L~~~p------~~~~r-eILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lga 128 (324)
.+..+|..+.-+|...|.+.. .-.+. .|||+-||. .+- -+++.|+..+ -+.++..+.
T Consensus 127 ~~aa~~p~~~~tA~~al~~~~~~~~~~~~~~g~~vLv~ggsg------gVG~~aiQlAk~~~-~~~v~t~~s 191 (347)
T KOG1198|consen 127 EEAAALPLAALTALSALFQLAPGKRSKKLSKGKSVLVLGGSG------GVGTAAIQLAKHAG-AIKVVTACS 191 (347)
T ss_pred hhhhcCchHHHHHHHHHHhccccccccccCCCCeEEEEeCCc------HHHHHHHHHHHhcC-CcEEEEEcc
Confidence 456678888889999998876 33333 455555433 343 6799999999 334444443
No 271
>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=37.54 E-value=4.3e+02 Score=26.42 Aligned_cols=90 Identities=9% Similarity=0.094 Sum_probs=50.9
Q ss_pred HHHHHHHHHhcCC-cCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhh----c--CCCCcchHHHHHHHHHHHhhCCCC
Q 020564 14 QVEAFVREFFDQN-PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK----L--GCSGDSSLQNALDLVQGLLSQIPS 86 (324)
Q Consensus 14 ~l~~Fv~~~f~qN-P~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~----~--~~~G~~sL~naL~~A~~~L~~~p~ 86 (324)
.+.+-+++...|+ |.+.+-||+..||. +.+..++++.+.+. . ..+.+-..+.||..|+...
T Consensus 63 ~l~~~l~sl~~q~yp~~~~eIiVVDd~S-------tD~T~~il~~~~~~~~~v~v~~~~~~~Gka~AlN~gl~~s----- 130 (439)
T TIGR03111 63 TLFNCIESIYNQTYPIELIDIILANNQS-------TDDSFQVFCRAQNEFPGLSLRYMNSDQGKAKALNAAIYNS----- 130 (439)
T ss_pred HHHHHHHHHHhcCCCCCCeEEEEEECCC-------ChhHHHHHHHHHHhCCCeEEEEeCCCCCHHHHHHHHHHHc-----
Confidence 3444445544554 66666677776663 22233444444321 0 0112234667777776542
Q ss_pred CCCceEEEEEeCCCCCCcccHHHHHHHHHhc
Q 020564 87 YGHREVLILYSALSTCDPGDIMETIQKCKES 117 (324)
Q Consensus 87 ~~~reILil~gS~~t~d~g~i~~ti~~akk~ 117 (324)
+.++++++.++..-+|.-+.+.++.+.++
T Consensus 131 --~g~~v~~~DaD~~~~~d~L~~l~~~f~~~ 159 (439)
T TIGR03111 131 --IGKYIIHIDSDGKLHKDAIKNMVTRFENN 159 (439)
T ss_pred --cCCEEEEECCCCCcChHHHHHHHHHHHhC
Confidence 34688888878777888788888777643
No 272
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=37.51 E-value=99 Score=26.75 Aligned_cols=56 Identities=16% Similarity=0.360 Sum_probs=0.0
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-------------------hHHHHH
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-------------------EMFICK 134 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-------------------e~~iLk 134 (324)
++-|...|+. +.+...+|+|++.++ ..+..+.+.|+.+.-|.+|+ |...|+
T Consensus 60 ve~a~~~l~~-~~~~~~~v~il~k~~---------~~~~~l~~~g~~i~~vnvG~~~~~~~~~~v~~~v~l~~~e~~~lk 129 (151)
T cd00001 60 VEKAIEAINS-PKYDKQRVFLLFKNP---------QDVLRLVEGGVPIKTINVGNMAFRPGKVQITKAVSLDEEDVAAFK 129 (151)
T ss_pred HHHHHHHHhC-cCCCCceEEEEECCH---------HHHHHHHHcCCCCCEEEECCCcCCCCCEEEecceecCHHHHHHHH
Q ss_pred HHHHh
Q 020564 135 HLCQD 139 (324)
Q Consensus 135 ~ia~~ 139 (324)
++.+.
T Consensus 130 ~l~~~ 134 (151)
T cd00001 130 ELAQK 134 (151)
T ss_pred HHHHc
No 273
>PRK11269 glyoxylate carboligase; Provisional
Probab=37.50 E-value=1.8e+02 Score=30.49 Aligned_cols=86 Identities=9% Similarity=0.075 Sum_probs=60.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+++-||-.|+.+=-..| .|+|+.|.|.. +-.| +.+.++.+.+++|-+|-+.... .+
T Consensus 419 G~mG~glpaAiGa~la~p---~r~Vv~i~GDG-----~f~m~~~eL~Ta~~~~lpv~~vV~NN~~~g~i~~~~~~~~~~~ 490 (591)
T PRK11269 419 GPLGWTIPAALGVRAADP---DRNVVALSGDY-----DFQFLIEELAVGAQFNLPYIHVLVNNAYLGLIRQAQRAFDMDY 490 (591)
T ss_pred ccccchhhhHHhhhhhCC---CCcEEEEEccc-----hhhcCHHHHHHHHHhCCCeEEEEEeCCchhHHHHHHHHhccCc
Confidence 456666666666443333 46799999833 3223 4577899999999999886431 00
Q ss_pred --------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 --------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 --------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.++.+.+.|++.|.+..
T Consensus 491 ~~~~~~~~~~~~~~~~~~~df~~lA~a~G~~~~~v~~~~eL~~al~~a~ 539 (591)
T PRK11269 491 CVQLAFENINSPELNGYGVDHVKVAEGLGCKAIRVFKPEDIAPALEQAK 539 (591)
T ss_pred cceeeccccccccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 45688888888999999999998887765
No 274
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=37.49 E-value=14 Score=31.54 Aligned_cols=24 Identities=25% Similarity=0.797 Sum_probs=18.3
Q ss_pred eeEcCCCCcccccCC--CCCCCCCce
Q 020564 203 GYTCPRCKARVCELP--TDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP--~~C~~C~l~ 226 (324)
++.||.|++..=+-- +.||+||.+
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~~ 53 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGYR 53 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCce
Confidence 899999998655422 689999953
No 275
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=37.45 E-value=1.4e+02 Score=30.85 Aligned_cols=88 Identities=14% Similarity=0.067 Sum_probs=58.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HH--------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI-------------- 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~i-------------- 132 (324)
-+++.||-.|+.+=...| .++|++|.|...-. .++ +.+.++++.+++|-+|-+.... .+
T Consensus 415 g~mG~glpaaiGa~la~p---~~~vv~i~GDGsf~--~~~-~el~ta~~~~l~i~~vv~nN~~~~~~~~~~~~~~~~~~~ 488 (557)
T PRK08199 415 GSMGYGLPAAIAAKLLFP---ERTVVAFAGDGCFL--MNG-QELATAVQYGLPIIVIVVNNGMYGTIRMHQEREYPGRVS 488 (557)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchHhh--ccH-HHHHHHHHhCCCeEEEEEeCCcchHHHHHHHHhcCCccc
Confidence 466666666655433333 46788888833210 111 5577789999999998886431 11
Q ss_pred --------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 --------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 --------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++++.-|+.+.++.+.+.|++.|.+..
T Consensus 489 ~~~~~~~d~~~~a~a~G~~~~~v~~~~el~~al~~a~ 525 (557)
T PRK08199 489 GTDLTNPDFAALARAYGGHGETVERTEDFAPAFERAL 525 (557)
T ss_pred cccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 35677777888889999999998887765
No 276
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=37.41 E-value=3.3e+02 Score=28.06 Aligned_cols=90 Identities=16% Similarity=0.097 Sum_probs=51.3
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc--------hHHHHHHHHHhhC--Cee-EEeCCHHHHHHHHH
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA--------EMFICKHLCQDTG--GSY-SVALDESHFKELIM 158 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga--------e~~iLk~ia~~Tg--G~Y-~va~d~~hl~~lL~ 158 (324)
|++. ++| ||.-..-.++.+++.|+.+-.++-.. +...++++++..| |.. .--.|..++.+.+.
T Consensus 315 Krva-i~G-----dp~~~i~LarfL~elGmevV~vgt~~~~~~~~~~d~~~l~~~~~~~~~~~~vive~~D~~el~~~i~ 388 (457)
T CHL00073 315 KSVF-FMG-----DNLLEISLARFLIRCGMIVYEIGIPYMDKRYQAAELALLEDTCRKMNVPMPRIVEKPDNYNQIQRIR 388 (457)
T ss_pred CEEE-EEC-----CCcHHHHHHHHHHHCCCEEEEEEeCCCChhhhHHHHHHHHHHhhhcCCCCcEEEeCCCHHHHHHHHh
Confidence 4465 666 34445678899999999999887762 1233444443322 333 22245555555554
Q ss_pred hcCCCCccch-hhhhhceeeecCCCCCCC
Q 020564 159 EHAPPPPAIA-EFAIANLIKMGFPQRAGE 186 (324)
Q Consensus 159 ~~~~pp~~~~-~~~~~~Li~mGfP~~~~~ 186 (324)
+. .|+-.-. -...-.|++.|||.+...
T Consensus 389 ~~-~pDLlIgG~~~~~Pl~~~G~p~~d~~ 416 (457)
T CHL00073 389 EL-QPDLAITGMAHANPLEARGINTKWSV 416 (457)
T ss_pred hC-CCCEEEccccccCchhhcCCcceEec
Confidence 42 2322221 123458999999998643
No 277
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=37.28 E-value=18 Score=21.41 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=19.0
Q ss_pred eeCCCCCcccccccchhhhhcCC
Q 020564 283 VACPKCKKHFCLECDIYIHESLH 305 (324)
Q Consensus 283 ~~C~~C~~~fC~dCd~fihe~lh 305 (324)
|+|..|++.|=..=+...|-..|
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 78999999998888888777555
No 278
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=37.23 E-value=1.3e+02 Score=31.31 Aligned_cols=86 Identities=15% Similarity=0.125 Sum_probs=58.9
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+|+.||-.|+.+--..| .|+|++|.|.. +-.| +.+.++++++++|-+|-+.... .
T Consensus 408 G~mG~~lpaAiGa~la~p---~r~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~ivV~NN~~~g~i~~~~~~~~~~~ 479 (574)
T PRK09124 408 GSMANAMPQALGAQAAHP---GRQVVALSGDG-----GFSMLMGDFLSLVQLKLPVKIVVFNNSVLGFVAMEMKAGGYLT 479 (574)
T ss_pred ccccchHHHHHHHHHhCC---CCeEEEEecCc-----HHhccHHHHHHHHHhCCCeEEEEEeCCccccHHHHHHhcCCcc
Confidence 355566666665543333 46799998833 2222 4577899999999998886430 0
Q ss_pred --------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 --------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 480 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 517 (574)
T PRK09124 480 DGTDLHNPDFAAIAEACGITGIRVEKASELDGALQRAF 517 (574)
T ss_pred ccCcCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 145678888888889999999998888765
No 279
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=37.21 E-value=1.8e+02 Score=26.89 Aligned_cols=63 Identities=22% Similarity=0.297 Sum_probs=46.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHH-HHHHHHhcCcEEEEEEccchHHHHH
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIME-TIQKCKESKIRCSVIGLSAEMFICK 134 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~-ti~~akk~~IrV~vI~Lgae~~iLk 134 (324)
-..+.||++-+.++++. .-|+++++++++.+ ..|.+-. +=+.+|+.+|++.+.-.-.--+-|+
T Consensus 110 E~t~~Al~lil~~lk~~---~~k~vi~L~d~~vs-~SGel~~~i~~~mK~~~I~g~~~lvk~~D~eLk 173 (211)
T COG2454 110 EKTDKALDLLLEFLKDV---EPKSVIFLFDAPVS-KSGELAGRIEEKMKSLGIPGEASLVKNADFELK 173 (211)
T ss_pred hHHHHHHHHHHHHHHHc---CCceEEEEeCCCCC-ccHHHHHHHHHHHHhcCCCceeEeccCcCHHHH
Confidence 46788999999999987 35789999987754 4566664 5667899999988776654333344
No 280
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the Firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex.
Probab=37.08 E-value=64 Score=31.75 Aligned_cols=41 Identities=12% Similarity=0.221 Sum_probs=30.5
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHH
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMF 131 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~ 131 (324)
+-||+|+. +.+-|-.++.-+++.|+.++|+|.+|-.+.++.
T Consensus 94 ~GvL~ivk-NYtGD~lNF~mA~E~a~~eGi~v~~V~V~DDvA 134 (326)
T TIGR02362 94 KGVFVIIK-NFEADLSEFSQAIQQARQEGRQIKYIIVHDDIS 134 (326)
T ss_pred CCEEEEec-cCHHHHhhHHHHHHHHHHcCCcEEEEEECCccc
Confidence 46888887 444344444458999999999999999986643
No 281
>PRK14481 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=37.02 E-value=67 Score=31.65 Aligned_cols=41 Identities=10% Similarity=0.093 Sum_probs=31.5
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
.+-||+|++ +.+-|-.++.-+++.|+.++|+|.+|-.+.++
T Consensus 96 ~~GvL~iv~-NYtGD~lnF~lA~E~a~~eGi~v~~V~v~DDv 136 (331)
T PRK14481 96 GAGVLLIVK-NYSGDVMNFEMAAELAEMEGIEVASVVVDDDV 136 (331)
T ss_pred CCCEEEEeC-CcHHHhccHHHHHHHHHhCCCCEEEEEeCCcc
Confidence 356898887 54445555556899999999999999998653
No 282
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=37.01 E-value=16 Score=39.91 Aligned_cols=44 Identities=27% Similarity=0.622 Sum_probs=30.7
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhh------hhcCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYI------HESLHNCPGCE 311 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fi------he~lh~CpgC~ 311 (324)
...|..|++.+-. ..|+|++|+..+|.||---- -|..-.|+.|-
T Consensus 229 ~~mC~~C~~tlfn------~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~ 278 (889)
T KOG1356|consen 229 REMCDRCETTLFN------IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSW 278 (889)
T ss_pred chhhhhhcccccc------eeEEccccCCeeeecchhhccccchHhHhhhhhhHHH
Confidence 4589999855532 37999999999999996433 24444555543
No 283
>PRK07586 hypothetical protein; Validated
Probab=37.00 E-value=1.7e+02 Score=29.91 Aligned_cols=86 Identities=14% Similarity=0.202 Sum_probs=56.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+|+-||-.|+.+--..| .|+|++|.|.. +-.| +.+.+++++|++|-+|-+.... .+
T Consensus 385 g~mG~~lpaaiGa~lA~p---~r~Vv~i~GDG-----sf~m~~~EL~Ta~~~~lpv~ivV~NN~~y~~~~~~~~~~~~~~ 456 (514)
T PRK07586 385 GAIGQGLPLATGAAVACP---DRKVLALQGDG-----SAMYTIQALWTQARENLDVTTVIFANRAYAILRGELARVGAGN 456 (514)
T ss_pred cccccHHHHHHHHHHhCC---CCeEEEEEech-----HHHhHHHHHHHHHHcCCCCEEEEEeCchhHHHHHHHHHhcCCC
Confidence 457777766666544333 46799999833 2222 5688899999999998886432 12
Q ss_pred -----------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -----------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -----------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.++.+.+.|.+.|.+..
T Consensus 457 ~~~~~~~~~~~~~~~~d~~~lA~a~G~~~~~V~~~~el~~al~~a~ 502 (514)
T PRK07586 457 PGPRALDMLDLDDPDLDWVALAEGMGVPARRVTTAEEFADALAAAL 502 (514)
T ss_pred CCccccccccCCCCCCCHHHHHHHCCCcEEEeCCHHHHHHHHHHHH
Confidence 23355555666667777777777776654
No 284
>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=37.00 E-value=11 Score=28.71 Aligned_cols=33 Identities=27% Similarity=0.634 Sum_probs=19.3
Q ss_pred ecCCccccC-eeEcCCCCcccccCCCCCCCCCcee
Q 020564 194 CHKEVKVGV-GYTCPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 194 CH~~~~~~~-Gy~Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
||..+...+ .|.|+.|..-|=. -..||.|+-.|
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 666665543 8999999997643 36799998764
No 285
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.96 E-value=2.2e+02 Score=29.70 Aligned_cols=86 Identities=13% Similarity=0.143 Sum_probs=62.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+|+.||-.|+.+=-..| .|+|+.|.| |-+-.| ..+.++.++|++|-+|-+.... .
T Consensus 421 g~mG~glpaaiGa~la~p---~~~vv~i~G-----DG~f~m~~~EL~Ta~r~~lpv~~vV~NN~~y~~i~~~q~~~~~~~ 492 (572)
T PRK08979 421 GTMGFGLPAAMGVKFAMP---DETVVCVTG-----DGSIQMNIQELSTALQYDIPVKIINLNNRFLGMVKQWQDMIYQGR 492 (572)
T ss_pred ccccchhhHHHhhhhhCC---CCeEEEEEc-----chHhhccHHHHHHHHHcCCCeEEEEEeCCccHHHHHHHHHHhCCc
Confidence 467777777776544443 468999988 233333 5689999999999999886431 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+...++.+.+.|++.|.+.+
T Consensus 493 ~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~eL~~al~~a~ 532 (572)
T PRK08979 493 HSHSYMDSVPDFAKIAEAYGHVGIRISDPDELESGLEKAL 532 (572)
T ss_pred ccccCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 034678888888899999999999888765
No 286
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=36.76 E-value=18 Score=29.86 Aligned_cols=9 Identities=33% Similarity=0.996 Sum_probs=4.0
Q ss_pred ccccccccc
Q 020564 264 TCFGCQQSL 272 (324)
Q Consensus 264 ~C~~C~~~~ 272 (324)
.|..|...|
T Consensus 72 ~C~~Cg~~~ 80 (113)
T PRK12380 72 WCWDCSQVV 80 (113)
T ss_pred EcccCCCEE
Confidence 444444433
No 287
>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=36.59 E-value=26 Score=24.36 Aligned_cols=29 Identities=34% Similarity=0.819 Sum_probs=20.2
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCc-ccccccch
Q 020564 264 TCFGCQQ-SLLSSGNKPGLYVACPKCKK-HFCLECDI 298 (324)
Q Consensus 264 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~-~fC~dCd~ 298 (324)
.|-+|.. ++.. .||+|..|.. ..|.+|-.
T Consensus 2 ~Cd~C~~~pI~G------~RykC~~C~dyDLC~~Cf~ 32 (45)
T cd02344 2 TCDGCQMFPING------PRFKCRNCDDFDFCENCFK 32 (45)
T ss_pred CCCCCCCCCCcc------CeEECCCCCCccchHHhhC
Confidence 5889974 3321 4899999984 56777743
No 288
>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=36.39 E-value=1.2e+02 Score=22.24 Aligned_cols=25 Identities=12% Similarity=0.149 Sum_probs=20.7
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
+++-+.+.+..+.+.+|.||+|+..
T Consensus 12 ~~~~~a~if~~La~~~InvDmI~~~ 36 (67)
T cd04914 12 ENDLQQRVFKALANAGISVDLINVS 36 (67)
T ss_pred CccHHHHHHHHHHHcCCcEEEEEec
Confidence 4666668889999999999999764
No 289
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.37 E-value=18 Score=34.41 Aligned_cols=51 Identities=24% Similarity=0.615 Sum_probs=35.8
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCCcccccccchh--hhhcCCCCCCCCCCCCCCCc
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY--IHESLHNCPGCESLRHSNPI 319 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~f--ihe~lh~CpgC~~~~~~~~~ 319 (324)
++..|+-|..... ...|.-|++.||.-|=+- --+.-..||-|-+.-.+..|
T Consensus 214 ~d~kC~lC~e~~~--------~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPE--------VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccC--------CcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 3568999984432 356999999999999654 24555679999875544433
No 290
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=36.19 E-value=19 Score=30.08 Aligned_cols=26 Identities=31% Similarity=0.638 Sum_probs=16.3
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKH 291 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 291 (324)
.-.|.-|+..+.. +...|.||+|+++
T Consensus 70 ~~~C~~C~~~~~~----e~~~~~CP~C~s~ 95 (115)
T COG0375 70 ECWCLDCGQEVEL----EELDYRCPKCGSI 95 (115)
T ss_pred EEEeccCCCeecc----hhheeECCCCCCC
Confidence 4468888766643 2345668888764
No 291
>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=36.16 E-value=55 Score=25.05 Aligned_cols=50 Identities=10% Similarity=0.116 Sum_probs=24.2
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCC---CCcccHHHHHHHHHhcCcEEEEE
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALST---CDPGDIMETIQKCKESKIRCSVI 124 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t---~d~g~i~~ti~~akk~~IrV~vI 124 (324)
|++.++..|+.. +..+++++++|.... .+........+.+++....|-+.
T Consensus 26 s~~a~l~~l~~~--~~~~~~i~V~G~~~d~g~~~~~~~~~~~~~~~~~~d~vi~~ 78 (91)
T PF02875_consen 26 SIRALLEALKEL--YPKGRIIAVFGAMGDLGSKDKDFHEEIGELAAQLADVVILT 78 (91)
T ss_dssp HHHHHHHHHHHH--CTTSEEEEEEEEBTT-HTSHHHCHHHHHHHHTTCSSEEEEE
T ss_pred HHHHHHHHHHHh--ccCCcEEEEEccccccccccHHHHHHHHHHHHhcCCEEEEc
Confidence 334444445444 125567777774322 22222234566666656664433
No 292
>PF02635 DrsE: DsrE/DsrF-like family; InterPro: IPR003787 Four small, soluble proteins (DsrE, DsrF, DsrH and DsrC) are encoded in the dsr gene region of the phototrophic sulphur bacterium Chromatium vinosum D. The dsrAB genes encoding dissimilatory sulphite reductase are part of the gene cluster, dsrABEFHCMK. The remaining proteins that are encoded are a transmembrane protein (DsrM) with similarity to haem-b-binding polypeptides and a soluble protein (DsrK) resembling [4Fe-4S]-cluster-containing heterodisulphide reductase from methanogenic archaea. DsrE is a small soluble protein involved in intracellular sulphur reduction [].; PDB: 1L1S_A 2HYB_B 2HY5_B 2PD2_B 3MC3_A 2D1P_H 1JX7_B 2FB6_A.
Probab=36.11 E-value=63 Score=25.32 Aligned_cols=66 Identities=15% Similarity=0.161 Sum_probs=38.1
Q ss_pred CCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCC----C-------CcccHHHHHHHHHhcC-cEEEEEEccchHH
Q 020564 64 CSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALST----C-------DPGDIMETIQKCKESK-IRCSVIGLSAEMF 131 (324)
Q Consensus 64 ~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t----~-------d~g~i~~ti~~akk~~-IrV~vI~Lgae~~ 131 (324)
+.++..-..++.+|......-. + .-+|-|++-+... . +..++.+.++.+++.| |++.++..+.+.+
T Consensus 11 p~~~~~~~~~~~~~~~~~~~~~-~-~~~v~v~~~g~gv~~~~~~~~~~~~~~~~~~~~l~~l~~~g~v~i~~C~~~~~~~ 88 (122)
T PF02635_consen 11 PYDDERAKIALRLANAAAAMGD-Y-GHDVVVFFHGDGVKLALKDQKPNPEGDPPLQELLKELKEAGGVKIYVCETCLKAR 88 (122)
T ss_dssp TTTBSHHHHHHHHHHHHHHTTH-T-TSEEEEEE-GGGGGGGBTTCHCGGCTSHCHHHHHHHHHHTTT-EEEEEHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHHHcCC-C-CCcEEEEEEchHHHHHHhcccccccccccHHHHHHHHHhcCCcEEEEcHHHHHHc
Confidence 3455556666666665544321 1 2355555522221 1 1235778999999997 9999998876543
No 293
>COG5399 Uncharacterized protein conserved in archaea [Function unknown]
Probab=36.09 E-value=1.1e+02 Score=25.97 Aligned_cols=55 Identities=15% Similarity=0.225 Sum_probs=34.9
Q ss_pred HHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHhcC-----------cEEEEEEccchH
Q 020564 75 DLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESK-----------IRCSVIGLSAEM 130 (324)
Q Consensus 75 ~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~-~ti~~akk~~-----------IrV~vI~Lgae~ 130 (324)
+||..+|....+.+ +-.||+=---.-.-|+++. ++.+.+++.+ |+||.|+..+|.
T Consensus 28 ~vA~eaLeeWdp~a-SDFiVlRD~~eV~~p~pl~~evle~v~~~~~~~~e~e~~i~~PVY~Is~~new 94 (139)
T COG5399 28 EVAIEALEEWDPTA-SDFIVLRDFYEVSYPAPLSREVLEKVRKYSPKRVENEVEIALPVYEISHSNEW 94 (139)
T ss_pred HHHHHHHHhcCCCc-CceEEEecceeEEeeCCCCHHHHHHHHHhCccccCCeeEEEeeEEEEEecccc
Confidence 58999999885444 4466653222122355555 5666666643 689999998874
No 294
>PRK07710 acetolactate synthase catalytic subunit; Reviewed
Probab=35.96 E-value=2.1e+02 Score=29.83 Aligned_cols=86 Identities=20% Similarity=0.132 Sum_probs=59.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+|+-||-.|+.+-...| .|+|++|.|.. +-.| +.+.+++++++++-+|-+.... .+
T Consensus 424 g~mG~glpaAiGaala~p---~~~vv~i~GDG-----sf~m~~~eL~ta~r~~lpi~ivV~NN~~~~~i~~~~~~~~~~~ 495 (571)
T PRK07710 424 GTMGFGLPAAIGAQLAKP---DETVVAIVGDG-----GFQMTLQELSVIKELSLPVKVVILNNEALGMVRQWQEEFYNQR 495 (571)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcch-----HHhhhHHHHHHHHHhCCCeEEEEEECchHHHHHHHHHHHhCCc
Confidence 355666666665544443 46788888833 2223 3488899999999999886431 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -----------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+..|+.|..+.+.+.|+..+.+..
T Consensus 496 ~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~ 535 (571)
T PRK07710 496 YSHSLLSCQPDFVKLAEAYGIKGVRIDDELEAKEQLQHAI 535 (571)
T ss_pred ceeccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 45688888899999999999988887765
No 295
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=35.79 E-value=27 Score=33.06 Aligned_cols=54 Identities=22% Similarity=0.368 Sum_probs=33.0
Q ss_pred CccccccccccCCCCC---CCceeeCCCCCcccccccchhhhhcCCCCCCCCCCCCCCCc
Q 020564 263 STCFGCQQSLLSSGNK---PGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPI 319 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~---~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~~~~~ 319 (324)
..|.+|.+.+...+.. .-.-|.|++|++.|=.-+- -++---|-||.+..-++-|
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 4799999887544311 1235899999999943322 2444567777654444433
No 296
>PRK12361 hypothetical protein; Provisional
Probab=35.54 E-value=2.8e+02 Score=28.75 Aligned_cols=48 Identities=15% Similarity=0.140 Sum_probs=34.0
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+-+.|......- ..+||+.|++. .+.+++..+...++++-+|-+|..-
T Consensus 286 a~~la~~~~~~~-----~d~Viv~GGDG-----Tl~ev~~~l~~~~~~lgiiP~GTgN 333 (547)
T PRK12361 286 AEALAKQARKAG-----ADIVIACGGDG-----TVTEVASELVNTDITLGIIPLGTAN 333 (547)
T ss_pred HHHHHHHHHhcC-----CCEEEEECCCc-----HHHHHHHHHhcCCCCEEEecCCchh
Confidence 455555554322 24777788774 5889999998889999999988643
No 297
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=35.44 E-value=1.7e+02 Score=30.37 Aligned_cols=86 Identities=10% Similarity=0.026 Sum_probs=59.8
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++-||-.|+.+=-..| .|+|+.|.|.. +-.| +.+.+++++++++-+|-+.... .
T Consensus 421 g~mG~glpaAiGa~la~p---~~~vv~i~GDG-----~f~m~~~eL~Ta~~~~l~i~ivV~NN~~yg~i~~~q~~~~~~~ 492 (572)
T PRK06456 421 GTMGFGLPAAMGAKLARP---DKVVVDLDGDG-----SFLMTGTNLATAVDEHIPVISVIFDNRTLGLVRQVQDLFFGKR 492 (572)
T ss_pred ccccchhHHHHHHHHhCC---CCeEEEEEccc-----hHhcchHHHHHHHHhCCCeEEEEEECCchHHHHHHHHHhhCCC
Confidence 466666666666544433 46788888833 2222 5678899999999998886421 0
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|..+.++.+.+.|++.|.+..
T Consensus 493 ~~~~~~~~~~d~~~~A~a~G~~~~~v~~~~eL~~al~~a~ 532 (572)
T PRK06456 493 IVGVDYGPSPDFVKLAEAFGALGFNVTTYEDIEKSLKSAI 532 (572)
T ss_pred cccccCCCCCCHHHHHHHCCCeeEEeCCHHHHHHHHHHHH
Confidence 156777788888888889999988887664
No 298
>PF02733 Dak1: Dak1 domain; InterPro: IPR004006 Dihydroxyacetone kinase (glycerone kinase) 2.7.1.29 from EC catalyses the phosphorylation of glycerone in the presence of ATP to glycerone phosphate in the glycerol utilization pathway. This is the kinase domain of the dihydroxyacetone kinase family.; GO: 0004371 glycerone kinase activity, 0006071 glycerol metabolic process; PDB: 1UN8_A 1UN9_B 3PNM_A 1UOD_B 3PNO_D 3PNK_A 3PNQ_B 1OI2_B 1OI3_A 3PNL_A ....
Probab=35.39 E-value=51 Score=32.41 Aligned_cols=37 Identities=19% Similarity=0.398 Sum_probs=25.1
Q ss_pred CceEEEEEeCCCCCCcccHH---HHHHHHHhcCcEEEEEEccch
Q 020564 89 HREVLILYSALSTCDPGDIM---ETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~---~ti~~akk~~IrV~vI~Lgae 129 (324)
.+-||+|+. +.| ||++ -+++.|+.+||+|.+|-++.+
T Consensus 80 ~~Gvl~iv~-NYt---GD~lNF~~A~E~a~~~Gi~v~~v~v~DD 119 (325)
T PF02733_consen 80 GKGVLLIVK-NYT---GDVLNFGMAAEKARAEGIKVEMVIVGDD 119 (325)
T ss_dssp SS-EEEEEE-SSH---HHHHHHHHHHHHHHHTT--EEEEEE--B
T ss_pred CCCEEEEEe-cch---HHHhhHHHHHHHHHhCCCCEEEEEecCc
Confidence 456899887 433 5555 589999999999999999754
No 299
>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=35.18 E-value=19 Score=19.93 Aligned_cols=20 Identities=30% Similarity=0.668 Sum_probs=11.7
Q ss_pred eeCCCCCcccccccchhhhh
Q 020564 283 VACPKCKKHFCLECDIYIHE 302 (324)
Q Consensus 283 ~~C~~C~~~fC~dCd~fihe 302 (324)
|.|+.|+..|=..-++--|.
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 67888888776555554444
No 300
>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=34.90 E-value=13 Score=29.57 Aligned_cols=37 Identities=30% Similarity=0.645 Sum_probs=25.3
Q ss_pred CCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCcccccccccc
Q 020564 217 PTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLL 273 (324)
Q Consensus 217 P~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~ 273 (324)
++.|+.|+.+| ++.+|.|+-.|.-. .+.|.-|..+++
T Consensus 33 rS~C~~C~~~L--------~~~~lIPi~S~l~l------------rGrCr~C~~~I~ 69 (92)
T PF06750_consen 33 RSHCPHCGHPL--------SWWDLIPILSYLLL------------RGRCRYCGAPIP 69 (92)
T ss_pred CCcCcCCCCcC--------cccccchHHHHHHh------------CCCCcccCCCCC
Confidence 46788888876 45566666655532 567888887775
No 301
>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=34.68 E-value=2.1e+02 Score=29.51 Aligned_cols=86 Identities=12% Similarity=0.058 Sum_probs=59.9
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+|+.||-.|+.+=-..| .|+|+.|.|.. +-.| +.+.++.+++++|-+|-+.... .
T Consensus 408 g~mG~~lpaaiGa~la~~---~~~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpi~ivV~NN~~y~~~~~~~~~~~~~~ 479 (539)
T TIGR02418 408 QTLGVALPWAIGAALVRP---NTKVVSVSGDG-----GFLFSSMELETAVRLKLNIVHIIWNDNGYNMVEFQEEMKYQRS 479 (539)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcch-----hhhchHHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCc
Confidence 466666666666433333 46799998833 2222 4577899999999999886421 0
Q ss_pred ----H----HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----I----CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----i----Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+ +.++|+.-|..+..+.+.+.|++.|.+..
T Consensus 480 ~~~~~~~~d~~~lA~a~G~~~~~V~~~~eL~~al~~a~ 517 (539)
T TIGR02418 480 SGVDFGPIDFVKYAESFGAKGLRVESPDQLEPTLRQAM 517 (539)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 1 56788888889999999999998887765
No 302
>PRK07524 hypothetical protein; Provisional
Probab=34.62 E-value=2.1e+02 Score=29.40 Aligned_cols=89 Identities=13% Similarity=0.070 Sum_probs=58.6
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HH--------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI-------------- 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~i-------------- 132 (324)
-+++.||-.|+.+--..| .|+|++|.|...- -.++ ..+.++++.|++|=+|-+.... .+
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 GTLGYGLPAAIGAALGAP---ERPVVCLVGDGGL--QFTL-PELASAVEADLPLIVLLWNNDGYGEIRRYMVARDIEPVG 480 (535)
T ss_pred ccccchHHHHHHHHHhCC---CCcEEEEEcchHH--hhhH-HHHHHHHHhCCCeEEEEEECCchHHHHHHHHHhcCCccc
Confidence 455556655555443333 4678888883321 1122 3467899999999988886421 11
Q ss_pred -------HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 133 -------CKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 133 -------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
+.++|+.-|+.+..+.+.+.|++.+.+...
T Consensus 481 ~~~~~~d~~~~A~a~G~~~~~v~~~~el~~al~~a~~ 517 (535)
T PRK07524 481 VDPYTPDFIALARAFGCAAERVADLEQLQAALRAAFA 517 (535)
T ss_pred cCCCCCCHHHHHHHCCCcEEEeCCHHHHHHHHHHHHh
Confidence 356788888888888899999988887763
No 303
>cd02522 GT_2_like_a GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function. Glycosyltransferase family 2 (GT-2) subfamily of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=34.60 E-value=3e+02 Score=23.62 Aligned_cols=95 Identities=9% Similarity=0.091 Sum_probs=51.6
Q ss_pred HHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhcCCCCcchHHHHHHHHHHHhhCCCCCCCceEE
Q 020564 14 QVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVL 93 (324)
Q Consensus 14 ~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p~~~~reIL 93 (324)
.+.+.+++...|.. ...-||+..|+. +.+..++++... ..-...+...+.|+.+|+...+ .+++
T Consensus 13 ~l~~~l~sl~~q~~-~~~evivvdd~s-------~d~~~~~~~~~~-~~~~~~~~g~~~a~n~g~~~a~-------~~~i 76 (221)
T cd02522 13 NLPRLLASLRRLNP-LPLEIIVVDGGS-------TDGTVAIARSAG-VVVISSPKGRARQMNAGAAAAR-------GDWL 76 (221)
T ss_pred HHHHHHHHHHhccC-CCcEEEEEeCCC-------CccHHHHHhcCC-eEEEeCCcCHHHHHHHHHHhcc-------CCEE
Confidence 35566666666664 445556655542 222333333311 1111223346667776665432 3688
Q ss_pred EEEeCCCCCCcccHHHHHHHHHhcCcEEEEE
Q 020564 94 ILYSALSTCDPGDIMETIQKCKESKIRCSVI 124 (324)
Q Consensus 94 il~gS~~t~d~g~i~~ti~~akk~~IrV~vI 124 (324)
+++-++..-+++.+.+......+.+..+...
T Consensus 77 ~~~D~D~~~~~~~l~~l~~~~~~~~~~~~~~ 107 (221)
T cd02522 77 LFLHADTRLPPDWDAAIIETLRADGAVAGAF 107 (221)
T ss_pred EEEcCCCCCChhHHHHHHHHhhcCCcEEEEE
Confidence 8887776667777777666666666544443
No 304
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=34.58 E-value=89 Score=27.28 Aligned_cols=76 Identities=16% Similarity=0.221 Sum_probs=43.3
Q ss_pred CcccHH-HHHHHHHhcCcEEEEEEccchH--HHHHHHHHhhCCeeEE-----eCCHHHHHHHHHhcCCCCccchhhhhhc
Q 020564 103 DPGDIM-ETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGGSYSV-----ALDESHFKELIMEHAPPPPAIAEFAIAN 174 (324)
Q Consensus 103 d~g~i~-~ti~~akk~~IrV~vI~Lgae~--~iLk~ia~~TgG~Y~v-----a~d~~hl~~lL~~~~~pp~~~~~~~~~~ 174 (324)
+..|++ ..++.+.+++.+|.++|=..++ .+-+.+.+.-.|.-.+ ..+.+...++...+..-.| .--
T Consensus 30 ~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~p------div 103 (171)
T cd06533 30 TGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGA------DIL 103 (171)
T ss_pred CcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCC------CEE
Confidence 344666 5788888889999988665443 2334455554543333 2333344445554442211 245
Q ss_pred eeeecCCCCC
Q 020564 175 LIKMGFPQRA 184 (324)
Q Consensus 175 Li~mGfP~~~ 184 (324)
++-||.|.+.
T Consensus 104 ~vglG~PkQE 113 (171)
T cd06533 104 FVGLGAPKQE 113 (171)
T ss_pred EEECCCCHHH
Confidence 7888888874
No 305
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=34.48 E-value=28 Score=25.38 Aligned_cols=22 Identities=32% Similarity=0.869 Sum_probs=16.3
Q ss_pred cCCCCccccc-CCCCCCCCCcee
Q 020564 206 CPRCKARVCE-LPTDCRICGLQL 227 (324)
Q Consensus 206 Cp~C~s~~C~-lP~~C~~C~l~L 227 (324)
||+|+++.|. ..-+||-||+..
T Consensus 2 Cpv~~~~~~~~v~~~Cp~cGipt 24 (55)
T PF13824_consen 2 CPVCKKDLPAHVNFECPDCGIPT 24 (55)
T ss_pred CCCCccccccccCCcCCCCCCcC
Confidence 8888887764 345888888864
No 306
>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=34.46 E-value=2.3e+02 Score=25.11 Aligned_cols=88 Identities=17% Similarity=0.211 Sum_probs=57.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH-HHHHHHHHhcCcEEEEEEccchHH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEMF--------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i-~~ti~~akk~~IrV~vI~Lgae~~--------------- 131 (324)
.+++.|+-.|+.+=...| .|+|+.|.|.... -.+ ...+.++++.+++|-+|-+....+
T Consensus 51 g~mG~glpaAiGa~la~p---~r~Vv~i~GDGs~---f~m~~~eL~ta~~~~lpv~iiVlnN~~yg~~~~~~~~~~~~~~ 124 (193)
T cd03375 51 TLHGRALAVATGVKLANP---DLTVIVVSGDGDL---AAIGGNHFIHAARRNIDITVIVHNNQIYGLTKGQASPTTPEGF 124 (193)
T ss_pred hhhccHHHHHHHHHHhCC---CCeEEEEeccchH---hhccHHHHHHHHHhCCCeEEEEEcCcccccCCCccCCCCCCCC
Confidence 456666666665433333 5789999883321 011 256778889999999998864310
Q ss_pred --------------HHHHHHHhhCCeeE---EeCCHHHHHHHHHhcC
Q 020564 132 --------------ICKHLCQDTGGSYS---VALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------------iLk~ia~~TgG~Y~---va~d~~hl~~lL~~~~ 161 (324)
=+.++++.-|..|. .+.+.+.|++.|.+..
T Consensus 125 ~~~~~~~~~~~~~~d~~~iA~a~G~~~~~~~~v~~~~el~~al~~al 171 (193)
T cd03375 125 KTKTTPYGNIEEPFNPLALALAAGATFVARGFSGDIKQLKEIIKKAI 171 (193)
T ss_pred cccCCCCCCCCCCCCHHHHHHHCCCCEEEEEecCCHHHHHHHHHHHH
Confidence 13467777787773 5678888888887766
No 307
>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=34.39 E-value=38 Score=23.94 Aligned_cols=44 Identities=7% Similarity=-0.154 Sum_probs=30.3
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCCCCC
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRH 315 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~ 315 (324)
.|.-|...+.++ ....|++.||.+|=.-.-+.-..||-|.....
T Consensus 3 ~Cpi~~~~~~~P--------v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 3 LCPISLEVMKDP--------VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred CCcCCCCcCCCC--------EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 477777666543 13367899999997655555678999876543
No 308
>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=34.36 E-value=2.2e+02 Score=29.74 Aligned_cols=86 Identities=12% Similarity=0.050 Sum_probs=61.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM--------------- 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~--------------- 130 (324)
-+++-||-.|+.+=-..| .|+|+.|.|.. +-.| +.+.++++.+++|-+|-+....
T Consensus 430 g~mG~~lpaaiGa~la~p---~~~Vv~i~GDG-----~f~m~~~eL~Tavr~~lpvi~vV~NN~~yg~i~~~~~~~~~~~ 501 (579)
T TIGR03457 430 GNCGYAFPTIIGAKIAAP---DRPVVAYAGDG-----AWGMSMNEIMTAVRHDIPVTAVVFRNRQWGAEKKNQVDFYNNR 501 (579)
T ss_pred ccccchHHHHHhhhhhCC---CCcEEEEEcch-----HHhccHHHHHHHHHhCCCeEEEEEECcchHHHHHHHHHhhCCc
Confidence 467767766666443333 46788888833 3233 6788999999999888885321
Q ss_pred -------H--HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 -------F--ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 -------~--iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
. =+.++|+.-|+.+.++.+.+.|...|.+..
T Consensus 502 ~~~~~~~~~~d~~~lA~a~G~~g~~v~~~~el~~al~~a~ 541 (579)
T TIGR03457 502 FVGTELESELSFAGIADAMGAKGVVVDKPEDVGPALKKAI 541 (579)
T ss_pred ceeccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 0 145688888888999999999999888876
No 309
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=34.21 E-value=21 Score=25.35 Aligned_cols=27 Identities=22% Similarity=0.575 Sum_probs=15.7
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
.|.|-+|+..| +.---...--||.|.+
T Consensus 6 ~Y~C~~Cg~~~----~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 6 EYKCARCGREV----ELDQETRGIRCPYCGS 32 (49)
T ss_pred EEEhhhcCCee----ehhhccCceeCCCCCc
Confidence 46777777776 3333344456777764
No 310
>COG3183 Predicted restriction endonuclease [Defense mechanisms]
Probab=34.17 E-value=9.7 Score=36.18 Aligned_cols=32 Identities=34% Similarity=0.789 Sum_probs=21.3
Q ss_pred CCCCCCCceecC-chhHHhhh---cccCCCCCCc-cc
Q 020564 218 TDCRICGLQLVS-SPHLARSY---HHLFPIAPFD-EV 249 (324)
Q Consensus 218 ~~C~~C~l~Lvs-~~hLarsy---hhl~p~~~f~-~~ 249 (324)
+.|.+|+..|.- .=.++|-| ||..|+..|+ +.
T Consensus 196 ~vC~vC~fdF~k~YGe~gKgyIeVHH~~piae~e~~~ 232 (272)
T COG3183 196 TVCDVCEFDFQKKYGEIGKGYIEVHHKIPIAEFEGEY 232 (272)
T ss_pred ceeeecCccHHHHhhhhccCeEEEeeccchhhhcCcc
Confidence 356667766643 23356665 8999999998 54
No 311
>PLN02573 pyruvate decarboxylase
Probab=34.08 E-value=1.7e+02 Score=30.68 Aligned_cols=85 Identities=11% Similarity=0.078 Sum_probs=59.8
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM---------------- 130 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~---------------- 130 (324)
+|+-||-.|+.+--..| .|+|++|.| |-+-.| ..+.++.+++++|-+|-+....
T Consensus 429 smG~glpaaiGa~lA~p---~r~vv~i~G-----DG~f~m~~~EL~Ta~r~~lpvv~vV~NN~~yg~~~~~~~~~~~~~~ 500 (578)
T PLN02573 429 SIGWSVGATLGYAQAAP---DKRVIACIG-----DGSFQVTAQDVSTMIRCGQKSIIFLINNGGYTIEVEIHDGPYNVIK 500 (578)
T ss_pred hhhhhhhHHHHHHHhCC---CCceEEEEe-----ccHHHhHHHHHHHHHHcCCCCEEEEEeCCceeEEEeecccCccccC
Confidence 56666666666543333 478999998 333334 4689999999999999886321
Q ss_pred -HHHHHHHHhhC-----CeeEEeCCHHHHHHHHHhcC
Q 020564 131 -FICKHLCQDTG-----GSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 -~iLk~ia~~Tg-----G~Y~va~d~~hl~~lL~~~~ 161 (324)
.=+.++|+..| ..+.++.+.+.|++.|.+..
T Consensus 501 ~~d~~~lA~a~G~~~g~~~~~~V~~~~eL~~al~~a~ 537 (578)
T PLN02573 501 NWNYTGLVDAIHNGEGKCWTAKVRTEEELIEAIATAT 537 (578)
T ss_pred CCCHHHHHHHhcCcCCceeEEEecCHHHHHHHHHHHH
Confidence 01578888876 35678889999999887764
No 312
>PRK03815 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=34.03 E-value=4.9e+02 Score=25.97 Aligned_cols=66 Identities=11% Similarity=0.036 Sum_probs=33.2
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHh
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIME 159 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~ 159 (324)
++|++|+|+... ..+.++.++.+++..+. ++-+|.....+++.....+.......+.+...+.+..
T Consensus 299 ~~ii~IlGG~~k--~~~~~~l~~~~~~~~~~--v~~~G~~~~~~~~~~~~~~~~~~~~~~~e~av~~~~~ 364 (401)
T PRK03815 299 KKIHLILGGDDK--GVDLTPLFEFMKNLNIE--LYAIGSNTEKIQALAKEFNIKAFVCEFLEKAVEEIKK 364 (401)
T ss_pred CCEEEEECCCCC--CCCHHHHHHHHHhhCcE--EEEECCCHHHHHHHHhcCCCeEEEeCCHHHHHHHHHH
Confidence 467777774321 33556777777777764 5555655444444433223223333343433333333
No 313
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.90 E-value=1.5e+02 Score=20.12 Aligned_cols=32 Identities=19% Similarity=0.224 Sum_probs=23.4
Q ss_pred EEeCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 95 LYSALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 95 l~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+.|.....+++-..+....+.+.+|+++.|+.
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04923 5 IVGAGMRSHPGVAAKMFKALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEEc
Confidence 44544444565566888999999999999983
No 314
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=33.87 E-value=1.5e+02 Score=25.54 Aligned_cols=52 Identities=12% Similarity=0.073 Sum_probs=37.0
Q ss_pred eEEEEEeCCCCC--CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCC
Q 020564 91 EVLILYSALSTC--DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGG 142 (324)
Q Consensus 91 eILil~gS~~t~--d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG 142 (324)
+|+|..+|+... .-.+=..+-..|++.+|.++.+-+..+....+++-+.+|.
T Consensus 1 ~VvlYttsl~giR~t~~~C~~ak~iL~~~~V~~~e~DVs~~~~~~~EL~~~~g~ 54 (147)
T cd03031 1 RVVLYTTSLRGVRKTFEDCNNVRAILESFRVKFDERDVSMDSGFREELRELLGA 54 (147)
T ss_pred CEEEEEcCCcCCCCcChhHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCC
Confidence 366666665432 2234457888899999999999998777777777777664
No 315
>PLN03050 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=33.79 E-value=1.3e+02 Score=28.23 Aligned_cols=53 Identities=15% Similarity=0.132 Sum_probs=36.8
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc---hH-HHHHHHHHhhCCee
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA---EM-FICKHLCQDTGGSY 144 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga---e~-~iLk~ia~~TgG~Y 144 (324)
++|+||.|+.. |-||=.-++..|...|++|.++-... +. ....+.++..|+.+
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 57999988664 57788889999999999999987321 22 23334455566654
No 316
>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=33.66 E-value=1.2e+02 Score=28.43 Aligned_cols=43 Identities=21% Similarity=0.330 Sum_probs=35.9
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeE
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYS 145 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~ 145 (324)
.+.+|.++++.+|+.+|++=++.-.......+.+++.||....
T Consensus 205 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~ 247 (282)
T cd01017 205 SPKQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLL 247 (282)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEE
Confidence 4457889999999999998777776677899999999998763
No 317
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=33.53 E-value=1.2e+02 Score=26.57 Aligned_cols=63 Identities=11% Similarity=0.105 Sum_probs=37.5
Q ss_pred HHHHhhhcCCCCcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 55 IKALMGKLGCSGDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 55 ~~~L~~~~~~~G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
.+.+.+...|.|-.----..+-|...|+. . ...++|+|++.++ +.+..+.+.|+.+..|.+|+
T Consensus 44 ~k~~l~ma~P~gvk~~i~sv~~a~~~l~~-~-~~~~~v~il~k~~---------~d~~~l~~~g~~i~~iNvG~ 106 (157)
T PRK11425 44 QQNLMEMVLAEGIAVRFWTLQKVIDNIHR-A-ADRQKILLVCKTP---------ADFLTLVKGGVPVNRINVGN 106 (157)
T ss_pred HHHHHHhhCCCCCeEEEEEHHHHHHHHhc-c-CCCceEEEEECCH---------HHHHHHHHcCCCCCEEEECC
Confidence 34443333455532111234556666766 2 4566799998754 23556677888888899875
No 318
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=33.40 E-value=20 Score=25.66 Aligned_cols=31 Identities=29% Similarity=0.609 Sum_probs=20.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
+..|-.|++-|...+.-...-..||+|+...
T Consensus 4 eiRC~~CnklLa~~g~~~~leIKCpRC~tiN 34 (51)
T PF10122_consen 4 EIRCGHCNKLLAKAGEVIELEIKCPRCKTIN 34 (51)
T ss_pred ceeccchhHHHhhhcCccEEEEECCCCCccc
Confidence 4479999888876432223346799998753
No 319
>PF02540 NAD_synthase: NAD synthase; InterPro: IPR022310 NAD+ synthase (6.3.5.1 from EC) catalyzes the last step in the biosynthesis of nicotinamide adenine dinucleotide and is induced by stress factors such as heat shock and glucose limitation. The three-dimensional structure of NH3-dependent NAD+ synthetase from Bacillus subtilis, in its free form and in complex with ATP shows that the enzyme consists of a tight homodimer with alpha/beta subunit topology []. Catalyzes the synthesis of GMP from XMP. The protein is a homodimer, but in the archaea it is a heterodimer composed of a glutamine amidotransferase subunit (A) and a GMP-binding subunit (B). This entry contains the GMP-binding subunit (B). ; PDB: 2VXO_A 3UOW_B 3N05_A 2DPL_B 3A4I_A 3SEQ_D 3SZG_A 3SYT_A 3SDB_A 3SEZ_C ....
Probab=33.30 E-value=3.4e+02 Score=25.13 Aligned_cols=41 Identities=17% Similarity=0.158 Sum_probs=29.4
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
..+|+.++-.....++.++.++.+.+++.||+..+|-+..-
T Consensus 44 ~~~v~~v~mp~~~~~~~~~~~A~~la~~lgi~~~~i~i~~~ 84 (242)
T PF02540_consen 44 PDNVLAVIMPSGFSSEEDIEDAKELAEKLGIEYIVIDIDPI 84 (242)
T ss_dssp GGEEEEEEEESSTSTHHHHHHHHHHHHHHTSEEEEEESHHH
T ss_pred hccccccccccccCChHHHHHHHHHHHHhCCCeeccchHHH
Confidence 34676665422223566788899999999999999999643
No 320
>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=33.26 E-value=97 Score=29.32 Aligned_cols=42 Identities=17% Similarity=0.203 Sum_probs=35.1
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCee
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 144 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y 144 (324)
.+.+|.++++.+|+.+|++=+.--.....+.+.|++.||..-
T Consensus 213 s~~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v 254 (286)
T cd01019 213 GAKRLAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKV 254 (286)
T ss_pred CHHHHHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceE
Confidence 566888999999999999877666667789999999999643
No 321
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=33.23 E-value=21 Score=23.79 Aligned_cols=28 Identities=21% Similarity=0.388 Sum_probs=15.2
Q ss_pred cccccccccCCCCCCCceeeCCCCCccc
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
|-.|+..+......+...+.|++|+-.+
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 6666655543222222356788887654
No 322
>PHA00616 hypothetical protein
Probab=33.15 E-value=13 Score=25.91 Aligned_cols=15 Identities=20% Similarity=0.479 Sum_probs=11.8
Q ss_pred eeCCCCCcccccccc
Q 020564 283 VACPKCKKHFCLECD 297 (324)
Q Consensus 283 ~~C~~C~~~fC~dCd 297 (324)
|+|+.|+..|..-=+
T Consensus 2 YqC~~CG~~F~~~s~ 16 (44)
T PHA00616 2 YQCLRCGGIFRKKKE 16 (44)
T ss_pred CccchhhHHHhhHHH
Confidence 899999999875433
No 323
>PHA00733 hypothetical protein
Probab=33.13 E-value=34 Score=28.80 Aligned_cols=33 Identities=24% Similarity=0.612 Sum_probs=26.0
Q ss_pred eeEcCCCCcccc------------cCCCCCCCCCceecCchhHHh
Q 020564 203 GYTCPRCKARVC------------ELPTDCRICGLQLVSSPHLAR 235 (324)
Q Consensus 203 Gy~Cp~C~s~~C------------~lP~~C~~C~l~Lvs~~hLar 235 (324)
-|.|++|+..|- +-|-.|+.|+-.+...-+|.+
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 689999986554 235689999999999888865
No 324
>PRK10824 glutaredoxin-4; Provisional
Probab=33.11 E-value=1.5e+02 Score=24.62 Aligned_cols=50 Identities=12% Similarity=0.091 Sum_probs=35.6
Q ss_pred ceEEEEEe-CCCCCCccc--HHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 90 REVLILYS-ALSTCDPGD--IMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 90 reILil~g-S~~t~d~g~--i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
.+|+||+- ++. +|.- -..+.+.|++.+|...+|-+..+..+-+.+-+.||
T Consensus 15 ~~Vvvf~Kg~~~--~p~Cpyc~~ak~lL~~~~i~~~~idi~~d~~~~~~l~~~sg 67 (115)
T PRK10824 15 NPILLYMKGSPK--LPSCGFSAQAVQALSACGERFAYVDILQNPDIRAELPKYAN 67 (115)
T ss_pred CCEEEEECCCCC--CCCCchHHHHHHHHHHcCCCceEEEecCCHHHHHHHHHHhC
Confidence 45777764 332 2332 23678889999999999988777777777888877
No 325
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=33.00 E-value=1.8e+02 Score=30.41 Aligned_cols=88 Identities=15% Similarity=0.063 Sum_probs=59.1
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-H---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-F--------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~--------------- 131 (324)
-+++.++-.|+.+-...| .|+|++|.|...- . ..+ ..+.++.+++++|-+|-+.... .
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 467767777776544443 4679999883321 1 111 4567899999999998886321 1
Q ss_pred ------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+-++|+..|..+....+.+.|++.+.+..
T Consensus 482 ~~~~~~df~~lA~a~G~~~~~v~~~~el~~al~~a~ 517 (578)
T PRK06546 482 TDHPPVDYAAIAAALGIHAVRVEDPKDVRGALREAF 517 (578)
T ss_pred ccCCCCCHHHHHHHCCCeeEEeCCHHHHHHHHHHHH
Confidence 134678888888888888888888887765
No 326
>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=32.99 E-value=39 Score=21.61 Aligned_cols=25 Identities=28% Similarity=0.663 Sum_probs=17.7
Q ss_pred ccccccccccCCCCCCCceeeCCCCCc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKK 290 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~ 290 (324)
.|.+|...+.-+.+. ..++|..|+.
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 599998777655322 3589999974
No 327
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=32.76 E-value=2.6e+02 Score=29.06 Aligned_cols=86 Identities=15% Similarity=0.161 Sum_probs=60.6
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+++.||-.|+.+=-..| .|+||.|.|.. +-.| +.+.++.++|+++-+|-+.... .+
T Consensus 423 gsmG~glpaAiGa~la~p---~r~Vv~i~GDG-----~f~m~~~eL~Ta~r~~lpv~ivV~NN~~y~~i~~~q~~~~~~~ 494 (574)
T PRK06466 423 GTMGFGLPAAMGVKLAFP---DQDVACVTGEG-----SIQMNIQELSTCLQYGLPVKIINLNNGALGMVRQWQDMQYEGR 494 (574)
T ss_pred chhhchHHHHHHHHHhCC---CCeEEEEEcch-----hhhccHHHHHHHHHhCCCeEEEEEeCCccHHHHHHHHHhcCCc
Confidence 477777777776554443 46799998833 2223 5677899999999999886431 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -----------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+.++.+.+.|++.|.+.+
T Consensus 495 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 534 (574)
T PRK06466 495 HSHSYMESLPDFVKLAEAYGHVGIRITDLKDLKPKLEEAF 534 (574)
T ss_pred eeecCCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 34577777888888999999998887665
No 328
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=32.74 E-value=2e+02 Score=30.10 Aligned_cols=86 Identities=12% Similarity=0.081 Sum_probs=60.9
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+++-||-.|+.+--..| .|+|+.|.|.. +-.| ..+.++.+++++|-+|-+.... .+
T Consensus 430 g~mG~glpaaiGaala~p---~~~vv~i~GDG-----~f~m~~~eL~Ta~~~~l~~~~vV~NN~~y~~i~~~q~~~~~~~ 501 (585)
T CHL00099 430 GTMGYGLPAAIGAQIAHP---NELVICISGDA-----SFQMNLQELGTIAQYNLPIKIIIINNKWQGMVRQWQQAFYGER 501 (585)
T ss_pred cchhhhHHHHHHHHHhCC---CCeEEEEEcch-----hhhhhHHHHHHHHHhCCCeEEEEEECCcchHHHHHHHHhcCCC
Confidence 467777777766544443 46788888833 3233 4678889999999888886431 01
Q ss_pred ------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 ------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 ------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++++.-|+.+..+.+.+.|++.|.+..
T Consensus 502 ~~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 542 (585)
T CHL00099 502 YSHSNMEEGAPDFVKLAEAYGIKGLRIKSRKDLKSSLKEAL 542 (585)
T ss_pred cccccCCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 45678888888888999999998888775
No 329
>PRK06163 hypothetical protein; Provisional
Probab=32.62 E-value=3.6e+02 Score=24.30 Aligned_cols=85 Identities=19% Similarity=0.238 Sum_probs=54.3
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHh-cCcEEEEEEccchH--------------H
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKE-SKIRCSVIGLSAEM--------------F 131 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk-~~IrV~vI~Lgae~--------------~ 131 (324)
+++-||..|+.+=-..| .|+|+.|.|.. +-.| ..+.++.+ +++++-+|-+.... -
T Consensus 58 sMG~glpaAiGaalA~p---~r~Vv~i~GDG-----~f~m~~~eL~Ta~~~~~lpi~ivV~NN~~yg~~~~~~~~~~~~~ 129 (202)
T PRK06163 58 SMGLAFPIALGVALAQP---KRRVIALEGDG-----SLLMQLGALGTIAALAPKNLTIIVMDNGVYQITGGQPTLTSQTV 129 (202)
T ss_pred ccccHHHHHHHHHHhCC---CCeEEEEEcch-----HHHHHHHHHHHHHHhcCCCeEEEEEcCCchhhcCCccCCCCCCC
Confidence 45656665555432233 46799999833 3222 34555544 46788888776431 0
Q ss_pred HHHHHHHhhCCe-eEEeCCHHHHHHHHHhcC
Q 020564 132 ICKHLCQDTGGS-YSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 iLk~ia~~TgG~-Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|.. ++.+.+.+.|++.|.+..
T Consensus 130 Df~~lA~a~G~~~~~~v~~~~el~~al~~a~ 160 (202)
T PRK06163 130 DVVAIARGAGLENSHWAADEAHFEALVDQAL 160 (202)
T ss_pred CHHHHHHHCCCceEEEeCCHHHHHHHHHHHH
Confidence 156788888886 567889999998888776
No 330
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=32.57 E-value=1.8e+02 Score=22.29 Aligned_cols=51 Identities=8% Similarity=0.123 Sum_probs=36.2
Q ss_pred ceEEEEEeCCCCCCccc--HHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 90 REVLILYSALSTCDPGD--IMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 90 reILil~gS~~t~d~g~--i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
..|+||.-|..+ .|+- -.++-+.|++.+|....+-+..+..+.+.+.+.||
T Consensus 8 ~~vvvf~k~~~~-~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g 60 (90)
T cd03028 8 NPVVLFMKGTPE-EPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSN 60 (90)
T ss_pred CCEEEEEcCCCC-CCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhC
Confidence 357777533221 2332 23788899999999999999877777788888777
No 331
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pat
Probab=32.42 E-value=1.1e+02 Score=22.51 Aligned_cols=34 Identities=12% Similarity=0.040 Sum_probs=25.8
Q ss_pred EEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 94 ILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 94 il~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
-++|.....+++-..+..+.+.+.+|.++.|+.+
T Consensus 5 ~vvg~~~~~~~~~~~~i~~~L~~~~I~v~~i~~~ 38 (80)
T cd04921 5 NIEGTGMVGVPGIAARIFSALARAGINVILISQA 38 (80)
T ss_pred EEEcCCCCCCccHHHHHHHHHHHCCCcEEEEEec
Confidence 3445555556665668899999999999999875
No 332
>PRK07064 hypothetical protein; Provisional
Probab=32.34 E-value=1.5e+02 Score=30.50 Aligned_cols=86 Identities=12% Similarity=0.118 Sum_probs=59.9
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH-------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------- 132 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------- 132 (324)
+|+.||-.|+.+--..| .|+|+.|.|.. +-.| +.+.++++.+++|-+|-+.... .+
T Consensus 406 ~mG~~lpaAiGa~lA~p---~~~vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~ivV~NN~~yg~~~~~~~~~~~~~~ 477 (544)
T PRK07064 406 GIGQGLAMAIGAALAGP---GRKTVGLVGDG-----GLMLNLGELATAVQENANMVIVLMNDGGYGVIRNIQDAQYGGRR 477 (544)
T ss_pred ccccccchhhhhhhhCc---CCcEEEEEcch-----HhhhhHHHHHHHHHhCCCeEEEEEeCChhHHHHHHHHHhcCCcc
Confidence 56666666665433332 46788888833 2223 5678889999999999885321 11
Q ss_pred ---------HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 133 ---------CKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 133 ---------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
+.++|+.-|+.|..+.+.+.|++.+.+...
T Consensus 478 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~~ 516 (544)
T PRK07064 478 YYVELHTPDFALLAASLGLPHWRVTSADDFEAVLREALA 516 (544)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHHc
Confidence 356888888899999999999999988763
No 333
>PF05596 Taeniidae_ag: Taeniidae antigen; InterPro: IPR008860 This family consists of several antigen proteins from Taenia and Echinococcus (tapeworm) species.
Probab=32.28 E-value=48 Score=24.83 Aligned_cols=27 Identities=33% Similarity=0.476 Sum_probs=20.5
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcCCc
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPLSQ 30 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~sq 30 (324)
+|+...-...--..||+.||+.+|+.|
T Consensus 4 ~~~~~~k~~kK~i~~v~~FF~~DPlGq 30 (64)
T PF05596_consen 4 KPEDDKKSVKKWIEEVRNFFYEDPLGQ 30 (64)
T ss_pred chhhhHHhHHHHHHHHHHHhccCchHH
Confidence 456666555666789999999999875
No 334
>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=32.11 E-value=26 Score=21.00 Aligned_cols=11 Identities=45% Similarity=0.993 Sum_probs=9.3
Q ss_pred eeeCCCCCccc
Q 020564 282 YVACPKCKKHF 292 (324)
Q Consensus 282 ~~~C~~C~~~f 292 (324)
.|.|+.|+..|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 59999998876
No 335
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=31.98 E-value=5.8e+02 Score=26.21 Aligned_cols=71 Identities=8% Similarity=0.049 Sum_probs=47.2
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc----chHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS----AEMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg----ae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
.+++.|+|....--.--+.+.+..+.+.+-+|-+|... +...-|+..++..|=.+.++.+++.+.+.+..+
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~l 315 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYF 315 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHH
Confidence 36788887543211112335555677888888888874 345678888888776677788888888777543
No 336
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=31.96 E-value=1.3e+02 Score=20.30 Aligned_cols=36 Identities=17% Similarity=0.140 Sum_probs=25.3
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 93 LILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
|=++|.....+++-+.+..+.+.+.+|+++.++-+.
T Consensus 3 i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 3 VSVVGAGMRGTPGVAARIFSALAEAGINIIMISQGS 38 (65)
T ss_pred EEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcCC
Confidence 344554444456655578999999999999998743
No 337
>KOG4317 consensus Predicted Zn-finger protein [Function unknown]
Probab=31.71 E-value=22 Score=34.75 Aligned_cols=24 Identities=25% Similarity=0.647 Sum_probs=19.7
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccccc
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 294 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 294 (324)
..|-.|..++. +|.||+|+-.+|-
T Consensus 8 ~~C~ic~vq~~--------~YtCPRCn~~YCs 31 (383)
T KOG4317|consen 8 LACGICGVQKR--------EYTCPRCNLLYCS 31 (383)
T ss_pred eeccccccccc--------cccCCCCCcccee
Confidence 46888887764 5999999999994
No 338
>PRK06276 acetolactate synthase catalytic subunit; Reviewed
Probab=31.66 E-value=2e+02 Score=30.05 Aligned_cols=86 Identities=14% Similarity=0.128 Sum_probs=59.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM--------------- 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~--------------- 130 (324)
-+++-||-.|+.+--..| .++|++|.|.. +-.| +.+.++.+.+++|-+|-+....
T Consensus 419 gsmG~~lpaaiGa~la~p---~~~Vv~i~GDG-----sf~m~~~eL~Ta~~~~lpv~~vV~NN~~~g~~~~~~~~~~~~~ 490 (586)
T PRK06276 419 GTMGFGFPAAIGAKVAKP---DANVIAITGDG-----GFLMNSQELATIAEYDIPVVICIFDNRTLGMVYQWQNLYYGKR 490 (586)
T ss_pred cccccchhHHHhhhhhcC---CCcEEEEEcch-----HhhccHHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHHhCCC
Confidence 366666666655433333 36788888833 2222 5688889999999998886421
Q ss_pred ----H-----HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 ----F-----ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 ----~-----iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
. =+.++|+..|+.+.++.+.+.|++.|.+..
T Consensus 491 ~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 530 (586)
T PRK06276 491 QSEVHLGETPDFVKLAESYGVKADRVEKPDEIKEALKEAI 530 (586)
T ss_pred cccccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 0 145788888999999999999998887765
No 339
>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=31.64 E-value=3.7e+02 Score=23.85 Aligned_cols=96 Identities=11% Similarity=0.170 Sum_probs=53.2
Q ss_pred HHHHHHHHhcCC-cCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhh-----hc--CCCCcchHHHHHHHHHHHhhCCCC
Q 020564 15 VEAFVREFFDQN-PLSQIGLVTVKDGVANCLTDLGGSPESHIKALMG-----KL--GCSGDSSLQNALDLVQGLLSQIPS 86 (324)
Q Consensus 15 l~~Fv~~~f~qN-P~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~-----~~--~~~G~~sL~naL~~A~~~L~~~p~ 86 (324)
+.+.+++...|. |..++=||+.-|+. |.+..++++.+.. +. ...++.....|+..++..
T Consensus 16 l~~~l~sl~~~~y~~~~~eiivVdd~s-------~d~t~~i~~~~~~~~~~~i~~~~~~~~~G~~~a~n~g~~~------ 82 (241)
T cd06427 16 LPQLIASLSALDYPRSKLDVKLLLEED-------DEETIAAARALRLPSIFRVVVVPPSQPRTKPKACNYALAF------ 82 (241)
T ss_pred HHHHHHHHHhCcCCcccEEEEEEECCC-------CchHHHHHHHhccCCCeeEEEecCCCCCchHHHHHHHHHh------
Confidence 344444444443 43456566654542 2333445555431 11 122333455566655543
Q ss_pred CCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEE
Q 020564 87 YGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVI 124 (324)
Q Consensus 87 ~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI 124 (324)
++-++|+++.++...+|+.+.+.+..+.+.+..|-++
T Consensus 83 -a~gd~i~~~DaD~~~~~~~l~~~~~~~~~~~~~v~~~ 119 (241)
T cd06427 83 -ARGEYVVIYDAEDAPDPDQLKKAVAAFARLDDKLACV 119 (241)
T ss_pred -cCCCEEEEEcCCCCCChHHHHHHHHHHHhcCCCEEEE
Confidence 2337999998888888888888888887654444433
No 340
>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=31.63 E-value=2.1e+02 Score=29.61 Aligned_cols=86 Identities=13% Similarity=0.064 Sum_probs=58.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+++.||..|+.+=-..| .|+|+++.|.. +-.| +.+.++.++++++-+|-+.... .
T Consensus 412 g~mG~~l~aaiGa~la~~---~~~vv~~~GDG-----~f~~~~~eL~ta~~~~l~~~~vv~NN~~~~~~~~~q~~~~~~~ 483 (558)
T TIGR00118 412 GTMGFGLPAAIGAKVAKP---ESTVICITGDG-----SFQMNLQELSTAVQYDIPVKILILNNRYLGMVRQWQELFYEER 483 (558)
T ss_pred ccccchhhHHHhhhhhCC---CCcEEEEEcch-----HHhccHHHHHHHHHhCCCeEEEEEeCCchHHHHHHHHHhcCCc
Confidence 456666666665422222 36788888733 2222 4677899999999998886431 1
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|..|..+.+.+.|++.+.+..
T Consensus 484 ~~~~~~~~~~d~~~~a~a~G~~~~~v~~~~~l~~al~~a~ 523 (558)
T TIGR00118 484 YSHTHMGSLPDFVKLAEAYGIKGIRIEKPEELDEKLKEAL 523 (558)
T ss_pred eeeccCCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145677788888989999999998887776
No 341
>cd04936 ACT_AKii-LysC-BS-like_2 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis strain 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive AK isoenzymes. The B. subtilis strain 168 AKII is induced by methionine and repressed and inhibited by lysine. Although C. glutamicum is known to contain a single AK, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is feedback regu
Probab=31.58 E-value=1.2e+02 Score=20.63 Aligned_cols=32 Identities=19% Similarity=0.226 Sum_probs=23.3
Q ss_pred EEeCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 95 LYSALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 95 l~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+.|.....+++-+.+....+.+.+|+|+.|+.
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04936 5 IVGAGMRSHPGVAAKMFEALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 44544444566566888999999999999984
No 342
>PRK07092 benzoylformate decarboxylase; Reviewed
Probab=31.51 E-value=2.6e+02 Score=28.69 Aligned_cols=87 Identities=15% Similarity=0.113 Sum_probs=57.3
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH-HH---------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM-FI--------------- 132 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~-~i--------------- 132 (324)
+++.+|-.|+..-...| .+++++|.|...- . .+ .+.+.++.++++++-+|-+.... .+
T Consensus 408 ~mG~~lp~aiGa~la~p---~~~vv~i~GDG~f-~-~~-~~eL~ta~~~~lp~~~vv~NN~~~~~~~~~~~~~~~~~~~~ 481 (530)
T PRK07092 408 GLGYGLPAAVGVALAQP---GRRVIGLIGDGSA-M-YS-IQALWSAAQLKLPVTFVILNNGRYGALRWFAPVFGVRDVPG 481 (530)
T ss_pred cccchHHHHHHHHHhCC---CCeEEEEEeCchH-h-hh-HHHHHHHHHhCCCcEEEEEeChHHHHHHHHHHhhCCCCCCC
Confidence 56667766666543333 4679999883321 0 01 15677888889998888776432 11
Q ss_pred -------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++++.-|..+....+.+.|++.+.+..
T Consensus 482 ~~~~~~d~~~~a~~~G~~~~~v~~~~~l~~al~~a~ 517 (530)
T PRK07092 482 LDLPGLDFVALARGYGCEAVRVSDAAELADALARAL 517 (530)
T ss_pred CCCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 35677777778888888888888776655
No 343
>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=31.48 E-value=2.5e+02 Score=24.84 Aligned_cols=68 Identities=9% Similarity=-0.008 Sum_probs=45.6
Q ss_pred CceEEEEEeCCCCCCcccHH--HHHHHHHhcCc-EEEEEEccchH-------------HHHHHHHHhhCCee-EEeCCHH
Q 020564 89 HREVLILYSALSTCDPGDIM--ETIQKCKESKI-RCSVIGLSAEM-------------FICKHLCQDTGGSY-SVALDES 151 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~--~ti~~akk~~I-rV~vI~Lgae~-------------~iLk~ia~~TgG~Y-~va~d~~ 151 (324)
.++|++|.|... -.| +.+.++.+.++ .|-+|-+..+. .=+.++|+..|..| ..+.+.+
T Consensus 66 ~~~Vv~i~GDG~-----f~m~~~eL~ta~~~~l~~i~ivV~NN~~yg~~~~~~~~~~~~d~~~~A~a~G~~~~~~v~~~~ 140 (188)
T cd03371 66 DRKVVCIDGDGA-----ALMHMGGLATIGGLAPANLIHIVLNNGAHDSVGGQPTVSFDVSLPAIAKACGYRAVYEVPSLE 140 (188)
T ss_pred CCcEEEEeCCcH-----HHhhccHHHHHHHcCCCCcEEEEEeCchhhccCCcCCCCCCCCHHHHHHHcCCceEEecCCHH
Confidence 467999988332 112 34566666765 46666665332 12577889999887 4677899
Q ss_pred HHHHHHHhcC
Q 020564 152 HFKELIMEHA 161 (324)
Q Consensus 152 hl~~lL~~~~ 161 (324)
.|++.+.+..
T Consensus 141 el~~al~~a~ 150 (188)
T cd03371 141 ELVAALAKAL 150 (188)
T ss_pred HHHHHHHHHH
Confidence 9999888775
No 344
>PLN02918 pyridoxine (pyridoxamine) 5'-phosphate oxidase
Probab=31.25 E-value=1.1e+02 Score=32.17 Aligned_cols=53 Identities=11% Similarity=0.026 Sum_probs=37.2
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
|+++|....+..+....++|+|+.|..+ |.||=.-++..|+..|.+|.|+-..
T Consensus 119 G~avA~~I~~~~~~~~~~~VlVlcGpGN--NGGDGLVaAR~L~~~G~~V~V~~~~ 171 (544)
T PLN02918 119 GLSVAASIAEVYKPGEYSRVLAICGPGN--NGGDGLVAARHLHHFGYKPFVCYPK 171 (544)
T ss_pred HHHHHHHHHHhcccccCCEEEEEECCCc--CHHHHHHHHHHHHHCCCceEEEEcC
Confidence 4455544445444322357999988664 5778888999999999999998754
No 345
>KOG2858 consensus Uncharacterized conserved protein [General function prediction only]
Probab=31.21 E-value=17 Score=36.06 Aligned_cols=14 Identities=64% Similarity=1.493 Sum_probs=0.0
Q ss_pred eeEcCCCCcccccC
Q 020564 203 GYTCPRCKARVCEL 216 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l 216 (324)
+|-||||++..|+|
T Consensus 29 KYkCPRCl~rtCsL 42 (390)
T KOG2858|consen 29 KYKCPRCLARTCSL 42 (390)
T ss_pred cccCcchhhhheec
No 346
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=31.03 E-value=1.4e+02 Score=27.27 Aligned_cols=52 Identities=10% Similarity=0.234 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS 127 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg 127 (324)
+..+.++.+..+++.. ++||++-.... .-..+.+.++.+.+.||+|.++..+
T Consensus 7 g~~~I~~~i~elI~~A----e~eI~is~~~~---~l~~l~~~L~~a~~rGV~V~li~~~ 58 (233)
T PF11495_consen 7 GRETILERIRELIENA----ESEIYISIPPE---FLEELRDELEEAVDRGVKVKLIVFG 58 (233)
T ss_dssp SHHHHHHHHHHHHHC-----SSEEEEEE-GG---GHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred CHHHHHHHHHHHHHHh----heEEEEEcCHH---HHHHHHHHHHHHHHCCCEEEEEEeC
Confidence 3567788888888875 67887765422 2235557899999999999999997
No 347
>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=30.77 E-value=36 Score=35.22 Aligned_cols=41 Identities=32% Similarity=0.777 Sum_probs=28.0
Q ss_pred CCCccccccccccCCCCCCCceeeCCCCC----------cccccccchhhhhcCCCCCCCCCC
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYVACPKCK----------KHFCLECDIYIHESLHNCPGCESL 313 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~~C~~C~----------~~fC~dCd~fihe~lh~CpgC~~~ 313 (324)
....|..|.. ..+||.|. ...|..|. |-...-..||.|.+.
T Consensus 212 ~~~~C~~Cg~-----------~~~C~~C~~~l~~h~~~~~l~Ch~Cg-~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 212 KNLLCRSCGY-----------ILCCPNCDVSLTYHKKEGKLRCHYCG-YQEPIPKTCPQCGSE 262 (505)
T ss_pred CeeEhhhCcC-----------ccCCCCCCCceEEecCCCeEEcCCCc-CcCCCCCCCCCCCCC
Confidence 3457888862 24688887 34588887 445557799999863
No 348
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=30.41 E-value=17 Score=37.09 Aligned_cols=25 Identities=24% Similarity=0.432 Sum_probs=15.8
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccccc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 294 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 294 (324)
+..|..|...+ ..|.|=.|+++-|.
T Consensus 228 ~~~c~~c~~~~--------~LwicliCg~vgcg 252 (493)
T KOG0804|consen 228 SSLCLACGCTE--------DLWICLICGNVGCG 252 (493)
T ss_pred hhhhhhhcccc--------cEEEEEEccceecc
Confidence 34566665333 25888888887664
No 349
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=30.30 E-value=50 Score=21.12 Aligned_cols=15 Identities=33% Similarity=0.851 Sum_probs=12.3
Q ss_pred ceeeCCCCCcccccc
Q 020564 281 LYVACPKCKKHFCLE 295 (324)
Q Consensus 281 ~~~~C~~C~~~fC~d 295 (324)
.+|.|..|+...|.+
T Consensus 15 T~~~C~~C~v~lC~~ 29 (32)
T PF13842_consen 15 TRYMCSKCDVPLCVE 29 (32)
T ss_pred eEEEccCCCCcccCC
Confidence 479999998888765
No 350
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=30.11 E-value=2.1e+02 Score=20.46 Aligned_cols=38 Identities=8% Similarity=0.158 Sum_probs=29.7
Q ss_pred cHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCe
Q 020564 106 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGS 143 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~ 143 (324)
.-.++...|++.+|....+-+..+....+++-+.+|+.
T Consensus 12 ~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~ 49 (75)
T cd03418 12 YCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGR 49 (75)
T ss_pred HHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCC
Confidence 34578888999999999999977666777777777753
No 351
>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=30.07 E-value=2.3e+02 Score=29.21 Aligned_cols=86 Identities=17% Similarity=0.206 Sum_probs=61.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM--------------- 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~--------------- 130 (324)
-+++.||-.|+.+--..| .|+|+.|.| |-+-.| ..+.++.+.+++|-+|-+....
T Consensus 404 g~mG~glpaaiGa~la~p---~~~vv~i~G-----DG~f~m~~~EL~Ta~~~~lpi~~vV~NN~~y~~i~~~~~~~~~~~ 475 (539)
T TIGR03393 404 GSIGYTLPAAFGAQTACP---NRRVILLIG-----DGSAQLTIQELGSMLRDKQHPIILVLNNEGYTVERAIHGAEQRYN 475 (539)
T ss_pred hhhhhHHHHHHHHHhcCC---CCCeEEEEc-----CcHHHhHHHHHHHHHHcCCCCEEEEEeCCceEEEEeecCCCCCcC
Confidence 467777777776544443 567999988 333333 5688999999999999886431
Q ss_pred ----HHHHHHHHhhCCe----eEEeCCHHHHHHHHHhcC
Q 020564 131 ----FICKHLCQDTGGS----YSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 ----~iLk~ia~~TgG~----Y~va~d~~hl~~lL~~~~ 161 (324)
.=+.++|+..|.. +.++.+.+.|++.|.+..
T Consensus 476 ~~~~~df~~la~a~G~~~~~~~~~v~~~~el~~al~~a~ 514 (539)
T TIGR03393 476 DIALWNWTHLPQALSLDPQSECWRVSEAEQLADVLEKVA 514 (539)
T ss_pred cCCCCCHHHHHHHcCCCCccceEEeccHHHHHHHHHHHh
Confidence 0145678888764 788889999999988776
No 352
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=29.98 E-value=74 Score=34.67 Aligned_cols=133 Identities=14% Similarity=0.226 Sum_probs=0.0
Q ss_pred HHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCccchhhhhhceeeec--CCCCC---
Q 020564 110 TIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPPAIAEFAIANLIKMG--FPQRA--- 184 (324)
Q Consensus 110 ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~Li~mG--fP~~~--- 184 (324)
++..+++.+++| .||+...-|+.....-.|.|... .|.+=.. ...+|...-..++.....-| |+...
T Consensus 341 A~~Ra~~~~~pv---vLgSATPSLES~~~~~~g~y~~~----~L~~R~~-~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~ 412 (730)
T COG1198 341 AVLRAKKENAPV---VLGSATPSLESYANAESGKYKLL----RLTNRAG-RARLPRVEIIDMRKEPLETGRSLSPALLEA 412 (730)
T ss_pred HHHHHHHhCCCE---EEecCCCCHHHHHhhhcCceEEE----Ecccccc-ccCCCcceEEeccccccccCccCCHHHHHH
Q ss_pred -----CCCCccceeecCCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCC
Q 020564 185 -----GEGSISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRN 259 (324)
Q Consensus 185 -----~~~~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~ 259 (324)
..+-+++=|=.++.=.. --.|..|+.+ .+||-|...| -.-..
T Consensus 413 i~~~l~~geQ~llflnRRGys~-~l~C~~Cg~v-----~~Cp~Cd~~l---------------------------t~H~~ 459 (730)
T COG1198 413 IRKTLERGEQVLLFLNRRGYAP-LLLCRDCGYI-----AECPNCDSPL---------------------------TLHKA 459 (730)
T ss_pred HHHHHhcCCeEEEEEccCCccc-eeecccCCCc-----ccCCCCCcce---------------------------EEecC
Q ss_pred CCCCccccccccccCCCCCCCceeeCCCCCc
Q 020564 260 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKK 290 (324)
Q Consensus 260 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~ 290 (324)
...-.|--|..+-+.+ ..||+|++
T Consensus 460 ~~~L~CH~Cg~~~~~p-------~~Cp~Cgs 483 (730)
T COG1198 460 TGQLRCHYCGYQEPIP-------QSCPECGS 483 (730)
T ss_pred CCeeEeCCCCCCCCCC-------CCCCCCCC
No 353
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=29.86 E-value=1.2e+02 Score=24.14 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=32.0
Q ss_pred HHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHH
Q 020564 109 ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES 151 (324)
Q Consensus 109 ~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~ 151 (324)
+-...+++.||++-+|+.+.... .++.++.|+=.|-+-.|++
T Consensus 4 ~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~ly~D~~ 45 (115)
T PF13911_consen 4 RRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFPLYVDPE 45 (115)
T ss_pred HhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCcEEEeCc
Confidence 44677889999999999988866 8888888885554444543
No 354
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=29.71 E-value=19 Score=34.37 Aligned_cols=28 Identities=32% Similarity=0.823 Sum_probs=23.6
Q ss_pred eCCCCC----cccccccchhhhhcCCCCCCCCC
Q 020564 284 ACPKCK----KHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 284 ~C~~C~----~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
.|..|+ .+||.-||-|+||- -.||.|.+
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 566665 47999999999999 88999975
No 355
>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=29.66 E-value=25 Score=34.26 Aligned_cols=26 Identities=23% Similarity=0.764 Sum_probs=15.4
Q ss_pred CCCcccccccchhhh-hcCCCCCCCCC
Q 020564 287 KCKKHFCLECDIYIH-ESLHNCPGCES 312 (324)
Q Consensus 287 ~C~~~fC~dCd~fih-e~lh~CpgC~~ 312 (324)
.|++.||..|=.-+- ..-..||.|..
T Consensus 25 ~CGH~~C~sCv~~l~~~~~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRGSGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCCCCCCCCCCC
Confidence 577777777744332 22236777764
No 356
>cd06844 STAS Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain is found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors, like anti-anti-sigma factors and "stressosome" components. The sigma factor regulators are involved in protein-protein interaction which is regulated by phosphorylation.
Probab=29.65 E-value=1.7e+02 Score=22.70 Aligned_cols=41 Identities=20% Similarity=0.255 Sum_probs=28.7
Q ss_pred ceEEEEEeCCCCCCcc---cHHHHHHHHHhcCcEEEEEEccchH
Q 020564 90 REVLILYSALSTCDPG---DIMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 90 reILil~gS~~t~d~g---~i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+.|++=++.....|.. -+...++.+++.|+++.++++..++
T Consensus 40 ~~vilDls~v~~iDssgl~~L~~l~~~~~~~g~~l~l~~~~~~v 83 (100)
T cd06844 40 KTIVIDISALEFMDSSGTGVLLERSRLAEAVGGQFVLTGISPAV 83 (100)
T ss_pred CEEEEECCCCcEEcHHHHHHHHHHHHHHHHcCCEEEEECCCHHH
Confidence 4444445545445655 3447899999999999999997664
No 357
>COG0035 Upp Uracil phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=29.62 E-value=1.7e+02 Score=26.98 Aligned_cols=102 Identities=12% Similarity=0.065 Sum_probs=57.6
Q ss_pred HHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhh-hcC-----CCCcchHHHHHHHHHHHhhCCCC
Q 020564 13 KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMG-KLG-----CSGDSSLQNALDLVQGLLSQIPS 86 (324)
Q Consensus 13 ~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~-~~~-----~~G~~sL~naL~~A~~~L~~~p~ 86 (324)
++..-|++..+..=|..++|.|.+. ..-+ |..+.....+|-+ +.+ .+.--+=++++-+|+..|+..-
T Consensus 79 RAGl~m~~gl~~~~P~a~vG~ig~~-Rdee-----t~~p~~yy~KLP~~~~~~~viv~DPMLATG~s~i~ai~~L~~~G- 151 (210)
T COG0035 79 RAGLGMVEGLLKLIPSARVGHIGIY-RDEE-----TLEPVLYYEKLPEDIDERTVIVLDPMLATGGSAIAAIDLLKKRG- 151 (210)
T ss_pred eccccHHHHHHHhCCcceEEEEEEE-ecCc-----cCceehhHHhCCCcccCCeEEEECchhhccHhHHHHHHHHHHhC-
Confidence 4445566777777899999999874 1112 4445556666643 110 1222344567778888888762
Q ss_pred CCCc--eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 87 YGHR--EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 87 ~~~r--eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
+.+ .++.+++++ ..|.+..+ +--+|+|++-++..+
T Consensus 152 -~~~~I~~v~~vAap-----eGi~~v~~--~~p~v~I~ta~iD~~ 188 (210)
T COG0035 152 -GPKNIKVVSLVAAP-----EGIKAVEK--AHPDVEIYTAAIDEG 188 (210)
T ss_pred -CCceEEEEEEEecH-----HHHHHHHH--hCCCCeEEEEEeccc
Confidence 222 344455544 22222222 337888888888643
No 358
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=29.51 E-value=1.2e+02 Score=22.08 Aligned_cols=36 Identities=14% Similarity=0.125 Sum_probs=28.0
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
+|-++|..-. +++-..+.+..|.+.+|+|..|+-++
T Consensus 4 ~VsvVG~gm~-~~gv~~ki~~~L~~~~I~v~~i~~~~ 39 (66)
T cd04915 4 IVSVIGRDLS-TPGVLARGLAALAEAGIEPIAAHQSM 39 (66)
T ss_pred EEEEECCCCC-cchHHHHHHHHHHHCCCCEEEEEecC
Confidence 5667786654 77745588999999999998888865
No 359
>cd01826 acyloxyacyl_hydrolase_like Acyloxyacyl-hydrolase like subfamily of the SGNH-hydrolase family. Acyloxyacyl-hydrolase is a leukocyte-secreted enzyme that deacetylates bacterial lipopolysaccharides.
Probab=29.41 E-value=2.4e+02 Score=27.57 Aligned_cols=71 Identities=13% Similarity=0.220 Sum_probs=40.0
Q ss_pred HHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCc--------------ccHHHHHHHHHhc---CcEEEEEEccchHHHH
Q 020564 71 QNALDLVQGLLSQIPSYGHREVLILYSALSTCDP--------------GDIMETIQKCKES---KIRCSVIGLSAEMFIC 133 (324)
Q Consensus 71 ~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~--------------g~i~~ti~~akk~---~IrV~vI~Lgae~~iL 133 (324)
++++..+...+.....+...=|+|++|+++.|.. .++.++++.+++. +.+|.++++-.--.+.
T Consensus 105 rdl~~~l~~Ll~n~~~~~P~lVtI~lGgND~C~g~~d~~~~tp~eefr~NL~~~L~~Lr~~lP~~s~ViLvgmpd~~~L~ 184 (305)
T cd01826 105 RNLLSIIKSIARNRTTDKPALVIYSMIGNDVCNGPNDTINHTTPEEFYENVMEALKYLDTKLPNGSHVILVGLVDGRILY 184 (305)
T ss_pred HHHHHHHHHhccccccCCCeEEEEEeccchhhcCCCccccCcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEeccchhhhh
Confidence 5555554443422211211224444677776532 1466788999998 5899999995443444
Q ss_pred HHHHHhhC
Q 020564 134 KHLCQDTG 141 (324)
Q Consensus 134 k~ia~~Tg 141 (324)
..++.+|.
T Consensus 185 ~~~~~r~h 192 (305)
T cd01826 185 DTLHNRLH 192 (305)
T ss_pred hhhccccc
Confidence 55555554
No 360
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. 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=29.29 E-value=1e+02 Score=29.15 Aligned_cols=42 Identities=17% Similarity=0.347 Sum_probs=34.3
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCee
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 144 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y 144 (324)
.+.+|.++++.+|+.+|++=+.-=.......+.+++.||..-
T Consensus 211 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~ia~~~gv~v 252 (287)
T cd01137 211 TPKQVATLIEQVKKEKVPAVFVESTVNDRLMKQVAKETGAKI 252 (287)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHhCCcc
Confidence 455888999999999999777655556788999999999753
No 361
>PRK09628 oorB 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed
Probab=29.28 E-value=2.9e+02 Score=26.34 Aligned_cols=55 Identities=13% Similarity=0.084 Sum_probs=32.7
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccch
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae 129 (324)
+++.||-.|+.+=...| .|+||++.|..+- ..+. .-...+.+.|+.|-+|-+...
T Consensus 69 ~~G~alPaAiGaklA~P---dr~VV~i~GDG~f---~~~g~~el~ta~r~nlpi~iIV~NN~ 124 (277)
T PRK09628 69 THGRAVAYATGIKLANP---DKHVIVVSGDGDG---LAIGGNHTIHGCRRNIDLNFILINNF 124 (277)
T ss_pred ccccHHHHHHHHHHHCC---CCeEEEEECchHH---HHhhHHHHHHHHHhCcCeEEEEEECh
Confidence 44555555555444344 4679888883311 0111 234458899999999988654
No 362
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=29.15 E-value=30 Score=33.06 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=21.7
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~ 226 (324)
.|+|+.|+.+.=+.-..||.||..
T Consensus 354 ~~~c~~cg~~~~~~~~~c~~c~~~ 377 (389)
T PRK11788 354 RYRCRNCGFTARTLYWHCPSCKAW 377 (389)
T ss_pred CEECCCCCCCCccceeECcCCCCc
Confidence 899999999999999999999864
No 363
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=29.14 E-value=23 Score=29.49 Aligned_cols=22 Identities=27% Similarity=0.839 Sum_probs=9.4
Q ss_pred cCCCCcccccCCCCCCCCCcee
Q 020564 206 CPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 206 Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
||+|+...=----.|+.|++++
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 4444443322223455555543
No 364
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=29.14 E-value=60 Score=24.47 Aligned_cols=42 Identities=26% Similarity=0.601 Sum_probs=17.4
Q ss_pred ccccccccccCCCCCCCceeeC-CCCCcccccccchhhhhcCCCCCCCCCCCC
Q 020564 264 TCFGCQQSLLSSGNKPGLYVAC-PKCKKHFCLECDIYIHESLHNCPGCESLRH 315 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C-~~C~~~fC~dCd~fihe~lh~CpgC~~~~~ 315 (324)
.|.-|..-+..+ .| ..|.+.||..|--=--. -.||-|.....
T Consensus 9 rCs~C~~~l~~p--------v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw 51 (65)
T PF14835_consen 9 RCSICFDILKEP--------VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAW 51 (65)
T ss_dssp S-SSS-S--SS---------B---SSS--B-TTTGGGGTT--TB-SSS--B-S
T ss_pred CCcHHHHHhcCC--------ceeccCccHHHHHHhHHhcC--CCCCCcCChHH
Confidence 588887666543 23 57999999999532111 24999976443
No 365
>cd06913 beta3GnTL1_like Beta 1, 3-N-acetylglucosaminyltransferase is essential for the formation of poly-N-acetyllactosamine . This family includes human Beta3GnTL1 and related eukaryotic proteins. Human Beta3GnTL1 is a putative beta-1,3-N-acetylglucosaminyltransferase. Beta3GnTL1 is expressed at various levels in most of tissues examined. Beta 1, 3-N-acetylglucosaminyltransferase has been found to be essential for the formation of poly-N-acetyllactosamine. Poly-N-acetyllactosamine is a unique carbohydrate composed of N-acetyllactosamine repeats. It is often an important part of cell-type-specific oligosaccharide structures and some functional oligosaccharides. It has been shown that the structure and biosynthesis of poly-N-acetyllactosamine display a dramatic change during development and oncogenesis. Several members of beta-1, 3-N-acetylglucosaminyltransferase have been identified.
Probab=29.12 E-value=3.8e+02 Score=23.21 Aligned_cols=92 Identities=11% Similarity=0.091 Sum_probs=52.5
Q ss_pred HHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhhc----------C--CCCcchHHHHHHHHHHH
Q 020564 13 KQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGKL----------G--CSGDSSLQNALDLVQGL 80 (324)
Q Consensus 13 ~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~~----------~--~~G~~sL~naL~~A~~~ 80 (324)
+.+.+.+++.+.|+....+-||+..||. +.+..++++.+.... . ...+..++.|+..++..
T Consensus 10 ~~l~~~l~sl~~q~~~~~~eiiVvDd~S-------~d~t~~i~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~a~N~g~~~ 82 (219)
T cd06913 10 QWLDECLESVLQQDFEGTLELSVFNDAS-------TDKSAEIIEKWRKKLEDSGVIVLVGSHNSPSPKGVGYAKNQAIAQ 82 (219)
T ss_pred HHHHHHHHHHHhCCCCCCEEEEEEeCCC-------CccHHHHHHHHHHhCcccCeEEEEecccCCCCccHHHHHHHHHHh
Confidence 3456666666677755557888886663 222334445442210 0 11112344444443321
Q ss_pred hhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcC
Q 020564 81 LSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESK 118 (324)
Q Consensus 81 L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~ 118 (324)
++.++|+++.+++..+|+.+.+.+..+.+..
T Consensus 83 -------a~gd~i~~lD~D~~~~~~~l~~~~~~~~~~~ 113 (219)
T cd06913 83 -------SSGRYLCFLDSDDVMMPQRIRLQYEAALQHP 113 (219)
T ss_pred -------cCCCEEEEECCCccCChhHHHHHHHHHHhCC
Confidence 2458999999888888888887777776654
No 366
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=28.95 E-value=1.2e+02 Score=22.20 Aligned_cols=35 Identities=9% Similarity=0.117 Sum_probs=29.2
Q ss_pred HHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 107 IMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 107 i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
-.++-..+++.||....+-+..+....+++.+.||
T Consensus 12 C~~a~~~L~~~~i~~~~~di~~~~~~~~~~~~~~g 46 (79)
T TIGR02181 12 CTRAKALLSSKGVTFTEIRVDGDPALRDEMMQRSG 46 (79)
T ss_pred HHHHHHHHHHcCCCcEEEEecCCHHHHHHHHHHhC
Confidence 44677888999999999999887778888888876
No 367
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=28.80 E-value=23 Score=25.19 Aligned_cols=30 Identities=33% Similarity=0.678 Sum_probs=19.5
Q ss_pred CCccccccccccCCC----CCCCceeeCCCCCcc
Q 020564 262 RSTCFGCQQSLLSSG----NKPGLYVACPKCKKH 291 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~----~~~~~~~~C~~C~~~ 291 (324)
...|.||...++... ........||.|+.+
T Consensus 22 ~~~C~gC~~~l~~~~~~~i~~~~~i~~Cp~CgRi 55 (56)
T PF02591_consen 22 GGTCSGCHMELPPQELNEIRKGDEIVFCPNCGRI 55 (56)
T ss_pred CCccCCCCEEcCHHHHHHHHcCCCeEECcCCCcc
Confidence 458999998887532 111234679988764
No 368
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=28.74 E-value=2.7e+02 Score=26.37 Aligned_cols=67 Identities=15% Similarity=0.139 Sum_probs=48.4
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc--------------chHHHHHHHHHhhCCee-EEeCCHHHHHH
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS--------------AEMFICKHLCQDTGGSY-SVALDESHFKE 155 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg--------------ae~~iLk~ia~~TgG~Y-~va~d~~hl~~ 155 (324)
+.++|.|.-.-.|...+.++++.+|+.++++-..+.- .....|+++++.+|=.+ .-+.|+.+++.
T Consensus 27 ~~~~iaGPCsie~~~~~~~~A~~lk~~g~~~~r~~~~kpRTs~~s~~G~g~~gl~~l~~~~~~~Gl~~~te~~d~~~~~~ 106 (266)
T PRK13398 27 EKIIIAGPCAVESEEQMVKVAEKLKELGVHMLRGGAFKPRTSPYSFQGLGEEGLKILKEVGDKYNLPVVTEVMDTRDVEE 106 (266)
T ss_pred CEEEEEeCCcCCCHHHHHHHHHHHHHcCCCEEEEeeecCCCCCCccCCcHHHHHHHHHHHHHHcCCCEEEeeCChhhHHH
Confidence 5677766333346777889999999999986666621 12478999999999666 67778877776
Q ss_pred HH
Q 020564 156 LI 157 (324)
Q Consensus 156 lL 157 (324)
+.
T Consensus 107 l~ 108 (266)
T PRK13398 107 VA 108 (266)
T ss_pred HH
Confidence 64
No 369
>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=28.71 E-value=39 Score=34.94 Aligned_cols=49 Identities=24% Similarity=0.586 Sum_probs=32.7
Q ss_pred eEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccccccccCCCCCCCcee
Q 020564 204 YTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGCQQSLLSSGNKPGLYV 283 (324)
Q Consensus 204 y~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~~~ 283 (324)
..|..|+.. ..|+-|+..|+ ||.- ...-.|.-|....+- .+
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 78999998874 3411 023469999755432 35
Q ss_pred eCCCCCcc
Q 020564 284 ACPKCKKH 291 (324)
Q Consensus 284 ~C~~C~~~ 291 (324)
+||.|++.
T Consensus 255 ~Cp~C~s~ 262 (505)
T TIGR00595 255 TCPQCGSE 262 (505)
T ss_pred CCCCCCCC
Confidence 79999874
No 370
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=28.67 E-value=1.5e+02 Score=25.87 Aligned_cols=55 Identities=11% Similarity=0.257 Sum_probs=0.0
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-------------------hHHHHH
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-------------------EMFICK 134 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-------------------e~~iLk 134 (324)
++-|...|+. ....++|++|+.++ +.+..+.+.|+.+.-|.+|+ |...|+
T Consensus 66 v~~a~~~l~~--~~~~~~vlvl~~~~---------~da~~l~~~g~~i~~iNiG~m~~~~g~~~i~~~v~l~~ed~~~l~ 134 (158)
T PRK09756 66 IEKTINVIGK--AAPHQKIFLICRTP---------QTVRKLVEGGIDLKDVNVGNMHFSEGKKQISSKVYVDDQDLADLR 134 (158)
T ss_pred HHHHHHHHHh--ccCCceEEEEECCH---------HHHHHHHHcCCCCCEEEECCCcCCCCCEEEecceeeCHHHHHHHH
Q ss_pred HHHHh
Q 020564 135 HLCQD 139 (324)
Q Consensus 135 ~ia~~ 139 (324)
++.+.
T Consensus 135 ~l~~~ 139 (158)
T PRK09756 135 FIKQR 139 (158)
T ss_pred HHHHc
No 371
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=28.65 E-value=27 Score=22.78 Aligned_cols=28 Identities=21% Similarity=0.419 Sum_probs=14.2
Q ss_pred ccccccccccC--CCCCCCceeeCCCCCcc
Q 020564 264 TCFGCQQSLLS--SGNKPGLYVACPKCKKH 291 (324)
Q Consensus 264 ~C~~C~~~~~~--~~~~~~~~~~C~~C~~~ 291 (324)
+|..|..++.. +.+.+-.|+.|+.|+.+
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 57778655432 12234468999999865
No 372
>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=28.41 E-value=3e+02 Score=24.01 Aligned_cols=73 Identities=19% Similarity=0.102 Sum_probs=44.4
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch--HH-HHHHHHHhhC-C--ee-EEeCCHHHHHHHHHhcCCC
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE--MF-ICKHLCQDTG-G--SY-SVALDESHFKELIMEHAPP 163 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae--~~-iLk~ia~~Tg-G--~Y-~va~d~~hl~~lL~~~~~p 163 (324)
+|.|++||.+ |-.-..++.+.|++.||..++=-.++. .. +++-+.+... | .| -++--+.||--.+..+++-
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 6889998764 443344789999999999987666654 23 3333333322 3 44 5666788999999888866
Q ss_pred Cc
Q 020564 164 PP 165 (324)
Q Consensus 164 p~ 165 (324)
|.
T Consensus 80 PV 81 (150)
T PF00731_consen 80 PV 81 (150)
T ss_dssp -E
T ss_pred CE
Confidence 54
No 373
>TIGR00243 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase. 1-deoxy-D-xylulose 5-phosphate is converted to 2-C-methyl-D-erythritol 4-phosphate in the presence of NADPH. It is involved in the synthesis of isopentenyl diphosphate (IPP), a basic building block in isoprenoid, thiamin, and pyridoxal biosynthesis.
Probab=28.39 E-value=2.9e+02 Score=27.97 Aligned_cols=58 Identities=10% Similarity=0.234 Sum_probs=39.8
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHhc--CcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 020564 93 LILYSALSTCDPGDIM-ETIQKCKES--KIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKE 155 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~-~ti~~akk~--~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~ 155 (324)
|+|+||. |+|- +|++.+++. +.+|..++.+.....|.+.+++-+=.|-+..|+....+
T Consensus 4 i~IlGsT-----GSIG~qtL~Vi~~~~~~f~v~~Laa~~n~~~L~~q~~~f~p~~v~i~d~~~~~~ 64 (389)
T TIGR00243 4 IVILGST-----GSIGKSTLDVVRHNPDHFQVVALSAGKNVALMVEQILEFRPKFVAIDDEASLKD 64 (389)
T ss_pred EEEEecC-----hHHHHHHHHHHHhCccccEEEEEEcCCCHHHHHHHHHHcCCCEEEEcCHHHHHH
Confidence 4555654 4565 567666654 45555555556688999999999999988888765444
No 374
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=28.35 E-value=49 Score=30.56 Aligned_cols=40 Identities=25% Similarity=0.646 Sum_probs=26.7
Q ss_pred eeeCCCCCcccccccchhhhhcCCCCCCCCCCCCCCCcccCC
Q 020564 282 YVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVANE 323 (324)
Q Consensus 282 ~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~~~~~~~~~ 323 (324)
.++|.+|+..+-. +.++.+.+..||.|....+++++.-+|
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 3567777766543 344555567799998888877765544
No 375
>PF14353 CpXC: CpXC protein
Probab=28.29 E-value=38 Score=28.07 Aligned_cols=15 Identities=40% Similarity=0.921 Sum_probs=11.1
Q ss_pred eeeCCCCCccccccc
Q 020564 282 YVACPKCKKHFCLEC 296 (324)
Q Consensus 282 ~~~C~~C~~~fC~dC 296 (324)
.|.||.|+..|=++=
T Consensus 38 ~~~CP~Cg~~~~~~~ 52 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEY 52 (128)
T ss_pred EEECCCCCCceecCC
Confidence 589999998774443
No 376
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.22 E-value=22 Score=34.36 Aligned_cols=50 Identities=26% Similarity=0.512 Sum_probs=40.2
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCCCCCCCCCccc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCESLRHSNPIVA 321 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~~~~~~~~~~ 321 (324)
.|+-|.+.|-.+.. .+|+++||--|-+-=+..---|+-|..+++++.-+|
T Consensus 243 ~c~icr~~f~~pVv--------t~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~a 292 (313)
T KOG1813|consen 243 KCFICRKYFYRPVV--------TKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVA 292 (313)
T ss_pred cccccccccccchh--------hcCCceeehhhhccccccCCcceecccccccccchH
Confidence 59999999876542 389999999999887777788999998887765544
No 377
>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=28.16 E-value=32 Score=32.90 Aligned_cols=36 Identities=28% Similarity=0.614 Sum_probs=26.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 311 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~ 311 (324)
..||-..+.+. ..|.|+.|..+||...+. ..||.|.
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 47998876664 359999999999987642 1288884
No 378
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=28.13 E-value=6.2e+02 Score=25.36 Aligned_cols=72 Identities=13% Similarity=0.094 Sum_probs=46.3
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHH----hcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCK----ESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~ak----k~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
...|++++|...+--..-+-+.+..++ +.+-+|-+|.... ...-|+..+++.|=-+.+..+.+.+.+.+...
T Consensus 173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~ 252 (388)
T PRK12723 173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS 252 (388)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence 346888888553311112223333333 3467888888863 35569999999988888888888888776554
No 379
>TIGR02803 ExbD_1 TonB system transport protein ExbD, group 1. Members of this family are Gram-negative bacterial inner membrane proteins, generally designated ExbD, related to the TolR family modeled by TIGRFAMs TIGR02801. Members always are encoded next to a protein designated ExbB (TIGR02797), related to the TolQ family modeled by TIGRFAMs TIGR02796. ExbD and ExbB together form a proton channel through which they can harness the proton-motive force to energize TonB, which in turn energizes TonB-dependent receptors in the outer membrane. TonB-dependent receptors with known specificity tend to import siderophores or vitamin B12. A TonB system and Tol-Pal system often will co-exist in a single bacterial genome.
Probab=28.05 E-value=2e+02 Score=23.42 Aligned_cols=33 Identities=21% Similarity=0.463 Sum_probs=25.0
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHhcCc-EEEEEEc
Q 020564 93 LILYSALSTCDPGDIMETIQKCKESKI-RCSVIGL 126 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~~ti~~akk~~I-rV~vI~L 126 (324)
+++.+ +.....+.+.++++.+++.|+ +|.++.+
T Consensus 88 v~I~a-D~~~~~~~vv~v~d~~~~aG~~~v~l~t~ 121 (122)
T TIGR02803 88 IFFRA-DKTVDYGDLMKVMNLLRQAGYLKIGLVGL 121 (122)
T ss_pred EEEEc-CCCCCHHHHHHHHHHHHHcCCCEEEEEec
Confidence 44444 555678889999999999999 4777654
No 380
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=27.87 E-value=28 Score=30.92 Aligned_cols=30 Identities=30% Similarity=0.645 Sum_probs=21.1
Q ss_pred CccccccccccCCCCC-------------CCceeeCCCCCccc
Q 020564 263 STCFGCQQSLLSSGNK-------------PGLYVACPKCKKHF 292 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~-------------~~~~~~C~~C~~~f 292 (324)
..|--|+.++-....+ ....|+||+|++.|
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 4699999888765321 12258899999876
No 381
>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=27.80 E-value=37 Score=23.74 Aligned_cols=29 Identities=24% Similarity=0.863 Sum_probs=21.0
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCcc-cccccch
Q 020564 264 TCFGCQQ-SLLSSGNKPGLYVACPKCKKH-FCLECDI 298 (324)
Q Consensus 264 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~~-fC~dCd~ 298 (324)
.|.+|.+ ++.. .||+|..|... .|.+|-.
T Consensus 2 ~C~~C~~~~i~g------~R~~C~~C~dydLC~~Cf~ 32 (49)
T cd02345 2 SCSACRKQDISG------IRFPCQVCRDYSLCLGCYT 32 (49)
T ss_pred cCCCCCCCCceE------eeEECCCCCCcCchHHHHh
Confidence 5999987 6642 58999999753 5777744
No 382
>PRK06450 threonine synthase; Validated
Probab=27.78 E-value=40 Score=32.97 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=28.1
Q ss_pred eeEcCCCCcccccC-CCCCCCCCceecCchhHHh---hhcccCCCC
Q 020564 203 GYTCPRCKARVCEL-PTDCRICGLQLVSSPHLAR---SYHHLFPIA 244 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l-P~~C~~C~l~Lvs~~hLar---syhhl~p~~ 244 (324)
+|.|++|+..|=.. ...|+-||-.|....++.+ -.+.++|+.
T Consensus 3 ~~~C~~Cg~~~~~~~~~~C~~cg~~l~~~~d~~~~~~~~~~~lp~~ 48 (338)
T PRK06450 3 KEVCMKCGKERESIYEIRCKKCGGPFEILIDFEFDKNLERKNFPYI 48 (338)
T ss_pred eeEECCcCCcCCCcccccCCcCCCEeEEeecccccchhhHhhCCCC
Confidence 79999999988432 2469999988776654431 113566654
No 383
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=27.68 E-value=37 Score=29.57 Aligned_cols=27 Identities=19% Similarity=0.564 Sum_probs=19.5
Q ss_pred CccceeecCCccccCeeEcCCCCcccccCC
Q 020564 188 SISICSCHKEVKVGVGYTCPRCKARVCELP 217 (324)
Q Consensus 188 ~~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP 217 (324)
.+.+|+--+ ..+ -|.|-.|+++||+++
T Consensus 117 ~r~fCaVCG--~~S-~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 117 LRKFCAVCG--YDS-KYSCVNCGTKYCSVR 143 (156)
T ss_pred cchhhhhcC--CCc-hhHHHhcCCceeech
Confidence 355665443 334 799999999999886
No 384
>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=27.59 E-value=28 Score=25.34 Aligned_cols=26 Identities=27% Similarity=0.700 Sum_probs=16.5
Q ss_pred EcCCCCcccc-----cCCCCCCCCCceecCc
Q 020564 205 TCPRCKARVC-----ELPTDCRICGLQLVSS 230 (324)
Q Consensus 205 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 230 (324)
.||.|..+.- ..++.|..||.+|.-+
T Consensus 9 kCp~C~~~q~vFSha~t~V~C~~Cg~~L~~P 39 (55)
T PF01667_consen 9 KCPGCYNIQTVFSHAQTVVKCVVCGTVLAQP 39 (55)
T ss_dssp E-TTT-SEEEEETT-SS-EE-SSSTSEEEEE
T ss_pred ECCCCCCeeEEEecCCeEEEcccCCCEecCC
Confidence 5888887654 3567999999998654
No 385
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=27.54 E-value=1.3e+02 Score=22.47 Aligned_cols=30 Identities=10% Similarity=0.124 Sum_probs=23.9
Q ss_pred eCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 97 SALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 97 gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+.....++|-+-+.++.+.+.+|.||.|.-
T Consensus 8 ~~~m~~~~g~~~~If~~la~~~I~vd~I~~ 37 (73)
T cd04934 8 SNKKSLSHGFLARIFAILDKYRLSVDLIST 37 (73)
T ss_pred cccCccccCHHHHHHHHHHHcCCcEEEEEe
Confidence 444445777777899999999999999974
No 386
>TIGR01143 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ.
Probab=27.54 E-value=2.9e+02 Score=27.39 Aligned_cols=24 Identities=8% Similarity=0.315 Sum_probs=12.9
Q ss_pred HHHHHHHHHHhhCCCCCCCceEEEEEeC
Q 020564 71 QNALDLVQGLLSQIPSYGHREVLILYSA 98 (324)
Q Consensus 71 ~naL~~A~~~L~~~p~~~~reILil~gS 98 (324)
-.|++.|+..|+..+ . ++++++|.
T Consensus 309 p~s~~~al~~l~~~~---~-r~i~VlG~ 332 (417)
T TIGR01143 309 PDSMRAALDALARFP---G-KKILVLGD 332 (417)
T ss_pred HHHHHHHHHHHHhCC---C-CEEEEEcC
Confidence 356666666666553 2 34445553
No 387
>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=27.33 E-value=2.5e+02 Score=26.06 Aligned_cols=42 Identities=17% Similarity=0.286 Sum_probs=35.0
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCee
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 144 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y 144 (324)
.+.+|.++++.+|+.+|++=+.--.......+.+++.||-..
T Consensus 202 s~~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v 243 (266)
T cd01018 202 SPADLKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKV 243 (266)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeE
Confidence 345888999999999999777666667789999999999755
No 388
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=27.23 E-value=2.3e+02 Score=27.83 Aligned_cols=66 Identities=12% Similarity=0.120 Sum_probs=46.3
Q ss_pred eEEEEE-eCCCCCCcccHHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 91 EVLILY-SALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 91 eILil~-gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
+++|+. ||. .+...++++.|++.||+|.+|.+.. ....++++.+.++-..-+-.|...|...+...
T Consensus 248 d~~iva~Gs~----~~~a~eA~~~L~~~Gi~v~vi~~~~l~Pfp~~~i~~~l~~~k~VivvE~n~g~l~~ei~~~ 318 (352)
T PRK07119 248 ELVLVAYGTS----ARIAKSAVDMAREEGIKVGLFRPITLWPFPEKALEELADKGKGFLSVEMSMGQMVEDVRLA 318 (352)
T ss_pred CEEEEEcCcc----HHHHHHHHHHHHHcCCeEEEEeeceecCCCHHHHHHHHhCCCEEEEEeCCccHHHHHHHHH
Confidence 455554 433 3466789999999999999999863 24566777777777777777766666555543
No 389
>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=27.15 E-value=35 Score=26.06 Aligned_cols=24 Identities=33% Similarity=0.729 Sum_probs=17.2
Q ss_pred ccccccchhhhhcCC--------------CCCCCCCCC
Q 020564 291 HFCLECDIYIHESLH--------------NCPGCESLR 314 (324)
Q Consensus 291 ~fC~dCd~fihe~lh--------------~CpgC~~~~ 314 (324)
.+|..|..|...... .|+||....
T Consensus 7 l~C~~C~~y~~~~~~~~~~~~~~~~~~~~~C~GCr~~~ 44 (78)
T PF12675_consen 7 LDCGNCPAYEAGKISDASLRLKEASPEKIRCPGCRSGG 44 (78)
T ss_pred CccccchhhhcCCccHHHHHHhhccCCCCcCcCCcCCC
Confidence 467788888777654 688887644
No 390
>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=27.07 E-value=5.1e+02 Score=25.60 Aligned_cols=79 Identities=10% Similarity=-0.065 Sum_probs=41.6
Q ss_pred cHHHHHHHHHhcCcEEEEEEccc-hHHHHH-HHHHhhCCeeEEeC--CHHHHHHHHHhcCCCCccch-hhhhhceeeecC
Q 020564 106 DIMETIQKCKESKIRCSVIGLSA-EMFICK-HLCQDTGGSYSVAL--DESHFKELIMEHAPPPPAIA-EFAIANLIKMGF 180 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lga-e~~iLk-~ia~~TgG~Y~va~--d~~hl~~lL~~~~~pp~~~~-~~~~~~Li~mGf 180 (324)
-....++.+.+.|+.|-.++-.. ...-.+ .+....++. .+.. |...+.+++.+.- |.-.-. ....-.|+++||
T Consensus 287 ~~~~la~~L~elGm~vv~~~t~~~~~~~~~~~~~~l~~~~-~v~~~~d~~~l~~~i~~~~-pDlli~~~~~a~pl~r~G~ 364 (396)
T cd01979 287 LEIPLARFLTRCGMIVVEVGTPYLDKRFQAAELELLPPMV-RIVEKPDNYRQLDRIRELR-PDLVVTGLGLANPLEARGI 364 (396)
T ss_pred HHHHHHHHHHHCCCEEEeeCCCcCChHHHHHHHHhcCCCC-eEEECCCHHHHHHHHHhcC-CCEEEecccccCcHHhCCC
Confidence 34567888899999988776431 111112 222222343 3322 4444455554422 333211 123358999999
Q ss_pred CCCCCC
Q 020564 181 PQRAGE 186 (324)
Q Consensus 181 P~~~~~ 186 (324)
|.+...
T Consensus 365 P~~dr~ 370 (396)
T cd01979 365 TTKWSI 370 (396)
T ss_pred cceeec
Confidence 998654
No 391
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=27.01 E-value=29 Score=40.56 Aligned_cols=24 Identities=46% Similarity=1.043 Sum_probs=18.8
Q ss_pred eeEcCCCCcccccCC-------------CCCCCCCceec
Q 020564 203 GYTCPRCKARVCELP-------------TDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP-------------~~C~~C~l~Lv 228 (324)
.|+||.|+ +.++. -.||.||..|.
T Consensus 908 hy~C~~C~--~~ef~~~~~~~sG~Dlpdk~Cp~Cg~~~~ 944 (1437)
T PRK00448 908 HYVCPNCK--YSEFFTDGSVGSGFDLPDKDCPKCGTKLK 944 (1437)
T ss_pred cccCcccc--cccccccccccccccCccccCcccccccc
Confidence 89999994 66653 36999999864
No 392
>PRK10565 putative carbohydrate kinase; Provisional
Probab=27.01 E-value=3e+02 Score=28.58 Aligned_cols=54 Identities=15% Similarity=0.262 Sum_probs=37.6
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch------HHHHHHHHHhhCCee
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKHLCQDTGGSY 144 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae------~~iLk~ia~~TgG~Y 144 (324)
.++|+|+.|+.+ |-||=.-++..|.+.|++|.++.++.+ ...-.++.+..||.+
T Consensus 60 ~~~v~vl~G~GN--NGGDG~v~AR~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~g~~~ 119 (508)
T PRK10565 60 ARHWLVLCGHGN--NGGDGYVVARLAQAAGIDVTLLAQESDKPLPEEAALAREAWLNAGGEI 119 (508)
T ss_pred CCeEEEEEcCCC--chHHHHHHHHHHHHCCCceEEEEECCcccCCHHHHHHHHHHHHcCCce
Confidence 356888888664 577778899999999999999988642 233334445555554
No 393
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=26.99 E-value=1.6e+02 Score=21.81 Aligned_cols=31 Identities=10% Similarity=0.048 Sum_probs=23.5
Q ss_pred EeCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 96 YSALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 96 ~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
.|.....+++-+.+.+..+.+.+|+|+.++-
T Consensus 7 ~g~~l~~~~g~~~~if~~L~~~~I~v~~i~~ 37 (75)
T cd04912 7 KSNRMLGAHGFLAKVFEIFAKHGLSVDLIST 37 (75)
T ss_pred EcCCCCCCccHHHHHHHHHHHcCCeEEEEEc
Confidence 3444444666666889999999999999974
No 394
>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=26.96 E-value=1.6e+02 Score=23.32 Aligned_cols=73 Identities=15% Similarity=0.149 Sum_probs=0.0
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch---HHHHHHHHHhhCCeeEEeCCH
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE---MFICKHLCQDTGGSYSVALDE 150 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae---~~iLk~ia~~TgG~Y~va~d~ 150 (324)
|..++..|... .+..-||||+-.+. ..+..+.++.+.+.+.+|.+|..... ..-.....+...|.|..-+|.
T Consensus 13 l~~~l~sl~~q-~~~~~eiivvdd~s----~d~~~~~~~~~~~~~~~i~~i~~~~n~g~~~~~n~~~~~a~~~~i~~ld~ 87 (169)
T PF00535_consen 13 LERTLESLLKQ-TDPDFEIIVVDDGS----TDETEEILEEYAESDPNIRYIRNPENLGFSAARNRGIKHAKGEYILFLDD 87 (169)
T ss_dssp HHHHHHHHHHH-SGCEEEEEEEECS-----SSSHHHHHHHHHCCSTTEEEEEHCCCSHHHHHHHHHHHH--SSEEEEEET
T ss_pred HHHHHHHHhhc-cCCCEEEEEecccc----ccccccccccccccccccccccccccccccccccccccccceeEEEEeCC
Q ss_pred H
Q 020564 151 S 151 (324)
Q Consensus 151 ~ 151 (324)
+
T Consensus 88 D 88 (169)
T PF00535_consen 88 D 88 (169)
T ss_dssp T
T ss_pred C
No 395
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=26.94 E-value=2.3e+02 Score=26.32 Aligned_cols=59 Identities=17% Similarity=0.257 Sum_probs=44.8
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc------chHHHHHHHHHhhCCeeEEeCCHHHHHH
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS------AEMFICKHLCQDTGGSYSVALDESHFKE 155 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg------ae~~iLk~ia~~TgG~Y~va~d~~hl~~ 155 (324)
|-|+++.|++++ ...+..|++.+=.|..|++. .|...-|++|+.-|-.+. ..|-+.+.+
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 335555555532 45688899999999999996 367889999999999998 457777776
No 396
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=26.81 E-value=36 Score=20.11 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=16.9
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~ 226 (324)
.+.|+.|....=.--..|..|++.
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 467888876655555678888763
No 397
>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=26.81 E-value=2.7e+02 Score=28.84 Aligned_cols=85 Identities=13% Similarity=0.123 Sum_probs=59.8
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM--------------- 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~--------------- 130 (324)
-+|+.||-.|+.+--.. .+++++|.| |-+-.| .-+.++.+.|++|-+|-+....
T Consensus 403 g~mG~glpaaiGa~lA~----~~r~v~i~G-----DG~f~m~~~EL~Ta~r~~lpv~~vV~NN~~y~~~~~~~~~~~~~~ 473 (535)
T TIGR03394 403 AGMGFGVPAGIGAQCTS----GKRILTLVG-----DGAFQMTGWELGNCRRLGIDPIVILFNNASWEMLRVFQPESAFND 473 (535)
T ss_pred chhhhHHHHHHHHHhCC----CCCeEEEEe-----ChHHHhHHHHHHHHHHcCCCcEEEEEECCccceeehhccCCCccc
Confidence 46666666666653332 245677777 223233 5688999999999999886431
Q ss_pred ---HHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 ---FICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 ---~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
.=+.++|+..|+.+..+.+.+.|++.|.+..
T Consensus 474 ~~~~d~~~lA~a~G~~~~~v~~~~eL~~al~~a~ 507 (535)
T TIGR03394 474 LDDWRFADMAAGMGGDGVRVRTRAELAAALDKAF 507 (535)
T ss_pred CCCCCHHHHHHHcCCCceEeCCHHHHHHHHHHHH
Confidence 0146788889999999999999999998765
No 398
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=26.78 E-value=1.9e+02 Score=24.97 Aligned_cols=56 Identities=13% Similarity=0.347 Sum_probs=0.0
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc-------------------hHHHHH
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA-------------------EMFICK 134 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga-------------------e~~iLk 134 (324)
.+-|...|+. +.....+|+||+.++ ..+..+.+.|+.+.-|.+|. |...|+
T Consensus 61 ve~a~~~l~~-~~~~~~~v~vl~k~~---------~da~~l~~~g~~i~~iniG~~~~~~g~~~v~~~v~l~~~e~~~l~ 130 (151)
T TIGR00854 61 LEKTINVIHK-PAYHDQTIFLLFRNP---------QDVLTLVEGGVPIKTVNVGGMHFSNGKKQITKKVSVDDQDITAFR 130 (151)
T ss_pred HHHHHHHHhC-cCCCCceEEEEECCH---------HHHHHHHHcCCCCCEEEECCcccCCCCEEEecceeeCHHHHHHHH
Q ss_pred HHHHh
Q 020564 135 HLCQD 139 (324)
Q Consensus 135 ~ia~~ 139 (324)
++.+.
T Consensus 131 ~l~~~ 135 (151)
T TIGR00854 131 FLKQR 135 (151)
T ss_pred HHHHc
No 399
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=26.74 E-value=49 Score=24.08 Aligned_cols=23 Identities=26% Similarity=0.726 Sum_probs=17.8
Q ss_pred eEcCCCCccc----------ccCCCCCCCCCce
Q 020564 204 YTCPRCKARV----------CELPTDCRICGLQ 226 (324)
Q Consensus 204 y~Cp~C~s~~----------C~lP~~C~~C~l~ 226 (324)
..||.|+.|- =.+|.-||-|...
T Consensus 5 i~CP~CgnKTR~kir~DT~LkNfPlyCpKCK~E 37 (55)
T PF14205_consen 5 ILCPICGNKTRLKIREDTVLKNFPLYCPKCKQE 37 (55)
T ss_pred EECCCCCCccceeeecCceeccccccCCCCCce
Confidence 5799999653 3589999999754
No 400
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=26.73 E-value=5e+02 Score=27.01 Aligned_cols=86 Identities=12% Similarity=0.118 Sum_probs=59.7
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-HH------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM-FI------------ 132 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~-~i------------ 132 (324)
-+++-||-.|+.+=-..| .|+|+.|.|.. +-.| ..+.++.+++++|-+|-+.... .+
T Consensus 421 g~mG~glpaaiGa~la~p---~~~vv~i~GDG-----~f~m~~~eL~Ta~r~~l~v~ivV~NN~~yg~i~~~q~~~~~~~ 492 (574)
T PRK07979 421 GTMGFGLPAALGVKMALP---EETVVCVTGDG-----SIQMNIQELSTALQYELPVLVLNLNNRYLGMVKQWQDMIYSGR 492 (574)
T ss_pred cchhhHHHHHHHHHHhCC---CCeEEEEEcch-----hhhccHHHHHHHHHhCCCeEEEEEeCchhhHHHHHHHHhcCCc
Confidence 466666666666544443 46788888832 3233 5688999999999999886431 11
Q ss_pred -----------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -----------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -----------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+-++|+.-|+....+.+.+.|++.|.+..
T Consensus 493 ~~~~~~~~~~d~~~iA~a~G~~g~~v~~~~eL~~al~~a~ 532 (574)
T PRK07979 493 HSQSYMQSLPDFVRLAEAYGHVGIQISHPDELESKLSEAL 532 (574)
T ss_pred cccccCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHHH
Confidence 34567777788888888888888887765
No 401
>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=26.70 E-value=18 Score=23.02 Aligned_cols=9 Identities=33% Similarity=1.228 Sum_probs=5.1
Q ss_pred eeeCCCCCc
Q 020564 282 YVACPKCKK 290 (324)
Q Consensus 282 ~~~C~~C~~ 290 (324)
.|.||.|++
T Consensus 19 ~~vCp~C~~ 27 (30)
T PF08274_consen 19 LLVCPECGH 27 (30)
T ss_dssp SEEETTTTE
T ss_pred EEeCCcccc
Confidence 456666654
No 402
>PLN02891 IMP cyclohydrolase
Probab=26.69 E-value=3e+02 Score=29.00 Aligned_cols=71 Identities=20% Similarity=0.176 Sum_probs=49.8
Q ss_pred CCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHH-------HHHHhhC---------------
Q 020564 84 IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICK-------HLCQDTG--------------- 141 (324)
Q Consensus 84 ~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk-------~ia~~Tg--------------- 141 (324)
.|+.+.|+.||=++ |...|.+.++.|.+.||.| |+=|+.-..|+ ++++.||
T Consensus 17 ~~~~~~krALISVs-----DKtgi~~fAk~L~~~gveI--iSTgGTak~L~e~Gi~v~~Vsd~TgfPEiL~GRVKTLHPk 89 (547)
T PLN02891 17 SPSSGKKQALISLS-----DKTDLALLANGLQELGYTI--VSTGGTASALEAAGVSVTKVEELTNFPEMLDGRVKTLHPA 89 (547)
T ss_pred CCCccccEEEEEEe-----cccCHHHHHHHHHHCCCEE--EEcchHHHHHHHcCCceeeHHhccCCchhhCCcccccCch
Confidence 46666778887776 5678999999999998855 56666555544 4677887
Q ss_pred ---CeeEEeCCHHHHHHHHHhcC
Q 020564 142 ---GSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 142 ---G~Y~va~d~~hl~~lL~~~~ 161 (324)
|...+-.+++|++++=..-.
T Consensus 90 IhgGILa~r~~~~h~~~l~~~~I 112 (547)
T PLN02891 90 VHGGILARRDQEHHMEALNEHGI 112 (547)
T ss_pred hhhhhhcCCCCHHHHHHHHHcCC
Confidence 66666677888776544333
No 403
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.58 E-value=13 Score=35.96 Aligned_cols=44 Identities=30% Similarity=0.788 Sum_probs=36.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCC
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 311 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~ 311 (324)
.+|-+|...|.... ....|..|++.||.-|. -+-++|..|--|.
T Consensus 45 p~ckacg~~f~~~~----~k~~c~dckk~fc~tcs-~v~~~lr~c~~c~ 88 (350)
T KOG4275|consen 45 PHCKACGEEFEDAQ----SKSDCEDCKKEFCATCS-RVSISLRTCTSCR 88 (350)
T ss_pred chhhhhchhHhhhh----hhhhhhhhhHHHHHHHH-HhcccchhhhHHH
Confidence 38999998886532 12469999999999999 8899999999996
No 404
>PLN00209 ribosomal protein S27; Provisional
Probab=26.45 E-value=30 Score=27.45 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=20.4
Q ss_pred EcCCCCcccc-----cCCCCCCCCCceecCc
Q 020564 205 TCPRCKARVC-----ELPTDCRICGLQLVSS 230 (324)
Q Consensus 205 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 230 (324)
.||.|..+.- ..++.|..||.+|.-+
T Consensus 38 kCp~C~n~q~VFShA~t~V~C~~Cg~~L~~P 68 (86)
T PLN00209 38 KCQGCFNITTVFSHSQTVVVCGSCQTVLCQP 68 (86)
T ss_pred ECCCCCCeeEEEecCceEEEccccCCEeecc
Confidence 5999988765 3457999999998654
No 405
>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=26.41 E-value=29 Score=21.08 Aligned_cols=25 Identities=28% Similarity=0.669 Sum_probs=16.4
Q ss_pred CCCCcccccccchhhhh-cCCCCCCC
Q 020564 286 PKCKKHFCLECDIYIHE-SLHNCPGC 310 (324)
Q Consensus 286 ~~C~~~fC~dCd~fihe-~lh~CpgC 310 (324)
..|++.||.+|=.-.-+ .-..||.|
T Consensus 14 ~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 14 LPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred ecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 46999999998543332 34458876
No 406
>PRK06154 hypothetical protein; Provisional
Probab=26.33 E-value=2.4e+02 Score=29.40 Aligned_cols=86 Identities=16% Similarity=0.100 Sum_probs=61.3
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----H----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM----F---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~----~---------- 131 (324)
-+|+-||-.|+.+=-..| .|+|+.|.|. -+-.| ..+.++++.|++|-+|-+.... .
T Consensus 431 gsmG~glpaaiGa~la~p---~r~Vv~i~GD-----G~f~m~~~EL~Ta~r~~lpi~~vV~NN~~yg~~~~~~~~~~~~~ 502 (565)
T PRK06154 431 TQLGYGLGLAMGAKLARP---DALVINLWGD-----AAFGMTGMDFETAVRERIPILTILLNNFSMGGYDKVMPVSTTKY 502 (565)
T ss_pred cccccHHHHHHHHHHhCC---CCcEEEEEcc-----hHHhccHHHHHHHHHhCCCeEEEEEECCccceeehhhhhhcCcc
Confidence 356666666665443333 5789999983 33333 4689999999999988886431 0
Q ss_pred -------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+.-|+.+.++.+.+.|++.|.+.+
T Consensus 503 ~~~~~~~df~~lA~a~G~~g~~V~~~~el~~al~~a~ 539 (565)
T PRK06154 503 RATDISGDYAAIARALGGYGERVEDPEMLVPALLRAL 539 (565)
T ss_pred cccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 145788888999999999999998887765
No 407
>COG0770 MurF UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]
Probab=26.30 E-value=3.4e+02 Score=27.80 Aligned_cols=86 Identities=13% Similarity=0.174 Sum_probs=50.5
Q ss_pred HHHHHHHHHhhCCCCCCCceEEEEEeCCCC--CCcccHH-HHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeC
Q 020564 72 NALDLVQGLLSQIPSYGHREVLILYSALST--CDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVAL 148 (324)
Q Consensus 72 naL~~A~~~L~~~p~~~~reILil~gS~~t--~d~g~i~-~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~ 148 (324)
.++..|+..|..+|... + ++++|.... .+...++ +.++.++..+| |.+-+-++ ..+.+++.-++....-.
T Consensus 340 ~sm~aai~~l~~~~~~~--~-i~VlGdM~ELG~~s~~~H~~v~~~~~~~~~--d~v~~~G~--~~~~i~~~~~~~~~~f~ 412 (451)
T COG0770 340 DSMRAALDLLAALPGRK--G-IAVLGDMLELGEESEELHEEVGEYAVEAGI--DLVFLVGE--LSKAIAEALGNKGIYFA 412 (451)
T ss_pred HHHHHHHHHHhhCccCC--c-EEEeCChhhhCccHHHHHHHHHHHHHhcCc--eEEEEEcc--chHHHHHhcCCCeEecC
Confidence 46777888888886433 3 444443322 1334566 57888888884 33333333 55666776665232223
Q ss_pred CHHHHHHHHHhcCCCC
Q 020564 149 DESHFKELIMEHAPPP 164 (324)
Q Consensus 149 d~~hl~~lL~~~~~pp 164 (324)
+.+.|.+.|...+.|-
T Consensus 413 ~~~~l~~~l~~~l~~g 428 (451)
T COG0770 413 DKEELITSLKALLRKG 428 (451)
T ss_pred CHHHHHHHHHHhcCCC
Confidence 5557888888877553
No 408
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=26.29 E-value=1.7e+02 Score=30.37 Aligned_cols=87 Identities=13% Similarity=0.125 Sum_probs=61.7
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH-------------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM------------- 130 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~------------- 130 (324)
|..+++.+|-.|+.+=-. | .|+|++|.|.. +-.| +.+.++++.++++-+|-+....
T Consensus 423 g~~~~G~~lpaaiGaala-~---~~~vv~i~GDG-----sf~~~~~eL~Ta~r~~l~i~ivVlNN~g~~~~~~~~~~~~~ 493 (568)
T PRK07449 423 GASGIDGLLSTAAGVARA-S---AKPTVALIGDL-----SFLHDLNGLLLLKQVPAPLTIVVVNNNGGGIFSLLPQPEEE 493 (568)
T ss_pred CccchhhHHHHHHHHHhc-C---CCCEEEEechH-----HhhcCcHHHHhhcccCCCeEEEEEECCCCccccCCCCCCCc
Confidence 445677777777765333 3 56799998833 2222 4567789999999888775320
Q ss_pred -------H-----HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 131 -------F-----ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 131 -------~-----iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
. =+.++|+.-|+.|..+.+.+.|++.|.+..
T Consensus 494 ~~~~~~~~~~~~~df~~lA~a~G~~~~~V~~~~eL~~al~~a~ 536 (568)
T PRK07449 494 PVFERFFGTPHGVDFAHAAAMYGLEYHRPETWAELEEALADAL 536 (568)
T ss_pred chhhHhhcCCCCCCHHHHHHHcCCCccCCCCHHHHHHHHHHHh
Confidence 0 156788888999999999999999998875
No 409
>PRK11869 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional
Probab=26.09 E-value=2.5e+02 Score=26.92 Aligned_cols=57 Identities=7% Similarity=-0.055 Sum_probs=39.0
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH-HHHHHHHHhcCcEEEEEEccchH
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i-~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+.++.||..|...=...| .+.||++.|... -..+ .+-+..|.+.|+.|-+|-+..+.
T Consensus 60 ~~mG~alp~AiGaklA~p---d~~VVai~GDG~---~~~iG~~eL~tA~r~nl~i~~IV~NN~~ 117 (280)
T PRK11869 60 TLHGRAIPAATAVKATNP---ELTVIAEGGDGD---MYAEGGNHLIHAIRRNPDITVLVHNNQV 117 (280)
T ss_pred cccccHHHHHHHHHHHCC---CCcEEEEECchH---HhhCcHHHHHHHHHhCcCcEEEEEECHH
Confidence 456777777776633333 367888888442 1233 46778888999999999997664
No 410
>COG1366 SpoIIAA Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction mechanisms]
Probab=26.01 E-value=2.5e+02 Score=22.52 Aligned_cols=50 Identities=16% Similarity=0.276 Sum_probs=34.4
Q ss_pred CceEEEEEeCCCCCCcc---cHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 89 HREVLILYSALSTCDPG---DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 89 ~reILil~gS~~t~d~g---~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
.+.|+|=+++..--|.. -+..+.+.+++.|+.+-++|+..++. ++-+.||
T Consensus 44 ~~~ivIDls~v~~~dS~gl~~L~~~~~~~~~~g~~~~l~~i~p~v~---~~~~~~g 96 (117)
T COG1366 44 ARGLVIDLSGVDFMDSAGLGVLVALLKSARLRGVELVLVGIQPEVA---RTLELTG 96 (117)
T ss_pred CcEEEEECCCCceechHHHHHHHHHHHHHHhcCCeEEEEeCCHHHH---HHHHHhC
Confidence 34455555555544443 44478899999999999999987765 5556666
No 411
>PRK14479 dihydroxyacetone kinase; Provisional
Probab=25.99 E-value=1.3e+02 Score=31.91 Aligned_cols=40 Identities=10% Similarity=0.087 Sum_probs=29.7
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
.+-||+|+. +.+-|-.++.-+++.|+.+||+|.+|-++.+
T Consensus 95 ~~Gvl~iv~-NYtGD~lnF~~A~e~a~~~g~~v~~v~v~DD 134 (568)
T PRK14479 95 GAGVLLIVG-NYAGDVMNFGLAAELARAEGIDVRTVVVTDD 134 (568)
T ss_pred CCCEEEEeC-CcHHHHhhHHHHHHHHHhcCCcEEEEEeCCc
Confidence 356888887 4443444444589999999999999988754
No 412
>PTZ00375 dihydroxyacetone kinase-like protein; Provisional
Probab=25.95 E-value=1.4e+02 Score=31.78 Aligned_cols=40 Identities=10% Similarity=0.133 Sum_probs=29.9
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
.+-||+|+. +.+-|-.++.-+++.|+.+||+|.+|-++.+
T Consensus 98 ~~Gvl~ivk-NYtGD~lnF~lA~e~a~~eGi~v~~v~v~DD 137 (584)
T PTZ00375 98 GPGCLLIVK-NYTGDILNFELAVEQARARGIQVETVLVADD 137 (584)
T ss_pred CCCEEEEec-ccHHHHhhHHHHHHHHHhCCCcEEEEEeCCc
Confidence 356888887 4443444444689999999999999998754
No 413
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=25.88 E-value=2.6e+02 Score=27.84 Aligned_cols=67 Identities=18% Similarity=0.240 Sum_probs=50.5
Q ss_pred eEEEE-EeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 91 EVLIL-YSALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 91 eILil-~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+++|+ +||. .+.+.++++.|.+.|++|.++-+.- ...-++++.+......-+-.|.+.|..++...+
T Consensus 276 d~~IV~~GSt----~~~~keAv~~lr~~G~kvg~l~~~~~~PfP~~~i~~~l~~~k~viVvE~n~Gql~~~v~~~~ 347 (375)
T PRK09627 276 EILIIAYGSV----SLSAKEAIKRLREEGIKVGLFRPITLWPSPAKKLKEIGDKFEKILVIELNMGQYLEEIERVM 347 (375)
T ss_pred CEEEEEeCCC----HHHHHHHHHHHHhcCCeEEEEEeCeEECCCHHHHHHHHhcCCEEEEEcCChHHHHHHHHHHh
Confidence 44444 4554 4677899999999999999999863 134677888877777788888888887777665
No 414
>KOG2585 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.69 E-value=3.2e+02 Score=28.09 Aligned_cols=53 Identities=15% Similarity=0.070 Sum_probs=38.5
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEcc-c-hHHHHHHHHHhhCCeeEE
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLS-A-EMFICKHLCQDTGGSYSV 146 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lg-a-e~~iLk~ia~~TgG~Y~v 146 (324)
|+|+-|... +.|+...+++-|+..|..+-+.-.- . .+..++.|...++|.+.-
T Consensus 269 V~Ilcgpgn--nggdg~v~gRHL~~~G~~~vi~~pk~s~~~~~~~~L~~q~~~~~Ip 323 (453)
T KOG2585|consen 269 VAILCGPGN--NGGDGLVCGRHLAQHGYTPVIYYPKRSLNVDLYKSLVKQCDGFSIP 323 (453)
T ss_pred EEEEeCCCC--ccchhHHHHHHHHHcCceeEEEeecCccchhHHHHHHHHhcCcccc
Confidence 888877543 4667777999999999555544443 2 257889999999998843
No 415
>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=25.65 E-value=32 Score=39.56 Aligned_cols=24 Identities=50% Similarity=1.161 Sum_probs=18.4
Q ss_pred eeEcCCCCcccccC------------C-CCCCCCCceec
Q 020564 203 GYTCPRCKARVCEL------------P-TDCRICGLQLV 228 (324)
Q Consensus 203 Gy~Cp~C~s~~C~l------------P-~~C~~C~l~Lv 228 (324)
.|+||.|+ +.++ | -.||.||..|.
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 5554 3 36999998864
No 416
>TIGR03846 sulfopy_beta sulfopyruvate decarboxylase, beta subunit. Nearly every member of this protein family is the beta subunit, or else the C-terminal region, of sulfopyruvate decarboxylase, in an archaeal species capable of coenzyme M biosynthesis. However, the enzyme also occurs in Roseovarius nubinhibens ISM in a degradative pathway, where the resulting sulfoacetaldehyde is desulfonated to acetyl phosphate, then converted to acetyl-CoA (see PubMed:19581363).
Probab=25.61 E-value=3.8e+02 Score=23.54 Aligned_cols=78 Identities=12% Similarity=0.095 Sum_probs=51.8
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcC-cEEEEEEccchH--------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESK-IRCSVIGLSAEM-------------- 130 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~-IrV~vI~Lgae~-------------- 130 (324)
.++..||-+++.. .++|+.|.|.. +-.| +.+.++.+.+ ++|-+|-+....
T Consensus 46 ~~lpaAiGa~la~--------~~~Vv~i~GDG-----~f~m~~~el~ta~~~~~~pv~~vV~NN~~yg~~~~q~~~~~~~ 112 (181)
T TIGR03846 46 LASSIGLGLALAT--------DRTVIVIDGDG-----SLLMNLGVLPTIAAESPKNLILVILDNGAYGSTGNQPTPASRR 112 (181)
T ss_pred cHHHHHHHHHHcC--------CCcEEEEEcch-----HHHhhhhHHHHHHHhCCCCeEEEEEeCCccccccCcCCCCCCC
Confidence 3555666655542 35799998833 2222 4566667777 478777765331
Q ss_pred HHHHHHHHhhCCeeEE-eCCHHHHHHHHH
Q 020564 131 FICKHLCQDTGGSYSV-ALDESHFKELIM 158 (324)
Q Consensus 131 ~iLk~ia~~TgG~Y~v-a~d~~hl~~lL~ 158 (324)
.=+.++|+.-|..+.. +.+.+.|++.|.
T Consensus 113 ~d~~~lA~a~G~~~~~~v~~~~~l~~al~ 141 (181)
T TIGR03846 113 TDLELVAKAAGIRNVEKVADEEELRDALK 141 (181)
T ss_pred CCHHHHHHHCCCCeEEEeCCHHHHHHHHH
Confidence 0156788999998877 889999998885
No 417
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=25.59 E-value=44 Score=32.62 Aligned_cols=41 Identities=17% Similarity=0.523 Sum_probs=23.1
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchh-h-----hhcCCCCCCCCC
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIY-I-----HESLHNCPGCES 312 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~f-i-----he~lh~CpgC~~ 312 (324)
+|..|...-.- .|-.|+.|++.- +=+.| + +..+..|-.|.+
T Consensus 214 ~CslC~teW~~------~R~~C~~Cg~~~--~l~y~~~~~~~~~~r~e~C~~C~~ 260 (309)
T PRK03564 214 HCNLCESEWHV------VRVKCSNCEQSG--KLHYWSLDSEQAAVKAESCGDCGT 260 (309)
T ss_pred EcCCCCCcccc------cCccCCCCCCCC--ceeeeeecCCCcceEeeecccccc
Confidence 68888755432 245688888752 11111 1 224567888865
No 418
>PRK05447 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional
Probab=25.58 E-value=3.3e+02 Score=27.43 Aligned_cols=59 Identities=22% Similarity=0.317 Sum_probs=39.9
Q ss_pred EEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEc--cchHHHHHHHHHhhCCeeEEeCCHHHHHHH
Q 020564 93 LILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGL--SAEMFICKHLCQDTGGSYSVALDESHFKEL 156 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~L--gae~~iLk~ia~~TgG~Y~va~d~~hl~~l 156 (324)
|.++||. |.|- ++++.+++..=+..+++| +.....|.+.++..+=.|-+..|+....++
T Consensus 4 VaILGsT-----GSIG~~tL~vi~~~p~~f~VvaLaa~~n~~~l~~q~~~f~p~~v~i~~~~~~~~l 65 (385)
T PRK05447 4 ITILGST-----GSIGTQTLDVIRRNPDRFRVVALSAGKNVELLAEQAREFRPKYVVVADEEAAKEL 65 (385)
T ss_pred EEEEcCC-----hHHHHHHHHHHHhCccccEEEEEEcCCCHHHHHHHHHHhCCCEEEEcCHHHHHHH
Confidence 4555644 4565 467766665334444555 556788999999999999888888765554
No 419
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=25.54 E-value=2.6e+02 Score=29.37 Aligned_cols=86 Identities=15% Similarity=0.163 Sum_probs=64.8
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchH----------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEM---------------- 130 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~---------------- 130 (324)
.++-||-.|+.+=...| .|+||.|.| |.+-.| +-+.++++++++|-+|-+....
T Consensus 409 tMG~glPaAIGAkla~P---~r~Vv~i~G-----DG~F~m~~qEL~Ta~r~~lpv~ivv~nN~~~g~v~~~q~~~~~~~~ 480 (550)
T COG0028 409 TMGFGLPAAIGAKLAAP---DRKVVAIAG-----DGGFMMNGQELETAVRYGLPVKIVVLNNGGYGMVRQWQELFYGGRY 480 (550)
T ss_pred cccchHHHHHHHHhhCC---CCcEEEEEc-----ccHHhccHHHHHHHHHhCCCEEEEEEECCccccchHHHHHhcCCCc
Confidence 56666666666555554 578999988 333333 5688889999999999987430
Q ss_pred ------HH-HHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 131 ------FI-CKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 131 ------~i-Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
.. +-++|+.-|+.-.+..+.+.|++.|.+.+.
T Consensus 481 ~~~~~~~~~f~klAea~G~~g~~v~~~~el~~al~~al~ 519 (550)
T COG0028 481 SGTDLGNPDFVKLAEAYGAKGIRVETPEELEEALEEALA 519 (550)
T ss_pred ceeecCCccHHHHHHHcCCeeEEeCCHHHHHHHHHHHHh
Confidence 12 779999999999999999999999977774
No 420
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=25.49 E-value=42 Score=23.72 Aligned_cols=25 Identities=32% Similarity=0.691 Sum_probs=14.1
Q ss_pred eeEcCCCCcc-ccc--CCCCCCCCCcee
Q 020564 203 GYTCPRCKAR-VCE--LPTDCRICGLQL 227 (324)
Q Consensus 203 Gy~Cp~C~s~-~C~--lP~~C~~C~l~L 227 (324)
.=.||+|++- .=. ---.|..||.+.
T Consensus 20 ~~fCP~Cg~~~m~~~~~r~~C~~Cgyt~ 47 (50)
T PRK00432 20 NKFCPRCGSGFMAEHLDRWHCGKCGYTE 47 (50)
T ss_pred cCcCcCCCcchheccCCcEECCCcCCEE
Confidence 3478888872 111 123677787764
No 421
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=25.34 E-value=3.3e+02 Score=21.35 Aligned_cols=51 Identities=10% Similarity=0.077 Sum_probs=35.4
Q ss_pred ceEEEEEeCCCCCCcc--cHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhC
Q 020564 90 REVLILYSALSTCDPG--DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTG 141 (324)
Q Consensus 90 reILil~gS~~t~d~g--~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~Tg 141 (324)
.+|+|+..+..+ -+. --.++-+.|++.||....+-+..+..+.+.+.+.||
T Consensus 12 ~~Vvvf~kg~~~-~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg 64 (97)
T TIGR00365 12 NPVVLYMKGTPQ-FPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSN 64 (97)
T ss_pred CCEEEEEccCCC-CCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhC
Confidence 457777643321 122 223788889999999999999766677777777776
No 422
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=24.97 E-value=3e+02 Score=27.38 Aligned_cols=67 Identities=9% Similarity=0.156 Sum_probs=46.6
Q ss_pred eEEEEE-eCCCCCCcccHHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 91 EVLILY-SALSTCDPGDIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 91 eILil~-gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+++|+. ||. .+...++++.|+++|++|.++.+.. ....++++.+......-+-.+...|...+...+
T Consensus 275 d~~iv~~Gs~----~~~a~eAv~~Lr~~G~~v~~l~~~~l~Pfp~~~i~~~~~~~k~VivvEe~~g~l~~el~~~~ 346 (376)
T PRK08659 275 EVVVVAYGSV----ARSARRAVKEAREEGIKVGLFRLITVWPFPEEAIRELAKKVKAIVVPEMNLGQMSLEVERVV 346 (376)
T ss_pred CEEEEEeCcc----HHHHHHHHHHHHhcCCceEEEEeCeecCCCHHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHh
Confidence 455554 444 4577789999999999999999974 234666777766666667777666665555544
No 423
>smart00440 ZnF_C2C2 C2C2 Zinc finger. Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases.
Probab=24.93 E-value=52 Score=22.04 Aligned_cols=15 Identities=20% Similarity=0.707 Sum_probs=11.1
Q ss_pred CCCceeeCCCCCccc
Q 020564 278 KPGLYVACPKCKKHF 292 (324)
Q Consensus 278 ~~~~~~~C~~C~~~f 292 (324)
..+..|.|.+|++.+
T Consensus 24 ~mT~fy~C~~C~~~w 38 (40)
T smart00440 24 PMTVFYVCTKCGHRW 38 (40)
T ss_pred CCeEEEEeCCCCCEe
Confidence 345679999998754
No 424
>PRK04155 chaperone protein HchA; Provisional
Probab=24.86 E-value=1.5e+02 Score=28.44 Aligned_cols=42 Identities=14% Similarity=0.258 Sum_probs=29.9
Q ss_pred CCCceEEEEEeCCCCC--------Ccc----cHHHHHHHHHhcCcEEEEEEccc
Q 020564 87 YGHREVLILYSALSTC--------DPG----DIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 87 ~~~reILil~gS~~t~--------d~g----~i~~ti~~akk~~IrV~vI~Lga 128 (324)
.+.++||+++++-..- ..| .+......+++.|+.|++++..+
T Consensus 47 ~~~kkiL~v~t~~~~~~~~~g~~~~tG~~~~E~~~P~~~L~~AG~eVdiAS~~G 100 (287)
T PRK04155 47 RGGKKILMIAADERYLPMDNGKLFSTGNHPVETLLPMYHLHKAGFEFDVATLSG 100 (287)
T ss_pred CCCCeEEEEEcCcccccCCCCCcCCCCccHHHHHHHHHHHHHCCCEEEEEecCC
Confidence 4567899999855321 122 23345889999999999999964
No 425
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=24.83 E-value=1.7e+02 Score=21.33 Aligned_cols=33 Identities=21% Similarity=0.278 Sum_probs=22.8
Q ss_pred ceEEEEEe-CCCCCCcccHHHHHHHHHhcCcEEEEEE
Q 020564 90 REVLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIG 125 (324)
Q Consensus 90 reILil~g-S~~t~d~g~i~~ti~~akk~~IrV~vI~ 125 (324)
+-++|+++ +.. ..++.++++.+++.|+++-+|.
T Consensus 48 ~d~~i~iS~sg~---t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 48 GDVVIALSYSGR---TEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred CCEEEEEECCCC---CHHHHHHHHHHHHcCCeEEEEe
Confidence 34555555 332 3467789999999999876665
No 426
>PRK03868 glucose-6-phosphate isomerase; Provisional
Probab=24.81 E-value=7.1e+02 Score=25.10 Aligned_cols=30 Identities=13% Similarity=0.297 Sum_probs=17.1
Q ss_pred CcHHHHHHHHHHHHHHHHhcCCcCCceEEEEee
Q 020564 5 PSRMAVVAKQVEAFVREFFDQNPLSQIGLVTVK 37 (324)
Q Consensus 5 P~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~ 37 (324)
|.+....++.+.+++.+.. ..+.|-+|.+.
T Consensus 38 p~~~~~~i~e~~~~i~~~~---~~~~VV~iGIG 67 (410)
T PRK03868 38 PDQSTSLIEESLKFVKDKE---SIKNIVVIGIG 67 (410)
T ss_pred hhhhhhhHHHHHHHHHhhC---CCCEEEEEecC
Confidence 4444444445555665532 56778888873
No 427
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=24.69 E-value=35 Score=27.05 Aligned_cols=26 Identities=27% Similarity=0.570 Sum_probs=20.3
Q ss_pred EcCCCCcccc-----cCCCCCCCCCceecCc
Q 020564 205 TCPRCKARVC-----ELPTDCRICGLQLVSS 230 (324)
Q Consensus 205 ~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~ 230 (324)
.||.|..+.- ..++.|..||.+|.-+
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 428
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=24.68 E-value=2.1e+02 Score=26.23 Aligned_cols=42 Identities=26% Similarity=0.412 Sum_probs=32.9
Q ss_pred CcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCee
Q 020564 103 DPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSY 144 (324)
Q Consensus 103 d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y 144 (324)
.+.++.+.++.+|+.+|++=+.--.....+.+.+++.||...
T Consensus 184 s~~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~v 225 (256)
T PF01297_consen 184 SPKDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKV 225 (256)
T ss_dssp -HHHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EE
T ss_pred CHHHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcE
Confidence 455788999999999999877777667789999999999876
No 429
>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=24.65 E-value=2e+02 Score=27.75 Aligned_cols=31 Identities=3% Similarity=0.176 Sum_probs=14.3
Q ss_pred HHHHHHHhcCcEEEEEEccchHHHHHHHHHh
Q 020564 109 ETIQKCKESKIRCSVIGLSAEMFICKHLCQD 139 (324)
Q Consensus 109 ~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~ 139 (324)
+..+++-|.+|.||++-=...+...-++|+.
T Consensus 165 DLleAa~kR~VpVYiLLD~~~~~~Fl~Mc~~ 195 (284)
T PF07894_consen 165 DLLEAANKRGVPVYILLDEQNLPHFLEMCEK 195 (284)
T ss_pred HHHHHHHhcCCcEEEEechhcChHHHHHHHH
Confidence 4555555556666654332333333333433
No 430
>COG0864 NikR Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]
Probab=24.65 E-value=1.2e+02 Score=25.96 Aligned_cols=34 Identities=18% Similarity=0.359 Sum_probs=28.9
Q ss_pred CCcHHHHHHHHHHHHHHHHhcCCcC--CceEEEEee
Q 020564 4 RPSRMAVVAKQVEAFVREFFDQNPL--SQIGLVTVK 37 (324)
Q Consensus 4 ~P~Rl~~~~~~l~~Fv~~~f~qNP~--sqlGiI~~~ 37 (324)
.++|=++..++++.|+.++=..+.. .+.|+|++-
T Consensus 28 ~~sRSE~IrdAir~yl~e~~~~~~~~~~~~G~i~vv 63 (136)
T COG0864 28 YSSRSELIRDALREYLEEYRWLEDIEGERAGVITVV 63 (136)
T ss_pred CCcHHHHHHHHHHHHHHHhhhhccccceeEEEEEEE
Confidence 4799999999999999998777776 578888873
No 431
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=24.58 E-value=34 Score=28.00 Aligned_cols=24 Identities=42% Similarity=1.104 Sum_probs=17.7
Q ss_pred eeEcCCCCccc---ccC-------CCCCCCCCce
Q 020564 203 GYTCPRCKARV---CEL-------PTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~---C~l-------P~~C~~C~l~ 226 (324)
-|.||+|++-- |.+ -..|.+||+.
T Consensus 22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls 55 (104)
T COG4888 22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLS 55 (104)
T ss_pred eEecCccCCeeeeEEEEEecCceeEEEcccCcce
Confidence 79999998742 322 2589999986
No 432
>PRK12496 hypothetical protein; Provisional
Probab=24.58 E-value=40 Score=29.63 Aligned_cols=25 Identities=20% Similarity=0.458 Sum_probs=15.9
Q ss_pred CccccccccccCCCCCCCceeeCCCCCcc
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKH 291 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~ 291 (324)
..|.||.+.|+... ..-.||.|++.
T Consensus 128 ~~C~gC~~~~~~~~----~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPEDY----PDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCCC----CCCcCCCCCCh
Confidence 35999988886321 11248888864
No 433
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.55 E-value=72 Score=23.29 Aligned_cols=31 Identities=23% Similarity=0.552 Sum_probs=21.4
Q ss_pred CCCCccccccccccCCCCCCCceeeCCCCCccc
Q 020564 260 RSRSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 260 ~~~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
..+..|..|....... .....|.|+.|+..+
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 3677999998666541 122468999998763
No 434
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=24.46 E-value=2.8e+02 Score=20.01 Aligned_cols=44 Identities=14% Similarity=0.215 Sum_probs=26.8
Q ss_pred HHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCH
Q 020564 107 IMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDE 150 (324)
Q Consensus 107 i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~ 150 (324)
.++.+..+++.|++|.+.-......---+.|+..|-.|.+..++
T Consensus 17 a~~i~~~Lr~~g~~v~~~~~~~~~~~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 17 ALELAEQLRDAGIKAEIDYGGRKLKKQFKYADRSGARFAVILGE 60 (91)
T ss_pred HHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHcCCCEEEEEcH
Confidence 44566777788888877554434433344566666666666554
No 435
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=24.37 E-value=41 Score=32.00 Aligned_cols=90 Identities=29% Similarity=0.634 Sum_probs=58.4
Q ss_pred cccee-ecCCccc--cCeeEcCCCCcccccCC------------CCCCCCCceecCchhHHhhhc-ccCCCCCCcccCcc
Q 020564 189 ISICS-CHKEVKV--GVGYTCPRCKARVCELP------------TDCRICGLQLVSSPHLARSYH-HLFPIAPFDEVTPL 252 (324)
Q Consensus 189 ~a~C~-CH~~~~~--~~Gy~Cp~C~s~~C~lP------------~~C~~C~l~Lvs~~hLarsyh-hl~p~~~f~~~~~~ 252 (324)
+++|. ||.+.+. .+-|+|-.|...+=+=| -.|.+||..|-|. ||..- -||=|+=++..
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 56664 5654322 23799999999877643 3799999999886 44443 56666666643
Q ss_pred CCCCCCCCCCCccccccccccCCC----CC--CCceeeCCCCCccc
Q 020564 253 CLNDPRNRSRSTCFGCQQSLLSSG----NK--PGLYVACPKCKKHF 292 (324)
Q Consensus 253 ~~~~~~~~~~~~C~~C~~~~~~~~----~~--~~~~~~C~~C~~~f 292 (324)
+-..|++|.+++.... ++ -.-.|+|.+|.+.|
T Consensus 194 --------gipiCgaC~rpIeervi~amgKhWHveHFvCa~CekPF 231 (332)
T KOG2272|consen 194 --------GIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPF 231 (332)
T ss_pred --------CCcccccccCchHHHHHHHhccccchhheeehhcCCcc
Confidence 2346999988875321 00 01248899998876
No 436
>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=24.36 E-value=62 Score=19.92 Aligned_cols=24 Identities=25% Similarity=0.693 Sum_probs=17.8
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~ 226 (324)
.+.|+.|.-.-=.-...|..|+..
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 688999998888888899999863
No 437
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=24.35 E-value=34 Score=21.21 Aligned_cols=13 Identities=38% Similarity=0.976 Sum_probs=6.1
Q ss_pred CCCCCCceecCch
Q 020564 219 DCRICGLQLVSSP 231 (324)
Q Consensus 219 ~C~~C~l~Lvs~~ 231 (324)
.||+||..|+-.+
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4788888876443
No 438
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=24.15 E-value=2.6e+02 Score=29.16 Aligned_cols=91 Identities=14% Similarity=0.054 Sum_probs=58.1
Q ss_pred CcchHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccchH-HH-----------
Q 020564 66 GDSSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEM-FI----------- 132 (324)
Q Consensus 66 G~~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae~-~i----------- 132 (324)
|--+|+.||-+|+.+=...| .|++++|.|...- .- .+. ..+.++++.|+++-+|-+.... .+
T Consensus 428 ~~gsmG~~lp~aiGa~la~p---~~~vv~i~GDG~f-~~-~~~e~~l~ta~~~~l~~~ivv~NN~~yg~~~~~~~~~~~~ 502 (569)
T PRK08327 428 SAGGLGWALGAALGAKLATP---DRLVIATVGDGSF-IF-GVPEAAHWVAERYGLPVLVVVFNNGGWLAVKEAVLEVYPE 502 (569)
T ss_pred CCCCCCcchHHHHHHhhcCC---CCeEEEEecCcce-ee-cCcHHHHHHHHHhCCCEEEEEEeCcccccchhHHhhhCcc
Confidence 33567777777766433333 4778988883321 11 222 3477888899999888886421 11
Q ss_pred -------------------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 133 -------------------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 133 -------------------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+.++|+.-|+.+..+.+.++|++.+.+..
T Consensus 503 ~~~~~~~~~~~~~~~~~~d~~~la~a~G~~~~~v~~~~el~~al~~a~ 550 (569)
T PRK08327 503 GYAARKGTFPGTDFDPRPDFAKIAEAFGGYGERVEDPEELKGALRRAL 550 (569)
T ss_pred cccccccccccccCCCCCCHHHHHHhCCCCceEeCCHHHHHHHHHHHH
Confidence 34677777777777778888877776654
No 439
>COG0725 ModA ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=24.15 E-value=4.4e+02 Score=24.75 Aligned_cols=75 Identities=8% Similarity=0.164 Sum_probs=52.1
Q ss_pred CCceEEEEEe-CCCCCCcccHHHHHHHHHhc-CcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCCCCc
Q 020564 88 GHREVLILYS-ALSTCDPGDIMETIQKCKES-KIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAPPPP 165 (324)
Q Consensus 88 ~~reILil~g-S~~t~d~g~i~~ti~~akk~-~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~pp~ 165 (324)
...+|.|+-+ |+. +| +.+.++..++. |++|. +.+|+-..++|||.+-..+.-++.-|..++.++++.=...+.
T Consensus 28 ~~~~i~VfAAaSL~--~~--l~~i~~~F~~~~~~~V~-~~f~gS~~l~~qIe~Ga~~D~fiSa~~~~~~~l~~~g~~~~~ 102 (258)
T COG0725 28 EAATITVFAAASLT--DA--LEEIAKQFEKETGVKVE-VEFGGSGALARQIEQGAPADLFISADDAYMDKLEDKGLIYAD 102 (258)
T ss_pred cCceEEEEEehhhH--HH--HHHHHHHHHHHHCCeEE-EEecchHHHHHHHHcCCCcCEEEECCHHHHHHHHhcCCccCC
Confidence 3446777764 442 33 23444444443 56554 588888999999998888888999999999999988655554
Q ss_pred cc
Q 020564 166 AI 167 (324)
Q Consensus 166 ~~ 167 (324)
++
T Consensus 103 ~~ 104 (258)
T COG0725 103 SR 104 (258)
T ss_pred ce
Confidence 44
No 440
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=24.07 E-value=35 Score=38.99 Aligned_cols=40 Identities=38% Similarity=0.755 Sum_probs=26.9
Q ss_pred eeEcCCCCcccc----------cCC-CCCCCCCceecCchhHHhhhcccCCCCCCccc
Q 020564 203 GYTCPRCKARVC----------ELP-TDCRICGLQLVSSPHLARSYHHLFPIAPFDEV 249 (324)
Q Consensus 203 Gy~Cp~C~s~~C----------~lP-~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~ 249 (324)
.|+||.|.---+ +|| -.||.||..|. ---|-.|-..|--.
T Consensus 914 HY~Cp~Cky~Ef~~d~svgsGfDLpdK~CPkCg~pl~-------kDG~dIPFETFlGF 964 (1444)
T COG2176 914 HYLCPECKYSEFIDDGSVGSGFDLPDKDCPKCGTPLK-------KDGHDIPFETFLGF 964 (1444)
T ss_pred cccCCCCceeeeecCCCcCCCCCCCCCCCCcCCCccc-------cCCCCCChhhhcCC
Confidence 899999963222 244 38999999863 33467777777543
No 441
>PF14949 ARF7EP_C: ARF7 effector protein C-terminus
Probab=23.99 E-value=43 Score=27.46 Aligned_cols=19 Identities=42% Similarity=1.114 Sum_probs=15.8
Q ss_pred CccccccccccCCCCCCCceeeCCCCCccccc
Q 020564 263 STCFGCQQSLLSSGNKPGLYVACPKCKKHFCL 294 (324)
Q Consensus 263 ~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~ 294 (324)
..|-||- |-||+|++..|.
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 889999999995
No 442
>cd06442 DPM1_like DPM1_like represents putative enzymes similar to eukaryotic DPM1. Proteins similar to eukaryotic DPM1, including enzymes from bacteria and archaea; DPM1 is the catalytic subunit of eukaryotic dolichol-phosphate mannose (DPM) synthase. DPM synthase is required for synthesis of the glycosylphosphatidylinositol (GPI) anchor, N-glycan precursor, protein O-mannose, and C-mannose. In higher eukaryotes,the enzyme has three subunits, DPM1, DPM2 and DPM3. DPM is synthesized from dolichol phosphate and GDP-Man on the cytosolic surface of the ER membrane by DPM synthase and then is flipped onto the luminal side and used as a donor substrate. In lower eukaryotes, such as Saccharomyces cerevisiae and Trypanosoma brucei, DPM synthase consists of a single component (Dpm1p and TbDpm1, respectively) that possesses one predicted transmembrane region near the C terminus for anchoring to the ER membrane. In contrast, the Dpm1 homologues of higher eukaryotes, namely fission yeast, fungi,
Probab=23.99 E-value=4.6e+02 Score=22.43 Aligned_cols=91 Identities=13% Similarity=0.098 Sum_probs=50.7
Q ss_pred HHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhhh------cCCCCcchHHHHHHHHHHHhhCCCCCCC
Q 020564 16 EAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMGK------LGCSGDSSLQNALDLVQGLLSQIPSYGH 89 (324)
Q Consensus 16 ~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~~------~~~~G~~sL~naL~~A~~~L~~~p~~~~ 89 (324)
...+++...|.....+-||+..||. |-+..++++.+.+. ...+.+...++|+..++... +
T Consensus 13 ~~~l~sl~~q~~~~~~eiiiVDd~S-------~d~t~~~~~~~~~~~~~i~~~~~~~n~G~~~a~n~g~~~a-------~ 78 (224)
T cd06442 13 PELIERLDAALKGIDYEIIVVDDNS-------PDGTAEIVRELAKEYPRVRLIVRPGKRGLGSAYIEGFKAA-------R 78 (224)
T ss_pred HHHHHHHHHhhcCCCeEEEEEeCCC-------CCChHHHHHHHHHhCCceEEEecCCCCChHHHHHHHHHHc-------C
Confidence 3334444334433457777776763 22334455555321 11223334566666665442 2
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcE
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIR 120 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~Ir 120 (324)
.++|+++-++...+|+.+.+.++.+.+.+..
T Consensus 79 gd~i~~lD~D~~~~~~~l~~l~~~~~~~~~~ 109 (224)
T cd06442 79 GDVIVVMDADLSHPPEYIPELLEAQLEGGAD 109 (224)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhcCCCC
Confidence 3788888877777888888888876666553
No 443
>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=23.95 E-value=2.9e+02 Score=26.29 Aligned_cols=16 Identities=19% Similarity=0.177 Sum_probs=8.5
Q ss_pred chHHHHHHHHHHHhhC
Q 020564 68 SSLQNALDLVQGLLSQ 83 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~ 83 (324)
....+|+++|...++.
T Consensus 17 ~~~~~g~~la~~~iN~ 32 (348)
T cd06355 17 TTLKDAELLAIEEINA 32 (348)
T ss_pred hhHHHHHHHHHHHHHh
Confidence 3444555555555554
No 444
>PRK11823 DNA repair protein RadA; Provisional
Probab=23.88 E-value=45 Score=33.91 Aligned_cols=24 Identities=29% Similarity=0.667 Sum_probs=22.4
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~ 226 (324)
.|+|..|+...=+.--.||.|+.+
T Consensus 7 ~y~C~~Cg~~~~~~~g~Cp~C~~w 30 (446)
T PRK11823 7 AYVCQECGAESPKWLGRCPECGAW 30 (446)
T ss_pred eEECCcCCCCCcccCeeCcCCCCc
Confidence 799999999999999999999975
No 445
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=23.85 E-value=2.4e+02 Score=23.72 Aligned_cols=52 Identities=17% Similarity=0.289 Sum_probs=33.5
Q ss_pred eEEEEEeCCCCCC----cc----cHHHHHHHHHhcCcEEEEEEccc----h-------------HHHHHHHHHhhCC
Q 020564 91 EVLILYSALSTCD----PG----DIMETIQKCKESKIRCSVIGLSA----E-------------MFICKHLCQDTGG 142 (324)
Q Consensus 91 eILil~gS~~t~d----~g----~i~~ti~~akk~~IrV~vI~Lga----e-------------~~iLk~ia~~TgG 142 (324)
-|+|.+|.++... +. ++.+.++.++..+.+|-++++.. + ...++++|+..|-
T Consensus 70 ~vii~~G~ND~~~~~~~~~~~~~~~~~~i~~i~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~v 146 (185)
T cd01832 70 LVTLLAGGNDILRPGTDPDTYRADLEEAVRRLRAAGARVVVFTIPDPAVLEPFRRRVRARLAAYNAVIRAVAARYGA 146 (185)
T ss_pred EEEEeccccccccCCCCHHHHHHHHHHHHHHHHhCCCEEEEecCCCccccchhHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4555567665532 22 34467888888899999988732 1 2568888887653
No 446
>PRK09259 putative oxalyl-CoA decarboxylase; Validated
Probab=23.85 E-value=3.5e+02 Score=28.13 Aligned_cols=84 Identities=6% Similarity=0.043 Sum_probs=56.4
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchHH---------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEMF--------------- 131 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~~--------------- 131 (324)
+++-||-.|+.+=-. + .|+|++|.|.. +-.| ..+.++.+.+++|-+|-+.....
T Consensus 425 smG~glpaaiGa~la-~---~~~vv~i~GDG-----~f~m~~~EL~Ta~r~~lpi~~vV~NN~~~~~~~~~~~~~~~~~~ 495 (569)
T PRK09259 425 VMGIGMGYAIAAAVE-T---GKPVVAIEGDS-----AFGFSGMEVETICRYNLPVTVVIFNNGGIYRGDDVNLSGAGDPS 495 (569)
T ss_pred cccccHHHHHHHHhc-C---CCcEEEEecCc-----cccccHHHHHHHHHcCCCEEEEEEeChhHHHHHHHHhhcCCCcc
Confidence 455555555443222 2 46788888833 2222 34778899999999999874310
Q ss_pred -H-------HHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -I-------CKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -i-------Lk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
+ +.++|+..|+.+.++.+.+.|++.+.+..
T Consensus 496 ~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~a~ 533 (569)
T PRK09259 496 PTVLVHHARYDKMMEAFGGVGYNVTTPDELRHALTEAI 533 (569)
T ss_pred ccccCCCCCHHHHHHHCCCeEEEECCHHHHHHHHHHHH
Confidence 0 24577778888889999999998887775
No 447
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=23.84 E-value=60 Score=23.76 Aligned_cols=45 Identities=27% Similarity=0.597 Sum_probs=30.8
Q ss_pred cceeecCCccccC--eeEcCCCCcccccCC---CCCCCCCceecCchhHH
Q 020564 190 SICSCHKEVKVGV--GYTCPRCKARVCELP---TDCRICGLQLVSSPHLA 234 (324)
Q Consensus 190 a~C~CH~~~~~~~--Gy~Cp~C~s~~C~lP---~~C~~C~l~Lvs~~hLa 234 (324)
..|.|..+.=... -=.|-.|+-++|+.- ..|+-||..|+++-...
T Consensus 3 ~~C~C~a~~H~L~~~~~NCl~CGkIiC~~Eg~~~pC~fCg~~l~~~~~~~ 52 (57)
T PF06221_consen 3 RKCNCQARRHPLFPYAPNCLNCGKIICEQEGPLGPCPFCGTPLLSSEERQ 52 (57)
T ss_pred cccccccccCCCccccccccccChhhcccccCcCcCCCCCCcccCHHHHH
Confidence 4577775431110 336999999999743 68999998888765543
No 448
>PHA00626 hypothetical protein
Probab=23.83 E-value=43 Score=24.57 Aligned_cols=15 Identities=13% Similarity=0.102 Sum_probs=11.7
Q ss_pred CceeeCCCCCccccc
Q 020564 280 GLYVACPKCKKHFCL 294 (324)
Q Consensus 280 ~~~~~C~~C~~~fC~ 294 (324)
+.+|.|++|+-.|=.
T Consensus 21 snrYkCkdCGY~ft~ 35 (59)
T PHA00626 21 SDDYVCCDCGYNDSK 35 (59)
T ss_pred CcceEcCCCCCeech
Confidence 357999999987744
No 449
>PRK05580 primosome assembly protein PriA; Validated
Probab=23.77 E-value=72 Score=34.30 Aligned_cols=63 Identities=21% Similarity=0.423 Sum_probs=38.2
Q ss_pred ccceeecCCccccCeeEcCCCCcccccCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCccccc
Q 020564 189 ISICSCHKEVKVGVGYTCPRCKARVCELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRSTCFGC 268 (324)
Q Consensus 189 ~a~C~CH~~~~~~~Gy~Cp~C~s~~C~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~C~~C 268 (324)
+++-+..++.-.. ...|..|+.. ..|+-|+..| .||.- . ....|.-|
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 3444444432222 4468888765 7899999987 34421 0 23369999
Q ss_pred cccccCCCCCCCceeeCCCCCcc
Q 020564 269 QQSLLSSGNKPGLYVACPKCKKH 291 (324)
Q Consensus 269 ~~~~~~~~~~~~~~~~C~~C~~~ 291 (324)
....+. .++||.|++.
T Consensus 415 g~~~~~-------~~~Cp~Cg~~ 430 (679)
T PRK05580 415 GYQEPI-------PKACPECGST 430 (679)
T ss_pred cCCCCC-------CCCCCCCcCC
Confidence 754432 3579999775
No 450
>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=23.72 E-value=8.2e+02 Score=26.72 Aligned_cols=78 Identities=19% Similarity=0.149 Sum_probs=54.3
Q ss_pred cHHHHHHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCC---CCHHHHHHHHhhhcCC------CCcchHHHHHHH
Q 020564 6 SRMAVVAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLG---GSPESHIKALMGKLGC------SGDSSLQNALDL 76 (324)
Q Consensus 6 ~Rl~~~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt---~n~~~~~~~L~~~~~~------~G~~sL~naL~~ 76 (324)
+=-+++.+++.+|-+=-+|.=|..++--++..|-.|..+..-+ .+...+++.|..+..+ .++.|+-.||.+
T Consensus 44 SLWTc~vEa~~EYcRIV~DlFP~~k~IrfivsD~~a~~lntW~~~~Qsl~~L~~~la~vG~P~~~~~~~~d~svi~GL~~ 123 (695)
T PF10221_consen 44 SLWTCAVEASIEYCRIVWDLFPDGKLIRFIVSDTAAHILNTWSTSQQSLSHLMNALATVGPPPRSDPENSDYSVIHGLRM 123 (695)
T ss_pred hHHHHHHHHHHHHHHHHhhccCCCceEEEEEEccccccccCcChhhccHHHHHHHHHhcCCCCCCCcccccchhHHHHHH
Confidence 4456778888888877777777777644455578888877654 3556677777765433 134478899999
Q ss_pred HHHHhhC
Q 020564 77 VQGLLSQ 83 (324)
Q Consensus 77 A~~~L~~ 83 (324)
|+.+|..
T Consensus 124 AIEaL~e 130 (695)
T PF10221_consen 124 AIEALAE 130 (695)
T ss_pred HHHHHhc
Confidence 9998853
No 451
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=23.70 E-value=1.9e+02 Score=25.22 Aligned_cols=75 Identities=17% Similarity=0.255 Sum_probs=44.6
Q ss_pred cccHH-HHHHHHHhcCcEEEEEEccchH--HHHHHHHHhhCC-----eeEEeCCHHHHHHHHHhcCCCCccchhhhhhce
Q 020564 104 PGDIM-ETIQKCKESKIRCSVIGLSAEM--FICKHLCQDTGG-----SYSVALDESHFKELIMEHAPPPPAIAEFAIANL 175 (324)
Q Consensus 104 ~g~i~-~ti~~akk~~IrV~vI~Lgae~--~iLk~ia~~TgG-----~Y~va~d~~hl~~lL~~~~~pp~~~~~~~~~~L 175 (324)
..|++ ..++.+.+.+.+|+.+|=..++ .+.+.+.+...| .|.-..+++...++...+..-.| .--+
T Consensus 33 g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~p------div~ 106 (172)
T PF03808_consen 33 GSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGP------DIVF 106 (172)
T ss_pred HHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCC------CEEE
Confidence 44666 5688888888888888776553 334445444432 23222366667777776663211 2356
Q ss_pred eeecCCCCC
Q 020564 176 IKMGFPQRA 184 (324)
Q Consensus 176 i~mGfP~~~ 184 (324)
+-||.|.+.
T Consensus 107 vglG~PkQE 115 (172)
T PF03808_consen 107 VGLGAPKQE 115 (172)
T ss_pred EECCCCHHH
Confidence 777888763
No 452
>PF05705 DUF829: Eukaryotic protein of unknown function (DUF829); InterPro: IPR008547 This signature identifies Transmembrane protein 53, that have no known function but are predicted to be integral membrane proteins.
Probab=23.68 E-value=2.6e+02 Score=25.18 Aligned_cols=37 Identities=19% Similarity=0.135 Sum_probs=30.3
Q ss_pred EEEEEe-CCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 92 VLILYS-ALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 92 ILil~g-S~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
-+.|++ ++.-++..++.+.++.+++.|..|...-+..
T Consensus 181 ~lylYS~~D~l~~~~~ve~~~~~~~~~G~~V~~~~f~~ 218 (240)
T PF05705_consen 181 RLYLYSKADPLIPWRDVEEHAEEARRKGWDVRAEKFED 218 (240)
T ss_pred eEEecCCCCcCcCHHHHHHHHHHHHHcCCeEEEecCCC
Confidence 577776 4445688899999999999999999988853
No 453
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=23.51 E-value=26 Score=34.59 Aligned_cols=30 Identities=23% Similarity=0.490 Sum_probs=21.6
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCccc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHF 292 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~f 292 (324)
.+.|..|.+.+.-.+ ..+.+|+||+|+..+
T Consensus 246 ~TAC~rC~t~y~le~-A~~~~wrCpkCGg~i 275 (403)
T COG1379 246 LTACSRCYTRYSLEE-AKSLRWRCPKCGGKI 275 (403)
T ss_pred HHHHHHhhhccCcch-hhhhcccCcccccch
Confidence 457999988875433 345679999998743
No 454
>PF01096 TFIIS_C: Transcription factor S-II (TFIIS); InterPro: IPR001222 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 IIs (TFIIS). In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (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 eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS []. During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such backtracking involves extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS, which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites []. TFIIS extends from the polymerase surface via a pore to the internal active site. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. TFIIS is a protein of about 300 amino acids. It contains three regions: a variable N-terminal domain not required for TFIIS activity; a conserved central domain required for Pol II binding; and a conserved C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a zinc ribbon [] characterised by a three-stranded antiparallel beta-sheet and two beta-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a beta hairpin protrudes from the zinc finger and complements the pol II active site []. Some viral proteins also contain the TFIIS zinc ribbon C-terminal domain. The Vaccinia virus protein, unlike its eukaryotic homologue, is an integral RNA polymerase subunit rather than a readily separable transcription factor []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0006351 transcription, DNA-dependent; PDB: 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I 3I4M_I ....
Probab=23.45 E-value=45 Score=22.19 Aligned_cols=15 Identities=20% Similarity=0.631 Sum_probs=11.2
Q ss_pred CCCceeeCCCCCccc
Q 020564 278 KPGLYVACPKCKKHF 292 (324)
Q Consensus 278 ~~~~~~~C~~C~~~f 292 (324)
..+..|.|.+|++.|
T Consensus 24 ~~T~fy~C~~C~~~w 38 (39)
T PF01096_consen 24 PMTLFYVCCNCGHRW 38 (39)
T ss_dssp SSEEEEEESSSTEEE
T ss_pred CCeEEEEeCCCCCee
Confidence 345679999998764
No 455
>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=23.41 E-value=48 Score=27.44 Aligned_cols=23 Identities=30% Similarity=0.886 Sum_probs=14.5
Q ss_pred CCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 285 CPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 285 C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
||+|.+.|-.+ ...+..||-|..
T Consensus 5 CP~C~seytY~-----dg~~~iCpeC~~ 27 (109)
T TIGR00686 5 CPKCNSEYTYH-----DGTQLICPSCLY 27 (109)
T ss_pred CCcCCCcceEe-----cCCeeECccccc
Confidence 77777666433 555667777764
No 456
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=23.31 E-value=2.7e+02 Score=27.01 Aligned_cols=55 Identities=18% Similarity=0.134 Sum_probs=40.7
Q ss_pred cHHHHHHHHHhcCcEEEEEEccc----hHHHHHHHHHhhCCeeEEeCCH------HHHHHHHHhc
Q 020564 106 DIMETIQKCKESKIRCSVIGLSA----EMFICKHLCQDTGGSYSVALDE------SHFKELIMEH 160 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lga----e~~iLk~ia~~TgG~Y~va~d~------~hl~~lL~~~ 160 (324)
...++++.+++++|.+.+|.+-. +...+.+..+.|+-...+-.+. +.+.+++.+.
T Consensus 215 ~a~eAa~~L~~~Gi~v~vi~~~~l~Pld~~~i~~~~~~~~~vv~vEe~~~~gGlg~~la~~l~~~ 279 (327)
T PRK09212 215 LALEAAELLEKEGISVEVIDLRTLRPLDTETIIESVKKTNRLVVVEEGWPFAGVGAEIAALIMKE 279 (327)
T ss_pred HHHHHHHHHHhcCCcEEEEEEecCCCCCHHHHHHHHHhCCeEEEEcCCCCCCCHHHHHHHHHHHh
Confidence 45578888999999999999863 3457888888888777666555 4566666654
No 457
>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=23.24 E-value=5.4e+02 Score=23.98 Aligned_cols=15 Identities=20% Similarity=0.306 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHhhC
Q 020564 69 SLQNALDLVQGLLSQ 83 (324)
Q Consensus 69 sL~naL~~A~~~L~~ 83 (324)
...+|+++|...++.
T Consensus 18 ~~~~g~~~a~~~iN~ 32 (340)
T cd06349 18 QWKRAFDLALDEINA 32 (340)
T ss_pred cHHHHHHHHHHHHHh
Confidence 344555555555554
No 458
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=23.21 E-value=2.6e+02 Score=24.61 Aligned_cols=70 Identities=20% Similarity=0.157 Sum_probs=39.2
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch------HHHHHHHHHhhCC-ee-EEeCCHHHHHHHHHhcCCC
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE------MFICKHLCQDTGG-SY-SVALDESHFKELIMEHAPP 163 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae------~~iLk~ia~~TgG-~Y-~va~d~~hl~~lL~~~~~p 163 (324)
|.|++||.+ |-.-..++.+.|++.||..++=-.++. ..+.++..+ .|- .+ -++--+.||--.+...++-
T Consensus 1 V~IimGS~S--D~~~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~-~g~~viIa~AG~aa~Lpgvva~~t~~ 77 (156)
T TIGR01162 1 VGIIMGSDS--DLPTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEE-RGIKVIIAGAGGAAHLPGMVAALTPL 77 (156)
T ss_pred CEEEECcHh--hHHHHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHH-CCCeEEEEeCCccchhHHHHHhccCC
Confidence 456777553 333333678888888888776555553 123333222 232 22 3344466777777776654
Q ss_pred C
Q 020564 164 P 164 (324)
Q Consensus 164 p 164 (324)
|
T Consensus 78 P 78 (156)
T TIGR01162 78 P 78 (156)
T ss_pred C
Confidence 4
No 459
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=23.20 E-value=4.4e+02 Score=27.48 Aligned_cols=88 Identities=14% Similarity=0.106 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH----H------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM----F------------ 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~----~------------ 131 (324)
.+++.+|-.|+.+--..| .|+|++|.|...- -..+ ..+.++++.+++|-+|-+.... .
T Consensus 422 gsmG~~lp~aiGa~lA~p---~~~vv~i~GDG~f--~~~~-~el~Ta~~~~lpi~~vV~NN~~~~~~~~~q~~~~~~~~~ 495 (570)
T PRK06725 422 GTMGFGFPAAIGAQLAKE---EELVICIAGDASF--QMNI-QELQTIAENNIPVKVFIINNKFLGMVRQWQEMFYENRLS 495 (570)
T ss_pred ccccchhhHHHhhHhhcC---CCeEEEEEecchh--hccH-HHHHHHHHhCCCeEEEEEECCccHHHHHHHHHhcCCccc
Confidence 567777777776543333 4678888883322 1122 4577889999999999886431 1
Q ss_pred -------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+-++++.-|+...++.+.+.|++.+....
T Consensus 496 ~~~~~~~d~~~~a~a~G~~~~~v~~~~~l~~al~~a~ 532 (570)
T PRK06725 496 ESKIGSPDFVKVAEAYGVKGLRATNSTEAKQVMLEAF 532 (570)
T ss_pred cCcCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 034567777788888888888988887765
No 460
>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=23.16 E-value=5e+02 Score=22.96 Aligned_cols=68 Identities=18% Similarity=0.098 Sum_probs=38.2
Q ss_pred ceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHH------HHHHHHHhcCCC
Q 020564 90 REVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDES------HFKELIMEHAPP 163 (324)
Q Consensus 90 reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~------hl~~lL~~~~~p 163 (324)
.||||+-. .++ | .|.+.+++.+++|....-.+-..-.....+...|.|...+|.+ .+.++...+..+
T Consensus 27 ~eiivvD~-gSt-D-----~t~~i~~~~~~~v~~~~~~g~~~~~n~~~~~a~~d~vl~lDaD~~~~~~~~~~l~~~~~~~ 99 (229)
T cd02511 27 DEIIVVDS-GST-D-----RTVEIAKEYGAKVYQRWWDGFGAQRNFALELATNDWVLSLDADERLTPELADEILALLATD 99 (229)
T ss_pred CEEEEEeC-CCC-c-----cHHHHHHHcCCEEEECCCCChHHHHHHHHHhCCCCEEEEEeCCcCcCHHHHHHHHHHHhCC
Confidence 37777643 111 2 3556677888887654222223445556666778898777754 344555544444
Q ss_pred C
Q 020564 164 P 164 (324)
Q Consensus 164 p 164 (324)
|
T Consensus 100 ~ 100 (229)
T cd02511 100 D 100 (229)
T ss_pred C
Confidence 4
No 461
>cd02018 TPP_PFOR Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; 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. PFORs can be homodimeric, heterodimeric, or heterotetrameric, depending on the organism. These enzymes are dependent on TPP and a divalent metal cation as cofactors.
Probab=23.15 E-value=3.4e+02 Score=24.99 Aligned_cols=93 Identities=14% Similarity=0.045 Sum_probs=58.7
Q ss_pred cchHHHHHHHHHHHhhC--CCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccchH---------H----
Q 020564 67 DSSLQNALDLVQGLLSQ--IPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAEM---------F---- 131 (324)
Q Consensus 67 ~~sL~naL~~A~~~L~~--~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae~---------~---- 131 (324)
.-+++-||-.|+.+-.. ......|.|+.|.|....-+ ..+... -.+..++++|-+|-+..+. .
T Consensus 63 ~g~mG~GlpaAiGA~~a~~~~~~p~~~Vv~i~GDG~~~~-~g~~~l-~ta~~~~l~i~ivVlNN~~yg~~~~q~~~~~~~ 140 (237)
T cd02018 63 ANAVASGLKRGLKARFPKDRELDKKKDVVVIGGDGATYD-IGFGAL-SHSLFRGEDITVIVLDNEVYSNTGGQRSGATPL 140 (237)
T ss_pred HHHHHHHHHHHHHhhcccccccCCCCcEEEEeCchHHHh-ccHHHH-HHHHHcCCCeEEEEECCccccCCCCCCCCCCcC
Confidence 36788888888876544 00112467888887331100 023333 3345589999999886431 0
Q ss_pred ----------------HHHHHHHhhCCeeEE---eCCHHHHHHHHHhcC
Q 020564 132 ----------------ICKHLCQDTGGSYSV---ALDESHFKELIMEHA 161 (324)
Q Consensus 132 ----------------iLk~ia~~TgG~Y~v---a~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|..|.. +.+.++|++.|.+.+
T Consensus 141 g~~~~~~~~~~~~~~~D~~~iA~a~G~~~~~~~~v~~~~~l~~al~~al 189 (237)
T cd02018 141 GADSKMAPAGKKEDKKDLVLIAATHGCVYVARLSPALKKHFLKVVKEAI 189 (237)
T ss_pred CCcccccCCCCcCCCCCHHHHHHHCCCCEEEEEccCCHHHHHHHHHHHH
Confidence 166788888888864 677888888887776
No 462
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=23.12 E-value=47 Score=25.86 Aligned_cols=21 Identities=33% Similarity=0.727 Sum_probs=13.2
Q ss_pred eEcCCCCcccccCC-----CCCCCCC
Q 020564 204 YTCPRCKARVCELP-----TDCRICG 224 (324)
Q Consensus 204 y~Cp~C~s~~C~lP-----~~C~~C~ 224 (324)
|.||-|+...=+-. -+|++|+
T Consensus 2 ~~CPCCg~~Tl~~~~~~~ydIC~VC~ 27 (78)
T PF14206_consen 2 YPCPCCGYYTLEERGEGTYDICPVCF 27 (78)
T ss_pred ccCCCCCcEEeccCCCcCceECCCCC
Confidence 56787777654322 2688875
No 463
>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=23.04 E-value=50 Score=22.87 Aligned_cols=27 Identities=22% Similarity=0.507 Sum_probs=18.4
Q ss_pred ccccccc-cccCCCCCCCceeeCCCCCcc-ccccc
Q 020564 264 TCFGCQQ-SLLSSGNKPGLYVACPKCKKH-FCLEC 296 (324)
Q Consensus 264 ~C~~C~~-~~~~~~~~~~~~~~C~~C~~~-fC~dC 296 (324)
.|-||.. ++. ..||+|..|... .|..|
T Consensus 2 ~CDgCg~~PI~------G~RykC~~C~dyDLC~~C 30 (43)
T cd02342 2 QCDGCGVLPIT------GPRYKSKVKEDYDLCTIC 30 (43)
T ss_pred CCCCCCCCccc------ccceEeCCCCCCccHHHH
Confidence 4888974 332 148999998765 66666
No 464
>PRK08993 2-deoxy-D-gluconate 3-dehydrogenase; Validated
Probab=22.94 E-value=5.5e+02 Score=22.92 Aligned_cols=17 Identities=12% Similarity=0.159 Sum_probs=12.9
Q ss_pred HHHHhcCcEEEEEEccc
Q 020564 112 QKCKESKIRCSVIGLSA 128 (324)
Q Consensus 112 ~~akk~~IrV~vI~Lga 128 (324)
..+.+.||+|.+|..|.
T Consensus 174 ~e~~~~gi~v~~v~pG~ 190 (253)
T PRK08993 174 NEWAKHNINVNAIAPGY 190 (253)
T ss_pred HHhhhhCeEEEEEeeCc
Confidence 34455799999999874
No 465
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=22.93 E-value=2.5e+02 Score=21.56 Aligned_cols=43 Identities=9% Similarity=0.196 Sum_probs=29.8
Q ss_pred CceEEEEEeCCCCCCcccH---HHHHHHHHhcCcEEEEEEccchHH
Q 020564 89 HREVLILYSALSTCDPGDI---METIQKCKESKIRCSVIGLSAEMF 131 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i---~~ti~~akk~~IrV~vI~Lgae~~ 131 (324)
.+.|++=++.....|..-+ ....+.+++.|+++.++++..++.
T Consensus 43 ~~~vvidls~v~~iDssgl~~L~~~~~~~~~~~~~~~l~~~~~~~~ 88 (108)
T TIGR00377 43 PRPIVLDLEDLEFMDSSGLGVLLGRYKQVRRVGGQLVLVSVSPRVA 88 (108)
T ss_pred CCeEEEECCCCeEEccccHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence 3456665655555555533 367888899999999999976653
No 466
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=22.86 E-value=60 Score=21.40 Aligned_cols=30 Identities=23% Similarity=0.521 Sum_probs=20.0
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhc
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 303 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~ 303 (324)
...|..|+..+... . ....|.+|.+.+|..
T Consensus 11 ~~~C~~C~~~i~~~--------~----~~~~C~~C~~~~H~~ 40 (49)
T smart00109 11 PTKCCVCRKSIWGS--------F----QGLRCSWCKVKCHKK 40 (49)
T ss_pred CCCccccccccCcC--------C----CCcCCCCCCchHHHH
Confidence 55899999887632 1 344566777777764
No 467
>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=22.80 E-value=60 Score=28.17 Aligned_cols=28 Identities=29% Similarity=0.631 Sum_probs=21.7
Q ss_pred ceeeCCCCCcccccccchhhhhcCCCCCCCCC
Q 020564 281 LYVACPKCKKHFCLECDIYIHESLHNCPGCES 312 (324)
Q Consensus 281 ~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~~ 312 (324)
+.|+|.+|++...++ . =+.|.-||.|..
T Consensus 111 G~l~C~~Cg~~~~~~-~---~~~l~~Cp~C~~ 138 (146)
T PF07295_consen 111 GTLVCENCGHEVELT-H---PERLPPCPKCGH 138 (146)
T ss_pred ceEecccCCCEEEec-C---CCcCCCCCCCCC
Confidence 468899999888876 2 367888999875
No 468
>TIGR03227 PhnS 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein. This ABC transporter periplasmic substrate binding protein component is found in a region of the salmonella typhimurium LT2 genome responsible for the catabolism of 2-aminoethylphosphonate via the phnWX pathway (GenProp0238). The protein contains a match to pfam01547 for the "Bacterial extracellular solute-binding protein" domain.
Probab=22.73 E-value=4.8e+02 Score=25.26 Aligned_cols=54 Identities=13% Similarity=0.223 Sum_probs=28.4
Q ss_pred EEEEeCCCCCC-cccHH-HHHHHH-HhcCcEEEEEEccchHHHHHHH-HHhhCCeeEEe
Q 020564 93 LILYSALSTCD-PGDIM-ETIQKC-KESKIRCSVIGLSAEMFICKHL-CQDTGGSYSVA 147 (324)
Q Consensus 93 Lil~gS~~t~d-~g~i~-~ti~~a-kk~~IrV~vI~Lgae~~iLk~i-a~~TgG~Y~va 147 (324)
|++++.....+ +.++. ..++.. ++.||+|.++..+... ++.++ ++..++.|-|.
T Consensus 38 L~Vy~~~g~~~~~~~~~~~i~~~Fe~~~Gi~V~~~~~~s~~-~~~rl~~e~~~~~~DVv 95 (367)
T TIGR03227 38 VLVYSADGLEDGDNSLYQDQFDAFEKAEGIKVNIVEAGGGE-VVERAAKEKGNPKADVI 95 (367)
T ss_pred EEEEecCcccccchHHHHHHHHHHHHHHCCEEEEEeCChHH-HHHHHHhhccCCCCCEE
Confidence 55554333322 22344 344444 4579999999886543 33333 33344667544
No 469
>PRK10773 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed
Probab=22.68 E-value=3.8e+02 Score=26.98 Aligned_cols=81 Identities=10% Similarity=0.197 Sum_probs=41.1
Q ss_pred HHHHHHHHHhhCCCCCCCceEEEEEeCCCC--CCcccHH-HHHHHHHhcCc-EEEEEEccchHHHHHHHHHhhC-CeeEE
Q 020564 72 NALDLVQGLLSQIPSYGHREVLILYSALST--CDPGDIM-ETIQKCKESKI-RCSVIGLSAEMFICKHLCQDTG-GSYSV 146 (324)
Q Consensus 72 naL~~A~~~L~~~p~~~~reILil~gS~~t--~d~g~i~-~ti~~akk~~I-rV~vI~Lgae~~iLk~ia~~Tg-G~Y~v 146 (324)
.+++.|+..|+..+ .|+|+|| |.... .....++ +..+.+.+.++ .|.++ |.....+.+ ..| |.|
T Consensus 339 ~s~~aaL~~l~~~~---~r~i~Vl-G~m~elG~~~~~~h~~~~~~~~~~~~d~v~~~--G~~~~~~~~---~~~~~~~-- 407 (453)
T PRK10773 339 GSMTAAAQVLAEMP---GYRVMVV-GDMAELGAESEACHRQVGEAAKAAGIDKVLSV--GKLSHAISE---ASGVGEH-- 407 (453)
T ss_pred HHHHHHHHHHHhCC---CCEEEEE-CChhhcchHHHHHHHHHHHHHHHcCCCEEEEE--ChhHHHHHH---hcCCCee--
Confidence 36677777776653 2455444 43221 1233455 56777776665 23333 433333333 222 333
Q ss_pred eCCHHHHHHHHHhcCCC
Q 020564 147 ALDESHFKELIMEHAPP 163 (324)
Q Consensus 147 a~d~~hl~~lL~~~~~p 163 (324)
-.|.+.+.+.|...+.|
T Consensus 408 ~~~~~~~~~~l~~~~~~ 424 (453)
T PRK10773 408 FADKTALIARLKALLAE 424 (453)
T ss_pred ECCHHHHHHHHHHhhcC
Confidence 25777777777766654
No 470
>PRK05778 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated
Probab=22.63 E-value=3.9e+02 Score=25.84 Aligned_cols=88 Identities=18% Similarity=0.170 Sum_probs=52.9
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccH-HHHHHHHHhcCcEEEEEEccchHH---------------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDI-METIQKCKESKIRCSVIGLSAEMF--------------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i-~~ti~~akk~~IrV~vI~Lgae~~--------------- 131 (324)
.+++.||..|+.+=...| .+.||+|.|..+. ..+ .+-+..+.+.|+.|-+|-+....+
T Consensus 70 g~mG~alpaAiGaklA~p---d~~VV~i~GDG~~---~~mg~~eL~tA~r~nl~i~vIV~NN~~YG~t~gQ~s~t~~~g~ 143 (301)
T PRK05778 70 TLHGRAIAFATGAKLANP---DLEVIVVGGDGDL---ASIGGGHFIHAGRRNIDITVIVENNGIYGLTKGQASPTTPEGS 143 (301)
T ss_pred hhhccHHHHHHHHHHHCC---CCcEEEEeCccHH---HhccHHHHHHHHHHCCCcEEEEEeCchhhcccCcccCCcCCCc
Confidence 345556655555533333 4678888883321 011 155677889999999999875431
Q ss_pred --------------HHHHHHHhhCCeeE---EeCCHHHHHHHHHhcC
Q 020564 132 --------------ICKHLCQDTGGSYS---VALDESHFKELIMEHA 161 (324)
Q Consensus 132 --------------iLk~ia~~TgG~Y~---va~d~~hl~~lL~~~~ 161 (324)
=+-++|+.-|..|. .+.+.++|++++.+..
T Consensus 144 ~~~~~~~g~~~~~~d~~~lA~a~G~~~va~~~v~~~~eL~~ai~~A~ 190 (301)
T PRK05778 144 KTKTAPYGNIEPPIDPCALALAAGATFVARSFAGDVKQLVELIKKAI 190 (301)
T ss_pred ccccccCCCcCCCCCHHHHHHHCCCCEEEEeccCCHHHHHHHHHHHH
Confidence 12345666666664 4667777777766554
No 471
>TIGR02361 dak_ATP dihydroxyacetone kinase, ATP-dependent. This family consists of examples of the form of dihydroxyacetone kinase (also called glycerone kinase) that uses ATP (2.7.1.29) as the phosphate donor, rather than a phosphoprotein as in E. coli. This form is composed of a single chain with separable domains homologous to the K and L subunits of the E. coli enzyme, and is found in yeasts and other eukaryotes and in some bacteria, including Citrobacter freundii. The member from tomato has been shown to phosphorylate dihydroxyacetone, 3,4-dihydroxy-2-butanone, and some other aldoses and ketoses (PubMed:11985845).
Probab=22.56 E-value=1.8e+02 Score=30.92 Aligned_cols=40 Identities=13% Similarity=0.099 Sum_probs=29.5
Q ss_pred CceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccch
Q 020564 89 HREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSAE 129 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lgae 129 (324)
.+-||+|+. +.+-|-.++.-+++.|+.+||+|.+|-++.+
T Consensus 95 ~~Gvl~iv~-NYtGD~lnF~~A~e~a~~eg~~v~~v~v~DD 134 (574)
T TIGR02361 95 EAGTLLIVK-NYTGDRLNFGLAAEKAKAEGYNVEMVIVGDD 134 (574)
T ss_pred CCcEEEEec-ccHHHhhhHHHHHHHHHhCCCcEEEEEeCCc
Confidence 356888887 4443444444589999999999999988743
No 472
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.55 E-value=2.2e+02 Score=21.34 Aligned_cols=30 Identities=7% Similarity=0.052 Sum_probs=22.8
Q ss_pred eCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 97 SALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 97 gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+.....++|-+.+.+..+.+.+|.||.|.-
T Consensus 8 ~~~~~~~~g~~~~IF~~La~~~I~vDmI~~ 37 (75)
T cd04935 8 TLGMWQQVGFLADVFAPFKKHGVSVDLVST 37 (75)
T ss_pred cCCCCCccCHHHHHHHHHHHcCCcEEEEEe
Confidence 333334566666899999999999999964
No 473
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-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 AK 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 BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=22.43 E-value=2e+02 Score=20.37 Aligned_cols=34 Identities=9% Similarity=0.080 Sum_probs=25.5
Q ss_pred EEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEE
Q 020564 92 VLILYSALSTCDPGDIMETIQKCKESKIRCSVIG 125 (324)
Q Consensus 92 ILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~ 125 (324)
+|-++|..-..++|-..+.+..+.+.||+|.-++
T Consensus 3 ~isvvG~~~~~~~gi~~~if~aL~~~~I~v~~~~ 36 (64)
T cd04937 3 KVTIIGSRIRGVPGVMAKIVGALSKEGIEILQTA 36 (64)
T ss_pred EEEEECCCccCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 3556676655567767789999999999997555
No 474
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=22.22 E-value=37 Score=29.47 Aligned_cols=15 Identities=47% Similarity=1.367 Sum_probs=14.1
Q ss_pred eeEcCCCCcccccCC
Q 020564 203 GYTCPRCKARVCELP 217 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP 217 (324)
-|-||.|..-||++|
T Consensus 17 KYKCpkC~vPYCSl~ 31 (157)
T KOG2857|consen 17 KYKCPKCSVPYCSLP 31 (157)
T ss_pred hccCCCCCCccccch
Confidence 699999999999987
No 475
>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=22.18 E-value=66 Score=29.17 Aligned_cols=40 Identities=28% Similarity=0.593 Sum_probs=26.0
Q ss_pred eeCCCCCcccccccc---hhhhhcCCCCCCCCCCCCCCCcccCC
Q 020564 283 VACPKCKKHFCLECD---IYIHESLHNCPGCESLRHSNPIVANE 323 (324)
Q Consensus 283 ~~C~~C~~~fC~dCd---~fihe~lh~CpgC~~~~~~~~~~~~~ 323 (324)
.+|..|+..+=.+ + .+-+..+-.||.|....+++++.-+|
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 4677777665433 1 12345678899999888887765554
No 476
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=22.13 E-value=61 Score=27.73 Aligned_cols=24 Identities=25% Similarity=0.620 Sum_probs=21.6
Q ss_pred eeEcCCCCcccccCCCCCCCCCce
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQ 226 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~ 226 (324)
|=.|+.|+++|----..|+.|+..
T Consensus 29 g~kC~~CG~v~~PPr~~Cp~C~~~ 52 (140)
T COG1545 29 GTKCKKCGRVYFPPRAYCPKCGSE 52 (140)
T ss_pred EEEcCCCCeEEcCCcccCCCCCCC
Confidence 778999999988877899999976
No 477
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=22.12 E-value=44 Score=28.73 Aligned_cols=29 Identities=38% Similarity=0.884 Sum_probs=23.5
Q ss_pred ee-EcCCCCc---ccccCCCCCCCCCceecCch
Q 020564 203 GY-TCPRCKA---RVCELPTDCRICGLQLVSSP 231 (324)
Q Consensus 203 Gy-~Cp~C~s---~~C~lP~~C~~C~l~Lvs~~ 231 (324)
|| +|--|-+ ++|.+-+.||+|++.+-||-
T Consensus 103 gY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 103 GYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred chHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 66 6777755 78999999999999887763
No 478
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=22.08 E-value=2.3e+02 Score=19.63 Aligned_cols=32 Identities=13% Similarity=0.225 Sum_probs=22.5
Q ss_pred EEeCCCCCCcccHHHHHHHHHhcCcEEEEEEc
Q 020564 95 LYSALSTCDPGDIMETIQKCKESKIRCSVIGL 126 (324)
Q Consensus 95 l~gS~~t~d~g~i~~ti~~akk~~IrV~vI~L 126 (324)
+.+.....+++-.-+.++.+.+.+|.|+.|.-
T Consensus 5 i~~~~m~~~~~~~~~if~~l~~~~i~v~~i~t 36 (62)
T cd04890 5 IFDQLMNGEVGFLRKIFEILEKHGISVDLIPT 36 (62)
T ss_pred EeccccCcccCHHHHHHHHHHHcCCeEEEEec
Confidence 34433333565444789999999999999964
No 479
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 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 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 []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=22.01 E-value=85 Score=19.20 Aligned_cols=24 Identities=29% Similarity=0.665 Sum_probs=14.3
Q ss_pred cccccccccCCCCCCCceeeCCCCCc
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCKK 290 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~~ 290 (324)
|.+|...|.-+.+. ...+|..|+.
T Consensus 1 C~~Cr~~L~yp~GA--~sVrCa~C~~ 24 (25)
T PF06943_consen 1 CGGCRTLLMYPRGA--PSVRCACCHT 24 (25)
T ss_pred CCCCCceEEcCCCC--CCeECCccCc
Confidence 67787666544322 2357888764
No 480
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=21.94 E-value=3.3e+02 Score=23.65 Aligned_cols=70 Identities=16% Similarity=0.135 Sum_probs=48.2
Q ss_pred CceEEEEEeCCCCCCcccHH-HHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEEeCCHHHHHHHHHhcCC
Q 020564 89 HREVLILYSALSTCDPGDIM-ETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSVALDESHFKELIMEHAP 162 (324)
Q Consensus 89 ~reILil~gS~~t~d~g~i~-~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~~ 162 (324)
-.+|+|+-- ....|+ +. .+++.++=.||++++.++..-...+++ -..+.-.+.+..+...+.+++..-..
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 345666532 222243 66 467778879999999999877888887 33333466788889999988875553
No 481
>TIGR01307 pgm_bpd_ind 2,3-bisphosphoglycerate-independent phosphoglycerate mutase. This protein is about double in length of, and devoid of homology to the form of phosphoglycerate mutase that uses 2,3-bisphosphoglycerate as a cofactor.
Probab=21.90 E-value=5.9e+02 Score=26.63 Aligned_cols=45 Identities=18% Similarity=0.385 Sum_probs=27.5
Q ss_pred cHHHHHHHHHhcCc-EEEEEEcc--ch---------HHHHHHHHHhhC--------CeeEEeCCHH
Q 020564 106 DIMETIQKCKESKI-RCSVIGLS--AE---------MFICKHLCQDTG--------GSYSVALDES 151 (324)
Q Consensus 106 ~i~~ti~~akk~~I-rV~vI~Lg--ae---------~~iLk~ia~~Tg--------G~Y~va~d~~ 151 (324)
-+...++.|+++|| +|++=.+. -+ +.-|++..+..| |+|+ ++|.+
T Consensus 125 hl~~l~~~a~~~g~~~v~vH~~~DGRD~~p~s~~~~~~~l~~~~~~~~~~~iasv~GRyy-aMDRd 189 (501)
T TIGR01307 125 HLIALIELAAERGIEKVVLHAFTDGRDTAPKSAESYLEQLQAFLKEIGNGRIATISGRYY-AMDRD 189 (501)
T ss_pred HHHHHHHHHHHcCCCeEEEEEecCCCCCCchhHHHHHHHHHHHHHHhCCEEEEEEeCcce-eecCc
Confidence 34467999999988 56665554 22 122222222334 8998 88876
No 482
>PRK05569 flavodoxin; Provisional
Probab=21.74 E-value=1.5e+02 Score=24.41 Aligned_cols=37 Identities=14% Similarity=0.195 Sum_probs=25.2
Q ss_pred eEEEEEeCCCCCCcccHHH-HHHHHHhcCcEEEEEEccc
Q 020564 91 EVLILYSALSTCDPGDIME-TIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~-ti~~akk~~IrV~vI~Lga 128 (324)
+|+|+++|.+. +...+-+ .++.+++.++.|+++.+..
T Consensus 3 ki~iiY~S~tG-nT~~iA~~i~~~~~~~g~~v~~~~~~~ 40 (141)
T PRK05569 3 KVSIIYWSCGG-NVEVLANTIADGAKEAGAEVTIKHVAD 40 (141)
T ss_pred eEEEEEECCCC-HHHHHHHHHHHHHHhCCCeEEEEECCc
Confidence 68999998732 3334444 3556777899999888753
No 483
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=21.66 E-value=2.6e+02 Score=25.23 Aligned_cols=34 Identities=24% Similarity=0.409 Sum_probs=26.3
Q ss_pred eEEEEEeCCCCCCcccHHHHHHHHHhc-CcEEEEEEcc
Q 020564 91 EVLILYSALSTCDPGDIMETIQKCKES-KIRCSVIGLS 127 (324)
Q Consensus 91 eILil~gS~~t~d~g~i~~ti~~akk~-~IrV~vI~Lg 127 (324)
.|||+-||+- .|.|.++.+.+++. +|+|-..++-
T Consensus 143 ~iLVLAGslM---GGkIteaVk~lr~~hgI~VISL~M~ 177 (218)
T COG1707 143 GILVLAGSLM---GGKITEAVKELREEHGIPVISLNMF 177 (218)
T ss_pred eeEEEecccc---cchHHHHHHHHHHhcCCeEEEeccC
Confidence 5889888885 47899999999887 8887555443
No 484
>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=21.57 E-value=25 Score=24.92 Aligned_cols=25 Identities=32% Similarity=0.733 Sum_probs=20.8
Q ss_pred eeEcCCCCcccccCCCCCCCCCcee
Q 020564 203 GYTCPRCKARVCELPTDCRICGLQL 227 (324)
Q Consensus 203 Gy~Cp~C~s~~C~lP~~C~~C~l~L 227 (324)
.|.|=.|++..=.....|++|+..|
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 485
>KOG1680 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]
Probab=21.48 E-value=63 Score=31.15 Aligned_cols=34 Identities=15% Similarity=0.401 Sum_probs=22.0
Q ss_pred CCcHHHHHHHH-HHHHHHHHhcCCcCCceEEEEee
Q 020564 4 RPSRMAVVAKQ-VEAFVREFFDQNPLSQIGLVTVK 37 (324)
Q Consensus 4 ~P~Rl~~~~~~-l~~Fv~~~f~qNP~sqlGiI~~~ 37 (324)
||+|+.+.-.. +.+..+.|-+.+-.+++++|++.
T Consensus 54 RP~~~Nal~~~~m~eL~~A~~~~e~D~s~~viVlt 88 (290)
T KOG1680|consen 54 RPKALNALCRATMLELAEAFKDFESDDSVGVIVLT 88 (290)
T ss_pred ChHHhccccHHHHHHHHHHHHHhhccCcccEEEEE
Confidence 67777654443 44555555566788888887774
No 486
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.46 E-value=63 Score=32.38 Aligned_cols=47 Identities=21% Similarity=0.449 Sum_probs=30.3
Q ss_pred CCccccccccccCCCCCCCceeeCCCCCcccccccchhhhhcCCCCCCCC
Q 020564 262 RSTCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHESLHNCPGCE 311 (324)
Q Consensus 262 ~~~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~lh~CpgC~ 311 (324)
-+.|.-|...+... ..=....|. |++.||..|-.=.+.--+.|..|.
T Consensus 306 wr~CpkC~~~ie~~--~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 306 WRQCPKCKFMIELS--EGCNHMTCR-CGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred cCcCcccceeeeec--CCcceEEee-ccccchhhcCcchhhCCccccCcc
Confidence 45788887555322 123467899 999999999854444445455443
No 487
>COG1488 PncB Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]
Probab=21.25 E-value=6.2e+02 Score=25.57 Aligned_cols=100 Identities=18% Similarity=0.114 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHhcCCcCCceEEEEeeCCeeeEeecCCCCHHHHHHHHhh--h---cCCCCcchHHHHHHHHHHHhhCCC
Q 020564 11 VAKQVEAFVREFFDQNPLSQIGLVTVKDGVANCLTDLGGSPESHIKALMG--K---LGCSGDSSLQNALDLVQGLLSQIP 85 (324)
Q Consensus 11 ~~~~l~~Fv~~~f~qNP~sqlGiI~~~~g~a~~l~~lt~n~~~~~~~L~~--~---~~~~G~~sL~naL~~A~~~L~~~p 85 (324)
...+.+.|++.| |.+.++|+..- -. ...... +.-+...++.. . .-.+|++- .--+.++..|...
T Consensus 220 e~~A~~~~~~~~----~~~~~~i~ltD-~~--~~~~~~-~~~~~~~~~~~~~~~GVR~DSGd~~--~~~~kvr~~ld~~- 288 (405)
T COG1488 220 EVAAFRAWAETY----PGDKLLIALTD-TY--LDDAFL-NAIKVAKALGDKRLDGVRLDSGDPR--ELSEKVRAHLDKL- 288 (405)
T ss_pred HHHHHHHHHHHc----CCCCcEEEEEe-ec--chHHHH-HhHHHHHhcccccceEEECCCCCHH--HHHHHHHHHHHHc-
Confidence 456777788775 77778887763 10 000000 00011111111 1 11245431 1222344455443
Q ss_pred CCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 86 SYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 86 ~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
+-+.+.|++| |.++..+.|+.++..+-++++-|+|.
T Consensus 289 --G~~~~~Ii~S-----dg~lde~~i~~l~~~g~~~d~FGvGT 324 (405)
T COG1488 289 --GYDPVKIIVS-----DGLLDEKIIALLRAFGARNDAFGVGT 324 (405)
T ss_pred --CCCceEEEEe-----CCcchHHHHHHHHHhCCCccEeccch
Confidence 4444666666 23345678999999898888777764
No 488
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=21.24 E-value=2.8e+02 Score=18.87 Aligned_cols=37 Identities=11% Similarity=-0.025 Sum_probs=28.7
Q ss_pred cHHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCC
Q 020564 106 DIMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGG 142 (324)
Q Consensus 106 ~i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG 142 (324)
.-.++...+++.+|.+..+.+..+....+.+.+.+|.
T Consensus 12 ~C~~~~~~L~~~~i~~~~~di~~~~~~~~~l~~~~~~ 48 (72)
T cd02066 12 YCKRAKRLLESLGIEFEEIDILEDGELREELKELSGW 48 (72)
T ss_pred HHHHHHHHHHHcCCcEEEEECCCCHHHHHHHHHHhCC
Confidence 3446777888999999999998776677777777774
No 489
>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=21.17 E-value=4.5e+02 Score=27.16 Aligned_cols=84 Identities=8% Similarity=0.027 Sum_probs=56.6
Q ss_pred hHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccchHH---------------
Q 020564 69 SLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAEMF--------------- 131 (324)
Q Consensus 69 sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae~~--------------- 131 (324)
+|+-||-.|+.+--. + .|+|+.|.|.. +-.| .-+.++.+++++|-+|-+.....
T Consensus 418 smG~~lpaaiGaala-~---~~~vv~i~GDG-----sf~m~~~EL~Ta~r~~l~v~~vV~NN~~~~~~~~~~~~~~~~~~ 488 (554)
T TIGR03254 418 VMGIGMGYAIAAAVE-T---GKPVVALEGDS-----AFGFSGMEVETICRYNLPVCVVIFNNGGIYRGDDVNVVGADPAP 488 (554)
T ss_pred cCCchHHHHHHHHhc-C---CCcEEEEEcCc-----hhcccHHHHHHHHHcCCCEEEEEEeChhhhhhhhhhhcCCCCCc
Confidence 444444444443222 2 36789988833 2222 34788899999999998864310
Q ss_pred -------HHHHHHHhhCCeeEEeCCHHHHHHHHHhcC
Q 020564 132 -------ICKHLCQDTGGSYSVALDESHFKELIMEHA 161 (324)
Q Consensus 132 -------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~~ 161 (324)
=+.++|+..|+.+..+.+.+.|++.|.+..
T Consensus 489 ~~~~~~~df~~la~a~G~~~~~v~~~~el~~al~~a~ 525 (554)
T TIGR03254 489 TVLVHGARYDKMMKAFGGVGYNVTTPDELKAALNEAL 525 (554)
T ss_pred cccCCCCCHHHHHHHCCCeEEEeCCHHHHHHHHHHHH
Confidence 135788888888889999999999887765
No 490
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=21.14 E-value=3.3e+02 Score=28.37 Aligned_cols=85 Identities=13% Similarity=0.070 Sum_probs=60.5
Q ss_pred chHHHHHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHH--HHHHHHHhcCcEEEEEEccch----HH----------
Q 020564 68 SSLQNALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIM--ETIQKCKESKIRCSVIGLSAE----MF---------- 131 (324)
Q Consensus 68 ~sL~naL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~--~ti~~akk~~IrV~vI~Lgae----~~---------- 131 (324)
-+|+-||-.|+.+-...| .|+|++|.|.. +-.| .-+.++.++++++-+|-+... +.
T Consensus 418 g~mG~glpaaiGa~lA~p---~~~Vv~i~GDG-----~f~m~~~eL~Ta~~~~l~i~~vV~NN~~y~~i~~~q~~~~~~~ 489 (566)
T PRK07282 418 GTMGFGIPAAIGAKIANP---DKEVILFVGDG-----GFQMTNQELAILNIYKVPIKVVMLNNHSLGMVRQWQESFYEGR 489 (566)
T ss_pred ccccchhhHhheeheecC---CCcEEEEEcch-----hhhccHHHHHHHHHhCCCeEEEEEeCCCchHHHHHHHHHhCCC
Confidence 567777777776644443 46798888832 3223 458889999999999988632 00
Q ss_pred ----------HHHHHHHhhCCeeEEeCCHHHHHHHHHhc
Q 020564 132 ----------ICKHLCQDTGGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 132 ----------iLk~ia~~TgG~Y~va~d~~hl~~lL~~~ 160 (324)
=+.++|+..|+.+..+.+.+.|.+.+...
T Consensus 490 ~~~~~~~~~~d~~~lA~a~G~~~~~v~~~~el~~al~~~ 528 (566)
T PRK07282 490 TSESVFDTLPDFQLMAQAYGIKHYKFDNPETLAQDLEVI 528 (566)
T ss_pred cccccCCCCCCHHHHHHHCCCEEEEECCHHHHHHHHHHh
Confidence 14568888888999999999999888653
No 491
>COG0848 ExbD Biopolymer transport protein [Intracellular trafficking and secretion]
Probab=21.09 E-value=2.3e+02 Score=24.14 Aligned_cols=44 Identities=14% Similarity=0.208 Sum_probs=29.2
Q ss_pred HHHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcE
Q 020564 73 ALDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIR 120 (324)
Q Consensus 73 aL~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~Ir 120 (324)
.|+.++..+.. +.+. + .|++.++...+.+++.+++..+++.|+.
T Consensus 83 ~l~~~l~~~~~-~~~~--~-~v~i~aD~~v~y~~vv~vm~~l~~aG~~ 126 (137)
T COG0848 83 ELEAALAALAK-GKKN--P-RVVIRADKNVKYGTVVKVMDLLKEAGFK 126 (137)
T ss_pred HHHHHHHHHhc-CCCC--c-eEEEEeCCCCCHHHHHHHHHHHHHcCCc
Confidence 44444544443 2222 2 5555567777999999999999999973
No 492
>PRK11267 biopolymer transport protein ExbD; Provisional
Probab=21.08 E-value=3.2e+02 Score=22.99 Aligned_cols=33 Identities=15% Similarity=0.288 Sum_probs=24.7
Q ss_pred EEEEeCCCCCCcccHHHHHHHHHhcCc-EEEEEEc
Q 020564 93 LILYSALSTCDPGDIMETIQKCKESKI-RCSVIGL 126 (324)
Q Consensus 93 Lil~gS~~t~d~g~i~~ti~~akk~~I-rV~vI~L 126 (324)
++|. ++.....+.+.++++.+++.|+ +|.++..
T Consensus 102 V~I~-aD~~~~~~~vv~vmd~l~~aG~~~v~l~t~ 135 (141)
T PRK11267 102 IFFR-ADKTVDYETLMKVMDTLHQAGYLKIGLVGE 135 (141)
T ss_pred EEEE-cCCCCCHHHHHHHHHHHHHcCCCeEEEEec
Confidence 4444 4556678899999999999999 4776553
No 493
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.99 E-value=37 Score=33.97 Aligned_cols=40 Identities=23% Similarity=0.496 Sum_probs=25.6
Q ss_pred ccccccccccCCCCCCCceeeCCCCCcccccccchhhhhc
Q 020564 264 TCFGCQQSLLSSGNKPGLYVACPKCKKHFCLECDIYIHES 303 (324)
Q Consensus 264 ~C~~C~~~~~~~~~~~~~~~~C~~C~~~fC~dCd~fihe~ 303 (324)
.|..|.....-.....+.+-.|++|+..||++|.+-=|+.
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 4666653332110122335679999999999999977774
No 494
>cd07043 STAS_anti-anti-sigma_factors Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.
Probab=20.99 E-value=2.6e+02 Score=20.77 Aligned_cols=41 Identities=12% Similarity=0.301 Sum_probs=29.0
Q ss_pred ceEEEEEeCCCCCCccc---HHHHHHHHHhcCcEEEEEEccchH
Q 020564 90 REVLILYSALSTCDPGD---IMETIQKCKESKIRCSVIGLSAEM 130 (324)
Q Consensus 90 reILil~gS~~t~d~g~---i~~ti~~akk~~IrV~vI~Lgae~ 130 (324)
+.|++=++.....|..- +.+..+.+++.|+.|.++++..++
T Consensus 39 ~~viid~~~v~~iDs~g~~~L~~l~~~~~~~g~~v~i~~~~~~~ 82 (99)
T cd07043 39 RRLVLDLSGVTFIDSSGLGVLLGAYKRARAAGGRLVLVNVSPAV 82 (99)
T ss_pred CEEEEECCCCCEEcchhHHHHHHHHHHHHHcCCeEEEEcCCHHH
Confidence 44555555555556653 347888999999999999997654
No 495
>cd03794 GT1_wbuB_like This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase.
Probab=20.99 E-value=3.7e+02 Score=24.33 Aligned_cols=70 Identities=16% Similarity=0.207 Sum_probs=40.1
Q ss_pred eEEEEEeCCCCC-CcccHHHHHHHHHhc-CcEEEEEEccchHHHHHHHHHhh---CCeeEEeCCHHHHHHHHHhc
Q 020564 91 EVLILYSALSTC-DPGDIMETIQKCKES-KIRCSVIGLSAEMFICKHLCQDT---GGSYSVALDESHFKELIMEH 160 (324)
Q Consensus 91 eILil~gS~~t~-d~g~i~~ti~~akk~-~IrV~vI~Lgae~~iLk~ia~~T---gG~Y~va~d~~hl~~lL~~~ 160 (324)
.+++++|..... +...+.++++.+.+. ++++.++|=+.+..-+++..... +-.|.-..+.+.+.++|...
T Consensus 221 ~~i~~~G~~~~~k~~~~l~~~~~~l~~~~~~~l~i~G~~~~~~~~~~~~~~~~~~~v~~~g~~~~~~~~~~~~~~ 295 (394)
T cd03794 221 FVVLYAGNIGRAQGLDTLLEAAALLKDRPDIRFLIVGDGPEKEELKELAKALGLDNVTFLGRVPKEELPELLAAA 295 (394)
T ss_pred EEEEEecCcccccCHHHHHHHHHHHhhcCCeEEEEeCCcccHHHHHHHHHHcCCCcEEEeCCCChHHHHHHHHhh
Confidence 355555654431 223444677777666 88888888776665555543332 22333345666677777554
No 496
>KOG2813 consensus Predicted molecular chaperone, contains DnaJ domain [Posttranslational modification, protein turnover, chaperones]
Probab=20.92 E-value=1.2e+02 Score=30.02 Aligned_cols=70 Identities=24% Similarity=0.624 Sum_probs=43.9
Q ss_pred cceeecCCccccCeeEcCCCCcccc-----cCCCCCCCCCceecCchhHHhhhcccCCCCCCcccCccCCCCCCCCCCCc
Q 020564 190 SICSCHKEVKVGVGYTCPRCKARVC-----ELPTDCRICGLQLVSSPHLARSYHHLFPIAPFDEVTPLCLNDPRNRSRST 264 (324)
Q Consensus 190 a~C~CH~~~~~~~Gy~Cp~C~s~~C-----~lP~~C~~C~l~Lvs~~hLarsyhhl~p~~~f~~~~~~~~~~~~~~~~~~ 264 (324)
..=+||.-+.++ .|+||-|..-=- .-|..|++|-= | + .-..+..+.
T Consensus 186 ~v~~ch~c~gRG-~~vc~gc~g~G~~~y~~~~~m~c~sc~G-~--~-------------------------~~k~gt~~~ 236 (406)
T KOG2813|consen 186 IVTFCHACLGRG-AMVCHGCSGSGSNSYGIGTPMHCMSCTG-V--P-------------------------PPKIGTHDL 236 (406)
T ss_pred hhhhhhcccCCC-ceeccCcCCCCccccccCcceecccccC-C--C-------------------------CCCCCccch
Confidence 346788888888 999999976421 23677877632 0 0 011235678
Q ss_pred cccccccccCCCCCCCceeeCCCCC---cccccccc
Q 020564 265 CFGCQQSLLSSGNKPGLYVACPKCK---KHFCLECD 297 (324)
Q Consensus 265 C~~C~~~~~~~~~~~~~~~~C~~C~---~~fC~dCd 297 (324)
|+-|. .. +.-+|+.|+ +.-|-.||
T Consensus 237 C~~C~----G~-----G~~~C~tC~grG~k~C~TC~ 263 (406)
T KOG2813|consen 237 CYMCH----GR-----GIKECHTCKGRGKKPCTTCS 263 (406)
T ss_pred hhhcc----CC-----CcccCCcccCCCCccccccc
Confidence 99997 22 245677775 45666665
No 497
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=20.88 E-value=1.8e+02 Score=25.07 Aligned_cols=45 Identities=18% Similarity=0.275 Sum_probs=28.9
Q ss_pred HHHHHHHhhCCCCCCCceEEEEEeCCCCCCcccHHHHHHHHHhcCcEEEEEEccc
Q 020564 74 LDLVQGLLSQIPSYGHREVLILYSALSTCDPGDIMETIQKCKESKIRCSVIGLSA 128 (324)
Q Consensus 74 L~~A~~~L~~~p~~~~reILil~gS~~t~d~g~i~~ti~~akk~~IrV~vI~Lga 128 (324)
.+-|...|+... ....+|+||+.++ ..+..+.+.++.+.-|.+|.
T Consensus 61 v~~a~~~l~~~~-~~~~~v~ii~k~~---------~d~~~l~~~g~~i~~iNvG~ 105 (151)
T PF03830_consen 61 VEEAIEKLKKPE-YSKKRVLIIVKSP---------EDALRLVEAGVKIKEINVGN 105 (151)
T ss_dssp HHHHHHHHCGGG-GTTEEEEEEESSH---------HHHHHHHHTT---SEEEEEE
T ss_pred HHHHHHHHHhcc-cCCceEEEEECCH---------HHHHHHHhcCCCCCEEEECC
Confidence 445666666553 3457899999855 24567778898999899884
No 498
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=20.87 E-value=5.2e+02 Score=22.11 Aligned_cols=57 Identities=12% Similarity=0.025 Sum_probs=35.0
Q ss_pred HHHHHHHHHhcCcEEEEEEccchHHHHHHHHHhhCCeeEE---eCCHHHHHHHHHhcCCC
Q 020564 107 IMETIQKCKESKIRCSVIGLSAEMFICKHLCQDTGGSYSV---ALDESHFKELIMEHAPP 163 (324)
Q Consensus 107 i~~ti~~akk~~IrV~vI~Lgae~~iLk~ia~~TgG~Y~v---a~d~~hl~~lL~~~~~p 163 (324)
+.++++.+++.|+++-+++=+......+.+.+..|..+.. --+++.|..++..+-.+
T Consensus 48 v~e~L~~Lk~~g~~l~I~Sn~~~~~~~~~~~~~~gl~~~~~~~KP~p~~~~~~l~~~~~~ 107 (170)
T TIGR01668 48 LRDWIEELKAAGRKLLIVSNNAGEQRAKAVEKALGIPVLPHAVKPPGCAFRRAHPEMGLT 107 (170)
T ss_pred HHHHHHHHHHcCCEEEEEeCCchHHHHHHHHHHcCCEEEcCCCCCChHHHHHHHHHcCCC
Confidence 4467888888888888877655334555666666654432 11455666666665543
No 499
>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=20.84 E-value=29 Score=34.76 Aligned_cols=38 Identities=26% Similarity=0.670 Sum_probs=23.1
Q ss_pred EcCCCCcccccCC-----CCCCCCCceec---------------CchhHHhhhcccCCC
Q 020564 205 TCPRCKARVCELP-----TDCRICGLQLV---------------SSPHLARSYHHLFPI 243 (324)
Q Consensus 205 ~Cp~C~s~~C~lP-----~~C~~C~l~Lv---------------s~~hLarsyhhl~p~ 243 (324)
.|.+|...+=.-+ ..|| ||-.++ ..|.-+.-|+|+.||
T Consensus 242 ~c~~C~~~~~~~~~~~~~~~Cp-CG~~i~~GV~~Rv~eLad~~~~~p~~rppy~~~iPL 299 (374)
T TIGR00375 242 ACEACGEPAVSEDAETACANCP-CGGRIKKGVSDRLRELSDQKLEHPVPRPPYVHLIPL 299 (374)
T ss_pred hhcccCCcCCchhhhhcCCCCC-CCCcceechHHHHHHHhcCCCCCCCCCCCeeeeCCH
Confidence 3667766655444 3477 777654 122224559999998
No 500
>PHA02926 zinc finger-like protein; Provisional
Probab=20.82 E-value=74 Score=29.81 Aligned_cols=52 Identities=25% Similarity=0.565 Sum_probs=32.3
Q ss_pred CCCccccccccccCCCCCCCcee-eCCCCCcccccccchhhhhc------CCCCCCCCC
Q 020564 261 SRSTCFGCQQSLLSSGNKPGLYV-ACPKCKKHFCLECDIYIHES------LHNCPGCES 312 (324)
Q Consensus 261 ~~~~C~~C~~~~~~~~~~~~~~~-~C~~C~~~fC~dCd~fihe~------lh~CpgC~~ 312 (324)
.+..|.-|.....++......+| .=+.|++.||++|=.--.++ ...||-|-.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~ 227 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRT 227 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcc
Confidence 35679999855432210001112 24589999999997755553 456999975
Done!